Nfasc neurofascin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nfascprovided by RGD
Official Full Name: neurofascinprovided by RGD
Primary source: RGD:620911
See related: EnsemblRapid:ENSRNOG00000030515 AllianceGenome:RGD:620911
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: NF
Summary: This gene encodes an L1 family immunoglobulin cell adhesion molecule with multiple IGcam and fibronectin domains. The protein functions in neurite outgrowth, neurite fasciculation, and organization of the axon initial segment (AIS) and nodes of Ranvier on axons during early development. Both the AIS and nodes of Ranvier contain high densities of voltage-gated Na+ (Nav) channels which are clustered by interactions with cytoskeletal and scaffolding proteins including this protein, gliomedin, ankyrin 3 (ankyrin-G), and betaIV spectrin. This protein links the AIS extracellular matrix to the intracellular cytoskeleton. This gene undergoes extensive alternative splicing, and the full-length nature of some variants has not been determined.[provided by RefSeq, May 2009]
Expression: Biased expression in Brain (RPKM 154.3) and Muscle (RPKM 7.2) See more
Orthologs: human mouse all
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Genomic context

Location:: 13q13

Exon count:: 35

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (46549369..46735989, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (43997223..44183863, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (49335407..49522474, complement)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The knock down of neurofascin in the basolateral amygdala prevented a priming-induced impairment on long-term potentiation maintenance in the dentate gyrus.
Title: Neurofascin Knock Down in the Basolateral Amygdala Mediates Resilience of Memory and Plasticity in the Dorsal Dentate Gyrus Under Stress.
Neurofascin knockdown rats also exhibited impaired learning under stress in the two-way shuttle avoidance task.
Title: Dentate Gyrus Local Circuit is Implicated in Learning Under Stress--a Role for Neurofascin.
Spreading of the antibody response to neurofascin occurred in demyelinating experimental autoimmune encephalomyelitis
Title: MOG-induced experimental autoimmune encephalomyelitis in the rat species triggers anti-neurofascin antibody response that is genetically regulated.
miR-592 may play a role in neural progenitor cell differentiation and neuronal maturation through regulating Lrrc4c and Nfasc in rat.
Title: Novel cerebellum-enriched miR-592 may play a role in neural progenitor cell differentiation and neuronal maturation through regulating Lrrc4c and Nfasc in rat.
overexpression of neurofascin in hippocampal neurons increases gephyrin cluster size presumably via stimulation of fibroblast growth factor receptor 1 signaling pathways.
Title: The cell adhesion molecule neurofascin stabilizes axo-axonic GABAergic terminals at the axon initial segment.
a neurofascin intracellular domain activates FGFR1 for neurite outgrowth, whereas the extracellular domain functions as an additional, regulatory FGFR1 interaction domain in the course of development
Title: Analysis of non-canonical fibroblast growth factor receptor 1 (FGFR1) interaction reveals regulatory and activating domains of neurofascin.
Results describe the differential expression and functions of neuronal and glial neurofascin isoforms and splice variants during peripheral nervous system development
Title: Differential expression and functions of neuronal and glial neurofascin isoforms and splice variants during PNS development.
Data show that neurofascin assembles a specialized extracellular matrix at the axon initial segment.
Title: Neurofascin assembles a specialized extracellular matrix at the axon initial segment.
antibodies to neurofascin selectively targeted nodes of Ranvier, resulting in deposition of complement, axonal injury, and disease exacerbation
Title: Neurofascin as a novel target for autoantibody-mediated axonal injury.
axonal neurofascin plays a critical role in clustering of Na+ channels at nodes of Ranvier via interactions with receptors on Schwann cells.
Title: Neurofascin interactions play a critical role in clustering sodium channels, ankyrin G and beta IV spectrin at peripheral nodes of Ranvier.

Submit: New GeneRIF Correction See all GeneRIFs (14)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

d13rat105 (e-PCR)
- UniSTS:120879

RH132614 (e-PCR)
- UniSTS:215897

RH144666 (e-PCR)
- UniSTS:233911

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cell-cell adhesion mediator activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding involved in heterotypic cell-cell adhesion	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within clustering of voltage-gated sodium channels	ISO Inferred from Sequence Orthology more info
involved_in heterotypic cell-cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in myelination	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within paranodal junction assembly	ISO Inferred from Sequence Orthology more info
involved_in paranodal junction assembly	ISO Inferred from Sequence Orthology more info
involved_in peripheral nervous system development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within protein localization to juxtaparanode region of axon	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to paranode region of axon	ISO Inferred from Sequence Orthology more info
involved_in protein localization to plasma membrane	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within synapse organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transmission of nerve impulse	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Schwann cell microvillus	IDA Inferred from Direct Assay more info	PubMed
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon	ISO Inferred from Sequence Orthology more info
located_in axon initial segment	IDA Inferred from Direct Assay more info	PubMed
located_in axon initial segment	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in node of Ranvier	IDA Inferred from Direct Assay more info	PubMed
located_in node of Ranvier	ISO Inferred from Sequence Orthology more info
located_in paranodal junction	ISO Inferred from Sequence Orthology more info
located_in paranode region of axon	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: neurofascin

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001160313.3 → NP_001153785.2 neurofascin isoform 2 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (2) has multiple differences in the coding region but maintains the reading frame, compared to variant 1. The promoter and 5' UTR for this variant have not been determined. The resulting isoform (2) includes the third fibronectin type 3 (FNIII) repeat, lacks the mucin-like domain, and has several differences near the N-terminus, compared to isoform 1. Isoform 2 is also known as NF155, as described by Davis et al. (PMID: 8947556).

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A6IC61, D3ZW56

Conserved Domains (7) summary

cd00063
Location:639 → 729

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13882
Location:1081 → 1161

Bravo_FIGEY; Bravo-like intracellular region

cd00096
Location:365 → 369

Ig; Ig strand B [structural motif]

cd05731
Location:263 → 345

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains

cd05845
Location:138 → 228

IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05875
Location:35 → 129

IgI_hNeurofascin_like; Immunoglobulin (Ig)-like domain of human neurofascin (NF); member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:349 → 437

Ig; Immunoglobulin domain
NM_001160314.3 → NP_001153786.1 neurofascin isoform 1 precursor

See identical proteins and their annotated locations for NP_001153786.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). This isoform lacks the third fibronectin type 3 (FNIII) repeat and includes the mucin-like domain. Isoform 1 is also known as NF186, as described by Davis et al. (PMID: 8947556).

Source sequence(s)

JAXUCZ010000013

UniProtKB/Swiss-Prot

P97684, P97685, Q91Z60

UniProtKB/TrEMBL

A6IC58

Related

ENSRNOP00000057594.4, ENSRNOT00000060871.6

Conserved Domains (9) summary

cd05731
Location:264 → 334

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM)

cd05875
Location:59 → 135

Ig6_hNeurofascin_like; Sixth immunoglobulin (Ig)-like domain of human neurofascin (NF)

smart00408
Location:449 → 508

IGc2; Immunoglobulin C-2 Type

smart00410
Location:253 → 333

IG_like; Immunoglobulin like

cd00063
Location:628 → 718

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:528 → 609

I-set; Immunoglobulin I-set domain

pfam00041
Location:1015 → 1086

fn3; Fibronectin type III domain

pfam13882
Location:1132 → 1216

Bravo_FIGEY; Bravo-like intracellular region

cl11960
Location:140 → 232

Ig; Immunoglobulin domain
NM_001160315.3 → NP_001153787.1 neurofascin isoform 4 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (4) represents use of an alternate promoter and 5' UTR, and has multiple differences in the coding region but maintains the reading frame, compared to variant 1. The resulting isoform (4) includes the third fibronectin type 3 (FNIII) repeat, lacks the mucin-like domain, and lacks two segments in the N-terminal and central regions, compared to isoform 1.

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A0A8I6GIP5, D3ZW56

Related

ENSRNOP00000091013.1, ENSRNOT00000110535.2

Conserved Domains (8) summary

cd05731
Location:258 → 328

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM)

cd05875
Location:53 → 129

Ig6_hNeurofascin_like; Sixth immunoglobulin (Ig)-like domain of human neurofascin (NF)

smart00408
Location:443 → 502

IGc2; Immunoglobulin C-2 Type

smart00410
Location:247 → 327

IG_like; Immunoglobulin like

cd00063
Location:607 → 697

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:522 → 603

I-set; Immunoglobulin I-set domain

pfam13882
Location:1049 → 1133

Bravo_FIGEY; Bravo-like intracellular region

cl11960
Location:134 → 226

Ig; Immunoglobulin domain
NM_053909.4 → NP_446361.2 neurofascin isoform 3 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (3) has multiple differences in the coding region but maintains the reading frame, compared to variant 1. The resulting isoform (3) includes the third fibronectin type 3 (FNIII) repeat, lacks the mucin-like domain, and has several differences in the N-terminal and central regions, compared to isoform 1.

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A6IC60, D3ZNW5, D3ZW56

Conserved Domains (7) summary

cd00063
Location:624 → 714

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13882
Location:1066 → 1146

Bravo_FIGEY; Bravo-like intracellular region

cd00096
Location:365 → 369

Ig; Ig strand B [structural motif]

cd05731
Location:263 → 345

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains

cd05845
Location:138 → 228

IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05875
Location:35 → 129

IgI_hNeurofascin_like; Immunoglobulin (Ig)-like domain of human neurofascin (NF); member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:349 → 437

Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086031.1 Reference GRCr8

Range

46549369..46735989 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063271974.1 → XP_063128044.1 neurofascin isoform X18

UniProtKB/TrEMBL

A0A8I6AN44
XM_017598650.3 → XP_017454139.1 neurofascin isoform X14

UniProtKB/TrEMBL

D3ZW56
XM_063271966.1 → XP_063128036.1 neurofascin isoform X6

UniProtKB/TrEMBL

A0A8L2QSS8
XM_039090280.2 → XP_038946208.1 neurofascin isoform X17

UniProtKB/TrEMBL

A0A8I6AN44

Conserved Domains (7) summary

cd00063
Location:729 → 819

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam13882
Location:1059 → 1139

Bravo_FIGEY; Bravo-like intracellular region

cd00096
Location:470 → 474

Ig; Ig strand B [structural motif]

cd05731
Location:368 → 450

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains

cd05845
Location:243 → 333

IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05875
Location:140 → 234

IgI_hNeurofascin_like; Immunoglobulin (Ig)-like domain of human neurofascin (NF); member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:454 → 542

Ig; Immunoglobulin domain
XM_017598649.3 → XP_017454138.1 neurofascin isoform X13

UniProtKB/TrEMBL

A6IC56
XM_017598648.3 → XP_017454137.1 neurofascin isoform X12

UniProtKB/TrEMBL

A6IC57
XM_063271964.1 → XP_063128034.1 neurofascin isoform X3

UniProtKB/TrEMBL

A0A8L2QSS8
XM_063271973.1 → XP_063128043.1 neurofascin isoform X16

UniProtKB/TrEMBL

A0A8I6AN44

Related

ENSRNOP00000095471.1, ENSRNOT00000103161.2
XM_017598641.3 → XP_017454130.1 neurofascin isoform X5

UniProtKB/TrEMBL

A0A8L2QSS8

Conserved Domains (8) summary

cd00063
Location:733 → 823

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:1226 → 1298

fn3; Fibronectin type III domain

pfam13882
Location:1344 → 1424

Bravo_FIGEY; Bravo-like intracellular region

cd00096
Location:459 → 463

Ig; Ig strand B [structural motif]

cd05731
Location:357 → 439

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains

cd05845
Location:249 → 339

IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05875
Location:146 → 240

IgI_hNeurofascin_like; Immunoglobulin (Ig)-like domain of human neurofascin (NF); member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:443 → 531

Ig; Immunoglobulin domain
XM_063271965.1 → XP_063128035.1 neurofascin isoform X4

UniProtKB/TrEMBL

A0A8L2QSS8
XM_063271972.1 → XP_063128042.1 neurofascin isoform X15

UniProtKB/TrEMBL

A0A8I6AN44
XM_063271971.1 → XP_063128041.1 neurofascin isoform X9

UniProtKB/TrEMBL

A0A8L2QSS8

Related

ENSRNOP00000106961.1, ENSRNOT00000159596.1
XM_017598647.3 → XP_017454136.1 neurofascin isoform X11

UniProtKB/TrEMBL

A6IC56
XM_039090275.2 → XP_038946203.1 neurofascin isoform X2

UniProtKB/TrEMBL

A6IC59

Conserved Domains (8) summary

cd00063
Location:750 → 840

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:1238 → 1310

fn3; Fibronectin type III domain

pfam13882
Location:1356 → 1436

Bravo_FIGEY; Bravo-like intracellular region

cd00096
Location:476 → 480

Ig; Ig strand B [structural motif]

cd05731
Location:374 → 456

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains

cd05845
Location:249 → 339

IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05875
Location:146 → 240

IgI_hNeurofascin_like; Immunoglobulin (Ig)-like domain of human neurofascin (NF); member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:460 → 548

Ig; Immunoglobulin domain
XM_017598645.3 → XP_017454134.1 neurofascin isoform X10

UniProtKB/TrEMBL

A6IC57
XM_063271967.1 → XP_063128037.1 neurofascin isoform X7

UniProtKB/TrEMBL

A0A8I6AN44
XM_006249727.5 → XP_006249789.1 neurofascin isoform X1

UniProtKB/TrEMBL

A0A8L2QSS8

Conserved Domains (9) summary

cd05731
Location:386 → 456

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM)

cd05875
Location:164 → 240

Ig6_hNeurofascin_like; Sixth immunoglobulin (Ig)-like domain of human neurofascin (NF)

smart00408
Location:571 → 630

IGc2; Immunoglobulin C-2 Type

smart00410
Location:375 → 455

IG_like; Immunoglobulin like

cd00063
Location:750 → 840

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:650 → 731

I-set; Immunoglobulin I-set domain

pfam00041
Location:1244 → 1315

fn3; Fibronectin type III domain

pfam13882
Location:1361 → 1445

Bravo_FIGEY; Bravo-like intracellular region

cl11960
Location:245 → 337

Ig; Immunoglobulin domain
XM_063271968.1 → XP_063128038.1 neurofascin isoform X8

UniProtKB/TrEMBL

A6IC59
XM_063271969.1 → XP_063128039.1 neurofascin isoform X8

UniProtKB/TrEMBL

A6IC59
XM_039090281.2 → XP_038946209.1 neurofascin isoform X19

UniProtKB/TrEMBL

A0A8I6GIE9

Conserved Domains (6) summary

cd00063
Location:750 → 840

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd00096
Location:476 → 480

Ig; Ig strand B [structural motif]

cd05731
Location:374 → 456

Ig3_L1-CAM_like; Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains

cd05845
Location:249 → 339

IgI_2_L1-CAM_like; Second immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM), and similar domains; member of the I-set of Ig superfamily (IgSF) domains

cd05875
Location:146 → 240

IgI_hNeurofascin_like; Immunoglobulin (Ig)-like domain of human neurofascin (NF); member of the I-set of Ig superfamily (IgSF) domains

cl11960
Location:460 → 548

Ig; Immunoglobulin domain