Syne2 spectrin repeat containing nuclear envelope protein 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Syne2provided by RGD
Full Name: spectrin repeat containing nuclear envelope protein 2provided by RGD
Primary source: RGD:1305248
See related: EnsemblRapid:ENSRNOG00000005323 AllianceGenome:RGD:1305248
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1305248; AABR07064873.1
Summary: Predicted to enable actin binding activity and cytoskeleton-nuclear membrane anchor activity. Predicted to be involved in several processes, including centrosome localization; nuclear migration; and regulation of cilium assembly. Predicted to be located in several cellular components, including cell projection membrane; focal adhesion; and nucleus. Predicted to be part of meiotic nuclear membrane microtubule tethering complex. Used to study cryptorchidism. Human ortholog(s) of this gene implicated in autosomal dominant Emery-Dreifuss muscular dystrophy 5. Orthologous to human SYNE2 (spectrin repeat containing nuclear envelope protein 2). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Testes (RPKM 522.1), Kidney (RPKM 521.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q24

Exon count:: 120

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (100272729..100586364)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (94537088..94848085)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (98884269..99153551)

Chromosome 6 - NC_086024.1 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?

Low shear strength suppresses the expression of Nesprin2 and LaminA, which may subsequently modulate the activation of important transcription factors and eventually lead to endothelial cell dysfunction.
Title: Nuclear envelope proteins Nesprin2 and LaminA regulate proliferation and apoptosis of vascular endothelial cells in response to shear stress.

Submit: New GeneRIF Correction

General gene information

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Markers

BI301410 (e-PCR)
- UniSTS:246837

BF390456 (e-PCR)
- UniSTS:249475

D6Rat72 (e-PCR), detects polymorphism
- UniSTS:228073

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin binding	ISO Inferred from Sequence Orthology more info
enables cytoskeleton-nuclear membrane anchor activity	ISO Inferred from Sequence Orthology more info
enables kinesin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in centrosome localization	ISO Inferred from Sequence Orthology more info
involved_in cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear migration	ISO Inferred from Sequence Orthology more info
involved_in nuclear migration along microfilament	ISO Inferred from Sequence Orthology more info
involved_in nucleokinesis involved in cell motility in cerebral cortex radial glia guided migration	ISO Inferred from Sequence Orthology more info
involved_in nucleus organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of cilium assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Z disc	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in filopodium membrane	ISO Inferred from Sequence Orthology more info
located_in focal adhesion	ISO Inferred from Sequence Orthology more info
located_in intermediate filament cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in intermediate filament cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in lamellipodium membrane	ISO Inferred from Sequence Orthology more info
part_of meiotic nuclear membrane microtubule tethering complex	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in myofibril	ISO Inferred from Sequence Orthology more info
is_active_in nuclear envelope	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear lumen	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
is_active_in perinuclear region of cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in sarcoplasmic reticulum	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nesprin-2

Names: nesprin-2-like; spectrin repeat containing, nuclear envelope 2; synaptic nuclear envelope 2

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_001427326.1 → NP_001414255.1 nesprin-2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/TrEMBL

A0A5P8DHK3

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_086024.1 Reference GRCr8

Range

100272729..100586364

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039113258.2 → XP_038969186.1 nesprin-2 isoform X1

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6144 → 6354

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6880 → 6909

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113264.2 → XP_038969192.1 nesprin-2 isoform X6

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6144 → 6354

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6857 → 6886

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113263.2 → XP_038969191.1 nesprin-2 isoform X5

UniProtKB/TrEMBL

A0A5P8DHK3, A0A8I5ZNW6

Related

ENSRNOP00000079593.1, ENSRNOT00000007070.10

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6135 → 6345

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6871 → 6900

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_063262184.1 → XP_063118254.1 nesprin-2 isoform X7

UniProtKB/TrEMBL

A0A5P8DHK3, A0A8I6AWY4

Related

ENSRNOP00000097901.1, ENSRNOT00000092100.3
XM_039113268.2 → XP_038969196.1 nesprin-2 isoform X8

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6093 → 6303

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6829 → 6858

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113261.2 → XP_038969189.1 nesprin-2 isoform X2

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6143 → 6353

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6879 → 6908

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113262.2 → XP_038969190.1 nesprin-2 isoform X3

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6143 → 6353

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6879 → 6908

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_063262183.1 → XP_063118253.1 nesprin-2 isoform X4

UniProtKB/TrEMBL

A0A5P8DHK3
XM_039113269.2 → XP_038969197.1 nesprin-2 isoform X9

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (7) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6144 → 6354

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113260.2 → XP_038969188.1 nesprin-2 isoform X1

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6144 → 6354

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6880 → 6909

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113259.2 → XP_038969187.1 nesprin-2 isoform X1

UniProtKB/TrEMBL

A0A5P8DHK3

Conserved Domains (8) summary

COG1196
Location:2685 → 3388

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:1429 → 2015

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:6144 → 6354

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3710 → 4053

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:6880 → 6909

KASH; Nuclear envelope localization domain

cd21242
Location:28 → 138

CH_SYNE2_rpt1; first calponin homology (CH) domain found in synaptic nuclear envelope protein 2

cd21244
Location:180 → 288

CH_SYNE2_rpt2; second calponin homology (CH) domain found in synaptic nuclear envelope protein 2 (SYNE-2) and similar proteins

cl02488
Location:1949 → 2129

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...
XM_039113270.2 → XP_038969198.1 nesprin-2 isoform X10

Conserved Domains (5) summary

COG1196
Location:268 → 971

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

PRK03918
Location:3293 → 3637

PRK03918; DNA double-strand break repair ATPase Rad50

cd00176
Location:3727 → 3937

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:1293 → 1636

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam10541
Location:4463 → 4492

KASH; Nuclear envelope localization domain
XM_063262185.1 → XP_063118255.1 nesprin-2 isoform X11

UniProtKB/TrEMBL

A0A8I5ZM90

Related

ENSRNOP00000079026.1, ENSRNOT00000078463.3