Lin7c lin-7 homolog C, crumbs cell polarity complex component [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lin7cprovided by RGD
Official Full Name: lin-7 homolog C, crumbs cell polarity complex componentprovided by RGD
Primary source: RGD:621164
See related: EnsemblRapid:ENSRNOG00000062543 AllianceGenome:RGD:621164
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: Veli3; MALS-3
Summary: Enables PDZ domain binding activity. Predicted to be involved in several processes, including morphogenesis of an epithelial sheet; regulation of synaptic assembly at neuromuscular junction; and synaptic vesicle transport. Located in cell-cell junction. Is active in glutamatergic synapse. Orthologous to human LIN7C (lin-7 homolog C, crumbs cell polarity complex component). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 522.7), Kidney (RPKM 515.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q34

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (116859425..116872363)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (96406800..96417779)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (101010923..101018235)

Chromosome 3 - NC_086021.1 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?

MALS-3 plays a role in maintaining apicobasal polarity and is required for normal neurogenesis in the developing cortex.
Title: MALS-3 regulates polarity and early neurogenesis in the developing cerebral cortex.
specific Veli isoforms participate in forming distinct protein complexes in brain, where Veli-1 stably associates with CASK and SAP97, Veli-2 associates with CASK and Mint1, and Veli-3 associates with CASK, SAP97, and Mint1.
Title: A multiprotein trafficking complex composed of SAP97, CASK, Veli, and Mint1 is associated with inward rectifier Kir2 potassium channels.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D3Rat290 (e-PCR), detects polymorphism
- UniSTS:227675

BE106900 (e-PCR)
- UniSTS:246465

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables L27 domain binding	IEA Inferred from Electronic Annotation more info
enables L27 domain binding	ISO Inferred from Sequence Orthology more info
enables PDZ domain binding	IPI Inferred from Physical Interaction more info	PubMed
enables cytoskeletal protein binding	IEA Inferred from Electronic Annotation more info
enables cytoskeletal protein binding	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables protein-macromolecule adaptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in exocytosis	IEA Inferred from Electronic Annotation more info
involved_in morphogenesis of an epithelial sheet	IEA Inferred from Electronic Annotation more info
involved_in morphogenesis of an epithelial sheet	ISO Inferred from Sequence Orthology more info
involved_in neurotransmitter secretion	IBA Inferred from Biological aspect of Ancestor more info
involved_in neurotransmitter secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neurotransmitter secretion	ISO Inferred from Sequence Orthology more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in regulation of synaptic assembly at neuromuscular junction	IBA Inferred from Biological aspect of Ancestor more info
involved_in synaptic vesicle transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of MPP7-DLG1-LIN7 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of MPP7-DLG1-LIN7 complex	IEA Inferred from Electronic Annotation more info
part_of MPP7-DLG1-LIN7 complex	ISO Inferred from Sequence Orthology more info
is_active_in basolateral plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in basolateral plasma membrane	IEA Inferred from Electronic Annotation more info
located_in bicellular tight junction	IEA Inferred from Electronic Annotation more info
is_active_in cell-cell junction	IBA Inferred from Biological aspect of Ancestor more info
located_in cell-cell junction	IDA Inferred from Direct Assay more info	PubMed
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density membrane	IEA Inferred from Electronic Annotation more info
located_in presynapse	IEA Inferred from Electronic Annotation more info
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	ISO Inferred from Sequence Orthology more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein lin-7 homolog C

Names: mammalian lin-seven protein 3; veli-3 protein; vertebrate lin-7 homolog 3

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_021851.2 → NP_068623.1 protein lin-7 homolog C

See identical proteins and their annotated locations for NP_068623.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

Q792I0

UniProtKB/TrEMBL

A0A8I5Y1R3, A6HP07

Related

ENSRNOP00000093334.2, ENSRNOT00000103172.2

Conserved Domains (2) summary

cd00992
Location:91 → 172

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

pfam02828
Location:14 → 66

L27; L27 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_086021.1 Reference GRCr8

Range

116859425..116872363

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063284464.1 → XP_063140534.1 protein lin-7 homolog C isoform X1

UniProtKB/Swiss-Prot

Q792I0

UniProtKB/TrEMBL

A6HP07
XM_063284463.1 → XP_063140533.1 protein lin-7 homolog C isoform X1

UniProtKB/Swiss-Prot

Q792I0

UniProtKB/TrEMBL

A6HP07

Related

ENSRNOP00000106167.1, ENSRNOT00000156464.1