Clip3 CAP-GLY domain containing linker protein 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Clip3provided by RGD
Full Name: CAP-GLY domain containing linker protein 3provided by RGD
Primary source: RGD:1306245
See related: EnsemblRapid:ENSRNOG00000050104 AllianceGenome:RGD:1306245
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1306245
Summary: Predicted to enable ganglioside binding activity and microtubule plus-end binding activity. Predicted to be involved in several processes, including negative regulation of microtubule polymerization; peptidyl-L-cysteine S-palmitoylation; and positive regulation of transport. Predicted to be located in several cellular components, including endosome membrane; membrane raft; and trans-Golgi network membrane. Predicted to be active in cell cortex; microtubule plus-end; and nucleus. Orthologous to human CLIP3 (CAP-Gly domain containing linker protein 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 138.8), Kidney (RPKM 25.8) and 3 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 1q21

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (94674492..94690643)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (85547170..85563187)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (88750453..88766453)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CLIP3 up-regulation following spinal cord injury is associated with astrocyte proliferation. CLIP3 interacted with STAT3 in the injured spinal cord.
Title: Effect of CLIP3 Upregulation on Astrocyte Proliferation and Subsequent Glial Scar Formation in the Rat Spinal Cord via STAT3 Pathway After Injury.
CLIP3 and PCNA expression during early myelination may be related to the direct uptake and transport of lipids and cholesterol, by Schwann cells to prepare for the formation of myelin sheath-like structures around regenerated axons after SNI.
Title: Changes in CLIP3 expression after sciatic nerve injury in adult rats.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

AI844915 (e-PCR)
- UniSTS:165519

AI044262 (e-PCR)
- UniSTS:247958

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ganglioside binding	ISO Inferred from Sequence Orthology more info
enables ganglioside binding	ISS Inferred from Sequence or Structural Similarity more info
enables microtubule binding	ISO Inferred from Sequence Orthology more info
enables microtubule binding	ISS Inferred from Sequence or Structural Similarity more info
enables microtubule plus-end binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cytoplasmic microtubule organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in fat cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in membrane biogenesis	ISO Inferred from Sequence Orthology more info
involved_in membrane biogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of microtubule polymerization	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of microtubule polymerization	ISS Inferred from Sequence or Structural Similarity more info
involved_in peptidyl-L-cysteine S-palmitoylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-L-cysteine S-palmitoylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of D-glucose transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of D-glucose transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of endocytosis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endocytosis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein phosphorylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein transport along microtubule	ISO Inferred from Sequence Orthology more info
involved_in protein transport along microtubule	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in cell cortex	IBA Inferred from Biological aspect of Ancestor more info
located_in early endosome membrane	ISO Inferred from Sequence Orthology more info
located_in early endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane raft	ISO Inferred from Sequence Orthology more info
located_in membrane raft	ISS Inferred from Sequence or Structural Similarity more info
is_active_in microtubule plus-end	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in recycling endosome membrane	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network	ISS Inferred from Sequence or Structural Similarity more info
located_in trans-Golgi network membrane	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network membrane	ISS Inferred from Sequence or Structural Similarity more info

General protein information

Go to the top of the page Help

Preferred Names: CAP-Gly domain-containing linker protein 3

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001107501.1 → NP_001100971.1 CAP-Gly domain-containing linker protein 3

See identical proteins and their annotated locations for NP_001100971.1

Status: PROVISIONAL

Source sequence(s)

CH473979

UniProtKB/TrEMBL

A6J9W1, D4A507, M0R4N9

Related

ENSRNOP00000064329.1, ENSRNOT00000072819.4

Conserved Domains (3) summary

sd00045
Location:120 → 157

ANK; ANK repeat [structural motif]

pfam01302
Location:418 → 482

CAP_GLY; CAP-Gly domain

pfam12796
Location:122 → 228

Ank_2; Ankyrin repeats (3 copies)

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_086019.1 Reference GRCr8

Range

94674492..94690643

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017590049.3 → XP_017445538.1 CAP-Gly domain-containing linker protein 3 isoform X1

UniProtKB/TrEMBL

A6J9W1, D4A507, M0R4N9

Related

ENSRNOP00000028247.5, ENSRNOT00000028247.7

Conserved Domains (3) summary

sd00045
Location:120 → 157

ANK; ANK repeat [structural motif]

pfam01302
Location:418 → 482

CAP_GLY; CAP-Gly domain

pfam12796
Location:122 → 228

Ank_2; Ankyrin repeats (3 copies)