Stab1 stabilin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Stab1provided by RGD
Official Full Name: stabilin 1provided by RGD
Primary source: RGD:2324745
See related: Ensembl:ENSRNOG00000018434 AllianceGenome:RGD:2324745
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
Summary: Predicted to enable low-density lipoprotein particle binding activity; low-density lipoprotein particle receptor activity; and scavenger receptor activity. Predicted to be involved in cell-cell signaling; defense response to bacterium; and negative regulation of angiogenesis. Predicted to be integral component of plasma membrane. Orthologous to human STAB1 (stabilin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 77.6), Heart (RPKM 49.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 16p16

Exon count:: 68

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (6336871..6367374, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (6330435..6360934, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (7220434..7250934, complement)

Chromosome 16 - NC_086034.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Stabilins are both present in the early endocytic pathway, associating with clathrin/AP-2, but whereas stabilin-2 has a clear scavenging profile, stabilin-1 does not recognize these ligands
Title: Stabilin-1 and stabilin-2 are both directed into the early endocytic pathway in hepatic sinusoidal endothelium via interactions with clathrin/AP-2, independent of ligand binding.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables hyaluronic acid binding	IEA Inferred from Electronic Annotation more info
enables low-density lipoprotein particle binding	ISO Inferred from Sequence Orthology more info
enables low-density lipoprotein particle receptor activity	ISO Inferred from Sequence Orthology more info
enables scavenger receptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-cell signaling	ISO Inferred from Sequence Orthology more info
involved_in defense response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: stabilin-1

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_001427304.1 → NP_001414233.1 stabilin-1 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000016

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_086034.1 Reference GRCr8

Range

6336871..6367374 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039095096.2 → XP_038951024.1 stabilin-1 isoform X3

UniProtKB/TrEMBL

A6KG05

Conserved Domains (6) summary

smart00554
Location:2424 → 2519

FAS1; Four repeated domains in the Fasciclin I family of proteins, present in many other contexts

cd00055
Location:2035 → 2080

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam02469
Location:1664 → 1768

Fasciclin; Fasciclin domain

pfam12947
Location:1517 → 1553

EGF_3; EGF domain

cl02612
Location:2265 → 2357

Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

cl02663
Location:389 → 492

Fasciclin; Fasciclin domain
XM_008771055.4 → XP_008769277.1 stabilin-1 isoform X4

See identical proteins and their annotated locations for XP_008769277.1

UniProtKB/TrEMBL

A6KG05, D3ZWH1

Related

ENSRNOP00000025394.6

Conserved Domains (6) summary

smart00554
Location:2370 → 2465

FAS1; Four repeated domains in the Fasciclin I family of proteins, present in many other contexts

cd00055
Location:1981 → 2026

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam02469
Location:1610 → 1714

Fasciclin; Fasciclin domain

pfam12947
Location:1463 → 1499

EGF_3; EGF domain

cl02612
Location:2211 → 2303

Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

cl02663
Location:391 → 494

Fasciclin; Fasciclin domain
XM_008771054.4 → XP_008769276.1 stabilin-1 isoform X2

See identical proteins and their annotated locations for XP_008769276.1

UniProtKB/TrEMBL

A6KG05

Conserved Domains (6) summary

smart00554
Location:2425 → 2520

FAS1; Four repeated domains in the Fasciclin I family of proteins, present in many other contexts

cd00055
Location:2036 → 2081

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam02469
Location:1666 → 1770

Fasciclin; Fasciclin domain

pfam12947
Location:1519 → 1555

EGF_3; EGF domain

cl02612
Location:2266 → 2358

Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

cl02663
Location:391 → 494

Fasciclin; Fasciclin domain
XM_008771053.4 → XP_008769275.1 stabilin-1 isoform X1

See identical proteins and their annotated locations for XP_008769275.1

UniProtKB/TrEMBL

A0A8I5Y895, A6KG05

Related

ENSRNOP00000077821.1

Conserved Domains (6) summary

smart00554
Location:2426 → 2521

FAS1; Four repeated domains in the Fasciclin I family of proteins, present in many other contexts

cd00055
Location:2037 → 2082

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam02469
Location:1666 → 1770

Fasciclin; Fasciclin domain

pfam12947
Location:1519 → 1555

EGF_3; EGF domain

cl02612
Location:2267 → 2359

Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

cl02663
Location:391 → 494

Fasciclin; Fasciclin domain
XM_039095098.1 → XP_038951026.1 stabilin-1 isoform X5

UniProtKB/TrEMBL

A6KG05

Conserved Domains (6) summary

cd00055
Location:2037 → 2082

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

pfam02469
Location:1666 → 1770

Fasciclin; Fasciclin domain

pfam12947
Location:1519 → 1555

EGF_3; EGF domain

cl02612
Location:2267 → 2359

Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

cl02663
Location:391 → 494

Fasciclin; Fasciclin domain

cl21504
Location:834 → 863

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
XM_063274969.1 → XP_063131039.1 stabilin-1 isoform X6
XM_039095100.2 → XP_038951028.1 stabilin-1 isoform X7

Conserved Domains (4) summary

pfam02469
Location:523 → 647

Fasciclin; Fasciclin domain

pfam12947
Location:1519 → 1555

EGF_3; EGF domain

cl02663
Location:391 → 494

Fasciclin; Fasciclin domain

cl21504
Location:834 → 863

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...