Upk1b uroplakin 1B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Upk1bprovided by RGD
Official Full Name: uroplakin 1Bprovided by RGD
Primary source: RGD:1307806
See related: EnsemblRapid:ENSRNOG00000027380 AllianceGenome:RGD:1307806
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: UP1b; UPIb
Summary: Predicted to be involved in epithelial cell differentiation. Predicted to act upstream of or within response to bacterium. Predicted to be located in apical plasma membrane. Predicted to be active in apical plasma membrane urothelial plaque. Orthologous to human UPK1B (uroplakin 1B). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 72.5), Uterus (RPKM 52.7) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q21

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (75459244..75496579)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (61953687..61991029)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (64522008..64553234)

Chromosome 11 - NC_086029.1 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?

During urothelial carcinogenesis, UPII expression was the most decreased in all urothelial lesions, while UPIa, UPIb, and UPIIIa expression was differently altered in different types of lesions
Title: Altered expression of UPIa, UPIb, UPII, and UPIIIa during urothelial carcinogenesis induced by N-butyl-N-(4-hydroxybutyl)nitrosamine in rats.

Submit: New GeneRIF Correction

General gene information

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Markers

Upk1b (e-PCR), detects polymorphism
- UniSTS:502675

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in epithelial cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in response to bacterium	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane urothelial plaque	IEA Inferred from Electronic Annotation more info
is_active_in apical plasma membrane urothelial plaque	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: uroplakin-1b

Names: uroplakin Ib

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_001024253.2 → NP_001019424.1 uroplakin-1b

See identical proteins and their annotated locations for NP_001019424.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000011

UniProtKB/Swiss-Prot

Q566D0

UniProtKB/TrEMBL

A0A0H2UHB6, A0A0Y0BC03, A6IR54

Related

ENSRNOP00000004315.6, ENSRNOT00000004315.9

Conserved Domains (2) summary

cd03156
Location:120 → 230

uroplakin_I_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), uroplakin_I_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment ...

pfam00335
Location:14 → 241

Tetraspannin; Tetraspanin family

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_086029.1 Reference GRCr8

Range

75459244..75496579

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006248368.5 → XP_006248430.1 uroplakin-1b isoform X1

See identical proteins and their annotated locations for XP_006248430.1

UniProtKB/Swiss-Prot

Q566D0

UniProtKB/TrEMBL

A0A0H2UHB6, A0A0Y0BC03, A6IR54

Conserved Domains (2) summary

cd03156
Location:120 → 230

uroplakin_I_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), uroplakin_I_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment ...

pfam00335
Location:14 → 241

Tetraspannin; Tetraspanin family
XM_039088358.2 → XP_038944286.1 uroplakin-1b isoform X2

Conserved Domains (1) summary

cd03156
Location:27 → 137

uroplakin_I_like_LEL; Tetraspanin, extracellular domain or large extracellular loop (LEL), uroplakin_I_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment ...