Sec16b SEC16 homolog B, endoplasmic reticulum export factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sec16bprovided by RGD
Official Full Name: SEC16 homolog B, endoplasmic reticulum export factorprovided by RGD
Primary source: RGD:621658
See related: Ensembl:ENSRNOG00000005229 AllianceGenome:RGD:621658
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: Rgpr; Lztr2
Summary: Predicted to be involved in several processes, including peroxisome fission; positive regulation of protein exit from endoplasmic reticulum; and protein localization to endoplasmic reticulum exit site. Predicted to be located in intracellular membrane-bounded organelle. Predicted to be active in ER to Golgi transport vesicle membrane and endoplasmic reticulum exit site. Orthologous to several human genes including CRYZL2P-SEC16B (CRYZL2P-SEC16B readthrough). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 145.8), Heart (RPKM 37.1) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q22

Exon count:: 32

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (72206778..72260733)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (69665757..69727199)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (75153074..75216941)

Chromosome 13 - NC_086031.1 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?

The overexpressed transcription factor RGPR-p117 suppresses the proliferation of normal rat kidney proximal tubular epithelial NRK-52E cells: Involvement of diverse signaling pathways.
Title: The overexpressed transcription factor RGPR-p117 suppresses the proliferation of normal rat kidney proximal tubular epithelial NRK-52E cells: Involvement of diverse signaling pathways.
This study demonstrates that overexpression of RGPR-p117 has a suppressive effect on cell death and apoptosis.
Title: Overexpression of RGPR-p117 suppresses apoptotic cell death and its related gene expression in cloned normal rat kidney proximal tubular epithelial NRK52E cells.
RGPR-p117 is localized in the nucleus of kidney cells, and may be involved in gene expression.
Title: Nuclear localization of a novel protein, RGPR-p117, in cloned normal rat kidney proximal tubular epithelial cells.
This study demonstrates that overexpression of RGPR-p117 enhances the expression of regucalcin mRNA and its protein level in NRK52E cells. RGPR-p117 may play a role as a transcriptional factor.
Title: Overexpression of RGPR-p117 enhances regucalcin gene expression in cloned normal rat kidney proximal tubular epithelial cells.
determined expression of mRNA in liver with change in sex, age and fasting; did not directly bind to the regucalcin TTGGC motif
Title: Novel protein RGPR-p117: the gene expression in physiologic state and the binding activity to regucalcin gene promoter region in rat liver.
RGPR-p117 can enhance the regucalcin promoter activity which is related to the NF-1 consensus sequences including TTGGC motif, and its enhancing effect is partly mediated through phosphorylation and dephosphorylation
Title: Overexpression of RGPR-p117 enhances regucalcin gene promoter activity in cloned normal rat kidney proximal tubular epithelial cells: involvement of TTGGC motif.
Overexpression of Rgpr induces the decrease in protein and DNA contents in cloned normal kidney proximal tubular epithelial NRK52E cells.
Title: Overexpression of RGPR-p117 induces the decrease in protein and DNA contents in cloned normal rat kidney proximal tubular epithelial NRK52E cells.

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General gene information

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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in COPII vesicle coating	IEA Inferred from Electronic Annotation more info
involved_in Golgi organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in endoplasmic reticulum organization	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in peroxisome fission	ISO Inferred from Sequence Orthology more info
involved_in peroxisome organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein exit from endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
involved_in protein localization to endoplasmic reticulum exit site	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in ER to Golgi transport vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum exit site	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum exit site	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum exit site	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein transport protein Sec16B

Names: RGPR-p117; leucine zipper transcription regulator 2; protein SEC16 homolog B; regucalcin gene promoter region related protein; regucalcin gene promoter region-related protein p117; regucalcin gene promotor region related protein

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_053571.2 → NP_446023.2 protein transport protein Sec16B

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/Swiss-Prot

Q75N33, Q925T1

Related

ENSRNOP00000046286.3, ENSRNOT00000044008.6

Conserved Domains (1) summary

cd09233
Location:319 → 675

ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

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_086031.1 Reference GRCr8

Range

72206778..72260733

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063272652.1 → XP_063128722.1 protein transport protein Sec16B isoform X1
XM_063272658.1 → XP_063128728.1 protein transport protein Sec16B isoform X2

UniProtKB/Swiss-Prot

Q75N33, Q925T1
XM_063272660.1 → XP_063128730.1 protein transport protein Sec16B isoform X4
XM_039091144.2 → XP_038947072.1 protein transport protein Sec16B isoform X1

Conserved Domains (1) summary

cd09233
Location:319 → 675

ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
XM_063272653.1 → XP_063128723.1 protein transport protein Sec16B isoform X1
XM_063272654.1 → XP_063128724.1 protein transport protein Sec16B isoform X1
XM_063272655.1 → XP_063128725.1 protein transport protein Sec16B isoform X1
XM_063272656.1 → XP_063128726.1 protein transport protein Sec16B isoform X1
XM_063272657.1 → XP_063128727.1 protein transport protein Sec16B isoform X1
XM_039091145.2 → XP_038947073.1 protein transport protein Sec16B isoform X1

Conserved Domains (1) summary

cd09233
Location:319 → 675

ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
XM_063272659.1 → XP_063128729.1 protein transport protein Sec16B isoform X2

UniProtKB/Swiss-Prot

Q75N33, Q925T1
XM_039091147.2 → XP_038947075.1 protein transport protein Sec16B isoform X3

UniProtKB/TrEMBL

A6ID32

Conserved Domains (1) summary

cd09233
Location:211 → 567

ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16