Synrg synergin, gamma [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Synrgprovided by RGD
Official Full Name: synergin, gammaprovided by RGD
Primary source: RGD:620684
See related: EnsemblRapid:ENSRNOG00000053814 AllianceGenome:RGD:620684
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: Syng; Ap1gbp1
Summary: Predicted to be involved in endocytosis and protein transport. Part of clathrin coat of trans-Golgi network vesicle. Orthologous to human SYNRG (synergin gamma). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 117.1), Kidney (RPKM 115.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q26

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (69346154..69428714)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (68848828..68931252)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (71278698..71357791)

Chromosome 10 - NC_086028.1 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 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?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D10Rat220 (e-PCR), detects polymorphism
- UniSTS:226330

RH134237 (e-PCR)
- UniSTS:217519

RH140600 (e-PCR)
- UniSTS:222669

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of clathrin coat of trans-Golgi network vesicle	IBA Inferred from Biological aspect of Ancestor more info
part_of clathrin coat of trans-Golgi network vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: synergin gamma

Names: AP1 subunit gamma-binding protein 1; gamma-synergin

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_053419.2 → NP_445871.2 synergin gamma

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

Related

ENSRNOP00000070940.3, ENSRNOT00000092020.3

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_086028.1 Reference GRCr8

Range

69346154..69428714

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039086970.2 → XP_038942898.1 synergin gamma isoform X1

UniProtKB/Swiss-Prot

A1EC70, A1EC72, A1EC74, A1EC75, Q9JKC9, Q9R145

Conserved Domains (4) summary

PRK09510
Location:100 → 170

tolA; cell envelope integrity inner membrane protein TolA; Provisional

cd00052
Location:414 → 465

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_039086972.2 → XP_038942900.1 synergin gamma isoform X3

UniProtKB/Swiss-Prot

A1EC70, A1EC72, A1EC74, A1EC75, Q9JKC9, Q9R145

Conserved Domains (4) summary

PRK09510
Location:100 → 170

tolA; cell envelope integrity inner membrane protein TolA; Provisional

cd00052
Location:414 → 465

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_039086973.2 → XP_038942901.1 synergin gamma isoform X4

UniProtKB/Swiss-Prot

A1EC70, A1EC72, A1EC74, A1EC75, Q9JKC9, Q9R145

Conserved Domains (4) summary

PRK09510
Location:100 → 170

tolA; cell envelope integrity inner membrane protein TolA; Provisional

cd00052
Location:414 → 465

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_039086971.2 → XP_038942899.1 synergin gamma isoform X2

UniProtKB/Swiss-Prot

A1EC70, A1EC72, A1EC74, A1EC75, Q9JKC9, Q9R145

Conserved Domains (4) summary

PRK09510
Location:100 → 170

tolA; cell envelope integrity inner membrane protein TolA; Provisional

cd00052
Location:414 → 465

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_039086974.2 → XP_038942902.1 synergin gamma isoform X5

UniProtKB/Swiss-Prot

A1EC70, A1EC72, A1EC74, A1EC75, Q9JKC9, Q9R145

Conserved Domains (4) summary

PRK09510
Location:100 → 170

tolA; cell envelope integrity inner membrane protein TolA; Provisional

cd00052
Location:414 → 465

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_063269992.1 → XP_063126062.1 synergin gamma isoform X6

UniProtKB/TrEMBL

A0A8I6A7S5

Related

ENSRNOP00000089038.1, ENSRNOT00000120087.2
XM_039086975.2 → XP_038942903.1 synergin gamma isoform X7

UniProtKB/TrEMBL

A0A0G2JZ76

Conserved Domains (3) summary

cd00052
Location:313 → 364

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_063269993.1 → XP_063126063.1 synergin gamma isoform X8
XM_039086976.2 → XP_038942904.1 synergin gamma isoform X10

UniProtKB/TrEMBL

A0A8I5ZJM5

Conserved Domains (3) summary

cd00052
Location:313 → 364

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 130

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

cl00928
Location:113 → 147

dsDNA_bind; Double-stranded DNA-binding domain
XM_039086977.2 → XP_038942905.1 synergin gamma isoform X11

UniProtKB/TrEMBL

A6HHJ7

Conserved Domains (2) summary

cd00052
Location:235 → 286

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 331

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
XM_039086982.2 → XP_038942910.1 synergin gamma isoform X16

UniProtKB/TrEMBL

A6HHJ7

Conserved Domains (2) summary

cd00052
Location:235 → 286

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 331

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
XM_039086978.2 → XP_038942906.1 synergin gamma isoform X12

UniProtKB/TrEMBL

A6HHJ7

Conserved Domains (2) summary

cd00052
Location:235 → 286

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 331

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
XM_063269995.1 → XP_063126065.1 synergin gamma isoform X13
XM_039086979.2 → XP_038942907.1 synergin gamma isoform X14

UniProtKB/TrEMBL

A6HHJ7

Conserved Domains (2) summary

cd00052
Location:235 → 286

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 331

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
XM_039086980.2 → XP_038942908.1 synergin gamma isoform X15

UniProtKB/TrEMBL

A0A096MJZ7, A6HHJ7

Related

ENSRNOP00000070454.2, ENSRNOT00000079418.3

Conserved Domains (2) summary

cd00052
Location:235 → 286

EH; Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A ...

pfam09606
Location:30 → 331

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
XM_063269994.1 → XP_063126064.1 synergin gamma isoform X9