Garin1a (golgi associated RAB2 interactor 1A)

Gene: Garin1a (golgi associated RAB2 interactor 1A) Ictidomys tridecemlineatus

Analyze

Symbol:

Garin1a

Name:

golgi associated RAB2 interactor 1A (Ensembl:family with sequence similarity 71 member F2)

RGD ID:

12560878

Description:

INVOLVED IN acrosome assembly (inferred); ASSOCIATED WITH genetic disease (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN Golgi apparatus (inferred); nucleus (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

Fam71f2; family with sequence similarity 71 member F2; family with sequence similarity 71 member F2, transcript variant X1; family with sequence similarity 71 member F2, transcript variant X2

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	54,473,058 - 54,483,657 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936479	15,596,968 - 15,607,276 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936479	15,596,968 - 15,607,416 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

acrosome assembly (IEA)

Cellular Component

Golgi apparatus (IEA)

nucleus (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Garin1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405118	54,473,058 - 54,483,657 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936479	15,596,968 - 15,607,276 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936479	15,596,968 - 15,607,416 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

GARIN1A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	128,671,629 - 128,709,166 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	128,671,693 - 128,687,877 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	128,312,346 - 128,327,931 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	128,099,582 - 128,110,611 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	7	123,108,100 - 123,119,125 (+)	NCBI		Celera
Cytogenetic Map	7	q32.1	NCBI
HuRef	7	122,672,694 - 122,680,555 (+)	NCBI		HuRef
CHM1_1	7	128,245,591 - 128,256,685 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	129,983,863 - 130,021,327 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	127,695,344 - 127,706,372 (+)	NCBI

Garin1a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	29,276,298 - 29,290,684 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	29,279,592 - 29,290,679 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	29,277,528 - 29,290,684 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	29,279,593 - 29,290,680 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	29,231,141 - 29,240,675 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	29,229,609 - 29,240,690 (+)	NCBI		MGSCv36	mm8
Celera	6	29,286,820 - 29,297,179 (+)	NCBI		Celera
Cytogenetic Map	6	A3.3	NCBI
cM Map	6	12.36	NCBI

Garin1a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	58,845,394 - 58,856,199 (+)	NCBI		GRCr8
mRatBN7.2	4	57,880,019 - 57,890,824 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	57,880,019 - 57,890,820 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	62,862,769 - 62,873,618 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	58,778,927 - 58,789,775 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	57,180,820 - 57,191,668 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	56,556,545 - 56,567,350 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	56,556,507 - 56,567,346 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	56,323,706 - 56,334,511 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	56,153,397 - 56,170,360 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	4	52,988,051 - 52,998,861 (+)	NCBI		Celera
Cytogenetic Map	4	q22	NCBI

Garin1a
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955479	9,476,486 - 9,488,161 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955479	9,476,510 - 9,487,041 (+)	NCBI	ChiLan1.0	ChiLan1.0

GARIN1A
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	6	165,473,294 - 165,508,434 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	17,483,541 - 17,518,681 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	120,623,601 - 120,640,187 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	133,148,576 - 133,159,626 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	133,148,605 - 133,159,626 (+)	Ensembl	panpan1.1		panPan2

GARIN1A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	7,937,320 - 7,948,609 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	14	7,937,322 - 7,949,115 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	14	7,624,107 - 7,635,392 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	14	7,703,764 - 7,715,267 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	14	7,703,766 - 7,715,659 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	14	7,908,678 - 7,920,190 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	14	7,649,938 - 7,661,213 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	14	7,796,222 - 7,807,513 (-)	NCBI		UU_Cfam_GSD_1.0

GARIN1A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	18	19,919,769 - 19,932,990 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	18	19,919,703 - 19,945,287 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	18	20,988,703 - 21,001,959 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

GARIN1A
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	21	97,270,312 - 97,283,137 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	21	97,270,993 - 97,282,963 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666042	6,118,284 - 6,134,664 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005319428	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_021722345	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040291634	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000022096 ⟹ ENSSTOP00000020244

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936479	15,596,968 - 15,607,276 (+)	Ensembl

RefSeq Acc Id:

XM_005319428 ⟹ XP_005319485

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	54,473,058 - 54,483,657 (+)	NCBI
SpeTri2.0	NW_004936479	15,596,968 - 15,607,416 (+)	NCBI

Sequence:

show sequence

ATGAGTAAAATTAGGGGCCTCCCTCCTAAGGTCAGGGAACCAGGCCCTGGAGTAGCACTTGGGG
TGGAAAATGGCCTTCTTTGTCGACTGATTCATTCTCCAGAATTCAACTTATTCTCCAACTCAGT
AGTGTTTGAAAGCAACTTTATCCAGGTCAATAAACCCACAGACTGGATGGATGTCTGGGAAGGA
TCTACCCCCATCATTCTTGGGGTGACGTCCTCAGTGCCCTCCTTGCCACTCCCCAACGTCCTCC
TGATGGCCAATGTCACCTGGCCCCAGAATCAGTTTTCTACCTGGAACACACCTCGTGTCCCAGT
CATCACACTGAGCAGGATTCTCCCCCTGAAGTATGTGGAGCTACAAATCTATGACCGGACCCAA
CGTATTCTGCGACTTAGAACAGTGACAGAAAAAATCTACTACCTGAGGCTCCATGATAAACATC
CAGAGGCTGTGTTTCAATTTTGGATCCGCTTGGTGAGAATTCTACAGAAAGGTCTATCCATCAC
CACCAAAGACCCAAGAATCCAATTCACTCACTGCCTGGTACCCAAGATGCCTAGCCCCTCCACT
GAAACAACACCTGAATGCAGCCTCTCATCATCCTCCCAGACCAGTGAGACCCTCAGGCTGCTGG
CAGCTGAGCAGAAGAGTGGCAGTTGCTTGGGACTCTCTACAAGGACCCAGCTCACATCAAACAG
AAACACCCAAACTGCCATTGAAATAGGCAGTTGCCACAGCTATAAGAAACCCTCACTGGTGACA
TCTCCATTCAACTTGAATATACCCATGAGAGCCACCTTGAACCACAGCCTCTGGGAACAAGAAG
ATCCAGACGAGCATTTCCTACAGGTTCCTGTAGCCAGTTCCCTAGGAGAGAACTTTCTGGGCCC
CTGACACCTAGCTAAAATGGGGTGATCATCCTTGGTGTCTGTGTAGCCTCTAAGGCTGTTCACC
ACGGTGCCAAGAGACATGGGTGGGGTAAGATGGAGTTAATAACAACGTGCTGCTGTACTTCCAC
CAATAAACCTCCATGT

hide sequence

RefSeq Acc Id:

XM_040291634 ⟹ XP_040147568

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	54,473,233 - 54,483,657 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_005319485	(Get FASTA)	NCBI Sequence Viewer
	XP_040147568	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000020244.2
GenBank Protein	KAG3277759	(Get FASTA)	NCBI Sequence Viewer
	KAG3277760	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005319485 ⟸ XM_005319428
- Peptide Label:	isoform X1
- UniProtKB:	I3N798 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSKIRGLPPKVREPGPGVALGVENGLLCRLIHSPEFNLFSNSVVFESNFIQVNKPTDWMDVWEG STPIILGVTSSVPSLPLPNVLLMANVTWPQNQFSTWNTPRVPVITLSRILPLKYVELQIYDRTQ RILRLRTVTEKIYYLRLHDKHPEAVFQFWIRLVRILQKGLSITTKDPRIQFTHCLVPKMPSPST ETTPECSLSSSSQTSETLRLLAAEQKSGSCLGLSTRTQLTSNRNTQTAIEIGSCHSYKKPSLVT SPFNLNIPMRATLNHSLWEQEDPDEHFLQVPVASSLGENFLGP hide sequence

RefSeq Acc Id:	XP_040147568 ⟸ XM_040291634
- Peptide Label:	isoform X2
- UniProtKB:	I3N798 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSSTOP00000020244 ⟸ ENSSTOT00000022096

Protein Domains

Golgi associated RAB2 interactor protein-like Rab2B-

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000008506	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000022096.2	UniProtKB/TrEMBL
InterPro	DUF3699	UniProtKB/TrEMBL
NCBI Gene	Fam71f2	ENTREZGENE
PANTHER	PROTEIN FAM71F2	UniProtKB/TrEMBL
	UNCHARACTERIZED	UniProtKB/TrEMBL
Pfam	DUF3699	UniProtKB/TrEMBL
UniProt	I3N798	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-11-30	Garin1a	golgi associated RAB2 interactor 1A	Fam71f2	family with sequence similarity 71 member F2	Symbol and/or name change	5135510	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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