Yipf4 (Yip1 domain family member 4)

Gene: Yipf4 (Yip1 domain family member 4) Ictidomys tridecemlineatus

Analyze

Symbol:

Yipf4

Name:

Yip1 domain family member 4

RGD ID:

12721599

Description:

INVOLVED IN endoplasmic reticulum to Golgi vesicle-mediated transport (inferred); vesicle fusion with Golgi apparatus (inferred); ASSOCIATED WITH genetic disease (ortholog); hereditary spastic paraplegia 4 (ortholog); paraplegia (ortholog); FOUND IN endoplasmic reticulum (inferred); Golgi apparatus (inferred); Golgi membrane (inferred)

Type:

protein-coding

RefSeq Status:

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_024406292	69,661,615 - 69,690,641 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936493	1,151,979 - 1,177,983 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936493	1,152,459 - 1,177,964 (-)	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)

hereditary spastic paraplegia 4 (ISO)

paraplegia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

endoplasmic reticulum to Golgi vesicle-mediated transport (IEA)

vesicle fusion with Golgi apparatus (IEA)

Cellular Component

endoplasmic reticulum (IEA)

Golgi apparatus (IEA)

Golgi membrane (IEA)

intracellular membrane-bounded organelle (IEA)

membrane (IEA)

plasma membrane (IEA)

trans-Golgi network (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Yipf4
(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_024406292	69,661,615 - 69,690,641 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936493	1,151,979 - 1,177,983 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936493	1,152,459 - 1,177,964 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

YIPF4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	32,277,904 - 32,316,594 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	32,277,904 - 32,316,594 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	32,502,973 - 32,541,663 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	32,356,535 - 32,385,145 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	2	32,347,749 - 32,376,450 (+)	NCBI		Celera
Cytogenetic Map	2	p22.3	NCBI
HuRef	2	32,242,067 - 32,270,542 (+)	NCBI		HuRef
CHM1_1	2	32,432,815 - 32,461,515 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	32,326,427 - 32,365,131 (+)	NCBI		T2T-CHM13v2.0

Yipf4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	74,796,488 - 74,807,272 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	74,796,488 - 74,807,272 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	74,489,493 - 74,500,277 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	74,489,493 - 74,500,277 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	74,888,854 - 74,899,617 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	74,394,496 - 74,405,259 (+)	NCBI		MGSCv36	mm8
Celera	17	78,799,375 - 78,810,137 (+)	NCBI		Celera
Cytogenetic Map	17	E2	NCBI
cM Map	17	45.64	NCBI

Yipf4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	26,702,647 - 26,714,066 (-)	NCBI		GRCr8
mRatBN7.2	6	20,950,774 - 20,962,195 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	20,950,501 - 20,962,229 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	21,281,081 - 21,292,599 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	21,596,933 - 21,608,451 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	21,077,376 - 21,088,894 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	22,126,870 - 22,138,286 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	22,126,870 - 22,138,286 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	32,015,277 - 32,026,693 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	20,885,521 - 20,896,940 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	20,888,473 - 20,899,893 (-)	NCBI
Celera	6	20,510,769 - 20,522,188 (-)	NCBI		Celera
Cytogenetic Map	6	q13	NCBI

Yipf4
(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_004955441	635,502 - 655,035 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955441	622,401 - 655,035 (+)	NCBI	ChiLan1.0	ChiLan1.0

YIPF4
(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	12	94,184,901 - 94,214,381 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	94,184,913 - 94,218,300 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	32,296,515 - 32,333,490 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	33,008,485 - 33,036,535 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	33,008,485 - 33,036,535 (+)	Ensembl	panpan1.1		panPan2

YIPF4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	25,548,611 - 25,578,135 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	25,548,630 - 25,575,949 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	25,340,582 - 25,369,990 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	26,111,502 - 26,140,933 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	26,111,512 - 26,140,441 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	25,411,175 - 25,440,598 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	25,483,134 - 25,512,546 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	25,582,556 - 25,611,261 (+)	NCBI		UU_Cfam_GSD_1.0

YIPF4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	107,304,385 - 107,340,012 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	107,299,597 - 107,340,029 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

YIPF4
(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	14	75,185,577 - 75,215,298 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	75,186,925 - 75,215,276 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	36,861,263 - 36,888,374 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Yipf4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624738	13,898,752 - 13,928,171 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624738	13,898,488 - 13,929,053 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005322465	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040271558	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010001352	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000012129 ⟹ ENSSTOP00000010876

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936493	1,151,979 - 1,177,983 (-)	Ensembl

RefSeq Acc Id:

XM_005322465 ⟹ XP_005322522

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024406292	69,661,617 - 69,687,106 (+)	NCBI
SpeTri2.0	NW_004936493	1,152,459 - 1,177,964 (-)	NCBI

Sequence:

show sequence

GCCAATCCACGCGGCCCTGTCACTGTTATGGTCCTGTCAGGGCGCCGGCGTCGTGGTGCTTGGG
CGGTCGCCACTGAGAGGACTTTGGTGGGGCAGTCTCGGGACAGCCCGGCGGCCCTCTGCGCTCG
CCTTGGGTCTGTGTCCCAGCCTGCCCCCCTCAGCTCGCAGGCCGCACCATAACGCGAGCGTGCG
GGTCCGTGTTGCGGCGGCCTTGGGACCTGGGCCCAGCTGCAGCCTCCTCCACCGCAGCGGGCTC
GGAGGGGCGGCGAGATGCAGCCGCCGGGCCCGCCCCCGGCGTATGCCCCCACTAACGGGGACTT
CACTTTTGTCTCCTCAGCTGACGCGGAAGATCTCAGTGGTTCCATAGCATCCCCAGATGTCAAA
TTAAACCTCGGTGGAGATTTTATCAAAGAATCTACAGCTACTACATTTCTGAGGCAAAGAGGGT
ATGGCTGGCTTTTGGAAGTTGAAGATGATGATCCTGAAGATAACAAGCCACTCTTGGAAGAATT
GGATATCGATCTAAAGGATATTTACTACAAAATTCGATGTGTTTTGATGCCAATGCCATCACTT
GGTTTTAACAGACAAGTGGTGAGAGACAATCCTGACTTTTGGGGTCCTCTGGCTGTTGTTCTTT
TCTTTTCCATGATATCATTATATGGACAGTTTAGGGTGGTCTCATGGATTATAACCATTTGGAT
ATTTGGTTCACTGACAATTTTCTTGCTGGCCAGAGTTCTTGGTGGAGAAGTTGCATATGGCCAA
GTTCTTGGAGTTATAGGATATTCATTACTTCCTCTCATTGTAATAGCTCCAGTACTTTTGGTGG
TTGGATCATTTGAAGTTGTGTCTACTCTTATAAAACTGTTTGGTGTGTTTTGGGCTGCCTACAG
TGCTGCTTCATTGTTAGTGGGTGAAGAATTCAAGACCAAAAAGCCTCTCCTGATTTATCCAATC
TTTTTATTATACATTTATTTTTTGTCTTTATATACTGGGGTGTGATCCAAGTTCATTCATGAGT
AGAAAAAGACAATGTTACATTTGTATGTAGGCTGGGAATTCTTGCTGACCCTTGGGAAAAAACG
TTGCTGGTAAACTTTCATGTTTGAGATGAAAAGGAAGGTTTAAGATCTTTTTACAACTATTTTT
TGTATGTAATTAAGCAGTTACAGTTATCTGGGATTTTTTGGTCAGAATTCTAAACTGTTTGATT
CTTCATATTCCAGTGAATAAAATATGAAAGCATTGTGTTTTTAATATTGTGTTAATATTCACCT
AAAAATTTGTGCCAAAAGCACCTGACTCGGTAATTGTATTTCACTTGAAGGATAAATTTGACAG
CATCCTGATAATCTAAAAGTGCAATGTTTTTTTTAACGAGTTTTCTCCTGCATCACAGATCCTG
TAGATATATATTTATATTTATACATATATATTTATGAAATAATTCTTATTATTCACAAAATATA
TTTCTTAATAGCCTAAAAATTAAAATATTATGCTTAAACTTTTCTTCAATTGGCCATTAATCTT
TTTTATTTAAAATTTAAAATTTGTTTTTTAAATTGTATGTAATTTTTAAAATAATAGCTGCTGA
TGTAGACATGATTTGTGAAAGTATGCTTTTAAAAACCATTTTGAATGTCTTAAACATCTGACTT
AAAGTTTCTGTTTAACTTTCTGACCAAAGGAACAAGAGCATATGGCATTCATTAAAGTTATTAA
TATATAGAAAAACAATGATATTTATAGCATCAGTAAATATTTTTAAGTGATACTCCTAAATCAG
AGAAGTATGGGAAAAAGACATAAAATCTTGTGGTCCTGAGCAATGTTATATGAAGTAGAAAAAA
ATAAAATGTTTCCCAGCTGTGTGTTTTGTTTTATAA

hide sequence

RefSeq Acc Id:

XM_040271558 ⟹ XP_040127492

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024406292	69,661,615 - 69,690,641 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_005322522	(Get FASTA)	NCBI Sequence Viewer
	XP_040127492	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000010876.3

RefSeq Acc Id:	XP_005322522 ⟸ XM_005322465
- Peptide Label:	isoform X1
- UniProtKB:	I3MIL6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MQPPGPPPAYAPTNGDFTFVSSADAEDLSGSIASPDVKLNLGGDFIKESTATTFLRQRGYGWLL EVEDDDPEDNKPLLEELDIDLKDIYYKIRCVLMPMPSLGFNRQVVRDNPDFWGPLAVVLFFSMI SLYGQFRVVSWIITIWIFGSLTIFLLARVLGGEVAYGQVLGVIGYSLLPLIVIAPVLLVVGSFE VVSTLIKLFGVFWAAYSAASLLVGEEFKTKKPLLIYPIFLLYIYFLSLYTGV hide sequence

RefSeq Acc Id:	XP_040127492 ⟸ XM_040271558
- Peptide Label:	isoform X2

RefSeq Acc Id:

ENSSTOP00000010876 ⟸ ENSSTOT00000012129

Protein Domains

Yip1

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000012128	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000012129.3	UniProtKB/TrEMBL
InterPro	Yip1	UniProtKB/TrEMBL
	Yip1/4-like	UniProtKB/TrEMBL
NCBI Gene	Yipf4	ENTREZGENE
PANTHER	PROTEIN YIPF4	UniProtKB/TrEMBL
	PTHR21236	UniProtKB/TrEMBL
Pfam	Yip1	UniProtKB/TrEMBL
UniProt	I3MIL6	ENTREZGENE, UniProtKB/TrEMBL

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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Imported Disease Annotations - ClinVar