Pef1 (penta-EF-hand domain containing 1)

Gene: Pef1 (penta-EF-hand domain containing 1) Chinchilla lanigera

Analyze

Symbol:

Pef1

Name:

penta-EF-hand domain containing 1

RGD ID:

8740363

Description:

ENCODES a protein that exhibits calcium-dependent protein binding (ortholog); identical protein binding (ortholog); protein dimerization activity (ortholog); INVOLVED IN COPII vesicle coating (ortholog); endoplasmic reticulum to Golgi vesicle-mediated transport (ortholog); neural crest cell development (ortholog); FOUND IN COPII vesicle coat (ortholog); Cul3-RING ubiquitin ligase complex (ortholog); cytoplasm (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

peflin

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955452	10,039,130 - 10,047,276 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955452	10,038,380 - 10,055,871 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

COPII vesicle coating (ISO)

endoplasmic reticulum to Golgi vesicle-mediated transport (ISO)

neural crest cell development (ISO)

neural crest formation (ISO)

positive regulation of protein monoubiquitination (ISO)

response to calcium ion (ISO)

Cellular Component

COPII vesicle coat (ISO)

Cul3-RING ubiquitin ligase complex (ISO)

cytoplasm (ISO)

Molecular Function

calcium-dependent protein binding (ISO)

identical protein binding (ISO)

protein binding (ISO)

protein dimerization activity (ISO)

protein heterodimerization activity (ISO)

ubiquitin-like ligase-substrate adaptor activity (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Pef1
(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_004955452	10,039,130 - 10,047,276 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955452	10,038,380 - 10,055,871 (-)	NCBI	ChiLan1.0	ChiLan1.0

PEF1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	31,629,866 - 31,644,876 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	31,629,866 - 31,644,896 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	32,095,467 - 32,110,477 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	31,868,058 - 31,883,064 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	1	30,364,685 - 30,380,064 (-)	NCBI		Celera
Cytogenetic Map	1	p35.2	NCBI
HuRef	1	30,212,972 - 30,228,346 (-)	NCBI		HuRef
CHM1_1	1	32,211,259 - 32,226,634 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	31,487,512 - 31,502,526 (-)	NCBI		T2T-CHM13v2.0

Pef1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	130,001,349 - 130,021,927 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	129,996,351 - 130,021,928 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	130,107,556 - 130,128,134 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	130,102,558 - 130,128,135 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	129,784,800 - 129,805,378 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	129,609,860 - 129,630,438 (+)	NCBI		MGSCv36	mm8
Celera	4	128,442,027 - 128,462,609 (+)	NCBI		Celera
Cytogenetic Map	4	D2.2	NCBI
cM Map	4	63.43	NCBI

Pef1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	147,735,973 - 147,759,239 (+)	NCBI		GRCr8
mRatBN7.2	5	142,451,791 - 142,475,061 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	142,451,778 - 142,475,067 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	145,152,391 - 145,175,657 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	146,922,203 - 146,945,469 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	146,919,967 - 146,943,243 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	148,320,610 - 148,343,876 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	148,320,438 - 148,343,886 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	152,039,088 - 152,062,354 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	149,135,320 - 149,158,586 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	149,145,358 - 149,168,625 (+)	NCBI
Celera	5	140,919,517 - 140,942,783 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

PEF1
(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	1	195,184,477 - 195,199,786 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	194,303,236 - 194,321,454 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	30,913,773 - 30,929,066 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	31,930,814 - 31,946,170 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	31,930,814 - 31,946,183 (-)	Ensembl	panpan1.1		panPan2

PEF1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	69,465,773 - 69,482,465 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	69,479,516 - 69,482,331 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	66,044,722 - 66,061,963 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	70,030,795 - 70,048,035 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	2	70,030,893 - 70,048,035 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	2	66,866,573 - 66,883,795 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	67,863,014 - 67,880,237 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	68,862,395 - 68,879,631 (+)	NCBI		UU_Cfam_GSD_1.0

Pef1
(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_024405058	48,921,030 - 48,936,591 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936474	14,745,677 - 14,761,395 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936474	14,745,812 - 14,761,279 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PEF1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	88,152,235 - 88,170,251 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	88,152,232 - 88,170,327 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	81,867,270 - 81,885,446 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PEF1
(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	20	101,225,397 - 101,240,694 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	101,235,056 - 101,240,732 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666033	15,450,501 - 15,465,799 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pef1
(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_004624764	14,873,415 - 14,889,139 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624764	14,872,646 - 14,889,307 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005395031	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01044267	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01044268	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBBH01165087	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000013872 ⟹ ENSCLAP00000013717

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955452	10,039,130 - 10,047,276 (-)	Ensembl

RefSeq Acc Id:

XM_005395031 ⟹ XP_005395088

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955452	10,038,380 - 10,055,871 (-)	NCBI

Sequence:

show sequence

TAGACCCCCCCCCCGGCCACTTTTGGAGCAGGAAGCTCCGCCTTTCACCGACTGTGACGTCAGA
GTCGCCATGGCAAGTTATCCGTATGGGCAGGGCTGCCCTGGAGCTGCAGGACAGGCGCCTGGAG
CCCCTCCGGGCAGCTACTACCCAGGACCCCCCCACGGTGGAGGACAGTATGGTGGTGGCTATGG
GGGTCCTGCCCCTGGAGGGCCTTATGGACCACCAGCTGGCGGAGGGCCCTATGGACACCCCAGT
GCCCCAGGAGGACCATATGGTGGTGCAGCGCCAGGGGGGCCTTACGGTCAGCCACCTCCAAGTT
CCTATGGTGCACAGCAGCCTGGACCTTATGGACAGGGTGGCGCTCCTCCCAACGTGGACCCTGA
AGCCTACTCCTGGTTCCAGTCTGTGGACTCTGATAGAAGTGGCTACATCTCCATCAAGGAACTG
AAGCAGGCTCTGGTCAACTCCAATTGGTCCTCATTCAATGACGAGACATGCCTCATGATGATAA
ACATGTTTGACAAGACCAAGTCAGGCCACATTGACGTCTACGGTTTCTCAGCCCTATGGAAATT
CATCCAGCAGTGGAAGAACCTCTTTCAGCAGTATGACCGGGACCACTCAGGCTCTATCAGCTAC
ACGGAGCTGCAGCAAGCTCTGTCCCAGATGGGCTACAACCTGAGCCCCCAGTTCACACAGCTCC
TGGTCTCCCGCTACTGCCCTCGCTCTGCCAGTCCTGCCATGCAGCTCGACCGCTTCATCCAGGT
GTGCACCCAGCTGCAGTTGCTGACTGAGGCCTTTCGGGAGAAGGACACCGCTGTACAGGGTAAC
ATTCGGCTCAGCTTCGAGGACTTTGTCACCATGACAGCTTCTCGGATGCTATGACCCAGCCTCC
AAGGACCTTTCCTGGCTCATTAGTGTGGGAGAAGCATGTGGGCCTCTCTTTTCCTGTCCCTTGT
AGAAATTTTTCCTTGCTTGAGGCAGCACTGTTCCCAGGGGTTGGAAGTCCTACATCAGAGCCAC
CAAATAGGGAGGCCCTGACCTGTGGCTACACAGGTAAGAGCCTGACCTAAAAGAAGACTGGAAG
TTGAATGCTCTGACAGCCCTGAATGGTTGGATGGCACAGCCTTGTACCAAGAGACGCCAGTCAT
GGCAATGGAGTTAGTGTCTGGTCAGCTTGTTCTGGCCTGCAGCTCTCCCCTGTGTACTCTGATG
CTAGTAGTAAGTGCTCATCAGCCTCTCACCGTTAGTGCCTGTCCTCCCTCACCCAGGCCATCTT
GTCAGAGGAGCGCAGAGCCGTTTCTCCACAGTGAAATCTGTCTGAGAATAAGGGAGATTTTCCC
ATAGAACCAACAGCTTGGATTTTCCTACATCTAGGAATCCTTGCGTGCGAACTTCTAAATGCCG
TGGGCCTTGCCCACTCTGGGAGCTTGGATATATGCCCTCAGGCATCTTTGGCCAGGCAGTTGCC
CTCTGAAGCTCGGACCCTTCCCTTACCTGCCATGCTGTGCTCAGCTTCAGTCTCCAGGGGACCA
TGTCACCCTACTGCCAATGCTTTTTTTTTTTCCAGTTTTTTTCACTTGGGGCCAAAAGTCCAGT
GAAATTGTAAACTTCAGTAAAAGGATACCATTCGAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005395088	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000013717
	ENSCLAP00000013717.1

RefSeq Acc Id:

XP_005395088 ⟸ XM_005395031

- UniProtKB:

A0A8C2YPH3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MASYPYGQGCPGAAGQAPGAPPGSYYPGPPHGGGQYGGGYGGPAPGGPYGPPAGGGPYGHPSAP
GGPYGGAAPGGPYGQPPPSSYGAQQPGPYGQGGAPPNVDPEAYSWFQSVDSDRSGYISIKELKQ
ALVNSNWSSFNDETCLMMINMFDKTKSGHIDVYGFSALWKFIQQWKNLFQQYDRDHSGSISYTE
LQQALSQMGYNLSPQFTQLLVSRYCPRSASPAMQLDRFIQVCTQLQLLTEAFREKDTAVQGNIR
LSFEDFVTMTASRML

hide sequence

RefSeq Acc Id:

ENSCLAP00000013717 ⟸ ENSCLAT00000013872

Protein Domains

EF-hand

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000009480	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000013872	ENTREZGENE
	ENSCLAT00000013872.1	UniProtKB/TrEMBL
Gene3D-CATH	EF-hand	UniProtKB/TrEMBL
InterPro	EF-hand-dom_pair	UniProtKB/TrEMBL
	EF_Hand_1_Ca_BS	UniProtKB/TrEMBL
	EF_hand_dom	UniProtKB/TrEMBL
NCBI Gene	Pef1	ENTREZGENE
PANTHER	PEFLIN	UniProtKB/TrEMBL
	PEFLIN	UniProtKB/TrEMBL
Pfam	EF-hand_6	UniProtKB/TrEMBL
	EF-hand_7	UniProtKB/TrEMBL
PROSITE	EF_HAND_1	UniProtKB/TrEMBL
	EF_HAND_2	UniProtKB/TrEMBL
SMART	EFh	UniProtKB/TrEMBL
Superfamily-SCOP	SSF47473	UniProtKB/TrEMBL
UniProt	A0A8C2YPH3	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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