Rnf139 (ring finger protein 139) - Rat Genome Database

Name: Rnf139
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Rnf139 (ring finger protein 139) Chinchilla lanigera

Analyze

Symbol:

Rnf139

Name:

ring finger protein 139

RGD ID:

8798337

Description:

ENCODES a protein that exhibits protease binding (ortholog); ubiquitin protein ligase activity (ortholog); ubiquitin-like protein transferase activity (ortholog); INVOLVED IN ERAD pathway (ortholog); negative regulation of cell population proliferation (ortholog); negative regulation of translation (ortholog); ASSOCIATED WITH genetic disease (ortholog); renal cell carcinoma (ortholog); trichorhinophalangeal syndrome type I (ortholog); FOUND IN Derlin-1 retrotranslocation complex (ortholog); endoplasmic reticulum (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

E3 ubiquitin-protein ligase RNF139

RGD Orthologs

Alliance Genes

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_004955540	3,140,649 - 3,153,546 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955540	3,140,649 - 3,153,546 (+)	NCBI	ChiLan1.0	ChiLan1.0

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)

renal cell carcinoma (ISO)

trichorhinophalangeal syndrome type I (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

ERAD pathway (ISO)

negative regulation of cell population proliferation (ISO)

negative regulation of translation (ISO)

positive regulation of ubiquitin-dependent protein catabolic process (ISO)

protein destabilization (ISO)

protein ubiquitination (ISO)

regulation of ER to Golgi vesicle-mediated transport (ISO)

regulation of protein processing (ISO)

Cellular Component

Derlin-1 retrotranslocation complex (ISO)

endoplasmic reticulum (ISO)

Molecular Function

protease binding (ISO)

protein binding (ISO)

ubiquitin protein ligase activity (ISO)

ubiquitin-like protein transferase activity (ISO)

ubiquitin-protein transferase activity (ISO)

References

References - curated

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

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Rnf139
(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_004955540	3,140,649 - 3,153,546 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955540	3,140,649 - 3,153,546 (+)	NCBI	ChiLan1.0	ChiLan1.0

RNF139
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	124,474,880 - 124,488,618 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	8	124,474,880 - 124,488,618 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	125,487,121 - 125,500,859 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	125,556,189 - 125,570,040 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	125,556,188 - 125,570,040	NCBI
Celera	8	121,675,173 - 121,688,974 (+)	NCBI		Celera
Cytogenetic Map	8	q24.13	NCBI
HuRef	8	120,812,471 - 120,826,584 (+)	NCBI		HuRef
CHM1_1	8	125,527,264 - 125,541,113 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	8	125,607,587 - 125,621,646 (+)	NCBI		T2T-CHM13v2.0

Rnf139
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	58,760,975 - 58,774,239 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	58,761,078 - 58,778,906 (+)	Ensembl		GRCm39 Ensembl
GRCm38	15	58,889,229 - 58,902,390 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	58,889,229 - 58,907,057 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	58,720,784 - 58,733,945 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	58,719,381 - 58,730,937 (+)	NCBI		MGSCv36	mm8
MGSCv36	15	59,311,394 - 59,322,950 (+)	NCBI		MGSCv36	mm8
Celera	15	60,427,522 - 60,431,604 (+)	NCBI		Celera
Cytogenetic Map	15	D1	NCBI
cM Map	15	25.09	NCBI

Rnf139
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	92,329,201 - 92,340,386 (+)	NCBI		GRCr8
mRatBN7.2	7	90,439,726 - 90,450,911 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	90,436,621 - 90,488,009 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	92,329,252 - 92,340,556 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	94,530,408 - 94,541,712 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	94,357,784 - 94,368,970 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	98,770,840 - 98,782,025 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	98,770,840 - 98,782,025 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	99,371,253 - 99,382,438 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	95,659,052 - 95,661,624 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	95,691,439 - 95,695,125 (+)	NCBI
Celera	7	87,205,052 - 87,216,237 (+)	NCBI		Celera
Cytogenetic Map	7	q33	NCBI

RNF139
(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	7	141,895,692 - 141,908,853 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	8	117,406,772 - 117,420,595 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	8	121,158,715 - 121,172,069 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	8	123,912,589 - 123,924,984 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	123,912,589 - 123,924,720 (+)	Ensembl	panpan1.1		panPan2

RNF139
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	13	22,560,180 - 22,572,986 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	13	22,543,543 - 22,572,308 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	13	22,525,691 - 22,538,625 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	13	22,902,085 - 22,915,033 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	13	22,885,460 - 22,915,135 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	13	22,622,475 - 22,635,430 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	13	22,732,278 - 22,745,227 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	13	22,975,117 - 22,988,074 (+)	NCBI		UU_Cfam_GSD_1.0

Rnf139
(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_024405303	15,731,213 - 15,742,466 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936470	23,152,765 - 23,168,571 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936470	23,157,312 - 23,168,565 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RNF139
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	15,154,331 - 15,197,511 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	15,157,571 - 15,182,520 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	15,570,618 - 15,592,862 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RNF139
(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	8	119,041,885 - 119,055,119 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	119,042,223 - 119,054,486 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	21,131,138 - 21,167,922 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rnf139
(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_004624735	30,715,384 - 30,726,862 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624735	30,715,373 - 30,726,591 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005410943	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01071335	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCE01117033	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000000671 ⟹ ENSCLAP00000000638

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955540	3,140,649 - 3,153,546 (+)	Ensembl

RefSeq Acc Id:

XM_005410943 ⟹ XP_005411000

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955540	3,140,649 - 3,153,546 (+)	NCBI

Sequence:

show sequence

TCGCGTTCTCGCGTGAGCGCAGGCGCAGCCTCCGCGCCTCGCAACAGCATCAACTGCTGAGGCG
GGCGGGGTCAAGATGGTGGCTCCGCGGGCGGGGGAGGCGGTGGAGGGAGGAGGAGTCAGATCAT
AGCCAGCCGGAAACACCGACGCCCGGAGCCCTCCCGAGGACCCGCCGCCGCTGCCGCCGCCGCC
GCCGCCGCCTGCTCCAGCTCGAGAGACGCGAGCGGGCGGCGGGGCGGGCCGCGAGAGAGACCGA
GAGGAGGACAGGGGCGGAGCCGCCCGCCTCCCCCGCCCCAGCGCGTCCCGGCCCGGCCGGCCCG
CCCAGCCCCGGTGTGGCAGCGGCTCATGGCGGCAGTGGGGCCCCCGCAGCAGCAGGTGCGGATG
GCCCGTCAGCAGGTCTGGGCGGCGCTCGAAGTGGCGCTCCGGGTGCCCTGCCTCTACATCATCG
ACGCCATCTTCAACTCCTACTACGATTCCAGCCAGAGCCCGCTCTGCATCGTGCTCCAGATCTT
CCTGCGGCTCCTCGGTATATTTGCATCCAGTATTGTTCTTATCTTGTCACAGCGATCACTTTTC
AAGTTTTACATGTACAGCTCAGCCTTTCTGTTAGCTGCGACTTCAGTGTTGGTGAACTATTATG
CTGCTTTGCACATTGACTTCTATGGTGCCTACAACACTTTGGCCTTTGGAATTGAGCTGCTTCC
TCAAAAAGGGCCCTCACTATGGATGGCACTTATTGTTCTACAGCTAACATTTGGAATTGGATAC
ATCACACTACTCCAGATTCATTCCATCTATTCACAGTTAATTGTTTTGGATCTTTTGGTTCCTG
TAATAGGCTTAATCACAGAGCTACCATTACACATCAGGGAGACATTAGTTTTTACCTCTTCCTT
GATTCTCATATTAAATACAGTACTTGTCTTGGCAGTGAAACTTAGGTGGTTTTATTATTCCACA
CGATATGTTTATCTTTTAGTGAGGCACATGTATCGAATTTACGGATTACAGTTACTGATGGAGG
ACACGTGGAAGAGGATTCGTTTTCCAGATATACTTCGAGTTTTCTGGTTAACAAGAATTACAGC
TCAGGCTACAGTGCTAATGTACATTCTAAGGATGGCAAATGAAACTGAGTCCTTCCTTATTTCT
TGGGATGATTTCTGGGACCTTATTTGCAATCTTATAATTAGTGGATGTGATTCTACACTGACTG
TACTGGGCATGAGTGCTGTAATTTCCTCAGTAGCCCATTATTTGGGGCTTGGAATATTGGCCTT
TATTGGATCGACTGAAGAAGATGACAGGCGGCTTGGCTTTGTAGCACCTGTTTTATTTTTTATT
TTGGCTCTTCAGACTGGCTTAAGTGGGCTAAGACCAGAAGAGAGACTTATTCGCTTAAGTAGAA
ACATGTGCCTTTTGTTAACTGCAGTCCTGCATTTCATCCATGGAATGACAGACCCTGTATTAAT
GTCTCTTAGTGCCTCGCATGTTTCATCTTTTCGTAGACATTTTCCTGTGCTGTTTGTGTCTGCT
TGCCTGTTCATTCTTCCTGTTTTACTTAGCTATGTTCTTTGGCATCACTATGCACTAAATACAT
GGTTGTTTGCAGTTACTGCCTTTTGTGTGGAACTCTGCTTAAAAGTAATTGTTTCCCTCACTGT
TTATACACTATTCATGATTGATGGCTACTATAATGTCCTCTGGGAAAAGCTTGATGATTATGTC
TACTATGTCCGTTCAACCGGCAATATTATTGAATTTATATTTGGAGTAGTAATGTTTGGAAATG
GGGCTTATACTATGATGTTTGAGTCAGGAAGTAAAATTCGGGCTTGTATGATGTGCCTACATGC
ATATTTTAACATCTACCTACAAGCAAAAAATGGCTGGAAGACATTCATGAATCGTAGAACTGCT
GTTAAGAAAATCAATTCACTTCCTGAAATAAAAGGGAGCCGCTTGCAAGAAATAGATGATGTAT
GTGCAATATGCTATCATGAGTTTACAACATCTGCTCGTATTACACCATGTAATCATTATTTCCA
CGCACTTTGTCTTCGGAAATGGCTATACATTCAAGATACTTGTCCAATGTGCCATCAAAAAGTA
TACATTGAAGATGATGTTAAGGATGAGTCCAATATATCTAACAACAATGGATTTATTGCACCTA
ATGAAAATGAAAATCCAGAGGAAGTAAGAGAAGATGCTGCTGAATCTGACAGGGAACTAAATGA
AAATGACAGTACAGATTGTGATGACGACGTGCAGAGAGAAAGAAATGGAGGGATTCAGCACACA
GGTGCAACCACTGAAGAATTTAATGATGACACTGATTAAAATAATTTACTAATCACTGAGGGTA
TTTGTTTAAAATTGAGTTCATCCAAAATGGAGTAACATGCTTCACTTCAGTGTGTAACCAAGCA
CAAAAAACAGTATCAATGTTGAATCTGTGAATGGTTTTCCGTTTACTGTGATGTGCTACTGTAA
ATATACCTCTTTAATTACT

hide sequence

Protein Sequences


Protein RefSeqs	XP_005411000	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000000638
	ENSCLAP00000000638.1

RefSeq Acc Id:

XP_005411000 ⟸ XM_005410943

- UniProtKB:

A0A8C2UK86 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAAVGPPQQQVRMARQQVWAALEVALRVPCLYIIDAIFNSYYDSSQSPLCIVLQIFLRLLGIFA
SSIVLILSQRSLFKFYMYSSAFLLAATSVLVNYYAALHIDFYGAYNTLAFGIELLPQKGPSLWM
ALIVLQLTFGIGYITLLQIHSIYSQLIVLDLLVPVIGLITELPLHIRETLVFTSSLILILNTVL
VLAVKLRWFYYSTRYVYLLVRHMYRIYGLQLLMEDTWKRIRFPDILRVFWLTRITAQATVLMYI
LRMANETESFLISWDDFWDLICNLIISGCDSTLTVLGMSAVISSVAHYLGLGILAFIGSTEEDD
RRLGFVAPVLFFILALQTGLSGLRPEERLIRLSRNMCLLLTAVLHFIHGMTDPVLMSLSASHVS
SFRRHFPVLFVSACLFILPVLLSYVLWHHYALNTWLFAVTAFCVELCLKVIVSLTVYTLFMIDG
YYNVLWEKLDDYVYYVRSTGNIIEFIFGVVMFGNGAYTMMFESGSKIRACMMCLHAYFNIYLQA
KNGWKTFMNRRTAVKKINSLPEIKGSRLQEIDDVCAICYHEFTTSARITPCNHYFHALCLRKWL
YIQDTCPMCHQKVYIEDDVKDESNISNNNGFIAPNENENPEEVREDAAESDRELNENDSTDCDD
DVQRERNGGIQHTGATTEEFNDDTD

hide sequence

RefSeq Acc Id:

ENSCLAP00000000638 ⟸ ENSCLAT00000000671

Protein Domains

RING-type

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000000511	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000000671	ENTREZGENE
	ENSCLAT00000000671.1	UniProtKB/TrEMBL
Gene3D-CATH	3.30.40.10	UniProtKB/TrEMBL
InterPro	TRC8_N_dom	UniProtKB/TrEMBL
	Znf_RING	UniProtKB/TrEMBL
	Znf_RING-CH	UniProtKB/TrEMBL
	Znf_RING/FYVE/PHD	UniProtKB/TrEMBL
NCBI Gene	Rnf139	ENTREZGENE
PANTHER	E3 UBIQUITIN-PROTEIN LIGASE RNF139	UniProtKB/TrEMBL
	RING ZINC FINGER PROTEIN	UniProtKB/TrEMBL
Pfam	TRC8_N	UniProtKB/TrEMBL
	zf-RING_2	UniProtKB/TrEMBL
PROSITE	ZF_RING_2	UniProtKB/TrEMBL
SMART	RING	UniProtKB/TrEMBL
	RINGv	UniProtKB/TrEMBL
Superfamily-SCOP	RING/U-box	UniProtKB/TrEMBL
UniProt	A0A8C2UK86	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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