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H-Invitational ID: HIT000013556 Accession number: AK056942 Created date: 26-Mar-2013 Last modified: 20-Apr-2012 Definition: E3 ubiquitin-protein ligase TRIM63.

		Select format Flat file XML file Nucleotide sequence fasta Protein sequence fasta

Transcript original information Accession number AK056942.1 CAGE tag ID NA EST ID NA Clone Number SKMUS1000064 Experimental resources   NBRC ; HGPD ; Antibody (TRIM63) ; Catalog (TRIM63); Sequence data provider Project:FLJ; Provider:FLJ/HRI;  Annotation project H-Invitational FLcDNA Length of cDNA 1764[bp] (No. of exon:9)[A:466 T:379 G:517 C:402] Devision HUM Molecular type mRNA Library origin Cell type NA Tissue type skeletal muscle Develpmental stage NA

Sequence quality information CDS feature Complete CDS Kozak sequence NA PolyA NA Vector/adapter sequence NA Frame shift NA Remaining intron NA Splice site acceptor (NAGNAG) CAGGAG;  Transcript quality feature NA Notes NA

AGAATTCGGGCACCAGGAGAAGGAAGCCAACAGGATCCGACCCGGTGTTT TGTGACAAAGGCAAGACCCCCAGGTCTACTTAGAGCAAAGTTAGTAGAGG AGGCAGCTAGGCGTGGCTCTCATTCCTTCCCACAGAATGGATTATAAGTC GAGCCTGATCCAGGATGGGAATCCCATGGAGAACTTGGAGAAGCAGCTGA TCTGCCCTATCTGCCTGGAGATGTTTACCAAGCCAGTGGTCATCTTGCCG TGCCAGCACAACCTGTGCCGGAAGTGTGCCAATGACATCTTCCAGGCTGC AAATCCCTACTGGACCAGCCGGGGCAGCTCAGTGTCCATGTCTGGAGGCC GTTTCCGCTGCCCCACCTGCCGCCACGAGGTGATCATGGATCGTCACGGA GTTTACGGCCTGCAGAGGAACCTGCTGGTGGAGAACATCATCGACATCTA CAAACAGGAGTGCTCCAGTCGGCCGCTGCAGAAGGGCAGTCACCCCATGT GCAAGGAGCACGAAGATGAGAAAATCAACATCTACTGTCTCACGTGTGAG GTGCCCACCTGCTCCATGTGCAAGGTGTTTGGGATCCACAAGGCCTGCGA GGTGGCCCCATTGCAGAGTGTCTTCCAGGGACAAAAGACTGAACTGAATA ACTGTATCTCCATGCTGGTGGCGGGGAATGACCGTGTGCAGACCATCATC ACTCAGCTGGAGGATTCCCGTCGAGTGACCAAGGAGAACAGTCACCAGGT AAAGGAAGAGCTGAGCCAGAAGTTTGACACGTTGTATGCCATCCTGGATG AGAAGAAAAGTGAGTTGCTGCAGCGGATCACGCAGGAGCAGGAGAAAAAG CTTAGCTTCATCGAGGCCCTCATCCAGCAGTACCAGGAGCAGCTGGACAA GTCCACAAAGCTGGTGGAAACTGCCATCCAGTCCCTGGACGAGCCTGGGG GAGCCACCTTCCTCTTGACTGCCAAGCAACTCATCAAAAGCATTGTGGAA GCTTCCAAGGGCTGCCAGCTGGGGAAGACAGAGCAGGGCTTTGAGAACAT GGACTTCTTTACTTTGGATTTAGAGCACATAGCAGACGCCCTGAGAGCCA TTGACTTTGGGACAGATGAGGAAGAGGAAGAATTCATTGAAGAAGAAGAT CAGGAAGAGGAAGAGTCCACAGAAGGGAAGGAAGAAGGACACCAGTAAGG AGCTGGATGAATGAGAGGCCCCCAGATGCAGAGAGACTGGAGAGGGTGGG GAGGGGCCCAGCGGCCTTGGTGACAGGCCCAGGGTGGGAGGGGTCGGGGC CCCTGGAGGGGCAATGGGGAGGTGATGTCTTCTCTCTGCTCAGAGAGCAG GGACTAGGGTAGGACCCTCACCGCTGCGTCCAGCAGACACTGAACCAGAA TTGGAAACGTGCTTGAAACAATCACACAGGACACTTTTCTACATTGGTGC AAAATGGAATATTTTGTACATTTTTAAAATGTGATTTTTGTATATACTTG TATATGTATGCCAATTTGGTGCTTTTTGTAAAGGAACTTTTGTATAATAA TGCCTGGTCATTGGGTGACCTGCGATTGTCAGAAAGAGGGGAAGGAAGCC AGGTTGATACAGCTGCCCACTTCCTTTCCTGAGCAGGAGGATGGGGTAGC ACTCACAGGGACGATGTGCTGTATTTCAGTGTCTATCCCAGACATACGGG GTGGTAACTGAGTTTGTGTTATATGTTGTTTTAATAAATGCACAATGCTC TCTTCCTGTTCTTC

Gene structure information

H-Inv cluster ID		HIX0000284
Genomic location	Chromosome	1
	Location	1p36.11
	Position	26377798- 26394121
	Strand	-
Possible duplicated location(s)		NA
Gene structure		9 exon(s)
Database links	RefSeq	NM_032588;
	Ensembl	ENST00000374272;  ENST00000483052;
	Entrez Gene	Entrez Gene ID:84676;
	KEGG GENES	KEGG GENES(84676);
	GeneCard	TRIM63;  *GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links		H-DBAS;  G-integra;  cDNA-genome alignment;

Predicted CDS information HIP ID HIP000043958 Predicted CDS 137..1198;  353[aa];  Orientation:+2;  Codon Adaptation Index (CAI). 0.847 Database links RefSeq NP_115977;  UniProt Q969Q1;  CCDS CCDS273;

MDYKSSLIQDGNPMENLEKQLICPICLEMFTKPVVILPCQHNLCRKCAND IFQAANPYWTSRGSSVSMSGGRFRCPTCRHEVIMDRHGVYGLQRNLLVEN IIDIYKQECSSRPLQKGSHPMCKEHEDEKINIYCLTCEVPTCSMCKVFGI HKACEVAPLQSVFQGQKTELNNCISMLVAGNDRVQTIITQLEDSRRVTKE NSHQVKEELSQKFDTLYAILDEKKSELLQRITQEQEKKLSFIEALIQQYQ EQLDKSTKLVETAIQSLDEPGGATFLLTAKQLIKSIVEASKGCQLGKTEQ GFENMDFFTLDLEHIADALRAIDFGTDEEEEEFIEEEDQEEEESTEGKEE GHQ*

Motif information

	a.a. length	InterPro	Name
	120	IPR013083	Zinc finger, RING/FYVE/PHD-type [Domain]
	56	IPR018957	Zinc finger, C3HC4 RING-type [Domain]
	56	IPR001841	Zinc finger, RING-type [Domain]
	57	IPR001841	Zinc finger, RING-type [Domain]
	10	IPR017907	Zinc finger, RING-type, conserved site [Conserved_site]
	43	IPR000315	Zinc finger, B-box [Domain]
	33	IPR000315	Zinc finger, B-box [Domain]
	59	IPR017903	COS domain [Domain]

Gene function information

H-Inv ID		HIT000013556
H-Inv cluster ID		HIX0000284
Accession number		AK056942.1
CAGE tag ID		NA
EST ID		NA
Transcript feature		Representative transcript;  Splicing isoform
Coding potential		Protein coding;
Definition		E3 ubiquitin-protein ligase TRIM63.
Similarity category		Category: Identical to known human protein(Category I).
		Identical to known human protein (NP_115977)  [Identity/coverage = 100.0%/100.0%] to Homo sapiens protein.
Experimental evidence		Protein evidence
PubMed ID		NA
Gene family/group	H-Inv gene family/group ID	HIF0001508
	Gene family/group name	Zinc finger, C3HC4 RING-type (IPR018957).
	Evidence motif (InterPro) ID	IPR018957
Gene symbol/name	HGNC symbol	TRIM63
	HGNC aliases	"ring finger protein 28", "tripartite motif-containing 63"
	HGNC name	tripartite motif containing 63
	DDBJ	NA
	UniProt	NA
EC number		NA
GGDB (GlycoGene Database)	Gene symbol	NA
	Familly	NA
	Designation	NA
	Expression	NA
KEGG metabolic pathway		NA
Protein-protein interaction (PPI)	H-Inv protein ID	HIP000043958
	No. of interaction	4
	Interaction partner(s)	HIP000027692;  HIP000034631;  HIP000067653;  HIP000095887;
	BIND	NA
	DIP	112133E;
	MINT	MINT-2861485;
	HPRD	00283;  03714;
	IntAct	EBI-956470;
Database links	RefSeq	NM_032588;
	Ensembl	ENST00000374272;  ENST00000483052;
	Entrez Gene	Entrez Gene ID:84676;
	KEGG GENES	KEGG GENES(84676);
	GeneCard	TRIM63;  *GeneCards is provided free to academic non-profit institutions.
	etc	Human-Gene diversity Of Life-style related Diseases;
Curation status		Human curated
Notes		NA
Related H-InvDB links		Zinc finger, C3HC4 RING-type (IPR018957). Similarity Search Tool;  TACT;

fRNAdb (The functional RNA database) : overlapping fRNAdb entries with H-InvDB transcripts based on the location of the genome.

NA

Gene ontology information

Molecular function	zinc ion binding (GO:0008270);  protein binding (GO:0005515);
Cellular component	intracellular (GO:0005622);

Subcellular localization information

Last modified:20-Apr-2012

WoLF PSORT	nuclear;  cytosol;  golgi apparatus;  mitochondria;  peroxisome;  plasma membrane;
Target P	Other
SOSUI	soluble protein
TMHMM	soluble protein
PTS1	Not targeted
Related H-InvDB links	LIFEdb;  JRE-1.4.0 or later is required. Download JRE at Sun's web site.

Protein structure information (GTOP)

Last modified:20-Apr-2012

Start End PDB_ID E-value Identity Coverage SCOP_ID 1 120 1jm7A 2e-09 24.0 100/103 g.44.1.1 119 169 2d8uA1 7e-21 100.0 51/51 g.43.1.1

Related H-InvDB links GTOP

Gene expression information

Last modified:20-Apr-2012

Tissue-specific expression			muscle/heart;
Probe information	AceGene		AGhsB050521;  AGhsB050823;
	Affymetrix GeneChip	HG-Focus	NA
		HG-U133	236972_at;
		HG-U133A	NA
		HG-U133A_2	NA
		HG-U133B	236972_at;
		HG-U133_Plus_2	236972_at;
		HG-U95	77301_at;
		HG-U95A	NA
		HG-U95B	NA
		HG-U95C	NA
		HG-U95D	NA
		HG-U95E	77301_at;
		HG-U95Av2	NA
		HuEx-1_0	2402537;  2402538;  2402539;  2402541;  2402542;  2402543;  2402545;  2402548;  2402549;  2402550;  2402551;
		HuGeneFL	NA
	Agilent	Human 1A Oligo Microarray:PGID215	A_23_P114983;
		Whole Human Genome Oligo Microarray:PGID247	A_23_P114983;
Related H-InvDB links			H-ANGEL;  DNAProbeLocator;

Disease/pathology information

Last modified:20-Apr-2012

Disease relation		Disease name:NA
Related information in OMIM		OMIM ID:NA Title:NA
Co-localized orphan diseases		OMIM ID:  115665;  116600;  155600;  600975;  605225;  605606;  606788;  606852;  606928;  607317;  607671;  608543;  608553;  608995;  610320;  612367;  612596;
Disease related mutation		NA
Literature-Extracted GENe-Disease Associations (LEGENDA)	Gene name	Entrez Gene ID:(84676)
	Disease	Entrez Gene ID:(84676)
	Substance	Entrez Gene ID:(84676)
Related H-InvDB links		DiseaseInfo Viewer;  LEGENDA;

Evolutionary information

Last modified:20-Apr-2012

Relationship	Species	Accession number	MGI	Links
Orthology	Danio sp. (Zebrafish)	BC049414		G-integra
Orthology	Rattus sp. (Rat)	BC061824		G-integra
Orthology	Danio sp. (Zebrafish)	BC075897		G-integra
Orthology	Bos sp. (Cow)	BC112721		G-integra
Orthology	Gallus sp. (Chicken)	BX931246		G-integra
Orthology	Tetraodon sp. (Tetraodon)	CR670382		G-integra
Orthology	Mus sp. (Mouse)	DQ229108		G-integra
Orthology	Equus sp. (Horse)	ENSECAT00000026380		G-integra
Orthology	Oryzias sp. (Medaka)	ENSORLT00000010271		G-integra
Orthology	Pongo sp. (Orangutan)	ENSPPYT00000002021		G-integra
Orthology	Takifugu sp. (Fugu)	SINFRUT00000155215		G-integra
Orthology	Macaca sp. (Macaque)	XM_001108306		G-integra
Orthology	Monodelphis sp. (Opossum)	XM_001369455		G-integra
Orthology	Pan sp. (Chimpanzee)	XM_524625		G-integra
Orthology	Canis sp. (Dog)	XM_544488		G-integra

Phylogenetic tree [View by ATV]	Neighbor-joining (phb)
Related H-InvDB links	Evola;  dN/dS (under constraction);

Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information

Single Nucleotide Polymorphism (SNP) and indel  Location Variation dbSNP ID Strand CDS/UTR Translation 8 .. 8 G/C rs4543781 - 5'UTR 120 .. 120 T/C rs112789849 - 5'UTR 148 .. 148 G/A rs3795690 + CDS Synonymous[Lys4Lys] 271 .. 271 G/C rs61760891 - CDS Synonymous[Arg45Arg] 298 .. 298 T/G rs41284327 - CDS Synonymous[Ala54Ala] 399 .. 399 G/C rs41284325 - CDS Nonsynonymous[Gly88Ala] 403 .. 403 T/G rs35123100 + CDS Synonymous[Val89Val] 442 .. 442 C/T rs34009998 + CDS Synonymous[Ile102Ile] 761 .. 761 C/T rs35131871 + CDS Synonymous[Leu209Leu] 781 .. 781 G/A rs117577030 - CDS Synonymous[Thr215Thr] 845 .. 845 A/G rs2275950 + CDS Nonsynonymous[Lys237Glu] 941 .. 941 G/A rs61749355 - CDS Nonsynonymous[Glu269Lys] 1177 .. 1177 G/A rs61749354 - CDS Synonymous[Gly347Gly] 1200 .. 1200 G/A rs77965623 - 3'UTR 1351 .. 1351 G/C rs72664101 - 3'UTR 1439 .. 1439 C/G rs35773319 - 3'UTR 1552 .. 1552 G/A rs41311278 - 3'UTR 1560 .. 1560 A/G rs1135251 + 3'UTR 1682 .. 1682 T/C rs1135253 + 3'UTR 1727 .. 1727 T/C rs2275946 - 3'UTR  Microsatellite (Short Tandem Repeat, STR) No data available  Microsatellite: Human-Gene diversity Of Life-style related Diseases (H-GOLD) No data available

Repeat  No data available Database links Human-Gene diversity Of Life-style related Diseases(H-GOLD);  Related H-InvDB links VaryGene;  Repeat Mask Viewer;