H-InvDB_9.0 released on May 27, 2015. Search by Keyword H-Inv ID (HIT) H-Inv cluster ID (HIX) H-Inv protein ID (HIP) H-Inv gene family/group (HIF) Accession number Chromosome number Chromosome band Definition* Data source ID --- CCDS ID dbSNP ID (rs number) EC number Ensembl ID EntrezGene ID FR ID FR Accession number GO ID GO name* HGNC gene symbol HGNC gene name* InterPro ID InterPro name* OMIM ID OMIM title* Pathway ID Pathway name* RefSeq (gene) ID RefSeq (protein) ID SCOP ID UniProt for Advanced Search

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H-Invitational ID: HIT000267543 Accession number: CR456609 Created date: 26-Mar-2013 Last modified: 27-May-2015 Definition: Immunoglobulin iota chain; CD179 antigen-like family member A; Protein VPreB1; V(pre)B protein; VpreB protein; AltName: CD_antigen=CD179a; Precursor;

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

Transcript original information Accession number CR456609.1 CAGE tag ID NA EST ID NA Clone Number pGEM.VPREB1 Experimental resources   NBRC ; HGPD ; Sequence data provider NA Annotation project NA Length of cDNA 491[bp] (No. of exon:2)[A:104 T:97 G:145 C:145] Devision HUM Molecular type mRNA Library origin Cell type NA Tissue type NA 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) NA Transcript quality feature NA Notes NA

ATGTCTGCACCATGTCCTGGGCTCCTGTCCTGCTCATGCTGTTTGTCTAC TGCACAGGTTGTGGTCCTCAGCCGGTGCTGCATCAGCCGCCGGCCATGTC CTCGGCCCTTGGAACCACAATCCGCCTCACCTGCACCCTGAGGAACGACC ATGACATCGGTGTGTACAGCGTCTACTGGTACCAGCAGAGGCCGGGCCAC CCTCCCAGGTTCCTGCTGAGATATTTCTCACAATCAGACAAGAGCCAGGG CCCCCAGGTCCCCCCTCGCTTCTCTGGATCCAAAGATGTGGCCAGGAACA GGGGGTATTTGAGCATCTCTGAGCTGCAGCCTGAGGACGAGGCTATGTAT TACTGTGCTATGGGGGCCCGCAGCTCGGAGAAGGAGGAGAGGGAGAGGGA GTGGGAGGAAGAAATGGAACCCACTGCAGCCAGGACACGTGTCCCTTGAA CTGAAGACAGCAGAGGCACGCATCCCCTTGGAGAGACTGTC

Gene structure information

H-Inv cluster ID		HIX0016286
Genomic location	Chromosome	22
	Location	22q11.22
	Position	22599215- 22599791
	Strand	+
Possible duplicated location(s)		NA
Gene structure		2 exon(s)
Database links	RefSeq	NA
	Ensembl	NA
	Entrez Gene	Entrez Gene ID:7441;
	KEGG GENES	KEGG GENES(7441);
	GeneCard	NA *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 HIP000104819 Predicted CDS 12..449;  145[aa];  Orientation:+3;  Codon Adaptation Index (CAI). 0.818 Database links RefSeq NP_009059;  UniProt P12018;  CCDS CCDS13798;

MSWAPVLLMLFVYCTGCGPQPVLHQPPAMSSALGTTIRLTCTLRNDHDIG VYSVYWYQQRPGHPPRFLLRYFSQSDKSQGPQVPPRFSGSKDVARNRGYL SISELQPEDEAMYYCAMGARSSEKEEREREWEEEMEPTAARTRVP*

Motif information

	a.a. length	InterPro	Name
	114	IPR007110	Immunoglobulin-like domain [Domain]
	99	IPR013783	Immunoglobulin-like fold [Domain]
	97	IPR013106	Immunoglobulin V-set domain [Domain]

Gene function information

H-Inv ID		HIT000267543
H-Inv cluster ID		HIX0016286
Accession number		CR456609.1
CAGE tag ID		NA
EST ID		NA
Transcript feature		Representative transcript;
Coding potential		Protein coding;
Definition		Immunoglobulin iota chain; CD179 antigen-like family member A; Protein VPreB1; V(pre)B protein; VpreB protein; AltName: CD_antigen=CD179a; Precursor;
Similarity category		Category: Identical to known human protein(Category I).
		Identical to known human protein (P12018)  [Identity/coverage = 100.0%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence		Protein evidence
PubMed ID		3258819;  7935499;  9074928;  10591208;  15461802;  17431183;  18287279;  21269460;  ALL;
Gene family/group	H-Inv gene family/group ID	NA
	Gene family/group name	NA
	Evidence motif (InterPro) ID	NA
Gene symbol/name	HGNC symbol	NA
	HGNC aliases	NA
	HGNC name	NA
	DDBJ	VPREB1
	UniProt	VPREB1
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	HIP000104819
	No. of interaction	7
	Interaction partner(s)	HIP000021472;  HIP000034216;  HIP000034216;  HIP000049733;  HIP000093554;  HIP000107851;  HIP000107851;
	BIND	NA
	DIP	132069E;
	MINT	MINT-8110863;
	HPRD	00912;  01040;  01809;  05426;
	IntAct	NA
Database links	RefSeq	NA
	Ensembl	NA
	Entrez Gene	Entrez Gene ID:7441;
	KEGG GENES	KEGG GENES(7441);
	GeneCard	NA *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		Gene family;  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	protein binding (GO:0005515);

Subcellular localization information

Last modified:27-May-2015

WoLF PSORT	extracellular;
Target P	signal peptide
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:27-May-2015

Start End PDB_ID E-value Identity Coverage SCOP_ID 9 116 1c0aA2 7e-16 3.8 105/133 d.74.4.1

Related H-InvDB links GTOP

Gene expression information

Last modified:27-May-2015

Tissue-specific expression			blood/spleen/LND;
Probe information	AceGene		AGhsA121513;
	Affymetrix GeneChip	HG-Focus	221349_at;
		HG-U133	221349_at;
		HG-U133A	221349_at;
		HG-U133A_2	221349_at;
		HG-U133B	NA
		HG-U133_Plus_2	221349_at;
		HG-U95	NA
		HG-U95A	NA
		HG-U95B	NA
		HG-U95C	NA
		HG-U95D	NA
		HG-U95E	NA
		HG-U95Av2	NA
		HuEx-1_0	3938794;  3938795;  3938796;  3938797;  3938798;  3938799;  3938800;
		HuGeneFL	D88270_at;
	Agilent	Human 1A Oligo Microarray:PGID215	A_23_P29152;
		Whole Human Genome Oligo Microarray:PGID247	A_23_P29152;
Related H-InvDB links			H-ANGEL;  DNAProbeLocator;

Evolutionary information

Last modified:27-May-2015

Relationship	Species	Accession number	MGI	Links
Orthology	Bos sp. (Cow)	AF068848		G-integra
Orthology	Canis sp. (Dog)	ENSCAFT00000022448		G-integra
Orthology	Equus sp. (Horse)	ENSECAT00000021703		G-integra
Orthology	Mus sp. (Mouse)	ENSMUST00000075371		G-integra
Orthology	Pongo sp. (Orangutan)	ENSPPYT00000013947		G-integra
Orthology	Rattus sp. (Rat)	XM_001062818		G-integra
Orthology	Macaca sp. (Macaque)	XM_001089831		G-integra
Orthology	Pan sp. (Chimpanzee)	XM_515010		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 1 .. 1 A/G rs11089977 + 5'UTR 2 .. 2 T/C rs11089978 + 5'UTR 24 .. 24 C/G rs146019843 + CDS Nonsynonymous[Pro5Ala] 78 .. 78 C/G rs201722357 + CDS Nonsynonymous[Leu23Val] 80 .. 80 G/A rs9619852 + CDS Synonymous[Leu23Leu] 91 .. 91 C/T rs142180774 + CDS Nonsynonymous[Pro27Leu] 96 .. 96 A/G rs151193387 + CDS Nonsynonymous[Met29Val] 100 .. 100 C/T rs199900999 + CDS Nonsynonymous[Ser30Phe] 104 .. 104 G/A rs201207008 + CDS Synonymous[Ser31Ser] 124 .. 124 G/A rs139951133 + CDS Nonsynonymous[Arg38His] 158 .. 158 C/T rs200837518 + CDS Synonymous[Ile49Ile] 237 .. 237 G/A rs1320 + CDS Nonsynonymous[Asp76Asn] 241 .. 241 A/G rs147568280 + CDS Nonsynonymous[Lys77Arg] 249 .. 249 G/A rs62640870 + CDS Nonsynonymous[Gly80Ser] 250 .. 250 G/A rs144188550 + CDS Nonsynonymous[Gly80Asp] 260 .. 260 C/G rs145423292 + CDS Synonymous[Val83Val] 268 .. 268 G/A rs149218137 + CDS Nonsynonymous[Arg86His] 285 .. 285 G/A rs200057782 + CDS Nonsynonymous[Asp92Asn] 302 .. 302 G/C rs188917401 + CDS Nonsynonymous[Arg97Ser] 307 .. 307 A/T rs143361893 + CDS Nonsynonymous[Tyr99Phe] 316 .. 316 T/A rs201276189 + CDS Nonsynonymous[Ile102Asn] 320 .. 320 T/C rs148339904 + CDS Synonymous[Ser103Ser] 327 .. 327 C/T rs17851581 + CDS AA-STOP[Gln106*] 347 .. 347 G/A rs140610553 + CDS Nonsynonymous[Met112Ile] 366 .. 366 G/T rs111340500 + CDS Nonsynonymous[Ala119Ser] 369 .. 369 C/T rs201713481 + CDS Nonsynonymous[Arg120Cys] 370 .. 370 G/A rs200943449 + CDS Nonsynonymous[Arg120His] 374 .. 374 C/T rs5995719 + CDS Synonymous[Ser121Ser] 376 .. 376 C/T rs11089979 + CDS Nonsynonymous[Ser122Leu] 405 .. 405 G/A rs5995720 + CDS Nonsynonymous[Glu132Lys] 414 .. 414 A/G rs200309974 + CDS Nonsynonymous[Met135Val] 448 .. 448 G/A rs62640867 + CDS Synonymous_atSTOP[*146*] 464 .. 464 A/G rs6001563 + 3'UTR 475 .. 475 C/T rs185445944 + 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;