H-InvDB_8.3 released on March 26, 2013. 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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Locus view Protein view G-integra DiseaseInfo Viewer H-ANGEL Evola PPI view Gene Family/Group Hyperlink MS

H-Invitational ID: HIT000327417 Accession number: Z48511 Created date: 26-Mar-2013 Last modified: 20-Apr-2012 Definition: Similar to Glycoprotein Xg; Protein PBDX; Precursor;

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

Transcript original information Accession number Z48511.1 CAGE tag ID NA EST ID NA Clone Number PEP11 (RT-PCR) Experimental resources   NBRC ; HGPD ; Antibody (RNASEH2CP1) ; Catalog (RNASEH2CP1); Sequence data provider NA Annotation project NA Length of cDNA 1279[bp] (No. of exon:4)[A:340 T:291 G:323 C:325] Devision HUM Molecular type mRNA Library origin Cell type fibroblast Tissue type NA Develpmental stage NA

Sequence quality information CDS feature N-truncated 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

CCCTGTCTTGCGTTCCTGTGTTTTCTAATGCACGCCCGAGGTCAAAGAGA CTTTGATTTGGCAGATGCCCTTGATGACCCTGAACCCACCAAGAAGCCAA ACTCAGGTCTTGTTGCCTTCGTTCCCCGGTACTACTGAATCGTCCAGTTT AAGAGGGATAAAGTGGCGTCGCACAGGAGCGAGGATGGAGAGCGGCGACT AGGCGGCTATGGAGAGGTACAGCGTCCAGTTGCGCCCAGCCACACTGCAG GACGCCGCCCCCGCCACACTACACCTGATACCCTGCGGCCCACCACGGTG TGGCGCTTCATCACGCCTGCCATCCGCCAGGGCCCCGAGGGACTCTTAAG TGTAGTTTCGGGGCCGCAGTCTACGGGGCGACGAGGTGGCAGTGCCGTCC GGCCTCGTGGGATACGTGATGGTGACTGAACAGGAGGAGGTGTCGATGGG GAAGCCAGACCCCTGGCGGGGTTCCGGGAGTGACAACCAAGAAGAGGAAC CTCTGGAGCGGGACTTTGACCGCTTCCTCGGAACCACTACCAGCTTCAGC CGCTTCACCCTGTAGGGCATGGGGCTTCACCCTGTGGGGCACCCTGTGGG GCTTCCTTGGCCCGGAAGCCAAACTGCGTGGGGCCTTAACTTGGCCCAGC CTCGCGGCAACGATTCACGCGCAGGTGCCCAAGGACACAGAACCAGAGCT TGAAATTCAAAGCCGCGAACCCTTTACAGCAGTAAACCAGCTCCTTACTT TGTAGCCACTGGTTCCATCACCCCAGTAAAGGAGTTCTTCACAGCACACA TTCACAAAAGATAAAGTGGTGAATTTTATATTCTTATATACATATGTCCA ACCATCTATATGTTTTTAAGAAGGCAAAAAAGACCTCCCAGATGCATATA TTACAGGACGGGGTGTGTGAGGAGACTCACTTGGGGGTGGCAGTCAACAA AATTTAAATAAAGACACGAGATTTTATTATTTTTCTGTCTACAGCTCCTA GGATAGTGTGTGACATGTAGTAGGTTCTCAGTATACTTCTCTGGTACTTA AATTAATGAAATGTGTAAACATGCCTCTGGGTTCAGAAAAACAAACTCAA CCACTTAAAAAAAAAAAAAGGAAAAAAGTGTTGGTTCTCCTGTAAAGTAA TAAACCTACATGCAAAAATAAGGATGCAGGGGGAGGCCGAGAGCATTAAA TTTGCCTCTATAATATCATATCAACACATTTTAATCTCTCAACCAGGGCT AATAATTCACTCACTGTCTCCAGGGGACT

Gene structure information

H-Inv cluster ID		HIX0213635
Genomic location	Chromosome	Y
	Location	NA
	Position	2620337- 2658962
	Strand	+
Possible duplicated location(s)		NA
Gene structure		4 exon(s)
Database links	RefSeq	NR_003254;
	Ensembl	ENST00000454281;  ENST00000503018;
	Entrez Gene	NA
	KEGG GENES	NA
	GeneCard	RNASEH2CP1;  *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 HIP000171848 Predicted CDS 1..138;  45[aa];  Orientation:+1;  Codon Adaptation Index (CAI). 0.837

PCLAFLCFLMHARGQRDFDLADALDDPEPTKKPNSGLVAFVPRYY*

Gene function information

H-Inv ID		HIT000327417
H-Inv cluster ID		HIX0213635
Accession number		Z48511.1
CAGE tag ID		NA
EST ID		NA
Transcript feature		NO;  Splicing isoform
Coding potential		Protein coding;
Definition		Similar to Glycoprotein Xg; Protein PBDX; Precursor;
Similarity category		Category: Similar to known protein(Category II).
		Similar to known protein (P55808)  [Identity/coverage = 94.595%/20.56%] to Homo sapiens (Human). protein.
Experimental evidence		Protein evidence
PubMed ID		7533029;  8054981;  15489334;  15772651;  ALL;
Gene family/group	H-Inv gene family/group ID	HIF0000406
	Gene family/group name	Ribosomal protein S4e (IPR000876).
	Evidence motif (InterPro) ID	IPR000876
Gene symbol/name	HGNC symbol	RNASEH2CP1
	HGNC aliases	NA
	HGNC name	ribonuclease H2, subunit C pseudogene 1
	DDBJ	NA
	UniProt	XG
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	HIP000171848
	No. of interaction	NA
	Interaction partner(s)	NA
	BIND	NA
	DIP	NA
	MINT	NA
	HPRD	NA
	IntAct	NA
Database links	RefSeq	NR_003254;
	Ensembl	ENST00000454281;  ENST00000503018;
	Entrez Gene	NA
	KEGG GENES	NA
	GeneCard	RNASEH2CP1;  *GeneCards is provided free to academic non-profit institutions.
	etc	Human-Gene diversity Of Life-style related Diseases;
Curation status		Auto-annotated
Notes		NA
Related H-InvDB links		Ribosomal protein S4e (IPR000876). Similarity Search Tool;  TACT;

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

NA

Subcellular localization information

Last modified:20-Apr-2012

WoLF PSORT	extracellular;
Target P	Not predicted
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.

Gene expression information

Last modified:20-Apr-2012

Tissue-specific expression			NA
Probe information	AceGene		NA
	Affymetrix GeneChip	HG-Focus	NA
		HG-U133	234931_at;
		HG-U133A	NA
		HG-U133A_2	NA
		HG-U133B	234931_at;
		HG-U133_Plus_2	234931_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	4028530;  4028531;  4028532;  4028533;  4028534;  4033466;
		HuGeneFL	Z48511_at;
	Agilent	Human 1A Oligo Microarray:PGID215	NA
		Whole Human Genome Oligo Microarray:PGID247	A_24_P818529;
Related H-InvDB links			H-ANGEL;  DNAProbeLocator;

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 588 .. 588 G/A rs1800865 - 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  Type Start End Strand L2b 972 1060 + Database links Human-Gene diversity Of Life-style related Diseases(H-GOLD);  Related H-InvDB links VaryGene;  Repeat Mask Viewer;