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H-Invitational ID: HIT000425447 Accession number: AK292650 Created date: 26-Mar-2013 Last modified: 20-Apr-2012 Definition: Sorting nexin-20 isoform 3.

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

Transcript original information Accession number AK292650.1 CAGE tag ID NA EST ID NA Clone Number THYMU2039124 Experimental resources   NBRC ; HGPD ; Antibody (SNX20) ; Catalog (SNX20); Sequence data provider NA Annotation project NA Length of cDNA 549[bp] (No. of exon:4)[A:129 T:89 G:152 C:179] Devision HUM Molecular type mRNA Library origin Cell type NA Tissue type thymus 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

AAACGGGGAACTTAGAAAGTGGCAGCCCCTCGGCTTGTCGCCGGAGCTGA GAACCAAGAGCTCGAAGGGGCCATATGACACTCCTCCCGGACCCCTGGAC ACACACAGCCCTGGAGACTGGAGCCTTGGAGCATGGCAAGTCCAGAGCAC CCTGGGAGCCCTGGCTGCATGGGACCCATAACCCAGTGCACGGCAAGGAC CCAGCAGGAAGCACCAGCCACTGGCCCCGACCTCCCGCACCCAGGACCTG ACGGGCACTTAGACACACACAGTGGCCTGAGCTCCAACTCCAGCATGACC ACGCGGGAGCTTCAGCAGTACTGGCAGAACCAGAAATGCCGCTGGAAGCA CGTCAAACTGCTCTTTGAGATCGCTTCAGCTCGCATCGAGGAGAGAAAAG TCTCTAAGTTTGTGGCTCCGGCTCCTGACGCCACACCCTGATATCAAGAC CCTCAGATGGAGCGAGCGTTCTGGGCTGGTCGAAGCCTGAAGCCGCAGTA TGTCCTTGAGTGGGTCCCCCCCTACCCATCTAGCTGTTGCCCCCATGGT

Gene structure information

H-Inv cluster ID		HIX0019600
Genomic location	Chromosome	16
	Location	16q12.1
	Position	50701818- 50715223
	Strand	-
Possible duplicated location(s)		NA
Gene structure		4 exon(s)
Database links	RefSeq	NM_153337;  NM_182854;  NM_001144972;
	Ensembl	ENST00000300590;  ENST00000330943;  ENST00000413750;  ENST00000423026;
	Entrez Gene	Entrez Gene ID:124460;
	KEGG GENES	KEGG GENES(124460);
	GeneCard	SNX20;  *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 HIP000193117 Predicted CDS 133..441;  102[aa];  Orientation:+1;  Codon Adaptation Index (CAI). 0.812 Database links RefSeq NP_001138444;  UniProt NA CCDS CCDS45481;

MASPEHPGSPGCMGPITQCTARTQQEAPATGPDLPHPGPDGHLDTHSGLS SNSSMTTRELQQYWQNQKCRWKHVKLLFEIASARIEERKVSKFVAPAPDA TP*

Gene function information

H-Inv ID		HIT000425447
H-Inv cluster ID		HIX0019600
Accession number		AK292650.1
CAGE tag ID		NA
EST ID		NA
Transcript feature		NO;
Coding potential		Protein coding;
Definition		Sorting nexin-20 isoform 3.
Similarity category		Category: Identical to known human protein(Category I).
		Identical to known human protein (NP_001138444)  [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	NA
	Gene family/group name	NA
	Evidence motif (InterPro) ID	NA
Gene symbol/name	HGNC symbol	SNX20
	HGNC aliases	NA
	HGNC name	sorting nexin 20
	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	HIP000193117
	No. of interaction	4
	Interaction partner(s)	HIP000161494;  HIP000259349;  HIP000259349;  HIP000349427;
	BIND	NA
	DIP	132844E;  43036E;
	MINT	NA
	HPRD	NA
	IntAct	EBI-2005282;  EBI-341732;
Database links	RefSeq	NM_153337;  NM_182854;  NM_001144972;
	Ensembl	ENST00000300590;  ENST00000330943;  ENST00000413750;  ENST00000423026;
	Entrez Gene	Entrez Gene ID:124460;
	KEGG GENES	KEGG GENES(124460);
	GeneCard	SNX20;  *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		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

Subcellular localization information

Last modified:20-Apr-2012

WoLF PSORT	extracellular;  cytosol;  nuclear;  Other;
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.

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:  156850;  605013;  605021;  606668;  607339;  608558;  608903;  610260;
Disease related mutation		NA
Literature-Extracted GENe-Disease Associations (LEGENDA)	Gene name	Entrez Gene ID:(124460)
	Disease	Entrez Gene ID:(124460)
	Substance	Entrez Gene ID:(124460)
Related H-InvDB links		DiseaseInfo Viewer;  LEGENDA;

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 39 .. 39 C/T rs2066848 - 5'UTR 229 .. 229 G/A rs34428900 - CDS Nonsynonymous[Asp33Asn] 235 .. 235 C/T rs17846633 - CDS Nonsynonymous[Pro35Ser] 236 .. 236 C/T rs1131716 + CDS Nonsynonymous[Pro35Leu] 262 .. 262 G/A rs35973532 - CDS Nonsynonymous[Asp44Asn] 303 .. 303 G/A rs35435054 - CDS Synonymous[Thr57Thr] 372 .. 372 C/T rs6596 + CDS Synonymous[Ile80Ile]  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;