H-InvDB x AHG DB
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H-InvDB_9.0 released on May 27, 2015.
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H-Invitational ID: HIT000036789 Accession number: BC014580 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Sorting nexin-3; Protein SDP3;
 
 

Transcript original information
Accession number BC014580.1
CAGE tag ID NA
EST ID NA
Clone Number MGC:24246 IMAGE:3932208
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ;
Sequence data provider Provider:MGC/NCI
Annotation project H-Invitational FLcDNA
Length of cDNA 1262[bp] (No. of exon:4)[A:381 T:338 G:279 C:264]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Skin, melanotic melanoma, high MDR.
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 1233(+) Signal: 1223-1227(+)
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) NA
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0006117
Genomic location  G-integra Help Chromosome 6
Location 6q21
Position 108532730- 108582242
Strand -
Possible duplicated location(s) NA
Gene structure 4 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:8724
KEGG GENES KEGG GENES(8724)
GeneCard NA *GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links H-DBASH-DBAS G-integraG-integra cDNA-genome alignmentcDNA-genome alignment

Predicted CDS information
HIP ID HIP000026480
Predicted CDS 122..610;  162[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.739
Database links RefSeq NP_003786
UniProt O60493Q1RMH8Q5R5V1Q5U211
CCDS CCDS5064

Motif information
ORF

length(162),orf(122:610)
MAETVADTRRLITKPQNLNDAYGPPSNFLEIDVSNPQTVGVGRGRFTTYE
IRVKTNLPIFKLKESTVRRRYSDFEWLRSELERESKVVVPPLPGKAFLRQ
LPFRGDDGIFDDNFIEERKQGLEQFINKVAGHPLAQNERCLHMFLQDEII
DKSYTPSKIRHA*
a.a.
length
InterPro Name
length(124), motif(24:147) 124 IPR001683 Phox homologous domain [Domain]
length(124), motif(25:148) 124 IPR001683 Phox homologous domain [Domain]
length(123), motif(26:148) 123 IPR001683 Phox homologous domain [Domain]
length(125), motif(27:151) 125 IPR001683 Phox homologous domain [Domain]
length(121), motif(27:147) 121 IPR001683 Phox homologous domain [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000036789
H-Inv cluster ID Locus viewHIX0006117
Accession number BC014580.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help Representative H-Inv IDRepresentative transcript;  Splicing isoformSplicing isoform
Coding potential  Help Protein coding; 
Definition Sorting nexin-3; Protein SDP3;
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (O60493)  [Identity/coverage = 100.0%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 98194141143329812471201126658011457440414702039154893341708198318669648187679042006823121269460ALL
Gene family/group Gene family 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 SNX3
UniProt SNX3
EC number NA
GGDB
(GlycoGene Database)
Gene symbol NA
Familly NA
Designation NA
Expression NA
KEGG metabolic pathway NA
Protein-protein interaction (PPI) PPI viewer H-Inv protein ID HIP000026480
No. of interaction 7
Interaction partner(s) HIP000016317HIP000016340HIP000029181HIP000035245HIP000035245HIP000099275HIP000108799
BIND NA
DIP 113385E;  114143E;  114423E;  115948E;  116654E;  116950E;  131676E;  131823E;  132059E;  132128E;  132356E;  132465E; 
MINT MINT-63212; 
HPRD 00828;  01809;  01819;  02740;  05442;  09231;  16051; 
IntAct NA
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:8724
KEGG GENES KEGG GENES(8724)
GeneCard NA *GeneCards is provided free to academic non-profit institutions.
etc H-GOLDHuman-Gene diversity Of Life-style related Diseases
Curation status Human curated
Notes NA
Related H-InvDB links Gene familyGene family;  Similarity Search ToolSimilarity Search Tool TACTTACT
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 phosphoinositide binding (GO:0035091); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT cytosol;  nuclear;  plasma membrane;  Other; 
Target P Other
SOSUI soluble protein
TMHMM soluble protein
PTS1 Not targeted
Related H-InvDB links LIFEdb LIFEdb; 
JRE-1.4.0 or later is required. Download JRE at Sun's web site.

Protein structure information (GTOP) GTOP Last modified:27-May-2015
Start End PDB_ID E-value Identity Coverage SCOP_ID
4 156 1h6hA 3e-22 19.7 142/143 d.189.1.1
Related H-InvDB links GTOP GTOP

Gene expression information  H-ANGEL DNAProbeLocator Last modified:27-May-2015
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene AGhsA210105; 
Affymetrix
GeneChip
HG-Focus 200067_x_at;  213545_x_at; 
HG-U133 200067_x_at;  208781_x_at;  210648_x_at;  213545_x_at; 
HG-U133A 200067_x_at;  208781_x_at;  210648_x_at;  213545_x_at; 
HG-U133A_2 200067_x_at;  208781_x_at;  210648_x_at;  213545_x_at; 
HG-U133B 200067_x_at; 
HG-U133_Plus_2 200067_x_at;  208781_x_at;  210648_x_at;  213545_x_at; 
HG-U95 39360_at; 
HG-U95A 39360_at; 
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2920374;  2968245;  2968246;  2968247;  2968250;  2968257;  2968258;  2968259; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P42498; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P42498;  A_24_P277807; 
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

Evolutionary information  Evola Help Last modified:27-May-2015
Relationship Species Accession number MGI Links
Orthology Gallus sp. (Chicken) AJ720881 G-integraG-integra
Orthology Mus sp. (Mouse) AK013183 MGI:1898720 G-integraG-integra
Orthology Danio sp. (Zebrafish) BC107638 G-integraG-integra
Orthology Bos sp. (Cow) BC114888 G-integraG-integra
Orthology Pongo sp. (Orangutan) CR860752 G-integraG-integra
Orthology Takifugu sp. (Fugu) SINFRUT00000140683 G-integraG-integra
Orthology Macaca sp. (Macaque) XM_001094412 G-integraG-integra
Orthology Pan sp. (Chimpanzee) XM_001149032 G-integraG-integra
Orthology Monodelphis sp. (Opossum) XM_001368385 G-integraG-integra
Orthology Equus sp. (Horse) XM_001503983 G-integraG-integra
Orthology Canis sp. (Dog) XM_849913 G-integraG-integra
Phylogenetic tree [View by ATV]
Neighbor-joining (phb) 
Related H-InvDB links EvolaEvoladN/dS (under constraction); 

Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information  VaryGene Repeat mask viewer
 Single Nucleotide Polymorphism (SNP) and indel  VaryGene
Location Variation dbSNP ID Strand CDS/UTR Translation
133 .. 133 C/T rs11537584 + CDS Synonymous[Thr4Thr]
141 .. 141 A/G rs11537587 + CDS Nonsynonymous[Asp7Gly]
217 .. 217 T/C rs200000582 - CDS Synonymous[Asp32Asp]
286 .. 286 A/C rs140856376 - CDS Synonymous[Thr55Thr]
292 .. 292 T/C rs190360422 - CDS Synonymous[Leu57Leu]
343 .. 343 T/G rs201719524 - CDS Nonsynonymous[Phe74Leu]
354 .. 354 G/A rs150937271 - CDS Nonsynonymous[Arg78Gln]
409 .. 409 G/A rs199843863 - CDS Synonymous[Ala96Ala]
569 .. 569 A/G rs142492455 - CDS Nonsynonymous[Ile150Val]
582 .. 582 A/G rs11537585 + CDS Nonsynonymous[Tyr154Cys]
888 .. 888 G/A rs74416010 - 3'UTR
1054 .. 1054 C/T rs11537586 + 3'UTR
1101 .. 1101 G/A rs75854152 - 3'UTR
1114 .. 1114 C/A rs180861985 - 3'UTR
1130 .. 1130 A/G rs531393 + 3'UTR
1135 .. 1135 G/A rs190515338 - 3'UTR
1172 .. 1172 T/A rs15321 - 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  Repeat mask viewer
No data available
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene Repeat mask viewerRepeat Mask Viewer