H-InvDB_9.0 released on May 27, 2015.
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H-Inv ID (HIT)
H-Inv cluster ID (HIX)
H-Inv protein ID (HIP)
H-Inv gene family/group (HIF)
Accession number
Chromosome number
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Definition*
Data source ID
---
CCDS ID
dbSNP ID (rs number)
EC number
Ensembl ID
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FR ID
FR Accession number
GO ID
GO name*
HGNC gene symbol
HGNC gene name*
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InterPro name*
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OMIM title*
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Pathway name*
RefSeq (gene) ID
RefSeq (protein) ID
SCOP ID
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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;
Select format
Flat file
XML file
Nucleotide sequence fasta
Protein sequence fasta
Transcript original information
Accession number
BC014580.1
CAGE tag ID
NA
EST ID
NA
Clone Number
MGC:24246 IMAGE:3932208
Experimental resources
NBRC
;
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
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
GGGGCTTCGCGACCGCTGCGCGCGAGCCCCGTGTCCCCACGGCGGGCAGC AGCGGCGGCGGCGGCGGCTGAACGCGGAGGGGGCGGAGGGAGCCCGCGGC GGCGGCAGCAGCTACAGCGAAATGGCGGAGACCGTGGCTGACACCCGGCG GCTGATCACCAAGCCGCAGAACCTGAATGACGCCTACGGACCCCCCAGCA ACTTCCTCGAGATCGATGTGAGCAACCCGCAAACGGTGGGGGTCGGCCGG GGCCGCTTCACCACTTACGAAATCAGGGTCAAGACAAATCTTCCTATTTT CAAGCTGAAAGAATCTACTGTTAGAAGAAGATACAGTGACTTTGAATGGC TGCGAAGTGAATTAGAAAGAGAGAGCAAGGTCGTAGTTCCCCCGCTCCCT GGGAAAGCGTTTTTGCGTCAGCTTCCTTTTAGAGGAGATGATGGAATATT TGATGACAATTTTATTGAGGAAAGAAAACAAGGGCTGGAGCAGTTTATAA ACAAGGTCGCTGGTCATCCTCTGGCACAGAACGAACGTTGTCTTCACATG TTTTTACAAGATGAAATAATAGATAAAAGCTATACTCCATCTAAAATAAG ACATGCCTGAAATTTGGCAAGAAGGGGCAAAAACGTGACTATTAATGATT GATAAGCACCAGTGAAGAAGTTCTAACTTTTAGCATGCTGCACAGAAACT GGTATAACATGCCTTCAGTATACTAACACTCATATGCTCAGTTTTGTTTT GTTTTGGCAGTTGACAAGAAGTTAATTTGCTTTAGTAAAAATCCCTCATT CCAGCCTTTCTATATAAATAGCTCTTTCTTGCTGTTTTAATGTGGTGCAC ACTATAGCCTCACAAACCTGTTATTCCAGTGTAATCTGCAGTGTCGTAAC TAAAGTTACTGGCTTGGTCTTATTTGCACAGTTTTTGCGTCTTGTTTGCT TCTTGCATCTGATTAACTAGAATATTTCTCTTTCCCCCTTTTAATTTGTG ATGTCACTTGACCCCATTTATGTGTAGGAGCACTACACCATTGGTTTCCA ATACTGCACACATAAGATACATACTTGTGTGCAGAAAGTATCTTCCTCCA GGCTTGTAATACCCTTCACATGGAAGATTAATGAGGGAAATCTTTATATT CTGTATAAAAACAAAAGCAAATTTATATACTAAAATCATTTGTCTAAAAA TTTAAGTTGTTTTCAAATAAAAATTAAAATGCAAAAAAAAAAAAAAAAAA AAAAAAAAAAAA
Gene structure information
H-Inv cluster ID
HIX0006117
Genomic location
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-DBAS
;
G-integra
;
cDNA-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
O60493
;
Q1RMH8
;
Q5R5V1
;
Q5U211
;
CCDS
CCDS5064
;
MAETVADTRRLITKPQNLNDAYGPPSNFLEIDVSNPQTVGVGRGRFTTYE IRVKTNLPIFKLKESTVRRRYSDFEWLRSELERESKVVVPPLPGKAFLRQ LPFRGDDGIFDDNFIEERKQGLEQFINKVAGHPLAQNERCLHMFLQDEII DKSYTPSKIRHA*
Motif information
a.a.
length
InterPro
Name
124
IPR001683
Phox homologous domain [Domain]
124
IPR001683
Phox homologous domain [Domain]
123
IPR001683
Phox homologous domain [Domain]
125
IPR001683
Phox homologous domain [Domain]
121
IPR001683
Phox homologous domain [Domain]
Gene function information
H-Inv ID
HIT000036789
H-Inv cluster ID
HIX0006117
Accession number
BC014580.1
CAGE tag ID
NA
EST ID
NA
Transcript feature
Representative transcript;
Splicing isoform
Coding potential
Protein coding;
Definition
Sorting nexin-3; Protein SDP3;
Similarity category
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
9819414
;
11433298
;
12471201
;
12665801
;
14574404
;
14702039
;
15489334
;
17081983
;
18669648
;
18767904
;
20068231
;
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
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)
H-Inv protein ID
HIP000026480
No. of interaction
7
Interaction partner(s)
HIP000016317
;
HIP000016340
;
HIP000029181
;
HIP000035245
;
HIP000035245
;
HIP000099275
;
HIP000108799
;
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
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
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;
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
4
156
1h6hA
3e-22
19.7
142/143
d.189.1.1
Related H-InvDB links
GTOP
Gene expression information
Last modified:27-May-2015
Tissue-specific expression
NA
Probe
information
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-ANGEL
;
DNAProbeLocator
;
Evolutionary information
Last modified:27-May-2015
Relationship
Species
Accession number
MGI
Links
Orthology
Gallus sp.
(Chicken)
AJ720881
G-integra
Orthology
Mus sp.
(Mouse)
AK013183
MGI:1898720
G-integra
Orthology
Danio sp.
(Zebrafish)
BC107638
G-integra
Orthology
Bos sp.
(Cow)
BC114888
G-integra
Orthology
Pongo sp.
(Orangutan)
CR860752
G-integra
Orthology
Takifugu sp.
(Fugu)
SINFRUT00000140683
G-integra
Orthology
Macaca sp.
(Macaque)
XM_001094412
G-integra
Orthology
Pan sp.
(Chimpanzee)
XM_001149032
G-integra
Orthology
Monodelphis sp.
(Opossum)
XM_001368385
G-integra
Orthology
Equus sp.
(Horse)
XM_001503983
G-integra
Orthology
Canis sp.
(Dog)
XM_849913
G-integra
Phylogenetic tree [View by
ATV]
Neighbor-joining (phb)
Related H-InvDB links
Evola
;
d
N
/
d
S
(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
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
No data available
Database links
Human-Gene diversity Of Life-style related Diseases(H-GOLD)
;
Related H-InvDB links
VaryGene
;
Repeat Mask Viewer
;