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: HIT000087038 Accession number: BC008332 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to Protein transport protein Sec16A; SEC16 homolog A;
 
 

Transcript original information
Accession number BC008332.1
CAGE tag ID NA
EST ID NA
Clone Number IMAGE:3505732
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ;
Sequence data provider NA
Annotation project NA
Length of cDNA 3922[bp] (No. of exon:21)[A:874 T:886 G:1056 C:1106]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Placenta, choriocarcinoma
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 3905(+) Signal: 3882-3886(+)
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) CAGAAG;  CAGCAG;  CAGGAG; 
Transcript quality feature Truncation; 
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0008547
Genomic location  G-integra Help Chromosome 9
Location 9q34.3
Position 139334558- 139357413
Strand -
Possible duplicated location(s) NA
Gene structure 21 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:9919
KEGG GENES KEGG GENES(9919)
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 HIP000137857
Predicted CDS 94..2256;  720[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.76

Motif information
ORF

length(720),orf(94:2256)
MKNGLWGHALLLASKMDSRTHARVMTRFANSLPINDPLQTVYQLMSGRMP
AASTCCGDEKWGDWRPHLAMVLSNLNNNMDVESRTMATMGDTLASRGLLD
AAHFCYLMAQAGFGVYTKKTTKLVLIGSNHSLPFLKFATNEAIQRTEAYE
YAQSLGAETCPLPSFQVFKFIYSCRLAEMGLATQAFHYCEAIAKSILTQP
HLYSPVLISQLVQMASQLRLFDPQLKEKPEEESLAAPTWLVHLQQVERQI
KEGAGVWHQDGALPQQCPGTPSSEMEQLDRPGLSQPGALGIANPLLAVPA
PSPEHSSPSVRLLPSAPQTLPDGPLASPARVPMFPVPLPPGPLEPGPGCV
TPGPALGFLEPSGPGLPPGVPPLQERRHLLQEARSPDPGIVPQEAPVGNS
LSELSEENFDGKFANLTPSRTVPDSEAPPGWDRADSGPTQPPLSLSPAPE
TKRPGQAAKKETKEPKKGESWFFRWLPGKKKTEAYLPDDKNKSIVWDEKK
NQWVNLNEPEEEKKAPPPPPTSMPKTVQAAPPALPGPPGAPVNMYSRRAA
GTRARYVDVLNPSGTQRSEPALAPADFVAPLAPLPIPSNLFVPTPDAEEP
QLPDGTGREGPAAARGLANPEPAPEPKVLSSAASLPGSELPSSRPEGSQG
GELSRCSSMSSLSREVSQHFNQAPGDLPAAGGPPSGAMPFYNPAQLAQAC
ATSGSSRLGRIGQRKHLVLN*
a.a.
length
InterPro Name
length(720), motif(1:720) 720 IPR024880 COPII coat assembly protein, Sec16 [Family]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000087038
H-Inv cluster ID Locus viewHIX0008547
Accession number BC008332.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Similar to Protein transport protein Sec16A; SEC16 homolog A;
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (O15027)  [Identity/coverage = 100.0%/34.47%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 920584112168954151640531548933416964243170050101708198317192411179246791831800818669648186919761936919519690332200682312126946021406692ALL
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 SEC16A
UniProt SEC16A
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 HIP000137857
No. of interaction NA
Interaction partner(s) NA
BIND NA
DIP NA
MINT NA
HPRD NA
IntAct NA
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:9919
KEGG GENES KEGG GENES(9919)
GeneCard NA *GeneCards is provided free to academic non-profit institutions.
etc H-GOLDHuman-Gene diversity Of Life-style related Diseases
Curation status Auto-annotated
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. 
FR ID FR003110
Accession
Description
Location
PMID
FR ID FR008977
Accession
Description
Location
PMID
FR ID FR024309
Accession
Description
Location
PMID
FR ID FR061681
Accession
Description
Location
PMID
FR ID FR128466
Accession
Description
Location
PMID
FR ID FR185374
Accession
Description
Location
PMID
FR ID FR205484
Accession
Description
Location
PMID
FR ID FR248231
Accession
Description
Location
PMID
FR ID FR258622
Accession
Description
Location
PMID
FR ID FR348948
Accession
Description
Location
PMID
FR ID FR379775
Accession
Description
Location
PMID

Gene ontology information
Biological process COPII coating of Golgi vesicle (GO:0048208); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT nuclear;  cytosol;  mitochondria;  Other; 
Target P Not predicted
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.

Gene expression information  H-ANGEL DNAProbeLocator Last modified:27-May-2015
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene AGhsB121410; 
Affymetrix
GeneChip
HG-Focus NA
HG-U133 215696_s_at; 
HG-U133A 215696_s_at; 
HG-U133A_2 215696_s_at; 
HG-U133B NA
HG-U133_Plus_2 215696_s_at; 
HG-U95 35313_at;  44472_at; 
HG-U95A 35313_at; 
HG-U95B 44472_at; 
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 3194380;  3194382;  3194383;  3194384;  3194386;  3194387;  3194388;  3194390;  3194392;  3230025;  3230026;  3230027;  3230028;  3230029;  3230036;  3230037;  3230039;  3230041;  3230042;  3230044;  3230047;  3230049;  3230050;  3230053;  3230055;  3230061;  3230064;  3230065;  3230066;  3230067;  3230068;  3230073;  3230074;  3230076;  3230079;  3230081;  3230083;  3230084;  3230085;  3230088; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P251303; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P251303; 
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

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
2 .. 2 C/T rs201789231 - 5'UTR
10 .. 10 G/T rs12375759 - 5'UTR
12 .. 12 C/T rs149236979 - 5'UTR
232 .. 232 G/A rs201051805 - CDS Nonsynonymous[Gly47Arg]
248 .. 248 C/T rs113207461 - CDS Nonsynonymous[Ala52Val]
291 .. 291 G/A rs180816729 - CDS Synonymous[Pro66Pro]
331 .. 331 G/A rs202232995 - CDS Nonsynonymous[Asp80Asn]
333 .. 333 C/T rs148623238 - CDS Synonymous[Asp80Asp]
443 .. 443 C/T rs57905554 - CDS Nonsynonymous[Thr117Met]
663 .. 663 G/A rs145809910 - CDS Synonymous[Glu190Glu]
687 .. 687 G/A rs114480732 - CDS Synonymous[Thr198Thr]
693 .. 693 G/T rs187611173 - CDS Synonymous[Pro200Pro]
754 .. 754 T/C rs149545284 - CDS Nonsynonymous[Phe221Leu]
756 .. 756 C/T rs17610266 - CDS Synonymous[Phe221Phe]
799 .. 799 G/T rs138068163 - CDS Nonsynonymous[Ala236Ser]
835 .. 835 C/T rs45464197 - CDS Nonsynonymous[Arg248Trp]
847 .. 847 G/- rs34749005 - CDS
871 .. 871 G/A rs181398018 - CDS Nonsynonymous[Asp260Asn]
884 .. 884 C/T rs58268999 - CDS Nonsynonymous[Pro264Leu]
906 .. 906 G/A rs200262949 - CDS Synonymous[Pro271Pro]
967 .. 967 G/A rs150198392 - CDS Nonsynonymous[Ala292Thr]
1010 .. 1010 C/T rs200055187 - CDS Nonsynonymous[Ser306Leu]
1049 .. 1049 C/T rs201805134 - CDS Nonsynonymous[Thr319Met]
1070 .. 1070 C/T rs79974534 - CDS Nonsynonymous[Ala326Val]
1105 .. 1105 C/T rs191890805 - CDS Synonymous[Leu338Leu]
1112 .. 1112 C/T rs187124099 - CDS Nonsynonymous[Pro340Leu]
1268 .. 1268 C/T rs202042941 - CDS Nonsynonymous[Pro392Leu]
1284 .. 1284 T/C rs183696253 - CDS Synonymous[Val397Val]
1299 .. 1299 C/T rs144334278 - CDS Synonymous[Ser402Ser]
1322 .. 1322 A/T rs200814626 - CDS Nonsynonymous[Asp410Val]
1355 .. 1355 C/T rs45519739 - CDS Nonsynonymous[Thr421Met]
1367 .. 1367 C/T rs190567329 - CDS Nonsynonymous[Ser425Leu]
1514 .. 1514 G/A rs182435046 - CDS Nonsynonymous[Arg474His]
1544 .. 1544 C/T rs201354052 - CDS Nonsynonymous[Ala484Val]
1679 .. 1679 C/A rs35292575 - CDS Nonsynonymous[Ala529Asp]
1691 .. 1691 C/T rs200690545 - CDS Nonsynonymous[Ala533Val]
1715 .. 1715 C/T rs199835518 - CDS Nonsynonymous[Pro541Leu]
1849 .. 1849 A/G rs118049182 - CDS Nonsynonymous[Ile586Val]
1858 .. 1858 A/G rs201162968 - CDS Nonsynonymous[Asn589Asp]
1988 .. 1988 C/T rs199987574 - CDS Nonsynonymous[Ala632Val]
1991 .. 1991 C/T rs200253490 - CDS Nonsynonymous[Ala633Val]
2055 .. 2055 G/A rs188147629 - CDS Synonymous[Ser654Ser]
2202 .. 2202 T/C rs45568431 - CDS Synonymous[Ser703Ser]
2287 .. 2287 C/T rs147515633 - 3'UTR
2341 .. 2341 C/T rs143162898 - 3'UTR
2380 .. 2380 G/A rs185481116 - 3'UTR
2440 .. 2440 C/T rs180890317 - 3'UTR
2523 .. 2523 A/G rs3812590 - 3'UTR
2572 .. 2572 A/G rs139357006 - 3'UTR
2581 .. 2581 A/G rs1802979 + 3'UTR
2584 .. 2584 C/T rs3812589 - 3'UTR
2612 .. 2612 T/C rs11555399 - 3'UTR
2698 .. 2698 C/T rs143413556 - 3'UTR
2757 .. 2757 C/T rs189594410 - 3'UTR
2847 .. 2847 G/A rs184720043 - 3'UTR
2864 .. 2864 C/T rs1127152 + 3'UTR
3022 .. 3022 G/T rs1802980 + 3'UTR
3167 .. 3167 T/A rs116507891 - 3'UTR
3182 .. 3182 C/T rs74449348 - 3'UTR
3257 .. 3257 A/G rs1127162 + 3'UTR
3308 .. 3308 G/A rs111246388 - 3'UTR
3430 .. 3430 G/A rs181788383 - 3'UTR
3474 .. 3474 C/T rs1802978 + 3'UTR
3648 .. 3648 T/C rs45542334 - 3'UTR
3786 .. 3786 C/T rs3182944 + 3'UTR
3793 .. 3793 C/T rs113546142 - 3'UTR
3831 .. 3831 G/T rs11555400 + 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