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: HIT000038488 Accession number: BC018953 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2; 60 kDa BRG-1/Brm-associated factor subunit B; BRG1-associated factor 60B; BAF60B;
 
 

Transcript original information
Accession number BC018953.2
CAGE tag ID NA
EST ID NA
Clone Number IMAGE:4303183
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (SMARCD2) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (SMARCD2);
Sequence data provider NA
Annotation project NA
Length of cDNA 1112[bp] (No. of exon:3)[A:229 T:290 G:324 C:269]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Uterus, leiomyosarcoma
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature N-truncated
Kozak sequence NA
PolyA Site: 1091(+) Signal: 1074-1078(+)
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) NA
Transcript quality feature Truncation; 
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0014075
Genomic location  G-integra Help Chromosome 17
Location 17q23.3
Position 61909444- 61910738
Strand -
Possible duplicated location(s) NA
Gene structure 3 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:6603
KEGG GENES KEGG GENES(6603)
GeneCard GeneCardSMARCD2*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 HIP000123781
Predicted CDS 1..237;  78[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.847

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000038488
H-Inv cluster ID Locus viewHIX0014075
Accession number BC018953.2
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Similar to SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2; 60 kDa BRG-1/Brm-associated factor subunit B; BRG1-associated factor 60B; BAF60B;
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (Q92925)  [Identity/coverage = 100.0%/14.69%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 8804307147020391548933416625196169642431866964818765789196088611969033220068231201489462126946021406692ALL
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 SMARCD2
HGNC aliases NA
HGNC name SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2
DDBJ SMARCD2
UniProt SMARCD2
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 HIP000123781
No. of interaction 24
Interaction partner(s) HIP000000076HIP000009205HIP000016419HIP000022647HIP000039400HIP000041888HIP000044029HIP000058081HIP000067896HIP000074256HIP000087681HIP000088799HIP000091041HIP000117830HIP000117992HIP000138234HIP000165165HIP000166899HIP000210429HIP000250829HIP000250829HIP000301455HIP000326069HIP000354557
BIND NA
DIP NA
MINT NA
HPRD NA
IntAct NA
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:6603
KEGG GENES KEGG GENES(6603)
GeneCard GeneCardSMARCD2*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. 
NA


Subcellular localization information  Last modified:27-May-2015
WoLF PSORT cytosol;  nuclear;  plasma membrane; 
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.

Gene expression information  H-ANGEL DNAProbeLocator Last modified:27-May-2015
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene NA
Affymetrix
GeneChip
HG-Focus 201827_at; 
HG-U133 201827_at; 
HG-U133A 201827_at; 
HG-U133A_2 201827_at; 
HG-U133B NA
HG-U133_Plus_2 201827_at; 
HG-U95 34694_at;  34695_at;  455_at; 
HG-U95A 34694_at;  34695_at;  455_at; 
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 3730973;  3766416;  3766417;  3766418;  3766419;  3766420; 
HuGeneFL U66618_at; 
Agilent Human 1A Oligo Microarray:PGID215 A_23_P66487; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P66487; 
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
78 .. 78 C/T rs1130110 + CDS Synonymous[Leu26Leu]
98 .. 98 T/C rs1130111 + CDS Nonsynonymous[Ile33Thr]
186 .. 186 G/A rs181910740 - CDS Synonymous[Val62Val]
193 .. 193 C/T rs79899871 - CDS AA-STOP[Arg65*]
227 .. 227 G/A rs191015799 - CDS Nonsynonymous[Arg76His]
248 .. 248 A/G rs74421455 - 3'UTR
308 .. 308 G/A rs144299027 - 3'UTR
309 .. 309 C/T rs142746247 - 3'UTR
329 .. 329 A/G rs138256675 - 3'UTR
368 .. 368 T/C rs2584622 + 3'UTR
413 .. 413 C/T rs113815662 - 3'UTR
528 .. 528 C/T rs111734350 - 3'UTR
568 .. 568 C/G rs79978746 - 3'UTR
576 .. 576 G/A rs186163088 - 3'UTR
817 .. 817 C/T rs11558316 - 3'UTR
932 .. 932 G/A rs1048636 - 3'UTR
999 .. 999 G/C rs11558317 - 3'UTR
1050 .. 1050 A/T rs6919 - 3'UTR
1052 .. 1052 C/T rs1048644 - 3'UTR
1088 ^ 1089 -/G rs35239390 - 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