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H-Invitational ID: HIT000001798 Accession number: AF077054 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Conserved hypothetical protein.
 
 

Transcript original information
Accession number AF077054.1
CAGE tag ID NA
EST ID NA
Clone Number NA
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (CSDE1) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (CSDE1);
Sequence data provider Provider:CHGC
Annotation project H-Invitational FLcDNA
Length of cDNA 3581[bp] (No. of exon:19)[A:1093 T:1016 G:796 C:676]
Devision HTC
Molecular type mRNA
Library origin Cell type NA
Tissue type pituitary
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 3573(+)
Vector/adapter sequence NA
Frame shift 694-694[bp] Insertion(A);
Remaining intron NA
Splice site acceptor (NAGNAG) CAGGAG;  TAGGAG; 
Transcript quality feature Truncation; 
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0000915
Genomic location  G-integra Help Chromosome 1
Location 1p13.2
Position 115259952- 115300578
Strand -
Possible duplicated location(s) NA
Gene structure 19 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:7812
KEGG GENES KEGG GENES(7812)
GeneCard GeneCardCSDE1*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 HIP000335279
Predicted CDS 717..2732;  671[aa];  Orientation:+3; 
Codon Adaptation Index (CAI). 0.742

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000001798
H-Inv cluster ID Locus viewHIX0000915
Accession number AF077054.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Conserved hypothetical protein.
Similarity category  Help Category: Conserved hypothetical protein(Category IV).
Conserved hypothetical protein.
Experimental evidence Protein evidence
PubMed ID NA
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 CSDE1
HGNC aliases NA
HGNC name cold shock domain containing E1, RNA-binding
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) PPI viewer H-Inv protein ID HIP000335279
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:7812
KEGG GENES KEGG GENES(7812)
GeneCard GeneCardCSDE1*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 FR033161
Accession DQ575323,
Description Piwi-interacting RNA (piRNA)
Location chr1,-,115074466..115074494
PMID 16751776, 15608161,
FR ID FR129756
Accession DQ708487,
Description Piwi-interacting RNA (piRNA)
Location chr1,-,115074509..115074534
PMID 16778019, 15608161,
FR ID FR135669
Accession DQ591464,
Description Piwi-interacting RNA (piRNA)
Location chr1,-,115094101..115094131
PMID 16751776, 15608161,
FR ID FR221583
Accession DQ586108,
Description Piwi-interacting RNA (piRNA)
Location chr1,-,115078636..115078661
PMID 16751776, 15608161,


Subcellular localization information  Last modified:27-May-2015
WoLF PSORT nuclear; 
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
15 90 1wfqA 1e-15 98.7 76/89 b.40.4.5
149 217 1wfqA 7e-10 30.4 69/89 b.40.4.5
486 549 1wfqA 5e-08 28.1 64/89 b.40.4.5
641 716 1wfqA 5e-08 28.6 74/89 b.40.4.5
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 AGhsC041102; 
Affymetrix
GeneChip
HG-Focus 219939_s_at; 
HG-U133 219939_s_at;  222975_s_at; 
HG-U133A 219939_s_at; 
HG-U133A_2 219939_s_at; 
HG-U133B 222975_s_at; 
HG-U133_Plus_2 219939_s_at;  222975_s_at; 
HG-U95 NA
HG-U95A NA
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2352973;  2352983;  2429281;  2429282;  2429283;  2429290;  2429293;  2429298;  2429301;  2429302;  2429303;  2429304;  2429306;  2429307;  2429308;  2429309;  2429310;  2429311;  2429312;  2429313;  2429318;  2429320;  2429321;  2429325;  2429326;  2429327; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 NA
Whole Human Genome Oligo Microarray:PGID247 A_24_P51485; 
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
3 .. 3 G/A rs192718617 - 5'UTR
60 .. 60 C/T rs41274132 - 5'UTR
107 .. 107 T/A rs11558870 + 5'UTR
156 .. 156 A/G rs6687539 - 5'UTR
266 .. 266 C/T rs182489238 - 5'UTR
267 .. 267 G/A rs191110754 - 5'UTR
328 .. 328 T/- rs35301858 - 5'UTR
438 .. 438 C/G rs143932215 - 5'UTR
645 .. 645 G/A rs144707101 - 5'UTR
706 .. 706 C/G rs199566705 - 5'UTR
707 .. 707 C/G rs200458604 - 5'UTR
783 .. 783 G/C rs11558868 + CDS Nonsynonymous[Glu23Gln]
806 .. 806 T/C rs145440875 - CDS Synonymous[Phe30Phe]
834 .. 834 G/A rs201905642 - CDS Nonsynonymous[Ala40Thr]
835 .. 835 C/T rs151170620 - CDS Nonsynonymous[Ala40Val]
855 .. 855 A/G rs200868850 - CDS Nonsynonymous[Met47Val]
894 .. 894 G/C rs200922559 - CDS Nonsynonymous[Val60Leu]
1022 .. 1022 A/T rs200073597 - CDS Synonymous[Thr102Thr]
1084 .. 1084 T/G rs6696347 - CDS Nonsynonymous[Val123Gly]
1099 .. 1099 T/C rs143058827 - CDS Nonsynonymous[Ile128Thr]
1205 .. 1205 C/T rs144954789 - CDS Synonymous[Ile163Ile]
1238 .. 1238 G/A rs61751186 - CDS Synonymous[Thr174Thr]
1270 .. 1270 A/G rs139337371 - CDS Nonsynonymous[His185Arg]
1392 .. 1392 A/G rs150855272 - CDS Nonsynonymous[Met226Val]
1511 .. 1511 G/A rs146054772 - CDS Synonymous[Glu265Glu]
1557 .. 1557 A/G rs184520099 - CDS Nonsynonymous[Ile281Val]
1601 .. 1601 C/T rs147370534 - CDS Synonymous[Ser295Ser]
1628 .. 1628 G/A rs138124041 - CDS Synonymous[Thr304Thr]
1638 .. 1638 G/A rs78302744 - CDS Nonsynonymous[Glu308Lys]
1654 .. 1654 A/G rs149300730 - CDS Nonsynonymous[Asn313Ser]
1718 .. 1718 T/C rs150190370 - CDS Synonymous[Tyr334Tyr]
1729 .. 1729 G/C rs150120741 - CDS Nonsynonymous[Gly338Ala]
1764 .. 1764 G/A rs147571627 - CDS Nonsynonymous[Val350Met]
1776 .. 1776 A/G rs200194985 - CDS Nonsynonymous[Thr354Ala]
1812 .. 1812 A/G rs146928884 - CDS Nonsynonymous[Ile366Val]
1816 .. 1816 G/C rs181895470 - CDS Nonsynonymous[Ser367Thr]
1863 .. 1863 T/C rs201815758 - CDS Synonymous[Leu383Leu]
1883 .. 1883 C/T rs142956651 - CDS Synonymous[Ser389Ser]
1991 .. 1991 T/C rs113474437 - CDS Synonymous[Asp425Asp]
2024 .. 2024 G/A rs145801802 - CDS Synonymous[Glu436Glu]
2049 .. 2049 A/T rs149806794 - CDS Nonsynonymous[Asn445Tyr]
2100 .. 2100 A/G rs142765084 - CDS Nonsynonymous[Thr462Ala]
2144 .. 2144 C/T rs139474342 - CDS Synonymous[Arg476Arg]
2147 .. 2147 C/T rs148254828 - CDS Synonymous[Pro477Pro]
2153 .. 2153 G/A rs13990 + CDS Synonymous[Arg479Arg]
2205 .. 2205 G/A rs138010811 - CDS Nonsynonymous[Glu497Lys]
2265 .. 2265 G/T rs138627779 - CDS Nonsynonymous[Asp517Tyr]
2291 .. 2291 C/T rs150490395 - CDS Synonymous[Val525Val]
2300 .. 2300 A/G rs75427731 - CDS Synonymous[Gln528Gln]
2397 .. 2397 A/G rs199861711 - CDS Nonsynonymous[Ile561Val]
2402 .. 2402 C/T rs144258225 - CDS Synonymous[Asn562Asn]
2409 .. 2409 G/A rs192810456 - CDS Nonsynonymous[Val565Ile]
2432 .. 2432 T/C rs72994458 - CDS Synonymous[Phe572Phe]
2447 .. 2447 A/G rs201133299 - CDS Synonymous[Glu577Glu]
2479 .. 2479 A/G rs201587752 - CDS Nonsynonymous[Asp588Gly]
2525 .. 2525 C/T rs148393968 - CDS Synonymous[Cys603Cys]
2713 .. 2713 A/C rs150575144 - CDS Nonsynonymous[Gln666Pro]
2741 .. 2741 A/C/G rs9724612 + 3'UTR
2744 .. 2744 A/G rs183844328 - 3'UTR
2760 .. 2760 C/A rs1801909 + 3'UTR
2784 .. 2784 C/G rs9724613 + 3'UTR
2824 .. 2824 G/A rs9724614 + 3'UTR
2832 .. 2832 G/A rs191181816 - 3'UTR
2879 .. 2879 G/C/A rs6851 - 3'UTR
2940 ^ 2941 -/G rs36070559 - 3'UTR
2968 .. 2968 T/C rs143187563 - 3'UTR
3176 .. 3176 C/A rs185872129 - 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