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: HIT000057941 Accession number: AB001104 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Visinin-like protein 1; VILIP; VLP-1; Hippocalcin-like protein 3; HLP3;
 
 

Transcript original information
Accession number AB001104.1
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 (VSNL1) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (VSNL1);
Sequence data provider NA
Annotation project NA
Length of cDNA 943[bp] (No. of exon:4)[A:303 T:220 G:218 C:202]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type brain
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA NA
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 HIX0001844
Genomic location  G-integra Help Chromosome 2
Location 2p24.2
Position 17722058- 17836878
Strand +
Possible duplicated location(s) NA
Gene structure 4 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:7447
KEGG GENES KEGG GENES(7447)
GeneCard GeneCardVSNL1*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 HIP000057535
Predicted CDS 140..715;  191[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.851

Motif information
ORF

length(191),orf(140:715)
MGKQNSKLAPEVMEDLVKSTEFNEHELKQWYKGFLKDCPSGRLNLEEFQQ
LYVKFFPYGDASKFAQHAFRTFDKNGDGTIDFREFICALSITSRGSFEQK
LNWAFNMYDLDGDGKITRVEMLEIIEAIYKMVGTVIMMKKNEDGLTPEQR
VDKIFSKKDKNKDDQITLDEFKEAAKSDPSIVLLLQCDIQK*
a.a.
length
InterPro Name
length(191), motif(1:191) 191 IPR028846 Recoverin family [Family]
length(69), motif(12:80) 69 IPR011992 EF-hand domain pair [Domain]
length(19), motif(40:58) 19 IPR002048 EF-hand domain [Domain]
length(36), motif(60:95) 36 IPR002048 EF-hand domain [Domain]
length(29), motif(64:92) 29 IPR002048 EF-hand domain [Domain]
length(25), motif(66:90) 25 IPR002048 EF-hand domain [Domain]
length(13), motif(73:85) 13 IPR018247 EF-Hand 1, calcium-binding site [Binding_site]
length(33), motif(81:113) 33 IPR011992 EF-hand domain pair [Domain]
length(36), motif(96:131) 36 IPR002048 EF-hand domain [Domain]
length(29), motif(100:128) 29 IPR002048 EF-hand domain [Domain]
length(74), motif(101:174) 74 IPR011992 EF-hand domain pair [Domain]
length(13), motif(109:121) 13 IPR018247 EF-Hand 1, calcium-binding site [Binding_site]
length(75), motif(114:188) 75 IPR011992 EF-hand domain pair [Domain]
length(36), motif(146:181) 36 IPR002048 EF-hand domain [Domain]
length(29), motif(150:178) 29 IPR002048 EF-hand domain [Domain]
length(13), motif(159:171) 13 IPR018247 EF-Hand 1, calcium-binding site [Binding_site]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000057941
H-Inv cluster ID Locus viewHIX0001844
Accession number AB001104.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Visinin-like protein 1; VILIP; VLP-1; Hippocalcin-like protein 3; HLP3;
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (P62760)  [Identity/coverage = 98.953%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 853008510520747154893341870376921269460ALL
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 VSNL1
HGNC aliases NA
HGNC name visinin-like 1
DDBJ NA
UniProt VSNL1
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 HIP000057535
No. of interaction 484
Interaction partner(s) HIP000000390HIP000003459HIP000004881HIP000009957HIP000013983HIP000020436HIP000021200HIP000021255HIP000021335HIP000021401HIP000021647HIP000021661HIP000021684HIP000021704HIP000021803HIP000021834HIP000021984HIP000022009HIP000022077HIP000022190HIP000022231HIP000022251HIP000022280HIP000022363HIP000022390HIP000022399HIP000022653HIP000022710HIP000023088HIP000023126HIP000023348HIP000023494HIP000023516HIP000023574HIP000023757HIP000023875HIP000024071HIP000024164HIP000024283HIP000024512HIP000024546HIP000024994HIP000025001HIP000025067HIP000025096HIP000025121HIP000025285HIP000025579HIP000025697HIP000025749HIP000025881HIP000026040HIP000026118HIP000026195HIP000026239HIP000026519HIP000026863HIP000027204HIP000027260HIP000027440HIP000027491HIP000027587HIP000027724HIP000027741HIP000027766HIP000027796HIP000028009HIP000028438HIP000028618HIP000028936HIP000028948HIP000029022HIP000029071HIP000029383HIP000029497HIP000029584HIP000029725HIP000030165HIP000030803HIP000030841HIP000030939HIP000031239HIP000031280HIP000031648HIP000031866HIP000032591HIP000032591HIP000032727HIP000032846HIP000032894HIP000032948HIP000033010HIP000033011HIP000033091HIP000033231HIP000033413HIP000033461HIP000033539HIP000033785HIP000033868HIP000033931HIP000034443HIP000034956HIP000034960HIP000035000HIP000035147HIP000035223HIP000035365HIP000035692HIP000035761HIP000035845HIP000035852HIP000036030HIP000036034HIP000036064HIP000036187HIP000036625HIP000036644HIP000036681HIP000036725HIP000037520HIP000037856HIP000039118HIP000039355HIP000039398HIP000039429HIP000039484HIP000039538HIP000039653HIP000039660HIP000039669HIP000039778HIP000039930HIP000039965HIP000040678HIP000040680HIP000040793HIP000040806HIP000040854HIP000041271HIP000041437HIP000041686HIP000041732HIP000041778HIP000041902HIP000042178HIP000042326HIP000042380HIP000042495HIP000042847HIP000042868HIP000042878HIP000043397HIP000043635HIP000043809HIP000043813HIP000044120HIP000044247HIP000044548HIP000044598HIP000044660HIP000045068HIP000045122HIP000045142HIP000045337HIP000045519HIP000045697HIP000045699HIP000046314HIP000046852HIP000047422HIP000047573HIP000047881HIP000047957HIP000048044HIP000048842HIP000048856HIP000048878HIP000048949HIP000049555HIP000049555HIP000050055HIP000050069HIP000050523HIP000051002HIP000051356HIP000051442HIP000051907HIP000052004HIP000052086HIP000052122HIP000052316HIP000052847HIP000052853HIP000052957HIP000053726HIP000053999HIP000054168HIP000054389HIP000054508HIP000054593HIP000054608HIP000054876HIP000055075HIP000055150HIP000055399HIP000055602HIP000055792HIP000056003HIP000056817HIP000057151HIP000057226HIP000057276HIP000057542HIP000058028HIP000058157HIP000058193HIP000058530HIP000058641HIP000058705HIP000058809HIP000058853HIP000059153HIP000059239HIP000059928HIP000059951HIP000060400HIP000060782HIP000061278HIP000061387HIP000061780HIP000061803HIP000061860HIP000062007HIP000063650HIP000063688HIP000063736HIP000063967HIP000064456HIP000065259HIP000066049HIP000066197HIP000066454HIP000066649HIP000066777HIP000067641HIP000068776HIP000069500HIP000069525HIP000069661HIP000069850HIP000070142HIP000072352HIP000072404HIP000072532HIP000073473HIP000074222HIP000074361HIP000074513HIP000074703HIP000075345HIP000075580HIP000075883HIP000076146HIP000076448HIP000076519HIP000076804HIP000076815HIP000077005HIP000077283HIP000077716HIP000077771HIP000077860HIP000077884HIP000078197HIP000078543HIP000078711HIP000078803HIP000079462HIP000080319HIP000080449HIP000081280HIP000081323HIP000081392HIP000081662HIP000081682HIP000081797HIP000081838HIP000082249HIP000082794HIP000082842HIP000083133HIP000083176HIP000083279HIP000083362HIP000083424HIP000083506HIP000083667HIP000083805HIP000084148HIP000084262HIP000084345HIP000084461HIP000084496HIP000084547HIP000085571HIP000085801HIP000085949HIP000085991HIP000086068HIP000086416HIP000086749HIP000087012HIP000087410HIP000087804HIP000088283HIP000088671HIP000089031HIP000089868HIP000090113HIP000090291HIP000090509HIP000090723HIP000090938HIP000091231HIP000091335HIP000091590HIP000091632HIP000092099HIP000092512HIP000092689HIP000092844HIP000092945HIP000093681HIP000094365HIP000094558HIP000094907HIP000095236HIP000095972HIP000096010HIP000096122HIP000096582HIP000096669HIP000096730HIP000096868HIP000097041HIP000097117HIP000097194HIP000097197HIP000097242HIP000097281HIP000097471HIP000097726HIP000097834HIP000097882HIP000097970HIP000098105HIP000098131HIP000098348HIP000098402HIP000098409HIP000098615HIP000098618HIP000099058HIP000099330HIP000099410HIP000099447HIP000099536HIP000099613HIP000099647HIP000099754HIP000100321HIP000100779HIP000100847HIP000100860HIP000101327HIP000101465HIP000101550HIP000101886HIP000102359HIP000102571HIP000102595HIP000102812HIP000102882HIP000103026HIP000103186HIP000103333HIP000103900HIP000103953HIP000104016HIP000104016HIP000104077HIP000104149HIP000104706HIP000104953HIP000104980HIP000105245HIP000105281HIP000105366HIP000105584HIP000106015HIP000106047HIP000106047HIP000106127HIP000106251HIP000106943HIP000108262HIP000108540HIP000108582HIP000109249HIP000109313HIP000109499HIP000109499HIP000109530HIP000109916HIP000110189HIP000110202HIP000110465HIP000110588HIP000110634HIP000110859HIP000111693HIP000111788HIP000111967HIP000111975HIP000112094HIP000112147HIP000112213HIP000112312HIP000112664HIP000113430HIP000113922HIP000114133HIP000114190HIP000114568HIP000114669HIP000115055HIP000115133HIP000115199HIP000115414HIP000115656HIP000115672HIP000130695HIP000131491HIP000137744HIP000141985HIP000144233HIP000147161HIP000148976HIP000150678HIP000161979HIP000166161HIP000166793HIP000167105HIP000174774HIP000175302HIP000178686HIP000181749HIP000182099HIP000192131HIP000192469HIP000192588HIP000199130HIP000200011HIP000204439HIP000216634HIP000226430HIP000237175HIP000251215HIP000255479HIP000256948HIP000258186HIP000259706HIP000337171HIP000338705HIP000349620HIP000357244HIP000359334HIP000359365HIP000359365HIP000360224HIP000381874HIP000435729HIP000435775
BIND NA
DIP 111813E;  111862E; 
MINT MINT-2864086;  MINT-2864105;  MINT-66129; 
HPRD 00017;  00032;  00333;  03333;  05088;  08779;  16841; 
IntAct NA
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:7447
KEGG GENES KEGG GENES(7447)
GeneCard GeneCardVSNL1*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

Gene ontology information
Molecular function calcium ion binding (GO:0005509); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT cytosol;  peroxisome; 
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
5 187 1bjfA 2e-25 67.4 181/181 a.39.1.5
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 AGhsA010515; 
Affymetrix
GeneChip
HG-Focus NA
HG-U133 203798_s_at; 
HG-U133A 203798_s_at; 
HG-U133A_2 203798_s_at; 
HG-U133B NA
HG-U133_Plus_2 203798_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 2471236;  2471237;  2471251;  2471293;  2471295; 
HuGeneFL U14747_at; 
Agilent Human 1A Oligo Microarray:PGID215 NA
Whole Human Genome Oligo Microarray:PGID247 NA
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
39 ^ 40 -/T rs35177550 + 5'UTR
69 .. 69 T/C rs111948341 + 5'UTR
119 .. 119 T/G rs188483301 + 5'UTR
181 .. 181 G/C rs201755586 + CDS Nonsynonymous[Glu14Asp]
187 .. 187 G/A rs11547469 + CDS Synonymous[Leu16Leu]
244 .. 244 C/T rs1802175 + CDS Synonymous[Leu35Leu]
319 .. 319 C/T rs148418595 + CDS Synonymous[Asp60Asp]
333 .. 333 C/G rs1042674 + CDS Nonsynonymous[Ala65Gly]
334 .. 334 C/T rs188834016 + CDS Synonymous[Ala65Ala]
412 .. 412 C/T rs11547470 + CDS Synonymous[Ile91Ile]
422 .. 422 G/A rs11547472 + CDS Nonsynonymous[Gly95Ser]
587 .. 587 C/A rs146113368 + CDS Synonymous[Arg150Arg]
641 .. 641 C/A rs143934529 + CDS Nonsynonymous[Leu168Met]
654 .. 654 A/G rs1042685 + CDS Nonsynonymous[Lys172Arg]
658 .. 658 A/G rs143782653 + CDS Synonymous[Glu173Glu]
781 ^ 782 -/CA rs71754069 + 3'UTR
782 ^ 783 -/AC rs71721894 + 3'UTR
801 .. 801 C/A rs183611259 + 3'UTR
826 ^ 827 -/CACA rs3064980 + 3'UTR
871 .. 871 G/C rs187522903 + 3'UTR
895 .. 895 T/G rs2710666 + 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