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: HIT000493450 Accession number: AK298826 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to Nuclear valosin-containing protein-like isoform 2.
 
 

Transcript original information
Accession number AK298826.1
CAGE tag ID NA
EST ID NA
Clone Number NT2NE2009164
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (NVL) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (NVL);
Sequence data provider NA
Annotation project NA
Length of cDNA 2295[bp] (No. of exon:19)[A:709 T:544 G:567 C:475]
Devision HUM
Molecular type mRNA
Library origin Cell type teratocarcinoma
Tissue type NA
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) TAGGAG; 
Transcript quality feature NMD predicted;  Truncation; 
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0001627
Genomic location  G-integra Help Chromosome 1
Location 1q42.11
Position 224420903- 224517843
Strand -
Possible duplicated location(s) NA
Gene structure 19 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:4931
KEGG GENES KEGG GENES(4931)
GeneCard GeneCardNVL*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 HIP000252655
Predicted CDS 259..2028;  589[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.702

Motif information
ORF

length(589),orf(259:2028)
MEDYPDPQSANHMNSSLLSLYRKGNPDSVSNTPEMEQRETTSSTPRISSK
TGSIPLKTPAKDSEGGWFIDKTPSVKKDSFFLDLSCEKSNPKKPITEIQD
SKDSSLLESDMKRKGKLKNKGSKRKKEDLQEVDGEIEAVLQKKAKARGLE
FQISNVKFEDVGGNDMTLKEVCKMLIHMRHPEVYHHLGVVPPRGVLLHGP
PGCGKTLLAHAIAGELDLPILKVAAPEIVSGVSGESEQKLRELFEQAVSN
APCIIFIDEIDAITPKREVASKDMERRIVAQLLTCMDDLNNVAATARVLV
IGATNRPDSLDPALRRAGRFDREICLGIPDEASRERILQTLCRKLRLPQA
FDFCHLAHLTPGFVGADLMALCREAAMCAVNRVLMKLQEQQKKNPEMEDL
PSKGVQEERLGTEPTSETQDELQRLLGLLRDQDPLSEEQMQGLCIELNDF
IVALSSVQPSAKREGFVTVPNVTWADIGALEDIREELTMAILAPVRNPDP
FKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYV
GESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDREI*
a.a.
length
InterPro Name
length(230), motif(153:382) 230 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(315), motif(158:472) 315 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(140), motif(191:330) 140 IPR003593 AAA+ ATPase domain [Domain]
length(132), motif(195:326) 132 IPR003959 ATPase, AAA-type, core [Domain]
length(19), motif(298:316) 19 IPR003960 ATPase, AAA-type, conserved site [Conserved_site]
length(115), motif(470:584) 115 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(115), motif(473:587) 115 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(80), motif(508:587) 80 IPR003593 AAA+ ATPase domain [Domain]
length(74), motif(512:585) 74 IPR003959 ATPase, AAA-type, core [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000493450
H-Inv cluster ID Locus viewHIX0001627
Accession number AK298826.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Similar to Nuclear valosin-containing protein-like isoform 2.
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (NP_996671)  [Identity/coverage = 99.705%/94.93%] to Homo sapiens 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 NVL
HGNC aliases NA
HGNC name nuclear VCP-like
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 HIP000252655
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:4931
KEGG GENES KEGG GENES(4931)
GeneCard GeneCardNVL*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 ATP binding (GO:0005524); 

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 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
156 393 1oz4A2 1e-38 49.8 235/270 c.37.1.20
443 585 1qhbA 2e-25 8.5 142/595 a.111.1.2
Related H-InvDB links GTOP GTOP

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 A/G rs2896990 + 5'UTR
22 .. 22 C/T/G rs138268824 - 5'UTR
34 .. 34 G/A rs150333766 - 5'UTR
54 .. 54 A/T rs185167238 - 5'UTR
136 .. 136 A/G rs188734539 - 5'UTR
159 .. 159 G/T rs148207074 - 5'UTR
180 .. 180 T/G rs200417559 - 5'UTR
251 .. 251 A/G rs141925881 - 5'UTR
288 .. 288 A/T rs145284132 - CDS Synonymous[Ala10Ala]
303 .. 303 T/C rs146647214 - CDS Synonymous[Ser15Ser]
322 .. 322 C/G rs200984793 - CDS Nonsynonymous[Arg22Gly]
323 .. 323 G/A rs149707008 - CDS Nonsynonymous[Arg22Gln]
335 .. 335 C/T rs144983418 - CDS Nonsynonymous[Pro26Leu]
343 .. 343 G/A rs200499785 - CDS Nonsynonymous[Val29Ile]
353 .. 353 C/T rs188779693 - CDS Nonsynonymous[Thr32Ile]
380 .. 380 C/G rs182870329 - CDS Nonsynonymous[Thr41Ser]
395 .. 395 G/A rs61729123 - CDS Nonsynonymous[Arg46Gln]
396 .. 396 A/G rs7534447 - CDS Synonymous[Arg46Arg]
541 .. 541 A/G rs35056350 - CDS Nonsynonymous[Ile95Val]
550 .. 550 A/G rs35095827 - CDS Nonsynonymous[Ile98Val]
595 .. 595 C/T rs185890200 - CDS Nonsynonymous[Arg113Trp]
604 .. 604 A/C rs201576372 - CDS Nonsynonymous[Lys116Gln]
641 .. 641 A/T rs138739288 - CDS Nonsynonymous[Asp128Val]
678 .. 678 A/G rs3754090 + CDS Synonymous[Leu140Leu]
680 .. 680 A/G rs116571578 - CDS Nonsynonymous[Gln141Arg]
724 .. 724 G/A rs202032588 - CDS Nonsynonymous[Val156Met]
744 .. 744 A/G rs142174769 - CDS Synonymous[Gly162Gly]
746 .. 746 G/A rs149082458 - CDS Nonsynonymous[Gly163Asp]
754 .. 754 A/G rs184833826 - CDS Nonsynonymous[Met166Val]
794 .. 794 G/A rs143693597 - CDS Nonsynonymous[Arg179His]
801 .. 801 G/A rs192990289 - CDS Synonymous[Pro181Pro]
814 .. 814 C/T rs146061915 - CDS Nonsynonymous[His186Tyr]
823 .. 823 G/A rs12084919 - CDS Nonsynonymous[Val189Ile]
887 .. 887 A/G rs142913195 - CDS Nonsynonymous[His210Arg]
903 .. 903 A/G rs143535962 - CDS Synonymous[Glu215Glu]
932 .. 932 C/G rs201749970 - CDS Nonsynonymous[Ala225Gly]
951 .. 951 A/G rs16846339 - CDS Synonymous[Gly231Gly]
957 .. 957 C/T rs143457273 - CDS Synonymous[Ser233Ser]
971 .. 971 A/G rs138668303 - CDS Nonsynonymous[Gln238Arg]
1010 .. 1010 C/T rs146483979 - CDS Nonsynonymous[Ala251Val]
1020 .. 1020 C/T rs202040245 - CDS Synonymous[Ile254Ile]
1045 .. 1045 A/G rs199859247 - CDS Nonsynonymous[Ile263Val]
1147 ^ 1148 -/C rs34955143 - CDS
1149 .. 1149 G/T rs201587242 - CDS Synonymous[Arg297Arg]
1150 .. 1150 G/A rs34631151 - CDS Nonsynonymous[Val298Ile]
1182 .. 1182 C/T rs142809512 - CDS Synonymous[Asp308Asp]
1185 .. 1185 G/A rs149850559 - CDS Synonymous[Ser309Ser]
1187 .. 1187 T/G rs201713614 - CDS AA-STOP[Leu310*]
1209 .. 1209 G/A rs147300158 - CDS Synonymous[Ala317Ala]
1354 .. 1354 G/T rs112890149 - CDS Nonsynonymous[Ala366Ser]
1391 .. 1391 G/A rs199638209 - CDS Nonsynonymous[Cys378Tyr]
1398 .. 1398 C/T rs200507325 - CDS Synonymous[Val380Val]
1442 .. 1442 C/G rs139575589 - CDS Nonsynonymous[Pro395Arg]
1472 .. 1472 T/G rs200066624 - CDS Nonsynonymous[Val405Gly]
1485 .. 1485 G/C rs141166869 - CDS Nonsynonymous[Arg409Ser]
1501 .. 1501 A/G rs201616896 - CDS Nonsynonymous[Thr415Ala]
1541 .. 1541 T/A rs202007160 - CDS AA-STOP[Leu428*]
1591 .. 1591 A/G rs143207798 - CDS Nonsynonymous[Ile445Val]
1617 .. 1617 T/G rs138081362 - CDS Synonymous[Ala453Ala]
1676 .. 1676 C/T rs201811533 - CDS Nonsynonymous[Thr473Ile]
1749 .. 1749 C/T rs140321757 - CDS Synonymous[Asn497Asn]
1767 .. 1767 T/G rs145277303 - CDS Synonymous[Ala503Ala]
1800 .. 1800 T/G rs201113340 - CDS Synonymous[Leu514Leu]
1849 .. 1849 A/C rs151245412 - CDS Nonsynonymous[Asn531His]
1863 .. 1863 A/G rs141045059 - CDS Synonymous[Leu535Leu]
1870 .. 1870 A/C rs147736516 - CDS Nonsynonymous[Ile538Leu]
1898 .. 1898 A/C rs144521437 - CDS Nonsynonymous[Asn547Thr]
1945 .. 1945 C/T rs183678662 - CDS AA-STOP[Arg563*]
1953 .. 1953 G/A rs149269387 - CDS Synonymous[Lys565Lys]
1965 .. 1965 C/T rs140910184 - CDS Synonymous[Pro569Pro]
1989 .. 1989 G/A rs150509891 - CDS Synonymous[Val577Val]
2013 .. 2013 A/G rs138138775 - CDS Synonymous[Ser585Ser]
2034 .. 2034 C/T rs199771667 - 3'UTR
2051 .. 2051 G/A rs143731277 - 3'UTR
2076 .. 2076 G/A rs199945670 - 3'UTR
2169 ^ 2170 -/G rs36093498 - 3'UTR
2175 .. 2175 A/G rs76700603 - 3'UTR
2210 .. 2210 C/T rs147752785 - 3'UTR
2232 .. 2232 C/G rs201381012 - 3'UTR
2256 .. 2256 A/G rs140573935 - 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