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BUILD 130
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Reference SNP(refSNP) Cluster Report: rs7892988          
RefSNP
Organism:human (Homo sapiens)
Molecule Type:Genomic
Created/Updated in build:116/130
Map to Genome Build:36.3
Allele
Variation Class:SNP:
single nucleotide polymorphism
RefSNP Alleles:C/T
Ancestral Allele:T
Clinical Association:unknown
HGVS Names
NT_011875.11:g.893669C>T
Links

SNP Details are organized in the following sections:
Submission Fasta Resource GeneView Map Diversity Validation

  Submitter records for this RefSNP Cluster back to top
The submission ss12058337 has the longest flanking sequence of all cluster members and was used to instantiate sequence for rs7892988 during BLAST analysis for the current build.

NCBI
Assay ID		Handle|Submitter IDValidation
Status		ss to rs
Orientation
/Strand		Alleles5' Near Seq 30 bp3' Near Seq 30 bpEntry
Date		Update
Date		Build
Added		Molecule
Type		Freq
Warning		Ancestral
Allele		Success
Rate
ss12058337WI_SSAHASNP|chrY.NT_011875.9_893669fwd/BC/Tgcacgattaaatattttgattgttggtattgcaagcctgatggcaaccttaatccaaaaa07/04/0310/10/03116Genomicunknown
ss17301918CSHL-HAPMAP|CSHL-HuAA-200402.chrY.NT_011875.10_893669fwd/BC/Tgcacgattaaatattttgattgttggtattgcaagcctgatggcaaccttaatccaaaaa02/17/0403/04/04120Genomicunknown
ss22884131SSAHASNP|WGSA-200403-chrY.chrY.NT_011875.10_893669fwd/BC/Tgcacgattaaatattttgattgttggtattgcaagcctgatggcaaccttaatccaaaaa03/22/0403/22/04121Genomicunknown
ss80550514HGSV|Cor18507_SNV_20070510.chrY_13130984fwd/BC/Tgcacgattaaatattttgattgttggtattgcaagcctgatggcaaccttaatccaaaaa11/23/0711/26/07130Genomicunknown
ss105778235BGI|BGI_rs7892988fwd/BC/Tgcacgattaaatattttgattgttggtattgcaagcctgatggcaaccttaatccaaaaa09/10/0806/19/09130Genomicunknown
ss115581759ILLUMINA-UK|NA18507_000000911_NCBI36.1_chrY_13202247fwd/BC/Tgcacgattaaatattttgattgttggtattgcaagcctgatggcaaccttaatccaaaaa01/15/0901/15/09130Genomic99 %

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|rs7892988|allelePos=205|totalLen=5344|taxid=9606|snpclass=1|alleles='C/T'|mol=Genomic|build=130
 TATGTTTTTA AAGCAACTCT ATTAATTATT TACAAACTAT GTACTGGAAA ATTTCTTAAG
 ATAATGGGAT TTTTTTAAAT ATCAAAATAA AGTTCTGCCT TATGCTAATG TGCTCAGATA
 TTTGGATATG TTTGATCACA GCACTAGAAT TTGTCAAAGA TATAACCAAA AATGGCACGA
 TTAAATATTT TGATTGTTGG tatt
 Y
 gcaagcctga tggcaacctt aatccaaaaa tcataacata gatacacaaa aaataaaaag
 aaagaaattt aagtcatgtc accagagaaa atcaacttcg ctagaggcag acaggaagga
 cagaaagaaa agcaggaaga ccatgaaaca accagaaaaa aatataacaa aatagcagga
 ggaaatcctt acttatcaat aacattgagt ataaatgaac taaactctct aatcaaaagc
 catagtctag ctgaatgaat gaaaaacaag acccatttat ctgtttccca caggtaacac
 acttcaccta tataaaaaca catgtatact aaaaataaag aaatgaataa aagatatacc
 aagtcaatgg aaacaaaaaa gaagcaggac tcactctcaa tatagatttc aagacaggaa
 ccataagaag agacatagaa tatcactata aaaagataat agggtcaatt caGCAAGatt
 ttaaattttt taacttaatt gttgtttaat tgttaaaaat tttaaattGT TCAAATTTat
 ttaacaattt taaataaaca tgcacgcaac actggagtac ccaggtatat aaagaaacta
 ctattcatga taaagagaga gactggcccc agtacagtaa tagctagaga tttcaacact
 tcattttcag gtctagacag atcttccaga cagaaaatca acaacgaatc atcagattta
 atctgcagta ttgaccaaat aaattgaatt aatatttgca gaatatttca cccaagaact
 tcaaaatttc tactcttttt ctcagcacat gggttattct caaggataga ccacatgtta
 tatgtggtaa cacattcgta acacattcaa aaacttggaa atactttttt ttgcagttaa
 tatcaagcat tctctctgac cacagtggaa taaaattaga aattaaaaac aaaaggaatt
 ttggaaatta tacaactaag tagacattaa acaattggct ccttaaAAGG TACtttcatt
 tacaatagcc acacataaaa ttagatatct aaaaattaac caaataagtg aaagagctcc
 ataataaaac ttataaaaca ctgatgaaac aaattgaaga gaacaccaaa aatgaaagaa
 tatttcatgt tcatagattg aaagaatcaa cattgttgaa agtgcctata ctacccaaag
 caatctatag attcaatgca atccatataa aaatatcaat aatggccagg ggcagtggct
 cacacctgta atcccagcac tttgggaagt caagacagtc agatcacctg aggtcaggag
 tttgagacca gcccgaccaa aatggagaaa ccccctctct actaaaaata tacaaagtta
 gccaggtgtg gtggcatatg cccgtaatcc tagctcctta ggaggctgag gcaggagaat
 tgcttgaacc cagaaggcgg atgttgcagt gagccaaaat cgagattgca ccattacttt
 ccagcctggg caacaaaagc aaaactcaat ctttaaaaaa aaaaaaaaaa tcagtaatat
 tcttcacaga aatagaaaaa aaatcctaaa atcctaaaat ttatttattt ttgagataga
 gtctcacttt gttgcccagg ctggagtgca atgatatgat tgcagctcac tgcaaccact
 gcctcctggg ttcaagtgat tttcctgcct cagtctcctg agtagttggg actccaggca
 catgctacca cactcaacta atttttgtat ttttaattag agatgggctt tcaccatgtt
 ggccaggctg gtctcaaact cctgacctca ggtgaccacc aacctcagcc tcccaacatc
 ctggggttac aggcataagc cactgcacct agttataaaa cttatgtgaa aacacaaaag
 acttaatagt caaaaatagc caaagcaaaa agaataaagc aggaggcatt gccttacctg
 acttcaaatt atactactta gccatagtaa ccaaaatacc atgttactgg catcaaaaca
 gacacataga ccaatggaac aggatacgga acccaaaaac aaatctacac acctacagtg
 aactagtttt tgacaaagat gccaagaaca tacattggag aaatgacaat ctcttcaata
 aatggtgctc gaaaaactgg atatgcacat gcagaagaaa gagactagac ccccatctat
 tgccatatat aaaaatcaaa tcaaaatgaa ttaaagattt aaatctaagg tctcaaatca
 ttagactact acaaaaaaaa ttggtaaaaa tctccaggac atgagcctag gcaaaaattt
 cttttgcaat accccacaag cataggcaac caaagcaaaa atgaataaat ggaatcacat
 ccagttaaaa agcaatgata gactgaataa agaaaatgtg gtacatatgt accatggaat
 actaggcagc catagaaaag aatgagatca aatccttttc aggaacatgg atggagttgg
 aggccattat ccttagcaaa ctaaaacggg aacagaaaac caaatacagc atgtactcac
 ttatgagtgg gagctaaatg atgagaacac ctgggcacat agaggggatt gacacacact
 agggcctttt ggatcatgga gggtgggagg agggtgagaa gcaggaaaaa taactaatgg
 gtactgggct taatacctgt gtgatgaaat aatctctaca acaaacccca tgagagaaat
 ttacctgtgt aacaaacttg tacttgtaac cctgaacata aaatttaaag aaataaaata
 attaaaaata aaaaccttct gcacagaaaa ggaaacagtc aacaaagtga agagacaacc
 cacagaatag aagaaaatat ttgcaaacta cccatctgac aaagcattaa ttaccagcat
 atataaatag ctcaaacaac tctataggga aaaaaaaatc taacaatctg ataaaaaaaa
 tgcataaaag atttaaatag acgtttctca gaggaagaca tacaaagggc aaacaggcat
 gtgaagatgt gctcaatatc attgatcacc caagaaatgt aaatcaaaac cacaatgaga
 tatcatccta ccttagttaa aatggtttat atacaaaaga caggcagtaa taaatgctgg
 tgaggatgtg gagaaaggga accctcatat aagttggagc taatgtaaaa tgcaaattag
 tacaaccact atggagaaca gttggagggt cctcaaaaaa aaaataaaaa taaaaataaa
 aactgaaact tgagatacca tatgactcag agtcctactg ctgagtatat acccaaaaga
 atggaaattc atatattgaa gagatatcta cactcctgtt tgttttagca ttgtttacaa
 tagataagat ttgcaagcaa cctaagtgtc catcagcaga tgaatggata aagaaaatgt
 agtggctggc catggtggct cacacctgta atcccagcac tttgggaggc cgaggcaggg
 ggatcacgag gtcaggagtt cgagaccagg ctggccaata tggtgtcacc ccgtatctac
 taaaaaatac aaaaattagc caggtgtggt ggtgagcacc tgtagtccca gctactgggg
 aggctgaggc aagagaatcg cttgaaccag ggaggcagac tgttgcagtg agctgagatc
 atgccactgc actccagcct gggcaacaga gtgagacttt gtctcaaaaa aaaaaaaaaa
 aaaaaaaaaa aaaaacagaa agaaaagaaa atgtggtaca tatacacaat gaagtactat
 tcagccataa aaaaaaataa gatccagtca tttgcaacaa gataaataga acgggacatc
 atgttaagtg aaatgaacca ggcacagaat aacaaacatc acatgttctc actaattact
 gggatctgaa aaatcataac aattgagcac atgaacatag agaatagaag gatTGggcca
 gtcatggtgg ctcacacctg taatcccagt actttgggag gccaaggaag tcagattgct
 caagtccagg actttgagac cagcctgagc aacatagtga aatgccatct ctactaaaca
 tacaaaaatg agccaagcat ggtggtgcac acctgcagtc ccagctactt tgcaggctga
 ggtgaaagaa tcatctgagc ctccagaggt cgtagctgca gtgagccaag atcacaccat
 ttcactccac ccttggcgac ataatgagac cctgattcaa aaaggaaaCG GAGAGAGAGG
 Agagagagag agtaggcaga tggttgccag aggctgggaa aggtagtggg agtctcagca
 gggagatgga ggtgattaat cagtaccaaa aaaaatagtt aaaaaaaatt aataacatct
 agtatttgat agcagaacca gatgactata atcaataata acataattat atatttttaa
 ataacttaaa gagtataatt ggggctggga atggtggttc atgcctataa tcccaggact
 ttgggagtcc aaggtggcca gatcacctga ggtcaggagt tcaggaccag cctggccaac
 atggtgaaac cctgtctcta ctaaaaaata caaaattagc caggcatggt ggtgggcacc
 tgtaatccca gctactcagg aggctgagac aggagaattg cttgaacctg ggaggtggag
 gttgcggtga gccaggatag caccattgta atccagcctg ggcgacaaga gtgaaactcc
 atctctaaaa aagaagagta aaatttgatt gtttgtaaca ccaaagataa atgcttaggg
 aatggacacc tcctactcca tgatgtgctt atttaacatt gcatgcccct atcaaaacat
 cttatatacc ccataaatag atacctctac tatacaccca caaaaactaa aTAAAAATAA
 ATAAATATAT TGATTTCTGT ATTTGGGTAA TACATACTGT ATGATAAATA GACAATAAAT
 ATAATGATAA AATGAGACAA TTTCATTAAT TCACATCAAT TATAAAGACT CTAAGATATT
 TGCACACAGA ACCTTAAAAA ATTAATTGTC AAATACCTT

  GeneView back to top

GeneView via analysis of contig annotation:  

View more variation on this gene (click to hide).
Include clinically associated: in gene region cSNP has frequency double hit
Assembly SNP to Chr Chr Chr position Contig Contig position Allele
Function mRNA Protein
mRNA to Chr Accession Position Allele change Accession Position Residue change
on assembly: is labeled at position on chromosome .

GeneView via analysis of contig annotation: N/A.

GeneView via direct blast against RefSeq sequences (used when no gene model is available):

Function Chr mRNA Protein
SNP to mRNA Accession Position Allele change Accession Position Residue change
on assembly: is labeled at position on chromosome .

GeneView via direct blast against RefSeq sequences (used when no gene model is available): N/A


  Integrated Maps: back to top
Genome Build Chr Chr Pos Contig Contig Pos SNP to
Chr		 Contig
allele		 Group term Group label Contig label Neighbor
SNP		 Map Method
doesn't map to any assembly.

  NCBI Resource Links back to top
Resource
Submitter-Referenced
GenBank
NT_011875
dbSNP Blast Analysis

  Population Diversity back to top
There is no frequency data.

  Validation Summary: back to top
Validation status Marker displays
Mendelian segregation		 PCR results confirmed
in multiple reactions		 Homozygotes detected
in individual genotype data
byCluster UNKNOWN UNKNOWN UNKNOWN

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Revised: May 25, 2006 1:38 PM .