Variant report

Variant	rs6556871
Chromosome Location	chr5:94778775-94778776
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1123965	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs1162859	0.87[ASN][1000 genomes]
rs13162779	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs2059786	0.95[CHB][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs2560256	0.84[ASN][1000 genomes]
rs2560275	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs2560277	0.95[CHB][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2731818	0.85[ASN][1000 genomes]
rs2731828	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2731838	0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs4573018	0.81[JPT][hapmap]
rs6556872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882388	chr5:94764006-94925849	Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6556871	TTC37	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:94776400-94781400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:94776800-94781800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:94776800-94782000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr5:94777000-94781200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr5:94777000-94798600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:94778000-94778800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr5:94778000-94783200	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr5:94778000-94783200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr5:94778200-94781400	Weak transcription	Stomach Mucosa	stomach
10	chr5:94778600-94778800	Enhancers	HUES64 Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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