Variant report

Variant	rs7939460
Chromosome Location	chr11:93393196-93393197
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
KIAA1731	TF binding region
ENSG00000166012	Chromatin interaction
ENSG00000182919	Chromatin interaction
ENSG00000166004	Chromatin interaction
ENSG00000042429	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10160552	0.89[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10765620	0.89[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10831089	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10831091	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10831093	0.90[ASW][hapmap];0.89[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.87[LWK][hapmap];0.84[MKK][hapmap];0.98[TSI][hapmap];0.88[YRI][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1939565	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1944104	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4146891	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61229806	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6483261	0.82[EUR][1000 genomes]
rs6483262	0.89[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.95[EUR][1000 genomes]
rs7105804	0.89[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7119996	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7950893	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898181	chr11:93072843-93662459	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv898182	chr11:93381845-93637462	Strong transcription Genic enhancers Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	108 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7939460	C11orf54	cis	normal skin	skin_eQTL
rs7939460	C3orf37	trans	lymphoblastoid	seeQTL
rs7939460	C11orf54	cis	lymphoblastoid	seeQTL

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93389000-93393800	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr11:93389200-93393800	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr11:93389200-93394000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr11:93389400-93394000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr11:93389400-93394000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr11:93389400-93394200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr11:93389600-93394200	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr11:93389600-93394200	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr11:93389600-93394200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr11:93389600-93394200	Weak transcription	Fetal Thymus	thymus
11	chr11:93389600-93394200	Weak transcription	Thymus	Thymus
12	chr11:93389600-93394200	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr11:93389800-93394000	Weak transcription	Primary T cells from cord blood	blood
14	chr11:93390200-93393800	Weak transcription	Dnd41	blood
15	chr11:93391800-93394400	Weak transcription	Fetal Brain Male	brain
16	chr11:93392200-93394400	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr11:93392400-93394400	Weak transcription	Aorta	Aorta
18	chr11:93393000-93393200	Enhancers	Brain Anterior Caudate	brain

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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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