Variant report

Variant	rs1362231
Chromosome Location	chr7:33483258-33483259
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1008582	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10228013	0.94[EUR][1000 genomes]
rs10250045	0.82[CEU][hapmap]
rs10268074	0.83[CEU][hapmap];0.85[TSI][hapmap]
rs10279081	0.82[CEU][hapmap]
rs10951383	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs12155105	0.85[CEU][hapmap]
rs12537278	0.83[CEU][hapmap];0.85[TSI][hapmap]
rs12671191	0.83[CEU][hapmap]
rs1419898	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs1592465	0.83[CEU][hapmap]
rs2024430	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs6976311	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs6976753	0.87[EUR][1000 genomes]
rs764041	0.83[CEU][hapmap]
rs7778657	0.82[CEU][hapmap]
rs7779367	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv606610	chr7:33218763-33486316	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1016416	chr7:33241443-33559477	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv916660	chr7:33272493-33506384	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv830944	chr7:33389892-33549882	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv934287	chr7:33470390-33512880	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv933237	chr7:33470390-33574046	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1362231	BBS9	cis	parietal	SCAN
rs1362231	RAB31	trans	lymphoblastoid	seeQTL
rs1362231	C7orf41	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:33475400-33516000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr7:33477600-33483600	Weak transcription	Psoas Muscle	Psoas
3	chr7:33481800-33489000	Enhancers	Fetal Lung	lung
4	chr7:33483200-33484200	Enhancers	Brain Germinal Matrix	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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