Variant report

Variant	rs10485976
Chromosome Location	chr7:21799575-21799576
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10156149	0.95[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs12672447	0.90[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs16872905	0.95[CHB][hapmap];1.00[YRI][hapmap]
rs17145200	0.95[CHB][hapmap];0.86[CHD][hapmap];0.95[MKK][hapmap];0.80[ASN][1000 genomes]
rs17145214	0.95[CHB][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs17145249	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs17145261	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs17145274	1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.92[ASN][1000 genomes]
rs17145312	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs1989904	0.84[CHB][hapmap];0.93[JPT][hapmap];1.00[MKK][hapmap]
rs1989906	0.84[CHB][hapmap];0.93[JPT][hapmap]
rs2072222	1.00[YRI][hapmap]
rs2074331	0.84[JPT][hapmap]
rs2286270	0.80[JPT][hapmap]
rs56881851	0.83[ASN][1000 genomes]
rs57038242	0.88[ASN][1000 genomes]
rs7793192	0.84[CHB][hapmap];0.93[JPT][hapmap];1.00[MKK][hapmap]
rs7796262	1.00[CHB][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018133	chr7:21740118-22055283	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1016063	chr7:21740433-21808410	Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830922	chr7:21793386-21964675	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10485976	CDCA7L	cis	cerebellum	SCAN
rs10485976	IL6	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21789400-21804800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr7:21795000-21804200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr7:21795000-21805200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr7:21796600-21810000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr7:21797600-21804400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr7:21797600-21805000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr7:21798200-21799600	Weak transcription	Gastric	stomach
8	chr7:21798600-21803400	Weak transcription	Fetal Heart	heart

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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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