Variant report

Variant	rs12354003
Chromosome Location	chr1:97233604-97233605
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:97225024..97226584-chr1:97232418..97233938,2	K562	blood:
2	chr1:97227700..97229605-chr1:97233140..97235543,2	K562	blood:

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12060538	0.88[AFR][1000 genomes]
rs12068332	0.84[AFR][1000 genomes]
rs12068453	0.82[AFR][1000 genomes]
rs12069634	0.96[ASN][1000 genomes]
rs17115756	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs720090	0.88[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][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	nsv830681	chr1:97165786-97338064	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	esv1797391	chr1:97188394-97293023	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv1801594	chr1:97188394-97293023	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12354003	CXCL11	trans	brain	seeQTL

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:97188600-97238000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:97199000-97237400	Weak transcription	Gastric	stomach
3	chr1:97200800-97282800	Weak transcription	Spleen	Spleen
4	chr1:97202600-97246400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:97207800-97240800	Weak transcription	Fetal Heart	heart
6	chr1:97213800-97281400	Weak transcription	Right Ventricle	heart
7	chr1:97215200-97244200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr1:97215400-97257800	Weak transcription	Small Intestine	intestine
9	chr1:97217800-97246000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr1:97218800-97237400	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr1:97218800-97278800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr1:97219000-97236400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr1:97219000-97237600	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr1:97219000-97239600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr1:97219000-97240200	Weak transcription	HSMMtube	muscle
16	chr1:97219000-97242800	Weak transcription	Fetal Brain Male	brain
17	chr1:97219000-97244400	Weak transcription	Psoas Muscle	Psoas
18	chr1:97219000-97244600	Weak transcription	NHLF	lung
19	chr1:97219000-97252400	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr1:97219000-97271600	Weak transcription	Esophagus	oesophagus
21	chr1:97219000-97283200	Weak transcription	Aorta	Aorta
22	chr1:97219000-97291200	Weak transcription	Pancreas	Pancrea
23	chr1:97219200-97237600	Weak transcription	Brain Angular Gyrus	brain
24	chr1:97219200-97240200	Weak transcription	Brain Anterior Caudate	brain
25	chr1:97219200-97252400	Weak transcription	Colonic Mucosa	Colon
26	chr1:97219400-97238000	Weak transcription	HMEC	breast
27	chr1:97219600-97237400	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr1:97219600-97244400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr1:97219600-97283600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr1:97219800-97270200	Weak transcription	NHEK	skin
31	chr1:97220200-97236000	Weak transcription	Primary B cells from peripheral blood	blood
32	chr1:97220400-97234600	Weak transcription	Hela-S3	cervix
33	chr1:97220800-97236000	Weak transcription	K562	blood
34	chr1:97220800-97237400	Weak transcription	Brain Substantia Nigra	brain
35	chr1:97221000-97237600	Weak transcription	Placenta	Placenta
36	chr1:97221200-97237400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr1:97221400-97237400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr1:97221600-97237400	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr1:97221600-97277000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr1:97221800-97237400	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr1:97222000-97237400	Weak transcription	Ovary	ovary
42	chr1:97222200-97237400	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr1:97222200-97237400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr1:97222200-97237600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr1:97222200-97240200	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr1:97222400-97244200	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr1:97222600-97236200	Weak transcription	Adipose Nuclei	Adipose
48	chr1:97222600-97236200	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr1:97222600-97237400	Weak transcription	Duodenum Mucosa	Duodenum
50	chr1:97222600-97237400	Weak transcription	Left Ventricle	heart

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