Variant report

Variant	rs212935
Chromosome Location	chr6:25538471-25538472
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25534152..25536641-chr6:25537227..25540141,3	K562	blood:
2	chr6:25538048..25539877-chr6:25540904..25543007,2	K562	blood:

Extended variants
information (count: 50 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10456322	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10456323	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11752017	1.00[JPT][hapmap]
rs11759560	1.00[JPT][hapmap]
rs11759648	1.00[JPT][hapmap]
rs12191432	1.00[JPT][hapmap]
rs12192331	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12192342	1.00[JPT][hapmap]
rs12195457	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12201249	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12203031	1.00[JPT][hapmap]
rs12203442	1.00[JPT][hapmap]
rs12207791	1.00[JPT][hapmap]
rs12208868	1.00[JPT][hapmap]
rs12211739	1.00[JPT][hapmap]
rs1410443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs150533	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs184202	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1883257	1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1884575	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs212927	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212931	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212932	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212937	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212940	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs301376	0.81[ASN][1000 genomes]
rs301377	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs301388	0.81[ASN][1000 genomes]
rs441472	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs443641	0.81[ASN][1000 genomes]
rs453181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs485567	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs56285037	0.81[ASN][1000 genomes]
rs6902158	1.00[JPT][hapmap]
rs6913169	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6918563	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6927384	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6931843	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs716796	1.00[JPT][hapmap]
rs72839085	0.81[AMR][1000 genomes]
rs72840515	0.81[EUR][1000 genomes]
rs7741026	0.81[EUR][1000 genomes]
rs7742338	1.00[JPT][hapmap]
rs9348685	1.00[JPT][hapmap]
rs9379774	1.00[JPT][hapmap]
rs9461151	1.00[JPT][hapmap]
rs9461190	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9467544	0.82[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs212935	LRRC16	cis	normal skin	skin_eQTL
rs212935	LRRC16	cis	lesional skin	skin_eQTL

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25471600-25597200	Weak transcription	Gastric	stomach
2	chr6:25490400-25543000	Weak transcription	Hela-S3	cervix
3	chr6:25494000-25551400	Weak transcription	Left Ventricle	heart
4	chr6:25509800-25548600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr6:25514200-25542600	Weak transcription	Adipose Nuclei	Adipose
6	chr6:25514200-25558400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:25514400-25541600	Weak transcription	Colonic Mucosa	Colon
8	chr6:25515000-25538600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr6:25516200-25547000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:25516200-25556800	Weak transcription	Pancreas	Pancrea
11	chr6:25516400-25556800	Weak transcription	Fetal Stomach	stomach
12	chr6:25516600-25539600	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr6:25516600-25544000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:25516800-25545200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:25516800-25606400	Weak transcription	Lung	lung
16	chr6:25517000-25542200	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr6:25517400-25540200	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:25517400-25542200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr6:25519000-25540000	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr6:25519000-25540000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:25519800-25543200	Weak transcription	Primary hematopoietic stem cells	blood
22	chr6:25519800-25556800	Weak transcription	Ovary	ovary
23	chr6:25521600-25541000	Weak transcription	HSMMtube	muscle
24	chr6:25521600-25541000	Weak transcription	NHEK	skin
25	chr6:25522200-25545400	Weak transcription	Small Intestine	intestine
26	chr6:25522400-25538600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr6:25522400-25588600	Weak transcription	HMEC	breast
28	chr6:25522800-25540000	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr6:25523000-25550600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr6:25523000-25577200	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:25523200-25541400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:25523400-25544200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:25525000-25538600	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr6:25527800-25540400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:25530600-25539000	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr6:25530800-25584200	Weak transcription	Fetal Intestine Small	intestine
37	chr6:25533000-25541400	Strong transcription	Primary T cells from cord blood	blood
38	chr6:25533600-25539000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr6:25534400-25538600	Strong transcription	Rectal Mucosa Donor 31	rectum
40	chr6:25535000-25541800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:25535200-25539000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:25535200-25542000	Weak transcription	Placenta	Placenta
43	chr6:25536600-25542000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr6:25536800-25542200	Weak transcription	Brain Cingulate Gyrus	brain
45	chr6:25537600-25538600	Enhancers	Monocytes-CD14+_RO01746	blood
46	chr6:25537600-25541200	Strong transcription	Duodenum Mucosa	Duodenum
47	chr6:25537600-25541600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr6:25537800-25538600	Enhancers	Primary B cells from peripheral blood	blood
49	chr6:25537800-25540600	Weak transcription	GM12878-XiMat	blood
50	chr6:25537800-25540800	Strong transcription	Fetal Intestine Large	intestine

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