Variant report

Variant	rs6137920
Chromosome Location	chr20:23363436-23363437
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	chr20:23358168..23360922-chr20:23363118..23365807,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1076776	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12625160	0.90[JPT][hapmap]
rs12625164	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12625999	0.95[JPT][hapmap]
rs12626013	0.90[JPT][hapmap]
rs17757228	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17757442	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17830281	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1936011	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2277765	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2281428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2281434	1.00[CEU][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2295238	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34648279	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3736755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3746733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3746737	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3761274	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3761275	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3827085	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3827086	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55851398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56094936	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56334525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6036423	0.86[JPT][hapmap]
rs6036424	0.90[JPT][hapmap]
rs6048803	0.95[JPT][hapmap]
rs6106669	0.90[JPT][hapmap]
rs6114094	0.95[JPT][hapmap]
rs6114142	0.90[JPT][hapmap]
rs6114144	0.90[JPT][hapmap]
rs6132599	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6132600	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[JPT][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6132605	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6132606	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6132609	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6132610	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6132617	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6132621	0.90[JPT][hapmap]
rs6132622	0.90[JPT][hapmap]
rs6132623	0.90[JPT][hapmap]
rs6132631	0.86[JPT][hapmap]
rs6137901	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6137907	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6137910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6137913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137914	0.88[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137915	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137917	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6137919	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]
rs6137927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137931	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6137937	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6137938	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6137939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6137941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6137945	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6137947	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6137948	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6137950	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6137951	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6137957	0.90[JPT][hapmap]
rs6137959	0.90[JPT][hapmap]
rs6137961	0.90[JPT][hapmap]
rs6137975	0.90[JPT][hapmap]
rs761722	0.85[CEU][hapmap];0.89[JPT][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8183135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6137920	NXT1	cis	multi-tissue	Pritchard

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23344000-23392600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr20:23348000-23374200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr20:23348200-23384800	Weak transcription	Stomach Mucosa	stomach
4	chr20:23348800-23366400	Strong transcription	Dnd41	blood
5	chr20:23349600-23363600	Strong transcription	Liver	Liver
6	chr20:23349600-23366000	Strong transcription	HepG2	liver
7	chr20:23349800-23364200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr20:23350000-23363600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr20:23351200-23371000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr20:23351200-23374000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr20:23351400-23374000	Weak transcription	Fetal Brain Male	brain
12	chr20:23352200-23367800	Weak transcription	Small Intestine	intestine
13	chr20:23352800-23376400	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr20:23353000-23365400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr20:23353000-23378200	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr20:23353400-23372400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr20:23353400-23374200	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr20:23354400-23389000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr20:23354400-23399800	Weak transcription	Hela-S3	cervix
20	chr20:23354600-23374200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr20:23354600-23375200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr20:23354800-23371000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr20:23354800-23373600	Weak transcription	Colonic Mucosa	Colon
24	chr20:23356600-23365400	Weak transcription	Gastric	stomach
25	chr20:23356600-23374200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr20:23356800-23368800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr20:23357000-23371200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr20:23357200-23364200	Strong transcription	A549	lung
29	chr20:23357800-23370000	Weak transcription	Brain Substantia Nigra	brain
30	chr20:23358000-23366800	Weak transcription	K562	blood
31	chr20:23358000-23371200	Weak transcription	Esophagus	oesophagus
32	chr20:23358000-23371200	Weak transcription	NHEK	skin
33	chr20:23358000-23373600	Weak transcription	Right Ventricle	heart
34	chr20:23358000-23374400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr20:23358200-23367800	Weak transcription	NH-A	brain
36	chr20:23358200-23368600	Weak transcription	Fetal Kidney	kidney
37	chr20:23358200-23370600	Weak transcription	Pancreas	Pancrea
38	chr20:23358200-23373600	Weak transcription	Brain Angular Gyrus	brain
39	chr20:23358200-23377800	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr20:23358400-23364800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr20:23358400-23370600	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr20:23358600-23364000	Weak transcription	HUVEC	blood vessel
43	chr20:23358600-23367000	Weak transcription	Brain Hippocampus Middle	brain
44	chr20:23358600-23367400	Weak transcription	HSMM	muscle
45	chr20:23358600-23372400	Weak transcription	HMEC	breast
46	chr20:23358800-23370200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr20:23359000-23371200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr20:23359600-23364200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr20:23359600-23366200	Strong transcription	Fetal Intestine Large	intestine
50	chr20:23360000-23364200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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