Variant report

Variant	rs6137914
Chromosome Location	chr20:23358364-23358365
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:23349924..23351887-chr20:23357780..23360381,2	K562	blood:
2	chr20:23357022..23358701-chr20:23368809..23370316,2	MCF-7	breast:
3	chr20:23358168..23360922-chr20:23363118..23365807,2	K562	blood:
4	chr20:23342744..23345940-chr20:23355665..23360192,5	K562	blood:
5	chr20:23341905..23344244-chr20:23356684..23358991,2	K562	blood:
6	chr20:23358185..23360122-chr20:23400361..23402630,2	K562	blood:

Variant related genes	Relation type
ENSG00000125812	Chromatin interaction
ENSG00000125814	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1076776	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12625164	0.88[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17757228	0.88[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17757442	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17830281	0.88[CEU][hapmap];0.86[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]
rs1936011	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];0.91[ASN][1000 genomes]
rs2277765	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2281428	0.88[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2281434	0.85[CEU][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2295238	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34648279	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3736755	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3746733	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3746737	0.88[CEU][hapmap];0.89[JPT][hapmap];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3761274	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3761275	0.86[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3827085	0.88[CEU][hapmap];0.92[CHB][hapmap];0.84[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3827086	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55851398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56094936	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56334525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6132599	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6132600	0.88[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6132605	0.88[CEU][hapmap];0.86[CHB][hapmap];0.83[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6132606	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6132609	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6132610	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6132617	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6137901	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6137907	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6137910	0.86[CEU][hapmap];0.86[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]
rs6137913	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6137915	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6137917	0.88[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6137919	0.88[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6137920	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]
rs6137927	0.88[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6137929	0.88[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6137930	0.88[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6137931	0.88[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6137936	0.86[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6137937	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6137938	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6137939	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6137941	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6137945	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6137947	0.88[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6137948	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6137950	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6137951	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs761722	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8183135	0.88[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6137914	NXT1	cis	multi-tissue	Pritchard

Chromatin state (count:127 , 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	chr20:23344800-23362400	Strong transcription	HUES64 Cell Line	embryonic stem cell
3	chr20:23345000-23361800	Strong transcription	Fetal Thymus	thymus
4	chr20:23345000-23362000	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr20:23345000-23362600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr20:23346600-23363200	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr20:23346800-23362600	Weak transcription	Right Atrium	heart
8	chr20:23347200-23362400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
9	chr20:23347400-23362000	Strong transcription	Rectal Mucosa Donor 29	rectum
10	chr20:23347600-23358600	Strong transcription	Primary T cells from cord blood	blood
11	chr20:23347800-23362000	Strong transcription	Rectal Mucosa Donor 31	rectum
12	chr20:23347800-23362200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr20:23347800-23362600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr20:23348000-23374200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr20:23348200-23384800	Weak transcription	Stomach Mucosa	stomach
16	chr20:23348400-23362000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
17	chr20:23348600-23358800	Strong transcription	Primary B cells from peripheral blood	blood
18	chr20:23348600-23362400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr20:23348600-23363000	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr20:23348800-23362000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr20:23348800-23363000	Strong transcription	GM12878-XiMat	blood
22	chr20:23348800-23366400	Strong transcription	Dnd41	blood
23	chr20:23349000-23358800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr20:23349200-23359000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr20:23349200-23359000	Strong transcription	Fetal Muscle Trunk	muscle
26	chr20:23349200-23359200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr20:23349200-23359400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr20:23349200-23360400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr20:23349200-23363000	Strong transcription	Adipose Nuclei	Adipose
30	chr20:23349400-23358800	Strong transcription	Left Ventricle	heart
31	chr20:23349400-23359000	Strong transcription	Fetal Muscle Leg	muscle
32	chr20:23349400-23363200	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr20:23349600-23358600	Strong transcription	HSMM	muscle
34	chr20:23349600-23358800	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr20:23349600-23358800	Strong transcription	Stomach Smooth Muscle	stomach
36	chr20:23349600-23358800	Strong transcription	NHLF	lung
37	chr20:23349600-23359000	Strong transcription	Brain Anterior Caudate	brain
38	chr20:23349600-23359000	Strong transcription	Duodenum Mucosa	Duodenum
39	chr20:23349600-23363600	Strong transcription	Liver	Liver
40	chr20:23349600-23366000	Strong transcription	HepG2	liver
41	chr20:23349800-23358600	Strong transcription	Muscle Satellite Cultured Cells	--
42	chr20:23349800-23362000	Strong transcription	H1 Cell Line	embryonic stem cell
43	chr20:23349800-23362800	Strong transcription	Osteobl	bone
44	chr20:23349800-23363000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr20:23349800-23364200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr20:23350000-23358800	Strong transcription	Brain Germinal Matrix	brain
47	chr20:23350000-23363000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr20:23350000-23363600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr20:23350400-23362600	Strong transcription	Placenta	Placenta
50	chr20:23351200-23371000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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