Variant report

Variant	rs9397722
Chromosome Location	chr6:150502047-150502048
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:150494832..150497626-chr6:150501438..150503666,2	K562	blood:
2	chr6:150500271..150503128-chr6:150513196..150516090,3	MCF-7	breast:
3	chr6:150500428..150502661-chr6:150644242..150645820,2	K562	blood:
4	chr6:150495241..150496949-chr6:150500349..150502096,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs12204657	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12215988	0.85[CEU][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes]
rs1358727	0.92[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2038773	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2038774	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4289668	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905409	0.84[MEX][hapmap]
rs6927415	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9371344	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9371803	0.90[CHB][hapmap]
rs9383711	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9383714	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9384220	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs9384225	0.92[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9397193	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9397726	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9479861	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9479881	0.85[CEU][hapmap];0.85[GIH][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9397722	MYCT1	cis	parietal	SCAN
rs9397722	VIP	cis	cerebellum	SCAN

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150491400-150506400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:150497200-150502400	Enhancers	Left Ventricle	heart
3	chr6:150497800-150511000	Weak transcription	NHEK	skin
4	chr6:150499600-150503600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:150499600-150504600	Weak transcription	Colonic Mucosa	Colon
6	chr6:150499600-150505200	Weak transcription	Right Ventricle	heart
7	chr6:150499600-150506000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:150499600-150519600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:150499800-150503400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:150500000-150502400	Enhancers	K562	blood
11	chr6:150500000-150508000	Enhancers	Fetal Heart	heart
12	chr6:150500200-150503600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:150501600-150502200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:150501800-150502400	Enhancers	Right Atrium	heart
15	chr6:150501800-150502600	Enhancers	Psoas Muscle	Psoas
16	chr6:150501800-150503400	Enhancers	Fetal Brain Male	brain
17	chr6:150502000-150502200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:150502000-150502600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr6:150502000-150503600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:150502000-150503600	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr6:150502000-150503800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr6:150502000-150506400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:150502000-150506400	Weak transcription	Esophagus	oesophagus
24	chr6:150502000-150506400	Weak transcription	HMEC	breast

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