Variant report

Variant	rs10772356
Chromosome Location	chr12:10872216-10872217
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr12:10872140-10872380	MCF10A-Er-Src	breast:	n/a	n/a
2	MYC	chr12:10872075-10872448	MCF10A-Er-Src	breast:	n/a	n/a
3	CHD1	chr12:10868107-10877330	IMR90	lung:	n/a	chr12:10876048-10876055 chr12:10875983-10875993
4	POLR2A	chr12:10869253-10877276	MCF10A-Er-Src	breast:	n/a	n/a
5	POLR2A	chr12:10872114-10872421	Hela-S3	cervix:	n/a	n/a
6	STAT3	chr12:10872067-10872653	MCF10A-Er-Src	breast:	n/a	chr12:10872152-10872159 chr12:10872625-10872639
7	STAT3	chr12:10872100-10872383	MCF10A-Er-Src	breast:	n/a	chr12:10872152-10872159
8	POLR2A	chr12:10869210-10877464	MCF10A-Er-Src	breast:	n/a	n/a
9	FOS	chr12:10871912-10872219	MCF10A-Er-Src	breast:	n/a	chr12:10872014-10872026

No.	Distal block	Cell Line	Cell type
1	chr12:10759145..10761455-chr12:10871214..10872721,2	K562	blood:
2	chr12:10867078..10869810-chr12:10870814..10872869,3	K562	blood:
3	chr12:10870598..10876467-chr12:10900594..10904029,6	MCF-7	breast:
4	chr12:10863211..10865796-chr12:10871500..10873321,2	MCF-7	breast:

Variant related genes	Relation type
YBX3	TF binding region
ENSG00000256888	Chromatin interaction
ENSG00000060138	Chromatin interaction
ENSG00000111196	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10492348	0.85[ASN][1000 genomes]
rs10772353	0.85[ASN][1000 genomes]
rs10772354	0.86[ASN][1000 genomes]
rs10845210	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1126501	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12231922	0.86[YRI][hapmap]
rs12581589	0.85[ASN][1000 genomes]
rs7958178	0.85[ASN][1000 genomes]
rs797168	0.92[CEU][hapmap];0.82[CHB][hapmap];0.86[CHD][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs797169	0.84[EUR][1000 genomes]
rs7973160	0.85[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10772356	KLRC1	cis	cerebellum	SCAN
rs10772356	A2ML1	cis	cerebellum	SCAN

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10849600-10873600	Weak transcription	Brain Angular Gyrus	brain
2	chr12:10850000-10873800	Weak transcription	Fetal Brain Male	brain
3	chr12:10852400-10873600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr12:10854800-10873600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr12:10862800-10873600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr12:10862800-10874400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr12:10862800-10874600	Weak transcription	Spleen	Spleen
8	chr12:10863400-10873600	Weak transcription	Colonic Mucosa	Colon
9	chr12:10863400-10873600	Weak transcription	Lung	lung
10	chr12:10863400-10874200	Weak transcription	Gastric	stomach
11	chr12:10866000-10874200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr12:10867000-10873600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr12:10868400-10872400	Weak transcription	Duodenum Mucosa	Duodenum
14	chr12:10868600-10874400	Flanking Active TSS	HUVEC	blood vessel
15	chr12:10868800-10873600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr12:10868800-10873800	Enhancers	Placenta Amnion	Placenta Amnion
17	chr12:10869000-10872800	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr12:10869000-10873000	Weak transcription	Thymus	Thymus
19	chr12:10869000-10873400	Weak transcription	Primary T cells from cord blood	blood
20	chr12:10869000-10873600	Enhancers	Rectal Smooth Muscle	rectum
21	chr12:10869000-10874600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr12:10869200-10872400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr12:10869200-10873000	Weak transcription	Primary B cells from peripheral blood	blood
24	chr12:10869400-10872400	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr12:10869400-10872400	Weak transcription	K562	blood
26	chr12:10869400-10873400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr12:10869400-10873600	Enhancers	Stomach Mucosa	stomach
28	chr12:10869400-10873800	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr12:10869600-10872800	Flanking Active TSS	NHEK	skin
30	chr12:10869600-10874000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr12:10870000-10873000	Weak transcription	Liver	Liver
32	chr12:10870000-10873200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr12:10870200-10873800	Enhancers	Fetal Heart	heart
34	chr12:10870400-10872400	Weak transcription	Primary B cells from cord blood	blood
35	chr12:10870400-10872400	Weak transcription	Brain Substantia Nigra	brain
36	chr12:10870400-10873000	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr12:10870400-10873000	Weak transcription	Fetal Intestine Large	intestine
38	chr12:10870400-10873000	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr12:10870400-10873400	Enhancers	Colon Smooth Muscle	Colon
40	chr12:10870400-10873600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr12:10870400-10873600	Weak transcription	Placenta	Placenta
42	chr12:10870400-10877000	Active TSS	Psoas Muscle	Psoas
43	chr12:10870800-10872400	Weak transcription	Brain Hippocampus Middle	brain
44	chr12:10871000-10873000	Weak transcription	Primary monocytes fromperipheralblood	blood
45	chr12:10871000-10873400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr12:10871200-10872800	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr12:10871200-10873600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr12:10871200-10873600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr12:10871200-10873600	Weak transcription	Fetal Muscle Trunk	muscle
50	chr12:10871200-10873600	Weak transcription	Sigmoid Colon	Sigmoid Colon

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