Variant report

Variant	rs9257931
Chromosome Location	chr6:29622195-29622196
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	CTCF	chr6:29622120-29622270	AoAF	blood vessel:	n/a	n/a
2	CTCF	chr6:29622080-29622230	HUVEC	blood vessel:	n/a	n/a
3	CTCF	chr6:29622160-29622310	HPAF	blood vessel:	n/a	n/a
4	CTCF	chr6:29622100-29622250	HAc	cerebellar:	n/a	n/a
5	CTCF	chr6:29622100-29622250	AG04450	lung:	n/a	n/a
6	CTCF	chr6:29622180-29622330	HA-sp	spinal cord:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:29619657..29623284-chr6:29624891..29627355,4	K562	blood:
2	chr6:29619566..29622372-chr6:29653366..29655066,2	MCF-7	breast:

Variant related genes	Relation type
MOG	TF binding region
ENSG00000204655	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1122947	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1984840	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2079898	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2262263	0.81[ASN][1000 genomes]
rs2517913	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2535245	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2535246	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2535260	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2735063	0.81[EUR][1000 genomes]
rs2747425	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2747453	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2747455	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs29231	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29273	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2982837	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3095287	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3129041	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3129074	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3129087	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3129090	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131879	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131881	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131882	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6456993	0.83[EUR][1000 genomes]
rs6941117	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7738159	0.81[ASN][1000 genomes]
rs7774576	0.81[ASN][1000 genomes]
rs7776296	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258093	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9258094	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258102	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258106	0.81[ASN][1000 genomes]
rs9258111	0.81[ASN][1000 genomes]
rs9258114	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258126	0.82[EUR][1000 genomes]
rs9258127	0.82[EUR][1000 genomes]
rs9258131	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv527037	chr6:29615822-29624112	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29617800-29622800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:29618000-29623200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:29618000-29624000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:29618400-29623200	Weak transcription	Left Ventricle	heart
5	chr6:29618400-29623200	Weak transcription	GM12878-XiMat	blood
6	chr6:29618400-29623400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:29618400-29624000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:29618400-29624000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:29618400-29624600	Weak transcription	Right Atrium	heart
10	chr6:29618400-29629000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:29618400-29629600	Weak transcription	Right Ventricle	heart
12	chr6:29618600-29623200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:29618600-29624600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:29619800-29623200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:29620000-29628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr6:29620000-29631200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr6:29620200-29622800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr6:29620200-29622800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr6:29620200-29624200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:29620600-29626600	Enhancers	Fetal Heart	heart
21	chr6:29620800-29623200	Enhancers	Brain Hippocampus Middle	brain
22	chr6:29620800-29624000	Enhancers	Brain Angular Gyrus	brain
23	chr6:29621000-29624000	Enhancers	Brain Substantia Nigra	brain
24	chr6:29621000-29625000	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr6:29621400-29623400	Enhancers	Brain Anterior Caudate	brain
26	chr6:29621600-29622400	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr6:29621600-29624000	Enhancers	Brain Cingulate Gyrus	brain
28	chr6:29621800-29623000	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr6:29621800-29625000	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr6:29622000-29624200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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