Variant report

Variant	rs10742746
Chromosome Location	chr11:45198688-45198689
allele	C/T
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	NFIC	chr11:45198463-45198928	SK-N-SH	brain:	n/a	chr11:45198723-45198740 chr11:45198724-45198740
2	MAZ	chr11:45198680-45198692	Hela-S3	cervix:	n/a	n/a
3	NFIC	chr11:45198353-45199176	ECC-1	luminal epithelium:	n/a	chr11:45198723-45198740 chr11:45198724-45198740
4	NFIC	chr11:45198381-45199059	SK-N-SH	brain:	n/a	chr11:45198723-45198740 chr11:45198724-45198740
5	NFIC	chr11:45198415-45199102	ECC-1	luminal epithelium:	n/a	chr11:45198723-45198740 chr11:45198724-45198740
6	GTF2F1	chr11:45198526-45198756	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:45198038..45200722-chr11:45201190..45202692,2	MCF-7	breast:
2	chr11:45196994..45199471-chr11:45201318..45203676,2	K562	blood:
3	chr11:45197003..45199885-chr11:45200062..45203295,4	MCF-7	breast:

Variant related genes	Relation type
PRDM11	TF binding region
ENSG00000019485	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10742744	0.85[ASN][1000 genomes]
rs10742745	0.86[ASN][1000 genomes]
rs1078930	0.97[ASN][1000 genomes]
rs10838426	0.86[ASN][1000 genomes]
rs10838435	0.84[EUR][1000 genomes]
rs12281438	0.87[ASN][1000 genomes]
rs2863159	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2863166	0.85[EUR][1000 genomes]
rs2863167	0.85[EUR][1000 genomes]
rs3758728	0.95[ASN][1000 genomes]
rs3781706	0.99[ASN][1000 genomes]
rs6416127	0.85[EUR][1000 genomes]
rs6485594	0.89[ASN][1000 genomes]
rs6485595	0.89[ASN][1000 genomes]
rs6485596	0.89[ASN][1000 genomes]
rs6485597	0.87[ASN][1000 genomes]
rs6485598	0.87[ASN][1000 genomes]
rs6485599	0.97[ASN][1000 genomes]
rs7937949	0.87[ASN][1000 genomes]
rs7942214	0.97[ASN][1000 genomes]
rs7942347	0.97[ASN][1000 genomes]
rs7945018	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv825852	chr11:45141386-45228580	Bivalent/Poised TSS Genic enhancers Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1048493	chr11:45166054-45205695	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45183600-45200400	Weak transcription	Esophagus	oesophagus
2	chr11:45183800-45201200	Weak transcription	Gastric	stomach
3	chr11:45186400-45201200	Weak transcription	Brain Substantia Nigra	brain
4	chr11:45186600-45201400	Weak transcription	Fetal Brain Female	brain
5	chr11:45186800-45200600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:45191200-45199000	Weak transcription	Fetal Stomach	stomach
7	chr11:45192400-45200400	Weak transcription	Lung	lung
8	chr11:45192400-45201200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr11:45192600-45198800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr11:45193200-45199800	Weak transcription	Spleen	Spleen
11	chr11:45193400-45200400	Weak transcription	Primary B cells from peripheral blood	blood
12	chr11:45193400-45200400	Weak transcription	Left Ventricle	heart
13	chr11:45194800-45200800	Weak transcription	A549	lung
14	chr11:45194800-45201200	Weak transcription	Stomach Mucosa	stomach
15	chr11:45195400-45201000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr11:45195400-45201400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr11:45196200-45201200	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr11:45196600-45201000	Weak transcription	Duodenum Mucosa	Duodenum
19	chr11:45196800-45200800	Weak transcription	Fetal Intestine Large	intestine
20	chr11:45197000-45200800	Weak transcription	Small Intestine	intestine
21	chr11:45198000-45199000	Enhancers	Pancreas	Pancrea
22	chr11:45198200-45201200	Enhancers	Fetal Heart	heart
23	chr11:45198400-45198800	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr11:45198400-45198800	Enhancers	Liver	Liver
25	chr11:45198400-45198800	Enhancers	Right Atrium	heart
26	chr11:45198400-45198800	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr11:45198400-45199000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr11:45198400-45199000	Enhancers	Fetal Lung	lung
29	chr11:45198400-45199000	Enhancers	Fetal Muscle Trunk	muscle
30	chr11:45198400-45199200	Enhancers	Aorta	Aorta
31	chr11:45198400-45199200	Enhancers	Fetal Intestine Small	intestine
32	chr11:45198400-45199200	Enhancers	Fetal Muscle Leg	muscle
33	chr11:45198400-45199200	Enhancers	Ovary	ovary
34	chr11:45198400-45199200	Enhancers	Stomach Smooth Muscle	stomach
35	chr11:45198400-45199600	Enhancers	Colon Smooth Muscle	Colon
36	chr11:45198400-45201200	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr11:45198600-45198800	Enhancers	Brain Anterior Caudate	brain
38	chr11:45198600-45198800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
39	chr11:45198600-45199000	Enhancers	Brain Germinal Matrix	brain
40	chr11:45198600-45199000	Enhancers	Psoas Muscle	Psoas
41	chr11:45198600-45199000	Enhancers	Right Ventricle	heart
42	chr11:45198600-45199200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr11:45198600-45199200	Enhancers	Placenta	Placenta
44	chr11:45198600-45199200	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links