Variant report

Variant	rs192898342
Chromosome Location	chr10:4554818-4554819
allele	G/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	POLR2A	chr10:4554786-4555449	SK-N-SH	brain:	n/a	n/a
2	POLR2A	chr10:4554779-4555268	MCF10A-Er-Src	breast:	n/a	n/a
3	TCF12	chr10:4554618-4555615	SK-N-SH	brain:	n/a	n/a
4	CEBPB	chr10:4554806-4555358	Hela-S3	cervix:	n/a	n/a
5	TCF12	chr10:4554683-4555618	SK-N-SH	brain:	n/a	n/a
6	EP300	chr10:4554577-4555555	SK-N-SH	brain:	n/a	n/a
7	NFIC	chr10:4554557-4555546	SK-N-SH	brain:	n/a	chr10:4554972-4554989
8	STAT3	chr10:4554670-4554863	MCF10A-Er-Src	breast:	n/a	n/a
9	RAD21	chr10:4554807-4555352	SK-N-SH_RA	brain:	n/a	n/a
10	MYC	chr10:4554817-4555437	MCF10A-Er-Src	breast:	n/a	n/a
11	POLR2A	chr10:4554807-4554993	MCF10A-Er-Src	breast:	n/a	n/a
12	CTCF	chr10:4554754-4555536	A549	lung:	n/a	chr10:4555398-4555407
13	CHD1	chr10:4554749-4555515	IMR90	lung:	n/a	n/a
14	GATA3	chr10:4554612-4555620	SK-N-SH	brain:	n/a	n/a
15	RAD21	chr10:4554581-4555529	SK-N-SH	brain:	n/a	n/a
16	PBX3	chr10:4554804-4555530	SK-N-SH	brain:	n/a	n/a
17	PBX3	chr10:4554706-4555551	SK-N-SH	brain:	n/a	n/a
18	EP300	chr10:4554816-4555407	SK-N-SH_RA	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:4553609..4555147-chr10:4560263..4562993,2	K562	blood:
2	chr10:4554774..4555300-chr10:4623885..4624517,2	MCF-7	breast:
3	chr10:4554517..4555692-chr10:4698473..4699407,4	MCF-7	breast:
4	chr10:4554314..4555272-chr10:4813439..4814001,3	MCF-7	breast:
5	chr10:4554767..4555670-chr10:4691719..4692590,2	MCF-7	breast:

Variant related genes	Relation type
RNU6-163P	TF binding region
ENSG00000231298	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894787	chr10:4385379-4857717	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1041785	chr10:4507158-4564194	Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv522046	chr10:4538492-4570425	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv549862	chr10:4554018-4593307	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1040910	chr10:4554674-4606939	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4548800-4555000	Weak transcription	Osteobl	bone
2	chr10:4552000-4556600	Weak transcription	Fetal Thymus	thymus
3	chr10:4552400-4555000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr10:4552800-4555200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr10:4553200-4555400	Enhancers	Fetal Lung	lung
6	chr10:4553200-4558400	Enhancers	NHDF-Ad	bronchial
7	chr10:4553600-4555000	Weak transcription	Colon Smooth Muscle	Colon
8	chr10:4553600-4555800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr10:4553800-4555000	Weak transcription	Fetal Stomach	stomach
10	chr10:4553800-4555200	Weak transcription	Fetal Muscle Leg	muscle
11	chr10:4554000-4555000	Weak transcription	Fetal Kidney	kidney
12	chr10:4554000-4555400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr10:4554200-4557200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:4554600-4555000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr10:4554600-4555600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr10:4554600-4556200	Enhancers	Fetal Heart	heart
17	chr10:4554800-4555000	Enhancers	Adipose Nuclei	Adipose
18	chr10:4554800-4555200	Enhancers	NHLF	lung
19	chr10:4554800-4555400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr10:4554800-4555400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:4554800-4555400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr10:4554800-4555400	Enhancers	Rectal Smooth Muscle	rectum
23	chr10:4554800-4555400	Enhancers	HMEC	breast
24	chr10:4554800-4555400	Enhancers	NHEK	skin
25	chr10:4554800-4556600	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links