Variant report

Variant	rs61837996
Chromosome Location	chr1:226000766-226000767
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:225998808..226002827-chr1:226008223..226011228,3	MCF-7	breast:
2	chr1:225975459..225978007-chr1:225998232..226000787,2	K562	blood:
3	chr1:225999613..226001373-chr1:226068706..226071488,3	MCF-7	breast:
4	chr1:225962862..225967352-chr1:225996084..226002774,11	MCF-7	breast:
5	chr1:225998339..226001333-chr1:226013491..226015022,2	K562	blood:
6	chr1:225962294..225967531-chr1:225994011..226002080,11	K562	blood:
7	chr1:226000765..226001501-chr19:47291308..47291926,2	NB4	blood:
8	chr1:225963904..225970275-chr1:225994893..226001084,15	K562	blood:
9	chr1:225993353..225995844-chr1:225998707..226001448,2	K562	blood:
10	chr1:226000008..226002119-chr1:226004674..226006661,2	MCF-7	breast:
11	chr1:225963814..225970754-chr1:225996230..226002908,14	MCF-7	breast:
12	chr1:225840822..225842484-chr1:226000425..226002809,2	MCF-7	breast:
13	chr1:225999526..226002981-chr1:226005681..226008708,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196187	Chromatin interaction
ENSG00000154380	Chromatin interaction
ENSG00000143742	Chromatin interaction
ENSG00000105281	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11587295	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11587753	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11588167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11588197	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11588766	1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs12568108	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs3738045	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs3753658	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs3753659	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs3753660	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4149222	1.00[AFR][1000 genomes]
rs45607741	1.00[AFR][1000 genomes]
rs56187333	1.00[AFR][1000 genomes]
rs61837988	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61837989	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61837991	1.00[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs61837993	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs61837995	1.00[AFR][1000 genomes];0.91[ASN][1000 genomes]

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	esv1795046	chr1:225874059-226091150	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv1834932	chr1:225874059-226091150	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv1834948	chr1:225874059-226214882	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv524126	chr1:225973777-226210653	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv947519	chr1:225998770-226034631	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225998400-226001000	Enhancers	K562	blood
2	chr1:225998400-226001600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
3	chr1:225998400-226007800	Enhancers	Spleen	Spleen
4	chr1:225998600-226005600	Enhancers	Stomach Mucosa	stomach
5	chr1:225998800-226001800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:225999000-226001200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr1:225999000-226002800	Enhancers	Placenta	Placenta
8	chr1:225999200-226000800	Genic enhancers	Fetal Stomach	stomach
9	chr1:225999200-226001000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:225999200-226001000	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr1:225999200-226001000	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr1:225999200-226001000	Weak transcription	Aorta	Aorta
13	chr1:225999200-226001000	Weak transcription	HSMM	muscle
14	chr1:225999200-226001200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr1:225999200-226001200	Weak transcription	Primary B cells from cord blood	blood
16	chr1:225999200-226001200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:225999200-226001200	Enhancers	Duodenum Mucosa	Duodenum
18	chr1:225999200-226001200	Weak transcription	HUVEC	blood vessel
19	chr1:225999200-226001200	Weak transcription	NH-A	brain
20	chr1:225999200-226001400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr1:225999200-226001400	Weak transcription	NHEK	skin
22	chr1:225999200-226001600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr1:225999200-226001800	Enhancers	Fetal Kidney	kidney
24	chr1:225999200-226001800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr1:225999200-226002400	Enhancers	Esophagus	oesophagus
26	chr1:225999200-226002400	Enhancers	Fetal Intestine Large	intestine
27	chr1:225999200-226004800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr1:225999200-226006400	Enhancers	Lung	lung
29	chr1:225999200-226006600	Enhancers	Psoas Muscle	Psoas
30	chr1:225999400-226000800	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr1:225999400-226000800	Weak transcription	Hela-S3	cervix
32	chr1:225999400-226001000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr1:225999400-226001000	Enhancers	Osteobl	bone
34	chr1:225999400-226001200	Enhancers	Rectal Mucosa Donor 29	rectum
35	chr1:225999400-226001200	Enhancers	NHDF-Ad	bronchial
36	chr1:225999400-226001600	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr1:225999400-226001600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr1:225999400-226004600	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr1:225999400-226004800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr1:225999400-226006600	Enhancers	Right Ventricle	heart
41	chr1:225999400-226007800	Enhancers	Left Ventricle	heart
42	chr1:225999600-226001200	Enhancers	Duodenum Smooth Muscle	Duodenum
43	chr1:225999600-226001600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr1:225999600-226001600	Enhancers	Fetal Thymus	thymus
45	chr1:225999600-226001800	Enhancers	HSMMtube	muscle
46	chr1:225999600-226002400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr1:225999600-226003600	Enhancers	Brain Angular Gyrus	brain
48	chr1:225999600-226003800	Enhancers	Pancreas	Pancrea
49	chr1:225999600-226005200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr1:225999600-226006400	Enhancers	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links