Variant report

Variant	rs17122010
Chromosome Location	chr1:61836121-61836122
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17122032	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17122048	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17122069	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6587923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72666658	0.86[ASN][1000 genomes]
rs7532823	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533561	0.86[ASN][1000 genomes]
rs7545732	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv994970	chr1:61693951-62199657	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats 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 target site	19 gene(s)	inside rSNPs	diseases
2	nsv1006142	chr1:61696142-62119763	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv534980	chr1:61696142-62119763	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv916868	chr1:61700430-62119762	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1001052	chr1:61702011-62090670	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv817402	chr1:61703965-62119762	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1010797	chr1:61703966-62125970	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv530494	chr1:61723918-62084045	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
9	nsv1000294	chr1:61746280-62350718	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
10	nsv1014023	chr1:61788310-61859074	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv534981	chr1:61788310-61859074	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:61804400-61851400	Weak transcription	Small Intestine	intestine
2	chr1:61804400-61854600	Weak transcription	Placenta	Placenta
3	chr1:61805800-61848800	Weak transcription	Pancreas	Pancrea
4	chr1:61814000-61848800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr1:61814600-61841200	Weak transcription	Psoas Muscle	Psoas
6	chr1:61814600-61848800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:61818600-61837600	Weak transcription	Fetal Brain Male	brain
8	chr1:61819000-61848800	Weak transcription	Lung	lung
9	chr1:61820600-61836400	Weak transcription	Duodenum Mucosa	Duodenum
10	chr1:61820600-61840600	Weak transcription	NHEK	skin
11	chr1:61820600-61848800	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr1:61823400-61854800	Weak transcription	Spleen	Spleen
13	chr1:61825000-61841200	Weak transcription	Right Ventricle	heart
14	chr1:61825000-61843000	Weak transcription	K562	blood
15	chr1:61825200-61840600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr1:61825200-61847200	Weak transcription	A549	lung
17	chr1:61825200-61848600	Weak transcription	Hela-S3	cervix
18	chr1:61825200-61849000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr1:61825200-61849000	Weak transcription	Ovary	ovary
20	chr1:61825400-61837400	Weak transcription	HUVEC	blood vessel
21	chr1:61825400-61840800	Weak transcription	Aorta	Aorta
22	chr1:61825600-61848800	Weak transcription	Gastric	stomach
23	chr1:61826200-61851600	Weak transcription	Fetal Intestine Small	intestine
24	chr1:61826400-61848800	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr1:61827000-61841200	Weak transcription	Left Ventricle	heart
26	chr1:61827000-61848600	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr1:61827000-61849000	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr1:61828200-61838200	Weak transcription	Fetal Brain Female	brain
29	chr1:61828200-61848800	Weak transcription	Fetal Intestine Large	intestine
30	chr1:61828200-61854600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr1:61828400-61839800	Weak transcription	Fetal Stomach	stomach
32	chr1:61828600-61841200	Weak transcription	Colon Smooth Muscle	Colon
33	chr1:61828600-61848800	Weak transcription	Stomach Smooth Muscle	stomach
34	chr1:61828800-61841200	Weak transcription	Rectal Smooth Muscle	rectum
35	chr1:61833000-61842000	Strong transcription	Liver	Liver
36	chr1:61833200-61841200	Weak transcription	Brain Substantia Nigra	brain
37	chr1:61833400-61838400	Weak transcription	Brain Hippocampus Middle	brain
38	chr1:61833400-61848800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr1:61833400-61849000	Weak transcription	Fetal Muscle Leg	muscle
40	chr1:61834400-61836600	Enhancers	Fetal Heart	heart
41	chr1:61834400-61849000	Weak transcription	Brain Anterior Caudate	brain
42	chr1:61834600-61837000	Strong transcription	HepG2	liver
43	chr1:61834800-61852000	Weak transcription	Primary hematopoietic stem cells	blood
44	chr1:61835000-61836800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr1:61835000-61840800	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr1:61835000-61843600	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr1:61835400-61836400	Enhancers	HSMMtube	muscle
48	chr1:61835600-61836800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr1:61835600-61837000	Enhancers	HSMM	muscle
50	chr1:61835600-61837400	Strong transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links