Variant report

Variant	rs10989089
Chromosome Location	chr9:103189912-103189913
allele	G/T
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr16:88519591..88520195-chr9:103189245..103190084,2	HCT-116	colon:
2	chr9:103188255..103190992-chr9:103234182..103236159,2	MCF-7	breast:
3	chr9:102587074..102589303-chr9:103188855..103190578,2	MCF-7	breast:
4	chr2:15731552..15732171-chr9:103189458..103190114,2	Hela-S3	cervix:
5	chr9:103108916..103110922-chr9:103189088..103192439,3	MCF-7	breast:
6	chr9:103108891..103111879-chr9:103188016..103191736,3	K562	blood:
7	chr9:103113279..103116752-chr9:103187119..103190910,6	K562	blood:
8	chr9:103187999..103190908-chr9:103233595..103236918,6	MCF-7	breast:
9	chr9:102581117..102583683-chr9:103188604..103191068,4	K562	blood:
10	chr9:103112743..103119519-chr9:103186928..103191502,9	MCF-7	breast:
11	chr9:103112020..103116853-chr9:103187928..103193300,12	MCF-7	breast:
12	chr9:103113751..103117482-chr9:103187755..103190910,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000179588	Chromatin interaction
ENSG00000079785	Chromatin interaction
ENSG00000237461	Chromatin interaction
ENSG00000119508	Chromatin interaction
ENSG00000241697	Chromatin interaction
ENSG00000136891	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs10989193	1.00[AMR][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	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	esv3443911	chr9:103188156-103191004	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
5	esv3369267	chr9:103188781-103190679	Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103188400-103190200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr9:103188400-103190200	Active TSS	HepG2	liver
3	chr9:103188400-103190600	Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr9:103188400-103191000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr9:103188600-103190000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr9:103188600-103190200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:103188600-103190200	Active TSS	Fetal Intestine Small	intestine
8	chr9:103188600-103190200	Active TSS	Stomach Smooth Muscle	stomach
9	chr9:103188600-103190400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
10	chr9:103188600-103190400	Active TSS	Fetal Kidney	kidney
11	chr9:103188600-103190400	Active TSS	Thymus	Thymus
12	chr9:103188600-103190400	Active TSS	A549	lung
13	chr9:103188600-103190600	Active TSS	Brain Inferior Temporal Lobe	brain
14	chr9:103188600-103190600	Active TSS	Fetal Brain Male	brain
15	chr9:103188600-103190800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr9:103188600-103190800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
17	chr9:103188600-103190800	Active TSS	Rectal Mucosa Donor 29	rectum
18	chr9:103188600-103191000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:103188600-103191000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:103188800-103190000	Active TSS	Left Ventricle	heart
21	chr9:103188800-103190200	Active TSS	ES-I3 Cell Line	embryonic stem cell
22	chr9:103188800-103190200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr9:103188800-103190200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:103188800-103190200	Active TSS	Primary T cells from cord blood	blood
25	chr9:103188800-103190200	Active TSS	Brain Angular Gyrus	brain
26	chr9:103188800-103190200	Active TSS	Fetal Intestine Large	intestine
27	chr9:103188800-103190400	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:103188800-103190400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr9:103188800-103190400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr9:103188800-103190400	Active TSS	Esophagus	oesophagus
31	chr9:103188800-103190400	Active TSS	Gastric	stomach
32	chr9:103188800-103190400	Active TSS	Lung	lung
33	chr9:103188800-103190400	Active TSS	Ovary	ovary
34	chr9:103188800-103190400	Active TSS	Pancreas	Pancrea
35	chr9:103188800-103190600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr9:103188800-103190600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr9:103188800-103190600	Active TSS	Breast Myoepithelial Primary Cells	Breast
38	chr9:103188800-103190600	Active TSS	Psoas Muscle	Psoas
39	chr9:103188800-103190800	Active TSS	Aorta	Aorta
40	chr9:103188800-103190800	Active TSS	Right Ventricle	heart
41	chr9:103188800-103191000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr9:103188800-103191200	Active TSS	HSMMtube	muscle
43	chr9:103188800-103192800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr9:103189000-103190000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
45	chr9:103189000-103190000	Active TSS	Primary T killer memory cells from peripheral blood	blood
46	chr9:103189000-103190000	Active TSS	Brain Cingulate Gyrus	brain
47	chr9:103189000-103190000	Active TSS	Brain Hippocampus Middle	brain
48	chr9:103189000-103190000	Weak transcription	Fetal Heart	heart
49	chr9:103189000-103190200	Active TSS	iPS-15b Cell Line	embryonic stem cell
50	chr9:103189000-103190200	Active TSS	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links