Variant report

Variant	rs7408955
Chromosome Location	chr19:41849200-41849201
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:41849197-41849832	GM12878	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:41847648..41852200-chr19:41855915..41861192,6	MCF-7	breast:
2	chr19:41846876..41849699-chr19:41880679..41882557,2	K562	blood:
3	chr19:41847615..41849220-chr19:41932649..41934525,2	MCF-7	breast:
4	chr19:41847994..41849778-chr19:41856009..41859408,3	K562	blood:
5	chr19:41846207..41848075-chr19:41848974..41852295,3	K562	blood:
6	chr19:41816281..41817801-chr19:41846684..41849641,2	K562	blood:

No data

Variant related genes	Relation type
TGFB1	TF binding region
ENSG00000105329	Chromatin interaction
ENSG00000142046	Chromatin interaction
ENSG00000255730	Chromatin interaction
ENSG00000142039	Chromatin interaction
ENSG00000177191	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10406816	0.80[ASN][1000 genomes]
rs10416269	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12461895	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1549934	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1989457	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2241717	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2288873	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2288874	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4803455	0.86[ASN][1000 genomes]
rs6508976	0.89[ASN][1000 genomes]
rs7258445	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8108632	0.81[ASN][1000 genomes]

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41818600-41854800	Strong transcription	Dnd41	blood
2	chr19:41832400-41856000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr19:41834200-41856600	Weak transcription	Brain Anterior Caudate	brain
4	chr19:41834200-41856800	Weak transcription	Fetal Kidney	kidney
5	chr19:41834400-41854800	Weak transcription	Small Intestine	intestine
6	chr19:41834800-41849400	Weak transcription	Fetal Lung	lung
7	chr19:41834800-41855600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr19:41834800-41856800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr19:41834800-41856800	Weak transcription	Brain Substantia Nigra	brain
10	chr19:41835000-41854400	Strong transcription	Fetal Stomach	stomach
11	chr19:41835000-41856600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr19:41835000-41856800	Weak transcription	Brain Angular Gyrus	brain
13	chr19:41835200-41849400	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr19:41835600-41856000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr19:41836000-41855200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr19:41837200-41850200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr19:41837800-41850200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr19:41837800-41855800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr19:41838600-41856600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr19:41840000-41850000	Weak transcription	Fetal Intestine Large	intestine
21	chr19:41840400-41854600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr19:41840800-41855800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr19:41841800-41856600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr19:41842400-41851200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr19:41843400-41854600	Strong transcription	HUVEC	blood vessel
26	chr19:41843800-41852200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr19:41844000-41853800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr19:41844200-41854200	Strong transcription	Thymus	Thymus
29	chr19:41845000-41850800	Strong transcription	Colon Smooth Muscle	Colon
30	chr19:41845200-41851200	Strong transcription	HepG2	liver
31	chr19:41845800-41856000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr19:41846000-41851200	Genic enhancers	Primary monocytes fromperipheralblood	blood
33	chr19:41846400-41854400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
34	chr19:41846400-41854800	Genic enhancers	Primary T cells fromperipheralblood	blood
35	chr19:41846400-41855000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr19:41846400-41855000	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr19:41846600-41851200	Genic enhancers	Primary T helper cells PMA-I stimulated	--
38	chr19:41846600-41854200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr19:41846600-41854400	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr19:41846800-41849600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr19:41846800-41852000	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr19:41846800-41854400	Strong transcription	Stomach Smooth Muscle	stomach
43	chr19:41846800-41854800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
44	chr19:41847000-41849400	Weak transcription	HSMM	muscle
45	chr19:41847000-41851200	Strong transcription	A549	lung
46	chr19:41847000-41855800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr19:41847400-41851000	Strong transcription	NHDF-Ad	bronchial
48	chr19:41847400-41852400	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr19:41847400-41853600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr19:41847600-41849600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links