Variant report

Variant	rs572309810
Chromosome Location	chr19:39138999-39139000
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:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:39138022..39142840-chr19:39322070..39325450,5	MCF-7	breast:
2	chr19:39138501..39140453-chr19:39331794..39333705,2	MCF-7	breast:
3	chr19:39137328..39141053-chr19:39337803..39340723,6	MCF-7	breast:
4	chr19:39137520..39139996-chr19:39320132..39324117,5	MCF-7	breast:
5	chr19:39135966..39142009-chr19:39184894..39201240,23	MCF-7	breast:
6	chr19:39107241..39111219-chr19:39136508..39140596,7	K562	blood:
7	chr19:39137047..39143767-chr19:39341076..39344906,12	MCF-7	breast:
8	chr10:112262036..112262941-chr19:39138833..39139418,2	Hela-S3	cervix:
9	chr19:39137584..39140325-chr19:39327324..39331607,4	MCF-7	breast:
10	chr19:39108167..39112213-chr19:39136508..39140596,7	K562	blood:
11	chr19:39138189..39142372-chr19:39210085..39214804,5	MCF-7	breast:
12	chr1:151162404..151163113-chr19:39138370..39139198,2	Hela-S3	cervix:
13	chr19:39137231..39139589-chr19:39329369..39331157,2	MCF-7	breast:
14	chr19:39138420..39142103-chr19:39224990..39229224,5	MCF-7	breast:
15	chr19:39135827..39140696-chr19:39337712..39343036,10	MCF-7	breast:
16	chr19:39109034..39110948-chr19:39138125..39139962,2	MCF-7	breast:
17	chr19:39104481..39107303-chr19:39137807..39140302,2	K562	blood:
18	chr19:39138282..39139219-chr9:130341241..130341924,2	Hela-S3	cervix:
19	chr19:39138000..39140768-chr19:39215687..39223350,9	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000104824	Chromatin interaction
ENSG00000182472	Chromatin interaction
ENSG00000163159	Chromatin interaction
ENSG00000178982	Chromatin interaction
ENSG00000138166	Chromatin interaction
ENSG00000136830	Chromatin interaction
ENSG00000267892	Chromatin interaction
ENSG00000104814	Chromatin interaction
ENSG00000130402	Chromatin interaction
ENSG00000104823	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063471	chr19:38734744-39148392	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	73 gene(s)	inside rSNPs	diseases
2	nsv833826	chr19:38945106-39184547	Strong transcription Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv833827	chr19:38993054-39184547	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	nsv833828	chr19:39084759-39257979	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1057899	chr19:39088319-39475493	Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
6	nsv1057901	chr19:39112486-39174332	Genic enhancers Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	25 gene(s)	inside rSNPs	diseases
7	nsv911667	chr19:39119898-39143289	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	19 gene(s)	inside rSNPs	diseases
8	esv18193	chr19:39138183-39140365	Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	12 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	chr19:39137600-39139400	Active TSS	Skeletal Muscle Female	skeletal muscle
2	chr19:39137600-39139800	Active TSS	Brain Inferior Temporal Lobe	brain
3	chr19:39137600-39140400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr19:39137800-39139000	Active TSS	Fetal Brain Female	brain
5	chr19:39137800-39139200	Active TSS	Brain Germinal Matrix	brain
6	chr19:39137800-39139200	Active TSS	Colon Smooth Muscle	Colon
7	chr19:39137800-39139400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr19:39137800-39139400	Active TSS	Primary hematopoietic stem cells short term culture	blood
9	chr19:39137800-39139400	Active TSS	Brain Anterior Caudate	brain
10	chr19:39137800-39139600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr19:39137800-39139600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr19:39137800-39139600	Active TSS	Colonic Mucosa	Colon
13	chr19:39137800-39139800	Active TSS	Fetal Muscle Leg	muscle
14	chr19:39137800-39139800	Active TSS	Fetal Stomach	stomach
15	chr19:39137800-39140000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr19:39137800-39140000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr19:39137800-39140000	Active TSS	iPS-20b Cell Line	embryonic stem cell
18	chr19:39137800-39140000	Active TSS	Brain Substantia Nigra	brain
19	chr19:39137800-39140000	Active TSS	Fetal Lung	lung
20	chr19:39137800-39140000	Active TSS	Placenta	Placenta
21	chr19:39137800-39140000	Active TSS	Stomach Smooth Muscle	stomach
22	chr19:39137800-39140000	Active TSS	GM12878-XiMat	blood
23	chr19:39137800-39140000	Active TSS	K562	blood
24	chr19:39137800-39140200	Active TSS	H1 Cell Line	embryonic stem cell
25	chr19:39137800-39140200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr19:39137800-39140200	Active TSS	Brain Angular Gyrus	brain
27	chr19:39137800-39140200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
28	chr19:39137800-39140200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
29	chr19:39137800-39140200	Active TSS	Ovary	ovary
30	chr19:39137800-39140200	Active TSS	Right Ventricle	heart
31	chr19:39137800-39140400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr19:39137800-39140600	Active TSS	Duodenum Smooth Muscle	Duodenum
33	chr19:39137800-39140800	Active TSS	iPS-15b Cell Line	embryonic stem cell
34	chr19:39137800-39140800	Active TSS	Rectal Smooth Muscle	rectum
35	chr19:39137800-39140800	Active TSS	Sigmoid Colon	Sigmoid Colon
36	chr19:39137800-39140800	Active TSS	NH-A	brain
37	chr19:39137800-39140800	Active TSS	NHDF-Ad	bronchial
38	chr19:39137800-39141200	Active TSS	Fetal Intestine Large	intestine
39	chr19:39137800-39141600	Active TSS	HSMMtube	muscle
40	chr19:39137800-39141800	Active TSS	ES-I3 Cell Line	embryonic stem cell
41	chr19:39137800-39141800	Active TSS	Pancreatic Islets	Pancreatic Islet
42	chr19:39138000-39139200	Active TSS	Dnd41	blood
43	chr19:39138000-39139600	Active TSS	Cortex derived primary cultured neurospheres	brain
44	chr19:39138000-39139800	Active TSS	Duodenum Mucosa	Duodenum
45	chr19:39138000-39139800	Active TSS	Fetal Muscle Trunk	muscle
46	chr19:39138000-39140000	Active TSS	HUES64 Cell Line	embryonic stem cell
47	chr19:39138000-39140000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr19:39138000-39140000	Active TSS	Brain Cingulate Gyrus	brain
49	chr19:39138000-39140000	Active TSS	Brain Hippocampus Middle	brain
50	chr19:39138000-39140000	Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links