Variant report

Variant	rs4977497
Chromosome Location	chr9:19125356-19125357
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:19124716..19129711-chr9:19378738..19382022,6	K562	blood:
2	chr9:19115262..19117243-chr9:19122204..19125901,3	K562	blood:
3	chr9:19124177..19125684-chr9:19126025..19128795,2	MCF-7	breast:
4	chr9:19047624..19049710-chr9:19124952..19127835,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147872	Chromatin interaction
ENSG00000155876	Chromatin interaction
ENSG00000137154	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1042936	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12554335	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41269009	0.83[AMR][1000 genomes]
rs41269011	0.83[AMR][1000 genomes]
rs4977495	0.82[AMR][1000 genomes]
rs4977496	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9406759	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017820	chr9:18882219-19587377	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
2	nsv540078	chr9:18882219-19587377	Genic enhancers Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
3	nsv892700	chr9:18979441-19156784	Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv1028623	chr9:19034742-19394712	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
5	nsv540079	chr9:19034742-19394712	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
6	nsv430003	chr9:19074740-19247826	Strong transcription Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv870340	chr9:19077714-19143230	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv1018947	chr9:19094894-19394712	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
9	nsv1033552	chr9:19104662-19131866	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:19103400-19126400	Weak transcription	Fetal Brain Male	brain
2	chr9:19110600-19126400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr9:19113400-19126200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:19114000-19126000	Strong transcription	Rectal Mucosa Donor 29	rectum
5	chr9:19114200-19126200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:19114800-19126000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
7	chr9:19114800-19126000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:19116400-19127000	Weak transcription	Stomach Mucosa	stomach
9	chr9:19116600-19126000	Strong transcription	H1 Cell Line	embryonic stem cell
10	chr9:19116600-19126000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr9:19117000-19127000	Weak transcription	HSMMtube	muscle
12	chr9:19118000-19126600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:19118400-19126600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr9:19120600-19126600	Weak transcription	Fetal Brain Female	brain
15	chr9:19121200-19125400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:19121200-19126000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr9:19121200-19126200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr9:19121200-19126400	Weak transcription	Brain Germinal Matrix	brain
19	chr9:19121200-19127000	Weak transcription	Brain Angular Gyrus	brain
20	chr9:19121400-19125400	Weak transcription	Pancreas	Pancrea
21	chr9:19121400-19126200	Weak transcription	Rectal Smooth Muscle	rectum
22	chr9:19121400-19127000	Weak transcription	Brain Anterior Caudate	brain
23	chr9:19121600-19126600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr9:19121800-19126000	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr9:19121800-19127000	Weak transcription	Aorta	Aorta
26	chr9:19122400-19126000	Weak transcription	Hela-S3	cervix
27	chr9:19122400-19126400	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr9:19122800-19126400	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr9:19123000-19126000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr9:19123000-19126000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr9:19123000-19126000	Weak transcription	Colonic Mucosa	Colon
32	chr9:19123000-19126200	Transcr. at gene 5' and 3'	HepG2	liver
33	chr9:19123000-19126400	Weak transcription	Brain Hippocampus Middle	brain
34	chr9:19123000-19127000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
35	chr9:19123200-19126200	Weak transcription	Colon Smooth Muscle	Colon
36	chr9:19123400-19125600	Enhancers	Fetal Heart	heart
37	chr9:19123400-19126000	Genic enhancers	Dnd41	blood
38	chr9:19123400-19126400	Weak transcription	Ovary	ovary
39	chr9:19123600-19126000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr9:19123600-19126200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr9:19123600-19126200	Weak transcription	Brain Substantia Nigra	brain
42	chr9:19123600-19126400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr9:19123600-19126400	Transcr. at gene 5' and 3'	Adipose Nuclei	Adipose
44	chr9:19123600-19126400	Genic enhancers	Fetal Thymus	thymus
45	chr9:19123600-19126400	Weak transcription	Stomach Smooth Muscle	stomach
46	chr9:19123600-19126600	Weak transcription	Fetal Lung	lung
47	chr9:19123600-19126600	Weak transcription	A549	lung
48	chr9:19123600-19126600	Weak transcription	HSMM	muscle
49	chr9:19123600-19126800	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr9:19123800-19125400	Genic enhancers	HUVEC	blood vessel

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