Variant report

Variant	rs79496968
Chromosome Location	chr15:42640117-42640118
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr15:42640046-42640989	SK-N-SH	brain:	n/a	n/a
2	JUND	chr15:42640110-42640919	SK-N-SH	brain:	n/a	n/a
3	TCF12	chr15:42640052-42640944	SK-N-SH	brain:	n/a	n/a
4	GATA3	chr15:42640062-42640947	SK-N-SH	brain:	n/a	chr15:42640798-42640814 chr15:42640125-42640135 chr15:42640803-42640820
5	TCF12	chr15:42640049-42640932	SK-N-SH	brain:	n/a	n/a
6	JUND	chr15:42640117-42640833	SK-N-SH	brain:	n/a	n/a
7	POLR2A	chr15:42639768-42640931	K562	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000258461	TF binding region
CAPN3	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv904133	chr15:42528982-42681057	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv832986	chr15:42587825-42753664	Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv832987	chr15:42627447-42792348	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription 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	28 gene(s)	inside rSNPs	diseases
7	nsv932995	chr15:42640015-42704121	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42568400-42656000	Weak transcription	Small Intestine	intestine
2	chr15:42603400-42648600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr15:42603400-42648600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr15:42604600-42651200	Weak transcription	Fetal Kidney	kidney
5	chr15:42617000-42645000	Weak transcription	NHLF	lung
6	chr15:42619600-42647200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr15:42619600-42656200	Weak transcription	HMEC	breast
8	chr15:42626800-42643400	Weak transcription	Fetal Thymus	thymus
9	chr15:42627600-42654600	Weak transcription	HSMM	muscle
10	chr15:42627800-42643800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr15:42630600-42650600	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr15:42630800-42646800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr15:42631600-42648600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr15:42631600-42649800	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr15:42631800-42643400	Weak transcription	HSMMtube	muscle
16	chr15:42631800-42649400	Weak transcription	Fetal Brain Male	brain
17	chr15:42631800-42651000	Weak transcription	Fetal Heart	heart
18	chr15:42632200-42652600	Strong transcription	Primary B cells from peripheral blood	blood
19	chr15:42633600-42643400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr15:42633800-42640400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr15:42634200-42641800	Strong transcription	Duodenum Mucosa	Duodenum
22	chr15:42634400-42644600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr15:42634600-42640800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr15:42634600-42640800	Strong transcription	Fetal Intestine Large	intestine
25	chr15:42634600-42641600	Strong transcription	Stomach Smooth Muscle	stomach
26	chr15:42634600-42641800	Strong transcription	Primary B cells from cord blood	blood
27	chr15:42634600-42642200	Strong transcription	Liver	Liver
28	chr15:42634600-42648000	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr15:42634600-42648200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr15:42634600-42650400	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr15:42634800-42641800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr15:42635000-42640800	Strong transcription	Brain Hippocampus Middle	brain
33	chr15:42635200-42645000	Weak transcription	Dnd41	blood
34	chr15:42635200-42646400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr15:42635400-42641200	Strong transcription	Left Ventricle	heart
36	chr15:42635400-42644600	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr15:42636200-42645400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr15:42636400-42645400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr15:42636400-42646400	Weak transcription	Fetal Brain Female	brain
40	chr15:42636400-42647800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr15:42636400-42656600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr15:42636600-42643400	Weak transcription	Brain Substantia Nigra	brain
43	chr15:42636600-42645000	Weak transcription	Colon Smooth Muscle	Colon
44	chr15:42636800-42643400	Weak transcription	Gastric	stomach
45	chr15:42636800-42643600	Weak transcription	Placenta	Placenta
46	chr15:42636800-42644000	Weak transcription	Pancreas	Pancrea
47	chr15:42637000-42640400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr15:42637000-42643200	Weak transcription	Brain Anterior Caudate	brain
49	chr15:42637000-42643400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr15:42637200-42640400	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links