Variant report

Variant	rs12905158
Chromosome Location	chr15:57615126-57615127
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:8)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:57596677..57601983-chr15:57611239..57618411,9	K562	blood:
2	chr15:57511091..57514268-chr15:57614646..57617765,3	K562	blood:
3	chr15:57592002..57594571-chr15:57612516..57615928,4	K562	blood:
4	chr15:57209252..57213677-chr15:57612967..57616292,5	K562	blood:
5	chr15:57177826..57180634-chr15:57614648..57617463,2	K562	blood:
6	chr15:57592053..57595203-chr15:57613794..57616667,3	K562	blood:
7	chr15:57574448..57575948-chr15:57613094..57616013,2	K562	blood:
8	chr15:57614506..57616256-chr15:57638929..57640760,2	K562	blood:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCF12-2	chr15:57615103-57615325	XLOC_011265
2	lnc-TCF12-2	chr15:57615103-57615325	ENSG00000260172.1
3	lnc-TCF12-2	chr15:57615103-57615325	NONHSAT044069

No data

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction
ENSG00000140262	Chromatin interaction
ENSG00000247982	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10152785	0.88[EUR][1000 genomes]
rs11071311	0.84[CEU][hapmap]
rs11631073	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs12904145	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs17820184	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs2244373	0.81[JPT][hapmap]
rs2414501	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs2431018	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs2544131	0.91[EUR][1000 genomes]
rs2544132	0.88[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs2591054	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs2909548	0.87[EUR][1000 genomes]
rs4774924	0.84[CEU][hapmap]
rs4774927	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57599600-57617800	Weak transcription	Spleen	Spleen
2	chr15:57602800-57617000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr15:57605000-57619400	Weak transcription	Pancreas	Pancrea
4	chr15:57611400-57616400	Enhancers	Fetal Muscle Leg	muscle
5	chr15:57611400-57620600	Enhancers	Fetal Intestine Small	intestine
6	chr15:57612000-57615800	Enhancers	Fetal Intestine Large	intestine
7	chr15:57612400-57617800	Enhancers	Fetal Thymus	thymus
8	chr15:57612600-57615200	Weak transcription	Colonic Mucosa	Colon
9	chr15:57612600-57616000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr15:57612600-57616400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:57612600-57616400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:57612600-57616400	Weak transcription	Fetal Brain Male	brain
13	chr15:57612600-57616400	Enhancers	HUVEC	blood vessel
14	chr15:57612600-57617600	Enhancers	Stomach Mucosa	stomach
15	chr15:57612800-57615600	Weak transcription	Lung	lung
16	chr15:57612800-57616400	Enhancers	Primary hematopoietic stem cells	blood
17	chr15:57612800-57619400	Weak transcription	Fetal Lung	lung
18	chr15:57613000-57616200	Enhancers	Duodenum Mucosa	Duodenum
19	chr15:57613000-57616400	Enhancers	Thymus	Thymus
20	chr15:57613000-57626800	Weak transcription	Right Atrium	heart
21	chr15:57613000-57635400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr15:57613200-57615600	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr15:57613200-57615600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:57613200-57615800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr15:57613200-57615800	Weak transcription	HSMM	muscle
26	chr15:57613200-57617000	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr15:57613200-57619200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr15:57613200-57619400	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr15:57613400-57616000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr15:57613400-57616800	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr15:57613400-57619200	Weak transcription	NH-A	brain
32	chr15:57613600-57615400	Weak transcription	Brain Anterior Caudate	brain
33	chr15:57613600-57615800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr15:57613600-57615800	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr15:57613600-57615800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr15:57613600-57616000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr15:57613600-57616000	Weak transcription	Osteobl	bone
38	chr15:57613600-57619000	Enhancers	Rectal Mucosa Donor 31	rectum
39	chr15:57613800-57615200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr15:57614000-57616400	Flanking Active TSS	K562	blood
41	chr15:57614200-57615200	Enhancers	ES-I3 Cell Line	embryonic stem cell
42	chr15:57614200-57616400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr15:57614200-57616400	Enhancers	HUES6 Cell Line	embryonic stem cell
44	chr15:57614400-57615600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
45	chr15:57614600-57615200	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr15:57614600-57615400	Enhancers	Hela-S3	cervix
47	chr15:57614600-57615600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr15:57614600-57616200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr15:57614600-57621800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr15:57614800-57615200	Weak transcription	Sigmoid Colon	Sigmoid Colon

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