Variant report

Variant	rs7170975
Chromosome Location	chr15:57600102-57600103
allele	C/T
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:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr15:57599033..57602011-chr15:57602301..57604910,2	MCF-7	breast:
2	chr15:57597621..57600563-chr15:57604167..57606534,3	K562	blood:
3	chr15:56787707..56790107-chr15:57597582..57600140,2	MCF-7	breast:
4	chr15:57596677..57601983-chr15:57611239..57618411,9	K562	blood:
5	chr15:57597689..57601400-chr15:57611239..57614125,3	K562	blood:
6	chr15:57598904..57601336-chr15:57602570..57606633,5	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCF12-1	chr15:57599740-57600717	XLOC_011264

No data

Variant related genes	Relation type
ENSG00000260172	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11071311	0.81[CEU][hapmap]
rs12904145	0.80[CEU][hapmap]
rs2243504	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2414500	0.89[CEU][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2440941	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2440979	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2544129	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs4774923	0.83[CEU][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4774924	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs4774927	0.82[CEU][hapmap]
rs734101	0.91[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7170975	LINC00926	cis	Esophagus Muscularis	GTEx
rs7170975	LINC00926	cis	Artery Tibial	GTEx

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57598600-57600800	Enhancers	Sigmoid Colon	Sigmoid Colon
2	chr15:57599000-57600400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr15:57599000-57600600	Enhancers	Fetal Lung	lung
4	chr15:57599000-57600800	Enhancers	HepG2	liver
5	chr15:57599000-57603000	Weak transcription	K562	blood
6	chr15:57599400-57600200	Genic enhancers	Primary B cells from peripheral blood	blood
7	chr15:57599400-57600200	Enhancers	Liver	Liver
8	chr15:57599400-57600200	Enhancers	Fetal Intestine Large	intestine
9	chr15:57599400-57600200	Enhancers	Stomach Mucosa	stomach
10	chr15:57599400-57600400	Enhancers	Fetal Stomach	stomach
11	chr15:57599400-57600600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr15:57599400-57600600	Enhancers	A549	lung
13	chr15:57599400-57601200	Enhancers	Fetal Intestine Small	intestine
14	chr15:57599400-57601800	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr15:57599400-57602600	Weak transcription	Brain Germinal Matrix	brain
16	chr15:57599400-57604600	Weak transcription	Right Ventricle	heart
17	chr15:57599400-57605000	Weak transcription	Fetal Brain Female	brain
18	chr15:57599400-57612800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr15:57599600-57600200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:57599600-57600200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr15:57599600-57600400	Enhancers	Colonic Mucosa	Colon
22	chr15:57599600-57600400	Enhancers	Fetal Muscle Trunk	muscle
23	chr15:57599600-57600600	Enhancers	Duodenum Mucosa	Duodenum
24	chr15:57599600-57600600	Enhancers	Rectal Mucosa Donor 29	rectum
25	chr15:57599600-57601200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr15:57599600-57601400	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr15:57599600-57602000	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr15:57599600-57602000	Weak transcription	Placenta	Placenta
29	chr15:57599600-57602400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr15:57599600-57602400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr15:57599600-57603800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr15:57599600-57604600	Weak transcription	Fetal Thymus	thymus
33	chr15:57599600-57604600	Weak transcription	Left Ventricle	heart
34	chr15:57599600-57604600	Weak transcription	Pancreas	Pancrea
35	chr15:57599600-57604600	Weak transcription	Psoas Muscle	Psoas
36	chr15:57599600-57604600	Weak transcription	Right Atrium	heart
37	chr15:57599600-57604800	Weak transcription	Fetal Brain Male	brain
38	chr15:57599600-57612400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr15:57599600-57612800	Weak transcription	GM12878-XiMat	blood
40	chr15:57599600-57614200	Weak transcription	Small Intestine	intestine
41	chr15:57599600-57617800	Weak transcription	Spleen	Spleen
42	chr15:57599800-57600200	Enhancers	Fetal Kidney	kidney
43	chr15:57599800-57600600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr15:57599800-57603000	Strong transcription	Primary B cells from cord blood	blood
45	chr15:57600000-57600400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr15:57600000-57602400	Weak transcription	Fetal Muscle Leg	muscle
47	chr15:57600000-57602600	Weak transcription	Gastric	stomach
48	chr15:57600000-57604400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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