Variant report

Variant	rs7997794
Chromosome Location	chr13:49022794-49022795
allele	G/T
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	E2F4	chr13:49022619-49022825	MCF10A-Er-Src	breast:	n/a	n/a
2	MYC	chr13:49022511-49022794	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr13:49022414-49023420	MCF10A-Er-Src	breast:	n/a	chr13:49022600-49022610 chr13:49022560-49022567 chr13:49023202-49023213 chr13:49023202-49023209 chr13:49022600-49022610 chr13:49022600-49022610
4	FOS	chr13:49022432-49023420	MCF10A-Er-Src	breast:	n/a	chr13:49022600-49022610 chr13:49022560-49022567 chr13:49023202-49023213 chr13:49023202-49023209 chr13:49022600-49022610 chr13:49022600-49022610
5	FOS	chr13:49022473-49023394	HUVEC	blood vessel:	n/a	chr13:49022600-49022610 chr13:49022560-49022567 chr13:49023202-49023213 chr13:49023202-49023209 chr13:49022600-49022610 chr13:49022600-49022610

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:49022434..49024541-chr13:49024790..49027245,2	K562	blood:
2	chr13:49021166..49023962-chr13:49028284..49030489,2	K562	blood:

Variant related genes	Relation type
LPAR6	TF binding region

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs17069281	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17071548	1.00[EUR][1000 genomes]
rs17071560	1.00[EUR][1000 genomes]
rs17071673	0.88[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17071675	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17071714	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17071716	1.00[EUR][1000 genomes]
rs3092865	1.00[EUR][1000 genomes]
rs3092883	1.00[EUR][1000 genomes]
rs3901587	1.00[EUR][1000 genomes]
rs41425345	1.00[EUR][1000 genomes]
rs4151460	1.00[EUR][1000 genomes]
rs4151468	1.00[EUR][1000 genomes]
rs4151487	1.00[EUR][1000 genomes]
rs4151514	1.00[EUR][1000 genomes]
rs4151516	1.00[EUR][1000 genomes]
rs4151527	1.00[EUR][1000 genomes]
rs4151563	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4151587	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4151621	1.00[EUR][1000 genomes]
rs4151628	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4303378	1.00[EUR][1000 genomes]
rs56945534	1.00[EUR][1000 genomes]
rs58318754	1.00[EUR][1000 genomes]
rs59355608	1.00[EUR][1000 genomes]
rs59550884	1.00[EUR][1000 genomes]
rs6561463	1.00[EUR][1000 genomes]
rs6561467	1.00[EUR][1000 genomes]
rs7316991	1.00[EUR][1000 genomes]
rs7321847	1.00[EUR][1000 genomes]
rs7323517	1.00[EUR][1000 genomes]
rs7324752	1.00[EUR][1000 genomes]
rs7325924	1.00[EUR][1000 genomes]
rs7329733	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7333561	1.00[EUR][1000 genomes]
rs7337056	1.00[EUR][1000 genomes]
rs73487075	1.00[EUR][1000 genomes]
rs73487091	1.00[EUR][1000 genomes]
rs73490880	1.00[EUR][1000 genomes]
rs73493099	1.00[EUR][1000 genomes]
rs74074170	1.00[EUR][1000 genomes]
rs74074184	1.00[EUR][1000 genomes]
rs7981750	1.00[EUR][1000 genomes]
rs7984036	1.00[EUR][1000 genomes]
rs7984309	1.00[EUR][1000 genomes]
rs9331954	1.00[EUR][1000 genomes]
rs9332019	1.00[EUR][1000 genomes]
rs9332048	1.00[EUR][1000 genomes]
rs9332086	1.00[EUR][1000 genomes]
rs9332251	1.00[EUR][1000 genomes]
rs9332256	1.00[EUR][1000 genomes]
rs9332287	1.00[EUR][1000 genomes]
rs9332296	1.00[EUR][1000 genomes]
rs9332298	1.00[EUR][1000 genomes]
rs943282	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832602	chr13:49003159-49167781	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48990800-49030800	Weak transcription	Ovary	ovary
2	chr13:48991400-49030600	Weak transcription	Spleen	Spleen
3	chr13:48999000-49024400	Weak transcription	Fetal Muscle Leg	muscle
4	chr13:49001400-49024600	Weak transcription	Fetal Intestine Small	intestine
5	chr13:49003600-49023200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr13:49006800-49030400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr13:49007000-49027600	Weak transcription	Primary T cells from cord blood	blood
8	chr13:49008000-49028600	Weak transcription	HepG2	liver
9	chr13:49008800-49030800	Weak transcription	Placenta	Placenta
10	chr13:49009000-49030600	Weak transcription	Gastric	stomach
11	chr13:49009000-49030600	Weak transcription	Lung	lung
12	chr13:49011200-49028800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr13:49011400-49022800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr13:49011800-49023600	Weak transcription	Fetal Muscle Trunk	muscle
15	chr13:49012000-49022800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr13:49012000-49023400	Weak transcription	Small Intestine	intestine
17	chr13:49012000-49027400	Weak transcription	Left Ventricle	heart
18	chr13:49012000-49028800	Weak transcription	Pancreas	Pancrea
19	chr13:49012400-49024400	Weak transcription	Fetal Heart	heart
20	chr13:49015200-49027400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr13:49017400-49062200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr13:49018000-49024000	Strong transcription	Dnd41	blood
23	chr13:49018000-49062400	Weak transcription	Fetal Brain Male	brain
24	chr13:49018200-49022800	Weak transcription	Fetal Lung	lung
25	chr13:49018400-49025200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr13:49018600-49023800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr13:49019000-49030600	Weak transcription	Fetal Stomach	stomach
28	chr13:49019800-49023600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr13:49019800-49024000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr13:49020000-49024000	Weak transcription	Primary B cells from peripheral blood	blood
31	chr13:49020000-49028600	Weak transcription	Thymus	Thymus
32	chr13:49020200-49022800	Enhancers	Muscle Satellite Cultured Cells	--
33	chr13:49020200-49023200	Enhancers	Primary monocytes fromperipheralblood	blood
34	chr13:49020400-49022800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr13:49020400-49023000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr13:49020400-49023800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr13:49020400-49024000	Enhancers	NHDF-Ad	bronchial
38	chr13:49020800-49062000	Weak transcription	Fetal Kidney	kidney
39	chr13:49021000-49027000	Weak transcription	Colon Smooth Muscle	Colon
40	chr13:49021000-49027400	Weak transcription	Fetal Thymus	thymus
41	chr13:49021200-49022800	Enhancers	HUVEC	blood vessel
42	chr13:49021200-49022800	Weak transcription	NH-A	brain
43	chr13:49021200-49027600	Weak transcription	Aorta	Aorta
44	chr13:49021200-49027600	Weak transcription	HSMMtube	muscle
45	chr13:49021200-49058600	Weak transcription	Hela-S3	cervix
46	chr13:49021400-49023000	Weak transcription	HSMM	muscle
47	chr13:49021400-49030400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr13:49021600-49022800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr13:49022200-49022800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr13:49022200-49023200	Enhancers	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links