Variant report

Variant	rs59781317
Chromosome Location	chr1:156016356-156016357
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:156011787..156014582-chr1:156014808..156016643,2	MCF-7	breast:
2	chr1:156013786..156016705-chr1:156084191..156085849,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000160803	Chromatin interaction
ENSG00000160789	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1111102	0.81[EUR][1000 genomes]
rs3820592	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6427297	0.88[AMR][1000 genomes]
rs72708238	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72708239	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs915178	0.85[AMR][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	nsv916198	chr1:155804210-156403997	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	428 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs59781317	RIT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155991200-156020000	Weak transcription	GM12878-XiMat	blood
2	chr1:155996200-156019600	Weak transcription	HMEC	breast
3	chr1:155996200-156022400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr1:155999800-156020000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:156001200-156022400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr1:156004400-156018600	Strong transcription	Fetal Muscle Leg	muscle
7	chr1:156004800-156017800	Weak transcription	Fetal Brain Male	brain
8	chr1:156005200-156022400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr1:156005400-156022000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:156005600-156019600	Strong transcription	Fetal Muscle Trunk	muscle
11	chr1:156005600-156020200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:156005600-156021200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
13	chr1:156005600-156021400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr1:156005800-156020800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr1:156005800-156021600	Strong transcription	Fetal Intestine Small	intestine
16	chr1:156005800-156022000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:156005800-156022000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr1:156005800-156022000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:156005800-156022000	Strong transcription	Fetal Stomach	stomach
20	chr1:156006200-156016800	Strong transcription	Skeletal Muscle Male	skeletal muscle
21	chr1:156006400-156020400	Weak transcription	Psoas Muscle	Psoas
22	chr1:156006800-156021400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:156007200-156020800	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr1:156008400-156018800	Weak transcription	Fetal Kidney	kidney
25	chr1:156009000-156022400	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr1:156009200-156021400	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr1:156009200-156022400	Weak transcription	Small Intestine	intestine
28	chr1:156010400-156019600	Strong transcription	Fetal Lung	lung
29	chr1:156010400-156021600	Strong transcription	Primary T cells from cord blood	blood
30	chr1:156010600-156020800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr1:156010600-156021400	Strong transcription	Dnd41	blood
32	chr1:156010800-156016600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr1:156011200-156018000	Weak transcription	NHDF-Ad	bronchial
34	chr1:156012600-156022400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr1:156012800-156018800	Weak transcription	Primary hematopoietic stem cells	blood
36	chr1:156012800-156019600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr1:156012800-156022000	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr1:156013000-156016400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr1:156013000-156018000	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr1:156013200-156018800	Weak transcription	Fetal Heart	heart
41	chr1:156013200-156021000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr1:156013600-156017800	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr1:156013600-156017800	Weak transcription	Monocytes-CD14+_RO01746	blood
44	chr1:156013600-156018000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr1:156013600-156018000	Weak transcription	Colonic Mucosa	Colon
46	chr1:156013600-156022600	Weak transcription	Ovary	ovary
47	chr1:156013800-156017800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr1:156013800-156017800	Weak transcription	HUVEC	blood vessel
49	chr1:156013800-156018000	Weak transcription	Aorta	Aorta
50	chr1:156014000-156017800	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links