Variant report

Variant	rs309303
Chromosome Location	chr2:7181560-7181561
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	chr2:7168490..7170213-chr2:7179643..7182255,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs2460407	1.00[ASN][1000 genomes]
rs309298	0.82[ASN][1000 genomes]
rs309299	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs309305	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs309308	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs309323	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs367495	0.95[ASN][1000 genomes]
rs376219	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs377617	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs392409	1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs392709	0.94[ASN][1000 genomes]
rs401164	0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs403196	0.95[ASN][1000 genomes]
rs409120	0.95[ASN][1000 genomes]
rs410210	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs416416	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs418312	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs425247	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs429349	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs433983	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs434607	1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs447031	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs447627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs449500	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs451763	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs454999	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs530431	0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs309303	RNF144A	cis	parietal	SCAN

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:7151200-7185200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:7152600-7192400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr2:7154000-7183200	Strong transcription	Primary T cells from cord blood	blood
4	chr2:7154000-7190200	Strong transcription	Dnd41	blood
5	chr2:7154600-7184200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr2:7155200-7182000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr2:7157200-7185200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
8	chr2:7158200-7188800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr2:7158400-7186800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr2:7159400-7186800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:7164600-7182200	Weak transcription	Small Intestine	intestine
12	chr2:7164800-7189000	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr2:7167400-7200400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr2:7167800-7182800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr2:7168000-7185400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr2:7169600-7184200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr2:7170800-7187600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr2:7172000-7191200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr2:7172200-7184200	Weak transcription	Gastric	stomach
20	chr2:7172200-7186400	Weak transcription	Primary monocytes fromperipheralblood	blood
21	chr2:7172200-7197200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr2:7172400-7184400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr2:7172600-7182200	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr2:7173200-7183000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr2:7173400-7183600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr2:7173600-7184200	Weak transcription	Thymus	Thymus
27	chr2:7173600-7189200	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr2:7173800-7188600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr2:7174200-7184600	Weak transcription	Duodenum Mucosa	Duodenum
30	chr2:7174800-7195200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr2:7175400-7187600	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr2:7175600-7183400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr2:7175800-7182800	Strong transcription	Spleen	Spleen
34	chr2:7175800-7187400	Weak transcription	Fetal Intestine Small	intestine
35	chr2:7177800-7183400	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr2:7177800-7184000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr2:7178000-7182000	Weak transcription	Fetal Brain Male	brain
38	chr2:7178000-7182800	Strong transcription	Fetal Stomach	stomach
39	chr2:7178400-7183000	Strong transcription	Brain Anterior Caudate	brain
40	chr2:7178400-7197600	Weak transcription	Fetal Heart	heart
41	chr2:7178800-7182600	Weak transcription	Brain Angular Gyrus	brain
42	chr2:7178800-7182800	Strong transcription	Brain Substantia Nigra	brain
43	chr2:7179000-7183000	Strong transcription	Primary hematopoietic stem cells	blood
44	chr2:7179200-7182600	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr2:7179200-7183000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr2:7179400-7182200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr2:7179400-7182400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr2:7179600-7181800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr2:7179600-7181800	Strong transcription	Right Ventricle	heart
50	chr2:7179600-7182000	Strong transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links