Variant report

Variant	rs4769824
Chromosome Location	chr13:30883339-30883340
allele	C/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	NFIC	chr13:30882324-30883423	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:30882921..30884448-chr13:30901661..30903319,2	K562	blood:
2	chr13:30882203..30884087-chr13:30995822..30997883,2	MCF-7	breast:

Variant related genes	Relation type
KATNAL1	TF binding region
ENSG00000225039	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12873373	0.82[EUR][1000 genomes]
rs6490453	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7335432	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs756850	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs763808	0.98[EUR][1000 genomes]
rs7991052	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9506288	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs9506290	0.96[CEU][hapmap];0.97[EUR][1000 genomes]
rs9506291	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9506292	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9508700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9508701	0.96[CEU][hapmap];0.97[EUR][1000 genomes]
rs9508702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9508703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9508705	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9508706	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9508711	0.84[EUR][1000 genomes]
rs9551887	0.91[EUR][1000 genomes]
rs9634361	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30881800-30883400	Flanking Active TSS	GM12878-XiMat	blood
2	chr13:30882000-30885200	Weak transcription	Gastric	stomach
3	chr13:30882000-30889000	Weak transcription	Spleen	Spleen
4	chr13:30882200-30884200	Weak transcription	Aorta	Aorta
5	chr13:30882200-30885800	Weak transcription	Lung	lung
6	chr13:30882200-30885800	Weak transcription	Thymus	Thymus
7	chr13:30882200-30886000	Weak transcription	Esophagus	oesophagus
8	chr13:30882200-30886600	Weak transcription	HSMMtube	muscle
9	chr13:30882200-30887400	Weak transcription	Primary T cells from cord blood	blood
10	chr13:30882200-30889200	Weak transcription	Left Ventricle	heart
11	chr13:30882200-30889600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr13:30882200-30892200	Weak transcription	Psoas Muscle	Psoas
13	chr13:30882200-30893800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:30882200-30896200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr13:30882200-30896200	Weak transcription	Ovary	ovary
16	chr13:30882200-30910800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr13:30882400-30883400	Weak transcription	Primary B cells from peripheral blood	blood
18	chr13:30882400-30883400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr13:30882400-30884200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr13:30882400-30884400	Enhancers	Primary B cells from cord blood	blood
21	chr13:30882400-30885000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr13:30882400-30885400	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr13:30882400-30885400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr13:30882400-30885800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr13:30882400-30885800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr13:30882400-30885800	Weak transcription	Fetal Lung	lung
27	chr13:30882400-30886600	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr13:30882400-30886600	Weak transcription	HSMM	muscle
29	chr13:30882400-30886800	Weak transcription	Liver	Liver
30	chr13:30882400-30887000	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr13:30882400-30887000	Weak transcription	Brain Hippocampus Middle	brain
32	chr13:30882400-30887200	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr13:30882400-30887200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr13:30882400-30887400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr13:30882400-30887400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr13:30882400-30887400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr13:30882400-30887600	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr13:30882400-30892000	Weak transcription	Fetal Muscle Leg	muscle
39	chr13:30882400-30892200	Weak transcription	Right Atrium	heart
40	chr13:30882400-30894800	Weak transcription	Fetal Intestine Small	intestine
41	chr13:30882400-30905400	Weak transcription	Right Ventricle	heart
42	chr13:30882400-30905400	Weak transcription	Stomach Smooth Muscle	stomach
43	chr13:30882600-30883400	Enhancers	Muscle Satellite Cultured Cells	--
44	chr13:30882600-30884000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr13:30882600-30886400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr13:30882600-30886400	Weak transcription	NHEK	skin
47	chr13:30882600-30887000	Weak transcription	Adipose Nuclei	Adipose
48	chr13:30882800-30886000	Weak transcription	HUVEC	blood vessel
49	chr13:30882800-30886600	Weak transcription	Rectal Smooth Muscle	rectum
50	chr13:30882800-30886800	Weak transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links