Variant report

Variant	rs2896406
Chromosome Location	chr7:128301721-128301722
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	CBX3	chr7:128301450-128301957	K562	blood:	n/a	n/a
2	KAP1	chr7:128301501-128301833	K562	blood:	n/a	n/a
3	POLR2A	chr7:128301581-128301943	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr7:128301670-128302059	PANC-1	pancreas:	n/a	n/a
5	CBX3	chr7:128301349-128301952	K562	blood:	n/a	n/a
6	TRIM28	chr7:128301340-128301979	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:128299231..128302133-chr7:128312144..128313833,2	K562	blood:
2	chr7:128115173..128117389-chr7:128298817..128301721,2	K562	blood:

Variant related genes	Relation type
CICP14	TF binding region
ENSG00000205085	Chromatin interaction
ENSG00000165055	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10239393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10262251	0.91[AFR][1000 genomes]
rs10808232	1.00[AMR][1000 genomes]
rs2060716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2060719	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2562728	1.00[AMR][1000 genomes]
rs2562729	1.00[AMR][1000 genomes]
rs2562739	1.00[AMR][1000 genomes]
rs2732383	1.00[AMR][1000 genomes]
rs2732390	1.00[AMR][1000 genomes]
rs2732391	1.00[AMR][1000 genomes]
rs2732404	1.00[AMR][1000 genomes]
rs2732410	1.00[AMR][1000 genomes]
rs2732411	1.00[AMR][1000 genomes]
rs2732430	1.00[AMR][1000 genomes]
rs28770797	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3993496	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4377901	1.00[AMR][1000 genomes]
rs4728119	1.00[AMR][1000 genomes]
rs4728121	1.00[AMR][1000 genomes]
rs4728122	1.00[AMR][1000 genomes]
rs4731499	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57829455	1.00[AMR][1000 genomes]
rs6467183	1.00[AMR][1000 genomes]
rs6947542	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6950246	1.00[AMR][1000 genomes]
rs6951154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6957806	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6959989	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6973538	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6975178	1.00[AMR][1000 genomes]
rs6979279	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6979742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7777883	1.00[AMR][1000 genomes]
rs7786173	1.00[AMR][1000 genomes]
rs9690224	1.00[AMR][1000 genomes]
rs9692127	1.00[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	nsv427806	chr7:128179989-128428182	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:128249600-128308400	Weak transcription	HSMM	muscle
2	chr7:128249600-128312200	Weak transcription	Psoas Muscle	Psoas
3	chr7:128249600-128319600	Weak transcription	NHLF	lung
4	chr7:128282400-128312400	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr7:128284000-128304800	Weak transcription	Primary T cells from cord blood	blood
6	chr7:128284200-128313200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr7:128284400-128313200	Weak transcription	Colon Smooth Muscle	Colon
8	chr7:128293600-128302000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr7:128293600-128302200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr7:128293600-128312200	Weak transcription	Fetal Muscle Trunk	muscle
11	chr7:128294000-128313200	Weak transcription	Brain Germinal Matrix	brain
12	chr7:128294400-128302200	Weak transcription	Aorta	Aorta
13	chr7:128294600-128301800	Weak transcription	Fetal Brain Female	brain
14	chr7:128294800-128302200	Weak transcription	Gastric	stomach
15	chr7:128294800-128328000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr7:128295000-128304800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr7:128295000-128310400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr7:128295000-128311000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr7:128295000-128319800	Weak transcription	Left Ventricle	heart
20	chr7:128295000-128319800	Weak transcription	Right Ventricle	heart
21	chr7:128295000-128325200	Weak transcription	Brain Hippocampus Middle	brain
22	chr7:128295400-128325400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr7:128298600-128329200	Weak transcription	Pancreas	Pancrea
24	chr7:128300200-128313200	Weak transcription	Right Atrium	heart
25	chr7:128300800-128302400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr7:128301000-128302400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr7:128301000-128302400	ZNF genes & repeats	Fetal Intestine Small	intestine
28	chr7:128301000-128302600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr7:128301000-128302800	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr7:128301400-128301800	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
31	chr7:128301400-128301800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
32	chr7:128301400-128302000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr7:128301400-128302000	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr7:128301400-128302000	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr7:128301400-128302000	ZNF genes & repeats	Fetal Lung	lung
36	chr7:128301400-128302200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr7:128301400-128302400	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr7:128301400-128302400	ZNF genes & repeats	Fetal Muscle Leg	muscle
39	chr7:128301400-128302600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr7:128301400-128302600	ZNF genes & repeats	Fetal Stomach	stomach
41	chr7:128301600-128301800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr7:128301600-128302000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr7:128301600-128302600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
44	chr7:128301600-128302600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links