Variant report

Variant	rs41293965
Chromosome Location	chr10:5987237-5987238
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:5958041..5960183-chr10:5985968..5987908,2	K562	blood:
2	chr10:5985856..5987611-chr10:5988496..5991234,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000134452	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs41294017	1.00[AFR][1000 genomes]
rs41294177	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1041261	chr10:5962635-6052196	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1050983	chr10:5963921-6052196	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5969600-5987800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr10:5969600-6012000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr10:5971400-6013200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr10:5978800-5988200	Weak transcription	Fetal Brain Male	brain
5	chr10:5980000-5991000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:5980000-6013200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr10:5980200-5987800	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr10:5980400-5987800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr10:5980600-5987400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr10:5980600-5987400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr10:5980800-5987400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr10:5980800-5987400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr10:5980800-5987400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:5980800-5987400	Weak transcription	Liver	Liver
15	chr10:5980800-5991000	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr10:5980800-5994600	Weak transcription	Gastric	stomach
17	chr10:5980800-6017800	Weak transcription	Thymus	Thymus
18	chr10:5981000-5987600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr10:5981000-5987600	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr10:5981000-5987800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:5981000-5988000	Weak transcription	Brain Cingulate Gyrus	brain
22	chr10:5981000-6003600	Weak transcription	Primary T cells from cord blood	blood
23	chr10:5981200-5987400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr10:5981200-5987400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr10:5981200-5987600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr10:5982800-5995000	Weak transcription	GM12878-XiMat	blood
27	chr10:5983200-5987400	Enhancers	Stomach Smooth Muscle	stomach
28	chr10:5983400-5989000	Enhancers	Fetal Stomach	stomach
29	chr10:5983600-5987800	Enhancers	K562	blood
30	chr10:5983600-5988600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
31	chr10:5984600-5989000	Enhancers	Fetal Muscle Trunk	muscle
32	chr10:5985200-5989200	Enhancers	Spleen	Spleen
33	chr10:5985400-5987400	Enhancers	Left Ventricle	heart
34	chr10:5985400-5987600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr10:5985400-5987600	Enhancers	Pancreas	Pancrea
36	chr10:5985400-5988400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr10:5985400-5988400	Enhancers	Fetal Kidney	kidney
38	chr10:5985400-5988600	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr10:5985600-5987600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
40	chr10:5985600-5987600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr10:5985600-5988200	Enhancers	Cortex derived primary cultured neurospheres	brain
42	chr10:5985600-5990000	Enhancers	ES-I3 Cell Line	embryonic stem cell
43	chr10:5985800-5987400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr10:5985800-5987400	Enhancers	HepG2	liver
45	chr10:5986000-5987600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr10:5986000-5987800	Enhancers	Fetal Thymus	thymus
47	chr10:5986000-5988400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr10:5986200-5987400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr10:5986200-5987400	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr10:5986200-5988400	Flanking Active TSS	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links