Variant report

Variant	rs558054898
Chromosome Location	chr1:10613064-10613065
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:10612128..10614249-chr1:11118816..11121304,2	MCF-7	breast:
2	chr1:10601514..10603833-chr1:10611610..10614031,2	K562	blood:
3	chr1:10612660..10614592-chr1:10614870..10616805,2	K562	blood:

Variant related genes	Relation type
ENSG00000116649	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817370	chr1:10305470-10697150	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1008021	chr1:10363794-10802633	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv545395	chr1:10584672-10613660	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1015079	chr1:10611403-10645176	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10589400-10664800	Weak transcription	Aorta	Aorta
2	chr1:10591000-10639400	Weak transcription	Hela-S3	cervix
3	chr1:10591400-10629200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr1:10591600-10616000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:10592200-10615800	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr1:10598600-10621800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:10600000-10615600	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr1:10600000-10615800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr1:10600000-10619600	Weak transcription	Brain Substantia Nigra	brain
10	chr1:10600200-10614800	Weak transcription	Brain Angular Gyrus	brain
11	chr1:10600200-10615800	Weak transcription	HSMM	muscle
12	chr1:10601200-10613400	Weak transcription	Osteobl	bone
13	chr1:10601200-10619600	Weak transcription	Brain Anterior Caudate	brain
14	chr1:10601400-10615600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr1:10601800-10613200	Weak transcription	K562	blood
16	chr1:10601800-10613400	Weak transcription	Right Ventricle	heart
17	chr1:10602000-10613200	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr1:10602000-10615600	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr1:10602000-10615600	Weak transcription	HMEC	breast
20	chr1:10602000-10616200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:10602000-10619400	Weak transcription	Brain Hippocampus Middle	brain
22	chr1:10602000-10639600	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr1:10602200-10615600	Weak transcription	Placenta	Placenta
24	chr1:10602200-10615600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr1:10602400-10613200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr1:10602400-10613200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr1:10602400-10613600	Weak transcription	Primary B cells from peripheral blood	blood
28	chr1:10602400-10615600	Weak transcription	Fetal Muscle Leg	muscle
29	chr1:10602400-10616000	Weak transcription	Adipose Nuclei	Adipose
30	chr1:10602600-10613200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr1:10602600-10615400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr1:10602600-10615600	Weak transcription	HSMMtube	muscle
33	chr1:10602600-10619400	Weak transcription	NHEK	skin
34	chr1:10602600-10624000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr1:10602800-10615800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr1:10603000-10659000	Weak transcription	Primary B cells from cord blood	blood
37	chr1:10603200-10615800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr1:10603800-10616000	Weak transcription	Spleen	Spleen
39	chr1:10604000-10613800	Weak transcription	Esophagus	oesophagus
40	chr1:10604000-10615000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr1:10604600-10619600	Weak transcription	Thymus	Thymus
42	chr1:10604600-10621400	Weak transcription	Dnd41	blood
43	chr1:10604600-10623800	Weak transcription	Duodenum Mucosa	Duodenum
44	chr1:10604800-10621200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr1:10605000-10659000	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr1:10605200-10615200	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr1:10605400-10621200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr1:10606000-10638000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr1:10607200-10619600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr1:10607400-10615800	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links