Variant report

Variant	rs551057790
Chromosome Location	chr1:225839571-225839572
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:225837427..225840377-chr1:226110786..226113665,3	MCF-7	breast:
2	chr1:225766054..225768167-chr1:225839556..225842131,2	MCF-7	breast:
3	chr1:225839309..225842570-chr1:226062972..226068660,6	MCF-7	breast:
4	chr1:225742063..225742688-chr1:225839412..225840063,2	MCF-7	breast:
5	chr1:225839340..225843768-chr1:225964006..225968066,9	MCF-7	breast:
6	chr1:225837738..225841787-chr1:225965241..225967265,3	MCF-7	breast:
7	chr1:225838732..225840997-chr1:226248323..226251215,2	MCF-7	breast:
8	chr1:225811629..225814682-chr1:225837317..225840214,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000163041	Chromatin interaction
ENSG00000196187	Chromatin interaction
ENSG00000143742	Chromatin interaction
ENSG00000154380	Chromatin interaction
ENSG00000272562	Chromatin interaction
ENSG00000143811	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832725	chr1:225726998-225910121	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832736	chr1:225815717-225968619	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	esv3435512	chr1:225838929-225842227	Active TSS Weak transcription Enhancers Flanking Active TSS 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	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225825600-225839600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:225830400-225839600	Weak transcription	Gastric	stomach
3	chr1:225836200-225840400	Active TSS	Right Atrium	heart
4	chr1:225836200-225842000	Active TSS	Aorta	Aorta
5	chr1:225836600-225841400	Active TSS	Skeletal Muscle Female	skeletal muscle
6	chr1:225836600-225842200	Active TSS	Right Ventricle	heart
7	chr1:225836600-225842200	Active TSS	Stomach Smooth Muscle	stomach
8	chr1:225836800-225842200	Active TSS	NHLF	lung
9	chr1:225837000-225842000	Active TSS	Ovary	ovary
10	chr1:225837000-225842800	Active TSS	Psoas Muscle	Psoas
11	chr1:225837200-225841800	Active TSS	Osteobl	bone
12	chr1:225837200-225842800	Active TSS	Skeletal Muscle Male	skeletal muscle
13	chr1:225837400-225842200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr1:225837600-225841600	Active TSS	Fetal Muscle Leg	muscle
15	chr1:225837600-225841800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr1:225837600-225842000	Active TSS	Fetal Lung	lung
17	chr1:225837600-225842000	Active TSS	Rectal Smooth Muscle	rectum
18	chr1:225837600-225842400	Active TSS	H1 Cell Line	embryonic stem cell
19	chr1:225838000-225841400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr1:225838000-225841800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr1:225838000-225841800	Active TSS	Colon Smooth Muscle	Colon
22	chr1:225838000-225842000	Active TSS	Fetal Stomach	stomach
23	chr1:225838000-225842200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr1:225838000-225842400	Active TSS	ES-I3 Cell Line	embryonic stem cell
25	chr1:225838000-225842400	Active TSS	iPS-15b Cell Line	embryonic stem cell
26	chr1:225838000-225842800	Active TSS	A549	lung
27	chr1:225838200-225839600	Active TSS	Brain Germinal Matrix	brain
28	chr1:225838200-225841600	Active TSS	Fetal Brain Female	brain
29	chr1:225838200-225841800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr1:225838200-225841800	Active TSS	Muscle Satellite Cultured Cells	--
31	chr1:225838200-225842000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr1:225838200-225842000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr1:225838200-225842000	Active TSS	NH-A	brain
34	chr1:225838200-225842200	Active TSS	iPS-20b Cell Line	embryonic stem cell
35	chr1:225838200-225842200	Active TSS	HSMM	muscle
36	chr1:225838200-225842200	Active TSS	HSMMtube	muscle
37	chr1:225838200-225842400	Active TSS	HUES48 Cell Line	embryonic stem cell
38	chr1:225838200-225842400	Active TSS	HUES6 Cell Line	embryonic stem cell
39	chr1:225838200-225842400	Active TSS	iPS-18 Cell Line	embryonic stem cell
40	chr1:225838200-225842800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr1:225838400-225842000	Active TSS	NHDF-Ad	bronchial
42	chr1:225838400-225842200	Active TSS	H9 Cell Line	embryonic stem cell
43	chr1:225838400-225842200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr1:225838600-225839600	Flanking Active TSS	HUVEC	blood vessel
45	chr1:225838600-225842000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
46	chr1:225838600-225842000	Active TSS	Cortex derived primary cultured neurospheres	brain
47	chr1:225838600-225842000	Active TSS	Fetal Kidney	kidney
48	chr1:225838600-225842000	Active TSS	HMEC	breast
49	chr1:225838600-225842200	Active TSS	Fetal Muscle Trunk	muscle
50	chr1:225838800-225840000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links