Variant report

Variant	rs58561135
Chromosome Location	chr1:242013452-242013453
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:241799658..241805161-chr1:242010004..242013743,14	K562	blood:
2	chr1:241814475..241817056-chr1:242011284..242013767,3	K562	blood:
3	chr1:241692902..241697485-chr1:242010276..242014432,6	K562	blood:

Variant related genes	Relation type
ENSG00000162843	Chromatin interaction
ENSG00000117009	Chromatin interaction
ENSG00000054277	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs2030343	1.00[AMR][1000 genomes]
rs28677825	1.00[AMR][1000 genomes]
rs4149854	1.00[AMR][1000 genomes]
rs6699148	1.00[AMR][1000 genomes]
rs73141750	1.00[AMR][1000 genomes]
rs74151021	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997966	chr1:241100739-242087629	Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
2	nsv1002214	chr1:241458939-242099790	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv873368	chr1:241533392-242195928	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv873372	chr1:241690554-242438293	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
5	nsv948409	chr1:241830086-242489705	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv528015	chr1:241865219-242070731	Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv1008300	chr1:241886514-242171611	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
8	esv2762521	chr1:241891040-242074222	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv873373	chr1:241939069-242027500	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
10	nsv873374	chr1:241975147-242097624	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:242012000-242014000	Transcr. at gene 5' and 3'	Dnd41	blood
2	chr1:242012000-242021400	Weak transcription	Right Atrium	heart
3	chr1:242012000-242023800	Weak transcription	Stomach Mucosa	stomach
4	chr1:242012000-242032600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr1:242012200-242016800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:242012200-242025600	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr1:242012200-242027800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr1:242012200-242028600	Weak transcription	Gastric	stomach
9	chr1:242012200-242044000	Weak transcription	Primary B cells from cord blood	blood
10	chr1:242012400-242014600	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr1:242012400-242015400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:242012400-242019400	Weak transcription	Fetal Brain Male	brain
13	chr1:242012400-242060200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr1:242012600-242014600	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr1:242012600-242016600	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr1:242012600-242016800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr1:242012600-242023200	Weak transcription	Fetal Muscle Trunk	muscle
18	chr1:242012600-242051600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr1:242012600-242051800	Weak transcription	Duodenum Mucosa	Duodenum
20	chr1:242012800-242013600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:242012800-242013800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr1:242012800-242015800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr1:242012800-242016400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:242012800-242016800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr1:242012800-242017000	Weak transcription	Fetal Stomach	stomach
26	chr1:242012800-242019800	Weak transcription	Fetal Kidney	kidney
27	chr1:242012800-242020600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr1:242012800-242054600	Weak transcription	HSMM	muscle
29	chr1:242012800-242056000	Weak transcription	Fetal Intestine Small	intestine
30	chr1:242013000-242013600	Weak transcription	Primary hematopoietic stem cells	blood
31	chr1:242013000-242014000	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr1:242013000-242016800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr1:242013000-242017000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr1:242013000-242053400	Weak transcription	Fetal Lung	lung
35	chr1:242013200-242013600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr1:242013200-242013600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr1:242013200-242013600	Genic enhancers	K562	blood
38	chr1:242013200-242014000	Enhancers	GM12878-XiMat	blood
39	chr1:242013200-242014400	Strong transcription	A549	lung
40	chr1:242013200-242014600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr1:242013200-242014800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr1:242013200-242014800	Weak transcription	HMEC	breast
43	chr1:242013200-242014800	Weak transcription	NHEK	skin
44	chr1:242013200-242015000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr1:242013200-242015200	Weak transcription	Fetal Intestine Large	intestine
46	chr1:242013200-242015400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr1:242013200-242016400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr1:242013200-242016600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr1:242013200-242016600	Weak transcription	Fetal Brain Female	brain
50	chr1:242013200-242016800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links