Variant report

Variant	rs420176
Chromosome Location	chr13:111216902-111216903
allele	C/G
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	POLR2A	chr13:111216740-111217285	HepG2	liver:	n/a	n/a
2	MAX	chr13:111216778-111218103	ECC-1	luminal epithelium:	n/a	chr13:111216837-111216847
3	POLR2A	chr13:111216792-111217165	ECC-1	luminal epithelium:	n/a	n/a
4	EP300	chr13:111216807-111218250	ECC-1	luminal epithelium:	n/a	chr13:111217925-111217935

No.	Distal block	Cell Line	Cell type
1	chr13:111176604..111179029-chr13:111215041..111217071,2	MCF-7	breast:
2	chr13:111215515..111217853-chr13:111220246..111222772,2	K562	blood:
3	chr13:111214986..111217647-chr13:111218744..111220287,2	MCF-7	breast:

Variant related genes	Relation type
RAB20	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2025656	0.81[EUR][1000 genomes]
rs392473	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs430147	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs445740	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4506764	0.84[EUR][1000 genomes]
rs454582	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4771691	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9521841	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046423	chr13:110936104-111286607	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv832720	chr13:111100235-111295993	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv1046291	chr13:111125747-111257861	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1045143	chr13:111126822-111242791	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats 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	16 gene(s)	inside rSNPs	diseases
5	nsv1044234	chr13:111143053-111370580	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	216 gene(s)	inside rSNPs	diseases
6	nsv949634	chr13:111151460-111582996	Genic enhancers Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	245 gene(s)	inside rSNPs	diseases
7	nsv901010	chr13:111165390-111286592	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv1053922	chr13:111167764-111330876	Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv1043849	chr13:111167764-111340418	Bivalent Enhancer Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
10	nsv541924	chr13:111167764-111340418	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer 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	25 gene(s)	inside rSNPs	diseases
11	nsv1036160	chr13:111167764-111347308	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
12	nsv541925	chr13:111167764-111347308	Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer 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	25 gene(s)	inside rSNPs	diseases
13	nsv901011	chr13:111168951-111280002	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 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	chr13:111214800-111218600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr13:111214800-111226400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr13:111215200-111220000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr13:111215400-111217000	Weak transcription	Fetal Kidney	kidney
5	chr13:111215400-111217400	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr13:111215400-111218200	Weak transcription	Psoas Muscle	Psoas
7	chr13:111215400-111221000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr13:111215600-111217000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr13:111215600-111217000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr13:111215600-111217200	Enhancers	Stomach Mucosa	stomach
11	chr13:111215600-111222600	Weak transcription	Ovary	ovary
12	chr13:111215800-111217000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr13:111215800-111217400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr13:111215800-111219800	Weak transcription	Placenta	Placenta
15	chr13:111215800-111220000	Weak transcription	Small Intestine	intestine
16	chr13:111215800-111220800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr13:111216000-111217000	Weak transcription	Fetal Intestine Large	intestine
18	chr13:111216000-111220000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr13:111216000-111220000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr13:111216000-111220600	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr13:111216000-111227800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr13:111216000-111227800	Weak transcription	Gastric	stomach
23	chr13:111216200-111217200	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr13:111216200-111217400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr13:111216200-111217400	Enhancers	Liver	Liver
26	chr13:111216200-111217400	Enhancers	HepG2	liver
27	chr13:111216200-111217600	Flanking Active TSS	Duodenum Mucosa	Duodenum
28	chr13:111216200-111219000	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr13:111216200-111219800	Weak transcription	K562	blood
30	chr13:111216200-111220800	Weak transcription	Adipose Nuclei	Adipose
31	chr13:111216200-111221000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr13:111216200-111221600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr13:111216200-111223200	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr13:111216200-111226400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr13:111216600-111217000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr13:111216600-111217200	Enhancers	Pancreas	Pancrea
37	chr13:111216600-111218800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr13:111216600-111223000	Weak transcription	Fetal Intestine Small	intestine
39	chr13:111216800-111217200	ZNF genes & repeats	Fetal Stomach	stomach
40	chr13:111216800-111217200	Enhancers	Lung	lung
41	chr13:111216800-111217200	Genic enhancers	Spleen	Spleen
42	chr13:111216800-111217400	Enhancers	H9 Cell Line	embryonic stem cell
43	chr13:111216800-111217400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr13:111216800-111218000	Enhancers	Hela-S3	cervix

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