Variant report

Variant	rs10898977
Chromosome Location	chr11:74022163-74022164
allele	A/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	chr11:74022000-74022526	MCF-7	breast:	n/a	n/a
2	POLR2A	chr11:74021818-74022958	A549	lung:	n/a	n/a
3	MAX	chr11:74021742-74023285	A549	lung:	n/a	n/a
4	MYC	chr11:74022144-74022617	MCF-7	breast:	n/a	n/a
5	POLR2A	chr11:74022129-74022340	A549	lung:	n/a	n/a
6	BCL3	chr11:74021828-74022239	GM12878	blood:	n/a	n/a
7	POLR2A	chr11:74021948-74022728	A549	lung:	n/a	n/a
8	ZBTB7A	chr11:74022144-74022744	ECC-1	luminal epithelium:	n/a	n/a
9	TCF3	chr11:74021903-74022431	GM12878	blood:	n/a	n/a
10	POLR2A	chr11:74021989-74023005	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:74019898..74022281-chr11:74031863..74033488,2	K562	blood:

Variant related genes	Relation type
ENSG00000246211	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1063807	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs12364246	0.83[ASN][1000 genomes]
rs12365592	0.85[ASN][1000 genomes]
rs1941817	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs2848559	0.83[JPT][hapmap]
rs3193507	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs3894651	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4306310	0.83[ASN][1000 genomes]
rs4641511	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs474280	0.87[JPT][hapmap]
rs486577	0.87[JPT][hapmap]
rs490539	0.87[JPT][hapmap]
rs513678	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs556134	0.83[JPT][hapmap]
rs55660813	0.94[ASN][1000 genomes]
rs568959	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs627354	0.82[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs634243	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs642884	0.94[ASN][1000 genomes]
rs7106827	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7130795	0.82[JPT][hapmap]
rs752577	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7931026	0.82[ASN][1000 genomes]
rs7943938	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7947390	0.87[ASN][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	esv2757451	chr11:73842609-74545888	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS 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	87 gene(s)	inside rSNPs	diseases
2	esv2759837	chr11:73842609-74557597	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	esv34979	chr11:73878688-74533452	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS 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 miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2758277	chr11:73887567-74557597	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv825994	chr11:73936667-74534455	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
6	esv3442682	chr11:74019804-74024402	Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10898977	RP11-702H23.4	cis	Thyroid	GTEx

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73999800-74022200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:74018800-74022200	Weak transcription	NHLF	lung
3	chr11:74019000-74022200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr11:74020200-74022400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr11:74021600-74022200	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
6	chr11:74021600-74022400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
7	chr11:74021600-74022400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
8	chr11:74021600-74022400	Flanking Active TSS	A549	lung
9	chr11:74021600-74023000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr11:74021800-74022200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr11:74021800-74022200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
12	chr11:74021800-74022200	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
13	chr11:74021800-74022200	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
14	chr11:74021800-74022200	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
15	chr11:74021800-74022200	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
16	chr11:74021800-74022200	Bivalent Enhancer	Fetal Kidney	kidney
17	chr11:74021800-74022200	Enhancers	Pancreas	Pancrea
18	chr11:74021800-74022200	Enhancers	Placenta Amnion	Placenta Amnion
19	chr11:74021800-74022200	Active TSS	Psoas Muscle	Psoas
20	chr11:74021800-74022200	Bivalent Enhancer	Rectal Mucosa Donor 31	rectum
21	chr11:74021800-74022200	Bivalent/Poised TSS	NHEK	skin
22	chr11:74021800-74022400	Flanking Active TSS	HUVEC	blood vessel
23	chr11:74021800-74022400	Flanking Active TSS	NH-A	brain
24	chr11:74021800-74023000	Active TSS	HSMM	muscle
25	chr11:74021800-74023200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr11:74021800-74023200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr11:74022000-74022200	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr11:74022000-74022200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr11:74022000-74022200	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
30	chr11:74022000-74022200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
31	chr11:74022000-74022200	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
32	chr11:74022000-74022200	Bivalent Enhancer	Primary B cells from cord blood	blood
33	chr11:74022000-74022200	Bivalent Enhancer	Primary T cells from cord blood	blood
34	chr11:74022000-74022200	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
35	chr11:74022000-74022200	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
36	chr11:74022000-74022200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
37	chr11:74022000-74022200	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
38	chr11:74022000-74022200	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
39	chr11:74022000-74022200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr11:74022000-74022200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr11:74022000-74022200	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr11:74022000-74022200	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr11:74022000-74022200	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr11:74022000-74022200	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
45	chr11:74022000-74022200	Bivalent Enhancer	Duodenum Mucosa	Duodenum
46	chr11:74022000-74022200	Enhancers	Esophagus	oesophagus
47	chr11:74022000-74022200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
48	chr11:74022000-74022200	Bivalent/Poised TSS	Fetal Intestine Large	intestine
49	chr11:74022000-74022200	Bivalent Enhancer	Fetal Intestine Small	intestine
50	chr11:74022000-74022200	Bivalent Enhancer	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links