Variant report

Variant	rs10882938
Chromosome Location	chr10:99211218-99211219
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:13)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:13 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:99210873-99212862	GM12891	blood:	n/a	n/a
2	POLR2A	chr10:99211151-99211763	H1-neurons	neurons:	n/a	n/a
3	POLR2A	chr10:99211012-99211834	U87	brain:	n/a	n/a
4	POLR2A	chr10:99210122-99212099	HepG2	liver:	n/a	n/a
5	POLR2A	chr10:99211144-99212072	HepG2	liver:	n/a	n/a
6	POLR2A	chr10:99210737-99217145	GM12878	blood:	n/a	n/a
7	POLR2A	chr10:99210753-99211262	GM12891	blood:	n/a	n/a
8	POLR2A	chr10:99210983-99211966	U87	brain:	n/a	n/a
9	POLR2A	chr10:99210570-99214569	GM12878	blood:	n/a	n/a
10	POLR2A	chr10:99211087-99214596	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr10:99210501-99214362	A549	lung:	n/a	n/a
12	POLR2A	chr10:99210586-99211340	Hela-S3	cervix:	n/a	n/a
13	POLR2A	chr10:99210540-99217215	Hela-S3	cervix:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr10:99205389..99207344-chr10:99208638..99211483,4	MCF-7	breast:
2	chr10:99208835..99213296-chr10:99221079..99225191,5	K562	blood:
3	chr10:99205859..99207982-chr10:99208741..99212627,5	K562	blood:
4	chr10:99209876..99212746-chr10:99220453..99223449,3	K562	blood:
5	chr10:99204257..99208828-chr10:99209002..99214217,10	MCF-7	breast:
6	chr10:99208764..99211398-chr10:99214569..99216426,2	MCF-7	breast:
7	chr10:99205859..99207837-chr10:99208741..99212627,4	K562	blood:
8	chr10:99210968..99213480-chr10:99218444..99221440,2	MCF-7	breast:

No data

Variant related genes	Relation type
ZDHHC16	TF binding region
ENSG00000171311	Chromatin interaction
ENSG00000155229	Chromatin interaction
ENSG00000171307	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10786349	0.82[CEU][hapmap];0.95[CHB][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10882941	0.83[CEU][hapmap];0.95[CHB][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10882942	0.85[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11189240	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11189245	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs12412017	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2007349	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2152092	0.82[CEU][hapmap];0.95[CHB][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2211243	0.87[ASN][1000 genomes]
rs2236575	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3740526	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3750558	0.83[ASN][1000 genomes]
rs3818909	0.82[CEU][hapmap];0.86[CHB][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4917773	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7068965	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs7093946	0.82[CEU][hapmap];0.95[CHB][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7096611	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs7897727	0.87[CHB][hapmap];0.82[EUR][1000 genomes]
rs7923541	0.81[CHB][hapmap]
rs7923913	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1817777	chr10:99196035-99558169	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10882938	MMS19	cis	brain	BrainEAC

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99206800-99234200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:99207200-99211400	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr10:99207200-99211400	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr10:99207200-99211400	Weak transcription	Primary B cells from cord blood	blood
5	chr10:99207200-99211400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr10:99207200-99211600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr10:99207200-99212000	Weak transcription	HSMMtube	muscle
8	chr10:99207200-99212400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr10:99207200-99214800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr10:99207200-99215200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr10:99207200-99215400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr10:99207200-99216800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:99207400-99211800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr10:99207400-99212000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr10:99207400-99212600	Weak transcription	Aorta	Aorta
16	chr10:99207400-99214200	Weak transcription	K562	blood
17	chr10:99207400-99215400	Weak transcription	Colonic Mucosa	Colon
18	chr10:99207400-99215400	Weak transcription	Ovary	ovary
19	chr10:99207400-99216600	Weak transcription	Small Intestine	intestine
20	chr10:99207400-99218600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr10:99207600-99211800	Weak transcription	Brain Hippocampus Middle	brain
22	chr10:99207600-99218200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr10:99208000-99211800	Weak transcription	Fetal Intestine Large	intestine
24	chr10:99208000-99211800	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr10:99208000-99212000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr10:99208000-99227000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr10:99208200-99211600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:99208200-99211800	Weak transcription	Colon Smooth Muscle	Colon
29	chr10:99208200-99212000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr10:99208200-99212000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr10:99208200-99212000	Weak transcription	NH-A	brain
32	chr10:99208200-99212200	Weak transcription	Fetal Brain Male	brain
33	chr10:99208200-99216800	Weak transcription	Fetal Kidney	kidney
34	chr10:99208800-99211400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr10:99208800-99211800	Weak transcription	Liver	Liver
36	chr10:99208800-99216600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr10:99209000-99211600	Weak transcription	NHDF-Ad	bronchial
38	chr10:99209000-99212200	Weak transcription	Hela-S3	cervix
39	chr10:99210000-99211400	Enhancers	HMEC	breast
40	chr10:99210000-99211600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr10:99210000-99211800	Strong transcription	Fetal Muscle Trunk	muscle
42	chr10:99210000-99214000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr10:99210000-99214400	Strong transcription	Cortex derived primary cultured neurospheres	brain
44	chr10:99210000-99220400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr10:99210000-99223400	Strong transcription	NHLF	lung
46	chr10:99210000-99223600	Strong transcription	A549	lung
47	chr10:99210000-99228800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
48	chr10:99210000-99243800	Strong transcription	Primary T cells from cord blood	blood
49	chr10:99210000-99243800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr10:99210000-99244000	Strong transcription	Fetal Stomach	stomach

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