Variant report

Variant	rs10204140
Chromosome Location	chr2:112859194-112859195
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:112854980..112857744-chr2:112857881..112859739,2	K562	blood:
2	chr2:112858608..112860741-chr2:112877873..112879407,2	MCF-7	breast:
3	chr2:112858852..112860366-chr2:112864135..112866209,2	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10168915	1.00[ASN][1000 genomes]
rs10170258	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10171359	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10172310	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10175344	1.00[ASN][1000 genomes]
rs10175752	0.88[AFR][1000 genomes]
rs10180018	1.00[ASN][1000 genomes]
rs10182451	1.00[ASN][1000 genomes]
rs10182764	1.00[ASN][1000 genomes]
rs10182931	1.00[ASN][1000 genomes]
rs10183003	1.00[ASN][1000 genomes]
rs10185224	1.00[ASN][1000 genomes]
rs10197735	1.00[ASN][1000 genomes]
rs10201041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10201778	1.00[ASN][1000 genomes]
rs10204243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10204653	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10204929	0.88[AFR][1000 genomes]
rs10206255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12328678	1.00[ASN][1000 genomes]
rs13313775	1.00[ASN][1000 genomes]
rs13383743	1.00[ASN][1000 genomes]
rs13391959	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13394094	1.00[ASN][1000 genomes]
rs13401258	0.88[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13411851	1.00[ASN][1000 genomes]
rs13412743	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13417413	1.00[ASN][1000 genomes]
rs13418394	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13421261	1.00[ASN][1000 genomes]
rs13422534	1.00[ASN][1000 genomes]
rs13424713	1.00[ASN][1000 genomes]
rs13431260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56371451	1.00[ASN][1000 genomes]
rs6705046	1.00[ASN][1000 genomes]
rs67246870	1.00[ASN][1000 genomes]
rs72825696	1.00[ASN][1000 genomes]
rs72829620	1.00[ASN][1000 genomes]
rs72829658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72829697	0.88[AFR][1000 genomes]
rs72831604	0.88[AFR][1000 genomes]
rs72943913	1.00[ASN][1000 genomes]
rs9631022	1.00[ASN][1000 genomes]
rs9631023	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874863	chr2:112591224-113157344	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv874864	chr2:112617280-113104142	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv874865	chr2:112623098-113049274	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
4	nsv1013218	chr2:112645633-112908416	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	esv3333591	chr2:112669320-112892618	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv1002027	chr2:112679182-112861534	Weak transcription Genic enhancers Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv1014787	chr2:112679182-112908416	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
8	nsv535893	chr2:112679182-112908416	Strong transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:112814200-112859800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr2:112816600-112866200	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr2:112816800-112871400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr2:112822800-112876800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr2:112832000-112866000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr2:112834600-112871200	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr2:112835800-112883200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:112836000-112874400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:112838200-112866200	Strong transcription	Primary T cells fromperipheralblood	blood
10	chr2:112838200-112866400	Strong transcription	Rectal Mucosa Donor 31	rectum
11	chr2:112843000-112869400	Weak transcription	Fetal Heart	heart
12	chr2:112845400-112875200	Weak transcription	Right Ventricle	heart
13	chr2:112845600-112865400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr2:112846200-112865800	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr2:112847800-112867200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr2:112851000-112866400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr2:112851000-112867600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr2:112851200-112881600	Weak transcription	Stomach Mucosa	stomach
19	chr2:112852000-112871200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr2:112852800-112866000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr2:112853200-112864600	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr2:112853200-112865600	Strong transcription	Primary B cells from peripheral blood	blood
23	chr2:112853200-112866000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr2:112853200-112866200	Strong transcription	Liver	Liver
25	chr2:112853200-112866600	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr2:112853200-112871200	Strong transcription	Muscle Satellite Cultured Cells	--
27	chr2:112853200-112871200	Strong transcription	Duodenum Mucosa	Duodenum
28	chr2:112853400-112859600	Strong transcription	GM12878-XiMat	blood
29	chr2:112853400-112860200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr2:112853400-112860600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr2:112853400-112861800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr2:112853400-112862200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
33	chr2:112853400-112862200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr2:112853400-112865600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr2:112853400-112866200	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr2:112853400-112866400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr2:112853400-112871200	Strong transcription	Placenta	Placenta
38	chr2:112853600-112859600	Strong transcription	Osteobl	bone
39	chr2:112853600-112862000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr2:112854200-112865600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr2:112854200-112866200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr2:112854400-112865200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr2:112854400-112869400	Weak transcription	Esophagus	oesophagus
44	chr2:112855000-112862600	Strong transcription	NHDF-Ad	bronchial
45	chr2:112855200-112866000	Weak transcription	Psoas Muscle	Psoas
46	chr2:112855400-112859400	Strong transcription	Dnd41	blood
47	chr2:112855400-112861400	Strong transcription	HSMM	muscle
48	chr2:112855400-112871200	Strong transcription	NH-A	brain
49	chr2:112855800-112859400	Strong transcription	HUVEC	blood vessel
50	chr2:112855800-112859800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links