Variant report

Variant	rs62625038
Chromosome Location	chr14:35517017-35517018
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

No data

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

No.	Distal block	Cell Line	Cell type
1	chr14:35515994..35521853-chr14:35871391..35874738,9	MCF-7	breast:
2	chr14:35481674..35484183-chr14:35515641..35517435,2	MCF-7	breast:
3	chr14:35516667..35519479-chr14:35589018..35592188,3	K562	blood:
4	chr14:35513511..35517056-chr14:35517636..35522677,6	K562	blood:
5	chr14:35516520..35518836-chr14:35536161..35537991,2	K562	blood:
6	chr14:35450596..35455465-chr14:35514082..35520003,7	MCF-7	breast:
7	chr14:35450099..35453742-chr14:35513316..35517237,10	K562	blood:
8	chr14:35512802..35518057-chr14:35589980..35593805,9	MCF-7	breast:
9	chr14:35449656..35453109-chr14:35514529..35517063,4	MCF-7	breast:
10	chr14:35514347..35518167-chr14:35589018..35591815,3	K562	blood:
11	chr14:35008230..35010895-chr14:35516677..35519155,2	K562	blood:
12	chr14:35513731..35517214-chr14:35589119..35593617,5	MCF-7	breast:
13	chr14:35514169..35519549-chr14:35872431..35877872,11	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000092020	Chromatin interaction
ENSG00000100890	Chromatin interaction
ENSG00000258704	Chromatin interaction
ENSG00000100883	Chromatin interaction
ENSG00000100906	Chromatin interaction
ENSG00000129518	Chromatin interaction
ENSG00000258790	Chromatin interaction
ENSG00000151327	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs1028449	0.98[ASN][1000 genomes]
rs12050390	0.86[ASN][1000 genomes]
rs12050402	0.87[ASN][1000 genomes]
rs12050404	0.88[ASN][1000 genomes]
rs12050447	0.88[ASN][1000 genomes]
rs12587376	0.99[ASN][1000 genomes]
rs12589079	0.96[ASN][1000 genomes]
rs12880809	0.86[ASN][1000 genomes]
rs12880928	0.89[ASN][1000 genomes]
rs12881698	0.93[ASN][1000 genomes]
rs12887248	0.91[ASN][1000 genomes]
rs12887779	0.87[ASN][1000 genomes]
rs12890307	0.81[ASN][1000 genomes]
rs12892552	0.98[ASN][1000 genomes]
rs12896759	0.92[ASN][1000 genomes]
rs17102923	0.81[ASN][1000 genomes]
rs17102967	0.92[ASN][1000 genomes]
rs17102970	0.92[ASN][1000 genomes]
rs17103005	0.80[ASN][1000 genomes]
rs2010648	0.81[ASN][1000 genomes]
rs2038255	0.88[ASN][1000 genomes]
rs2143950	0.87[ASN][1000 genomes]
rs2179890	0.83[ASN][1000 genomes]
rs2273158	0.89[ASN][1000 genomes]
rs2415260	0.87[ASN][1000 genomes]
rs2415261	0.85[ASN][1000 genomes]
rs2415262	0.85[ASN][1000 genomes]
rs28365850	0.86[ASN][1000 genomes]
rs34286037	0.89[ASN][1000 genomes]
rs34678475	0.81[ASN][1000 genomes]
rs34737707	0.91[ASN][1000 genomes]
rs35030792	0.93[ASN][1000 genomes]
rs35797365	0.81[ASN][1000 genomes]
rs36112862	0.91[ASN][1000 genomes]
rs3809449	0.98[ASN][1000 genomes]
rs4456414	0.82[ASN][1000 genomes]
rs4594164	0.98[ASN][1000 genomes]
rs5014384	0.98[ASN][1000 genomes]
rs56686328	0.88[ASN][1000 genomes]
rs57075379	0.86[ASN][1000 genomes]
rs58770366	0.83[ASN][1000 genomes]
rs60693825	0.98[ASN][1000 genomes]
rs61125355	0.99[ASN][1000 genomes]
rs61136372	0.96[ASN][1000 genomes]
rs7141292	0.84[ASN][1000 genomes]
rs71421921	0.93[ASN][1000 genomes]
rs7142489	0.83[ASN][1000 genomes]
rs7144423	0.87[ASN][1000 genomes]
rs7144574	0.83[ASN][1000 genomes]
rs7144617	0.93[ASN][1000 genomes]
rs7144646	0.81[ASN][1000 genomes]
rs7145474	0.96[ASN][1000 genomes]
rs7145608	0.88[ASN][1000 genomes]
rs7145883	0.98[ASN][1000 genomes]
rs7149177	0.99[ASN][1000 genomes]
rs7153068	0.88[ASN][1000 genomes]
rs7153331	0.93[ASN][1000 genomes]
rs7153550	0.93[ASN][1000 genomes]
rs7153626	0.97[ASN][1000 genomes]
rs7154306	0.96[ASN][1000 genomes]
rs7155696	0.93[ASN][1000 genomes]
rs7156322	0.96[ASN][1000 genomes]
rs7160160	0.96[ASN][1000 genomes]
rs72680650	0.83[ASN][1000 genomes]
rs74046408	0.89[ASN][1000 genomes]
rs8006583	0.83[ASN][1000 genomes]
rs8007274	0.98[ASN][1000 genomes]
rs8009093	0.98[ASN][1000 genomes]
rs8013540	0.86[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs8014377	0.99[ASN][1000 genomes]
rs8015622	0.93[ASN][1000 genomes]
rs8017191	0.89[ASN][1000 genomes]
rs8017225	0.89[ASN][1000 genomes]
rs8018114	0.89[ASN][1000 genomes]
rs941653	0.86[ASN][1000 genomes]
rs9671773	0.80[ASN][1000 genomes]
rs9672061	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv901602	chr14:35367889-35571651	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv949617	chr14:35379923-35825436	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv1043470	chr14:35398522-35754029	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
4	nsv542031	chr14:35398522-35754029	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
5	nsv901607	chr14:35449467-35540764	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
6	nsv901608	chr14:35449467-35571651	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
7	nsv901609	chr14:35449467-35587767	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Active TSS 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	52 gene(s)	inside rSNPs	diseases
8	nsv456204	chr14:35466584-35556498	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
9	nsv564263	chr14:35466584-35556498	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
10	nsv901611	chr14:35470049-35540764	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
11	nsv901612	chr14:35470049-35571651	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
12	nsv901613	chr14:35470049-35587767	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
13	nsv1239	chr14:35477657-35522987	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
14	nsv564264	chr14:35482797-35732369	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers 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	42 gene(s)	inside rSNPs	diseases
15	nsv901614	chr14:35485748-35571651	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS 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 target site	27 gene(s)	inside rSNPs	diseases
16	nsv901615	chr14:35485748-35630175	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
17	nsv870305	chr14:35488290-35852349	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
18	nsv1043801	chr14:35493065-35539399	Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	26 gene(s)	inside rSNPs	diseases
19	nsv1052800	chr14:35509858-35607117	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
20	nsv1044515	chr14:35510785-35756317	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
21	nsv564265	chr14:35512335-35624831	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs62625038	PPP2R3C	cis	Whole Blood	GTEx
rs62625038	PPP2R3C	Cis_1M	lymphoblastoid	RTeQTL
rs62625038	FAM177A1	cis	Muscle Skeletal	GTEx
rs62625038	PPP2R3C	cis	multi-tissue	Pritchard

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:35514400-35517600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr14:35514400-35517600	Active TSS	Pancreatic Islets	Pancreatic Islet
3	chr14:35514600-35517200	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr14:35514600-35517200	Active TSS	Right Atrium	heart
5	chr14:35514600-35518000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr14:35514800-35517200	Active TSS	Fetal Intestine Small	intestine
7	chr14:35514800-35517600	Active TSS	Aorta	Aorta
8	chr14:35515000-35518000	Active TSS	Rectal Mucosa Donor 31	rectum
9	chr14:35516000-35517200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr14:35516200-35517200	Active TSS	Colonic Mucosa	Colon
11	chr14:35516200-35517600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
12	chr14:35516400-35517200	Enhancers	Primary T cells fromperipheralblood	blood
13	chr14:35516400-35517200	Flanking Active TSS	NHEK	skin
14	chr14:35516400-35517400	Flanking Active TSS	Hela-S3	cervix
15	chr14:35516400-35517600	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr14:35516400-35517600	Enhancers	Primary T killer memory cells from peripheral blood	blood
17	chr14:35516400-35517600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr14:35516400-35517600	Flanking Active TSS	Liver	Liver
19	chr14:35516400-35517600	Flanking Active TSS	HepG2	liver
20	chr14:35516400-35519600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr14:35516400-35521000	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr14:35516400-35522200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr14:35516400-35527800	Weak transcription	Esophagus	oesophagus
24	chr14:35516400-35531000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr14:35516400-35531000	Weak transcription	Gastric	stomach
26	chr14:35516400-35537600	Weak transcription	Ovary	ovary
27	chr14:35516400-35552600	Weak transcription	Spleen	Spleen
28	chr14:35516600-35517200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr14:35516600-35517200	Enhancers	Primary hematopoietic stem cells	blood
30	chr14:35516600-35517200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr14:35516600-35517200	Enhancers	Adipose Nuclei	Adipose
32	chr14:35516600-35517200	Weak transcription	Brain Angular Gyrus	brain
33	chr14:35516600-35517200	Enhancers	Placenta Amnion	Placenta Amnion
34	chr14:35516600-35517200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
35	chr14:35516600-35517200	Flanking Active TSS	GM12878-XiMat	blood
36	chr14:35516600-35517200	Enhancers	Monocytes-CD14+_RO01746	blood
37	chr14:35516600-35517400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr14:35516600-35517400	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr14:35516600-35517400	Active TSS	Rectal Smooth Muscle	rectum
40	chr14:35516600-35517600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
41	chr14:35516600-35517600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr14:35516600-35517600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
43	chr14:35516600-35517600	Enhancers	Brain Substantia Nigra	brain
44	chr14:35516600-35517600	Enhancers	Fetal Heart	heart
45	chr14:35516600-35517800	Enhancers	Primary B cells from cord blood	blood
46	chr14:35516600-35518000	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr14:35516600-35519400	Weak transcription	Placenta	Placenta
48	chr14:35516600-35519800	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr14:35516600-35519800	Weak transcription	Fetal Brain Female	brain
50	chr14:35516600-35528400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links