Variant report

Variant	rs12438298
Chromosome Location	chr15:83877931-83877932
allele	G/T
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:83680783..83683197-chr15:83876059..83879037,3	K562	blood:
2	chr15:83834964..83840588-chr15:83874121..83878306,6	MCF-7	breast:
3	chr15:83877096..83880148-chr15:83900858..83903461,3	MCF-7	breast:
4	chr15:83733142..83737236-chr15:83872525..83879828,15	MCF-7	breast:
5	chr15:83678154..83684518-chr15:83871554..83879371,12	MCF-7	breast:
6	chr15:83847714..83850048-chr15:83876536..83879465,3	MCF-7	breast:
7	chr15:83652926..83655970-chr15:83874776..83878125,3	MCF-7	breast:
8	chr15:83825858..83828355-chr15:83876251..83878131,2	MCF-7	breast:
9	chr15:83678260..83683197-chr15:83874959..83878158,5	K562	blood:
10	chr15:83734393..83737227-chr15:83876568..83879136,2	K562	blood:
11	chr15:83706535..83711494-chr15:83875161..83878411,4	MCF-7	breast:
12	chr15:83876782..83879071-chr15:84050776..84053282,2	MCF-7	breast:
13	chr15:83733297..83738085-chr15:83874642..83880991,12	MCF-7	breast:
14	chr15:83876872..83879211-chr15:83879767..83882813,3	K562	blood:
15	chr15:83875339..83878212-chr17:65989153..65990840,2	MCF-7	breast:
16	chr15:83795078..83799216-chr15:83876236..83878812,3	MCF-7	breast:
17	chr15:83678614..83685168-chr15:83874398..83879059,12	MCF-7	breast:
18	chr15:83476923..83480237-chr15:83875108..83878990,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000169609	Chromatin interaction
ENSG00000156232	Chromatin interaction
ENSG00000166503	Chromatin interaction
ENSG00000169612	Chromatin interaction
ENSG00000260608	Chromatin interaction
ENSG00000064726	Chromatin interaction
ENSG00000263643	Chromatin interaction
ENSG00000259986	Chromatin interaction
ENSG00000136404	Chromatin interaction
ENSG00000249214	Chromatin interaction
ENSG00000186665	Chromatin interaction
ENSG00000103942	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs55868287	1.00[AFR][1000 genomes]
rs66715755	0.91[EUR][1000 genomes]
rs67466213	0.91[EUR][1000 genomes]
rs67988460	0.91[EUR][1000 genomes]
rs72758319	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72758348	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534418	chr15:83770116-83960718	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv3373243	chr15:83875373-83878121	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	esv3360287	chr15:83875498-83877971	Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83877000-83879400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr15:83877200-83878200	Bivalent/Poised TSS	Primary B cells from cord blood	blood
3	chr15:83877400-83878000	Enhancers	Fetal Stomach	stomach
4	chr15:83877400-83878200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:83877400-83878200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:83877400-83878400	Enhancers	H1 Cell Line	embryonic stem cell
7	chr15:83877400-83878600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:83877400-83878600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr15:83877400-83879000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:83877400-83879000	Weak transcription	GM12878-XiMat	blood
11	chr15:83877400-83879000	Weak transcription	HMEC	breast
12	chr15:83877400-83879200	Weak transcription	NHEK	skin
13	chr15:83877600-83878000	Enhancers	HUVEC	blood vessel
14	chr15:83877600-83878200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr15:83877600-83878200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
16	chr15:83877600-83878200	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr15:83877600-83878800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:83877600-83879000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:83877600-83879000	Weak transcription	Fetal Heart	heart
20	chr15:83877600-83879000	Weak transcription	K562	blood
21	chr15:83877600-83879600	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr15:83877800-83878000	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr15:83877800-83878200	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr15:83877800-83878200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr15:83877800-83878200	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr15:83877800-83878200	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr15:83877800-83879000	Weak transcription	Fetal Brain Female	brain

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