Variant report

Variant	rs28621988
Chromosome Location	chr15:58649307-58649308
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:58647611..58649927-chr15:58650284..58652230,2	K562	blood:
2	chr15:58647497..58650190-chr15:58651237..58653668,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13329321	1.00[EUR][1000 genomes]
rs13329416	1.00[EUR][1000 genomes]
rs16940111	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16940115	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28405107	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28420113	0.84[AFR][1000 genomes]
rs28429288	1.00[AFR][1000 genomes]
rs28449499	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28457584	1.00[EUR][1000 genomes]
rs28488446	1.00[EUR][1000 genomes]
rs28590223	1.00[AFR][1000 genomes]
rs28668323	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28706087	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28849098	1.00[EUR][1000 genomes]
rs28879975	1.00[EUR][1000 genomes]
rs57112568	1.00[EUR][1000 genomes]
rs57213406	1.00[EUR][1000 genomes]
rs58293663	1.00[EUR][1000 genomes]
rs73418661	1.00[EUR][1000 genomes]
rs9920110	1.00[AFR][1000 genomes];1.00[EUR][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	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv904266	chr15:58580921-58689187	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv1041779	chr15:58634768-58662280	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58640800-58652800	Weak transcription	Fetal Kidney	kidney
2	chr15:58642600-58655800	Weak transcription	Right Atrium	heart
3	chr15:58644800-58649600	Weak transcription	Placenta	Placenta
4	chr15:58646000-58652000	Enhancers	Fetal Thymus	thymus
5	chr15:58647400-58651200	Enhancers	GM12878-XiMat	blood
6	chr15:58647800-58649600	Weak transcription	Right Ventricle	heart
7	chr15:58648000-58649400	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr15:58648200-58649400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:58648200-58650000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:58648200-58653200	Weak transcription	HSMMtube	muscle
11	chr15:58648200-58653600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr15:58648400-58649400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:58648400-58649600	Weak transcription	Fetal Heart	heart
14	chr15:58648600-58650000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:58648800-58649400	Weak transcription	Thymus	Thymus
16	chr15:58648800-58651600	Enhancers	Primary T cells from cord blood	blood
17	chr15:58649000-58650200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:58649200-58650400	Enhancers	K562	blood
19	chr15:58649200-58650800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr15:58649200-58651000	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr15:58649200-58651400	Enhancers	Primary T cells fromperipheralblood	blood
22	chr15:58649200-58651400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
23	chr15:58649200-58651400	Enhancers	Primary T helper cells PMA-I stimulated	--

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