Variant report

Variant	rs60309400
Chromosome Location	chr15:77868752-77868753
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77867409..77870567-chr15:77872173..77875130,4	K562	blood:
2	chr15:77866782..77869407-chr15:77890484..77892735,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs58372659	1.00[AMR][1000 genomes]
rs58490956	1.00[AMR][1000 genomes]
rs59587253	0.81[AMR][1000 genomes]
rs60322323	1.00[AMR][1000 genomes]
rs60789552	0.81[AMR][1000 genomes]
rs73448973	0.81[AMR][1000 genomes]
rs73450717	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73450724	1.00[AMR][1000 genomes]
rs73450740	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73450925	0.81[AMR][1000 genomes]
rs73450926	0.81[AMR][1000 genomes]
rs73450931	0.81[AMR][1000 genomes]
rs73450935	0.81[AMR][1000 genomes]
rs74025306	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS 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	29 gene(s)	inside rSNPs	diseases
3	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77862000-77869400	Weak transcription	Brain Anterior Caudate	brain
2	chr15:77862200-77869000	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr15:77862200-77875000	Weak transcription	Left Ventricle	heart
4	chr15:77862400-77868800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:77862400-77869400	Weak transcription	Brain Angular Gyrus	brain
6	chr15:77862400-77869400	Weak transcription	Brain Substantia Nigra	brain
7	chr15:77862600-77869400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:77862800-77869600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:77864000-77869600	Weak transcription	Fetal Stomach	stomach
10	chr15:77864000-77871400	Weak transcription	Spleen	Spleen
11	chr15:77866400-77869800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:77866400-77869800	Weak transcription	Brain Germinal Matrix	brain
13	chr15:77866600-77869400	Weak transcription	Brain Hippocampus Middle	brain
14	chr15:77867200-77869200	Enhancers	Stomach Mucosa	stomach
15	chr15:77868000-77870400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr15:77868000-77870400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr15:77868200-77869400	Weak transcription	Right Ventricle	heart
18	chr15:77868200-77871600	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr15:77868400-77872000	Enhancers	Fetal Muscle Leg	muscle
20	chr15:77868400-77874400	Weak transcription	Fetal Intestine Small	intestine
21	chr15:77868400-77874600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr15:77868600-77869000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr15:77868600-77871400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr15:77868600-77874600	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links