Variant report

Variant	rs12442248
Chromosome Location	chr15:74099354-74099355
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:4)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:74099206..74103893-chr15:74105656..74108218,4	MCF-7	breast:
2	chr15:74002550..74003069-chr15:74098856..74099446,2	MCF-7	breast:
3	chr15:73923170..73926616-chr15:74097721..74100835,3	MCF-7	breast:
4	chr15:74096413..74099919-chr15:74101380..74103863,3	K562	blood:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C15orf59-1	chr15:74099035-74099507	XLOC_011525
2	lnc-C15orf59-1	chr15:74099034-74099507	NONHSAT047163
3	lnc-C15orf59-1	chr15:74099086-74099507	NONHSAT047165

No data

Variant related genes	Relation type
ENSG00000156642	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12438304	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12442263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16958292	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16958300	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28576159	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28628284	0.82[AFR][1000 genomes]
rs72743363	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9920550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74088200-74100200	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr15:74089600-74101800	Weak transcription	Spleen	Spleen
3	chr15:74092000-74099400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:74092800-74099600	Enhancers	Fetal Brain Male	brain
5	chr15:74096400-74099400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:74096400-74103000	Weak transcription	Right Ventricle	heart
7	chr15:74096600-74101600	Weak transcription	Right Atrium	heart
8	chr15:74096600-74101800	Weak transcription	Left Ventricle	heart
9	chr15:74096600-74102200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr15:74097400-74100000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:74097800-74101800	Weak transcription	Brain Angular Gyrus	brain
12	chr15:74097800-74102000	Weak transcription	Brain Hippocampus Middle	brain
13	chr15:74097800-74110200	Weak transcription	Brain Germinal Matrix	brain
14	chr15:74098000-74101800	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr15:74098000-74102200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr15:74098600-74100000	Flanking Active TSS	HepG2	liver
17	chr15:74099000-74099800	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr15:74099000-74101800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr15:74099200-74099600	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr15:74099200-74099800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:74099200-74099800	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr15:74099200-74101800	Weak transcription	Fetal Brain Female	brain

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