Variant report

Variant	rs16905728
Chromosome Location	chr9:101935351-101935352
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101934117..101936127-chr9:101947958..101949904,2	K562	blood:
2	chr9:101932897..101935803-chr9:101935996..101937502,2	MCF-7	breast:
3	chr9:101934883..101936610-chr9:102021893..102023523,2	K562	blood:
4	chr9:101659832..101662325-chr9:101933378..101936208,2	MCF-7	breast:
5	chr9:101932774..101936313-chr9:101937210..101940829,5	K562	blood:
6	chr9:101933720..101936495-chr9:101943717..101946292,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240235	Chromatin interaction
ENSG00000227269	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10114715	0.84[YRI][hapmap]
rs10121020	0.91[YRI][hapmap]
rs10819641	1.00[YRI][hapmap]
rs10988738	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs10988742	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10988743	0.91[YRI][hapmap]
rs10988744	0.81[YRI][hapmap]
rs10988745	0.88[YRI][hapmap]
rs12336513	0.87[YRI][hapmap]
rs12336759	1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12340839	0.96[YRI][hapmap]
rs12340952	0.88[YRI][hapmap]
rs12345143	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs12345762	0.96[YRI][hapmap]
rs13440104	0.96[YRI][hapmap]
rs16918354	0.87[YRI][hapmap]
rs2221383	1.00[YRI][hapmap]
rs60965273	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6478976	0.95[YRI][hapmap]
rs7025181	0.83[YRI][hapmap]
rs7035537	0.81[YRI][hapmap]
rs73653741	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs73653744	0.81[AFR][1000 genomes]
rs7872043	0.84[YRI][hapmap]
rs912248	0.91[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats 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	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101930400-101936600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr9:101930800-101936000	Weak transcription	GM12878-XiMat	blood
3	chr9:101931400-101935400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:101931400-101937000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:101931600-101947000	Weak transcription	Right Atrium	heart
6	chr9:101932200-101935400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:101932200-101937000	Enhancers	Fetal Intestine Small	intestine
8	chr9:101932200-101940200	Enhancers	Fetal Intestine Large	intestine
9	chr9:101932800-101935800	Weak transcription	Brain Hippocampus Middle	brain
10	chr9:101932800-101936600	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr9:101933000-101935400	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr9:101933000-101936800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:101933200-101936200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr9:101933600-101935600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:101933600-101935800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:101933600-101936200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr9:101934000-101935600	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr9:101934200-101936000	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr9:101934400-101936200	Enhancers	Pancreas	Pancrea
20	chr9:101934600-101935400	Flanking Active TSS	HepG2	liver
21	chr9:101934600-101936600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr9:101935000-101935400	Enhancers	Fetal Muscle Trunk	muscle
23	chr9:101935000-101935800	Enhancers	H1 Cell Line	embryonic stem cell
24	chr9:101935000-101936400	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr9:101935000-101936400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr9:101935200-101936200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr9:101935200-101936600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr9:101935200-101937000	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr9:101935200-101939000	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr9:101935200-101941000	Weak transcription	Fetal Muscle Leg	muscle
31	chr9:101935200-101947200	Weak transcription	Gastric	stomach

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