Variant report

Variant	rs12342980
Chromosome Location	chr9:101939966-101939967
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10121020	0.92[ASW][hapmap]
rs10819641	0.85[ASW][hapmap];0.80[YRI][hapmap]
rs10988738	0.80[YRI][hapmap]
rs10988742	1.00[ASW][hapmap];0.80[YRI][hapmap]
rs10988743	0.90[YRI][hapmap]
rs10988744	0.96[YRI][hapmap]
rs10988745	0.92[YRI][hapmap]
rs12336513	0.85[ASW][hapmap]
rs12336790	0.86[YRI][hapmap]
rs12340839	0.84[YRI][hapmap]
rs12340952	0.92[YRI][hapmap]
rs12345143	0.83[AFR][1000 genomes]
rs12345762	0.80[YRI][hapmap]
rs13440104	0.84[YRI][hapmap]
rs16905728	0.80[YRI][hapmap]
rs16918352	0.96[YRI][hapmap]
rs2221383	1.00[ASW][hapmap];0.80[YRI][hapmap]
rs6478976	1.00[ASW][hapmap];0.84[YRI][hapmap]
rs7022989	0.88[YRI][hapmap]
rs73653741	0.83[AFR][1000 genomes]
rs7872043	0.96[YRI][hapmap];0.81[AFR][1000 genomes]
rs912248	0.88[YRI][hapmap]

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	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:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101931600-101947000	Weak transcription	Right Atrium	heart
2	chr9:101932200-101940200	Enhancers	Fetal Intestine Large	intestine
3	chr9:101935200-101941000	Weak transcription	Fetal Muscle Leg	muscle
4	chr9:101935200-101947200	Weak transcription	Gastric	stomach
5	chr9:101936400-101941400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:101936400-101943800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:101936600-101949600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr9:101937800-101940200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:101937800-101940200	Enhancers	Fetal Intestine Small	intestine
10	chr9:101939000-101941000	Weak transcription	GM12878-XiMat	blood
11	chr9:101939200-101946400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:101939400-101943600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:101939400-101945400	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr9:101939800-101942600	Weak transcription	HepG2	liver

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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