Variant report

Variant	rs411102
Chromosome Location	chr9:102116969-102116970
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10117464	0.97[ASN][1000 genomes]
rs10122489	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10988781	0.88[ASN][1000 genomes]
rs12337701	1.00[ASN][1000 genomes]
rs188941	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs191230	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28686995	0.98[ASN][1000 genomes]
rs323728	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34728128	1.00[ASN][1000 genomes]
rs67245613	0.98[ASN][1000 genomes]
rs701345	1.00[ASN][1000 genomes]
rs701346	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs701358	0.92[ASN][1000 genomes]
rs7024617	0.86[ASN][1000 genomes]
rs7042978	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893620	chr9:102029791-102194921	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv831667	chr9:102068047-102285691	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1046898	chr9:102111890-102163313	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs411102	TEX10	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:102114200-102118200	Weak transcription	Psoas Muscle	Psoas
2	chr9:102114800-102131600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:102115600-102117800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr9:102115600-102118200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr9:102116400-102117000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:102116400-102118200	Weak transcription	Fetal Muscle Leg	muscle
7	chr9:102116400-102120600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr9:102116400-102121000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr9:102116400-102124400	Weak transcription	Colon Smooth Muscle	Colon
10	chr9:102116600-102117800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr9:102116600-102118000	Weak transcription	Adipose Nuclei	Adipose
12	chr9:102116600-102118600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr9:102116600-102118800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:102116600-102118800	Weak transcription	Osteobl	bone
15	chr9:102116600-102119000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:102116800-102118000	Weak transcription	Liver	Liver
17	chr9:102116800-102118000	Weak transcription	NHDF-Ad	bronchial
18	chr9:102116800-102118400	Weak transcription	NHLF	lung

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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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