Variant report

Variant	rs73442472
Chromosome Location	chr9:21935458-21935459
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf53-5	chr9:21935206-21935635	NONHSAT130404

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10811639	1.00[ASN][1000 genomes]
rs10965184	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11998828	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12002708	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12003027	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12003714	1.00[ASN][1000 genomes]
rs58869398	1.00[ASN][1000 genomes]
rs73429352	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73434151	1.00[EUR][1000 genomes]
rs73440481	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73440484	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73442446	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73442448	1.00[ASN][1000 genomes]
rs73442453	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73442470	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73442474	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7855729	1.00[EUR][1000 genomes]
rs7868374	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv892745	chr9:21857244-22006273	Bivalent Enhancer Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	esv1821117	chr9:21933029-22012229	Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 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	chr9:21911000-21935800	Weak transcription	HSMM	muscle
2	chr9:21920600-21942600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr9:21921200-21935600	Weak transcription	Primary T cells from cord blood	blood
4	chr9:21929800-21935600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:21931400-21937400	Weak transcription	Pancreas	Pancrea
6	chr9:21931600-21935600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr9:21931800-21938000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr9:21932000-21935800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:21932400-21935800	Weak transcription	Adipose Nuclei	Adipose
10	chr9:21932600-21939000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr9:21933600-21936200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:21934000-21935600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr9:21934400-21935600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:21934400-21935600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:21934400-21935600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr9:21934400-21937800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr9:21935400-21935800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr9:21935400-21936000	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr9:21935400-21936200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr9:21935400-21936200	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr9:21935400-21936200	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr9:21935400-21936400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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