Variant report

Variant	rs11787920
Chromosome Location	chr9:96631523-96631524
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11788279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11793062	0.91[AMR][1000 genomes]
rs11794410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11794892	0.96[AMR][1000 genomes]
rs11795113	0.96[AMR][1000 genomes]
rs4743936	0.83[CEU][hapmap]
rs61432157	0.96[AMR][1000 genomes]
rs61482071	0.96[AMR][1000 genomes]
rs62574315	0.91[AMR][1000 genomes]
rs7850735	0.83[CEU][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	nsv893588	chr9:96620419-96668352	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11787920	HABP4	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96627000-96631600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:96627800-96631600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:96628600-96632400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:96630800-96633000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr9:96631200-96631800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:96631200-96632200	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr9:96631200-96632200	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr9:96631200-96632400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:96631400-96631800	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr9:96631400-96631800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr9:96631400-96632000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:96631400-96632000	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr9:96631400-96632200	Enhancers	H9 Cell Line	embryonic stem cell
14	chr9:96631400-96632200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr9:96631400-96632200	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr9:96631400-96632400	Enhancers	Fetal Muscle Leg	muscle
17	chr9:96631400-96632400	Enhancers	Fetal Stomach	stomach
18	chr9:96631400-96632600	Enhancers	H1 Cell Line	embryonic stem cell

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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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