Variant report

Variant	rs9845921
Chromosome Location	chr3:136761075-136761076
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs6763813	0.82[AMR][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	nsv877534	chr3:136676303-136765859	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv524856	chr3:136693459-137190765	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1012111	chr3:136695367-137343430	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv4028	chr3:136752048-136777353	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9845921	ZBTB38	cis	cerebellum	SCAN
rs9845921	BPESC1	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136752000-136764600	Weak transcription	Esophagus	oesophagus
2	chr3:136755000-136765200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:136756600-136762000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:136757000-136794000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:136759200-136762000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:136759200-136763600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:136759800-136761200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:136760000-136761400	Enhancers	Brain Germinal Matrix	brain
9	chr3:136760000-136761600	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr3:136760000-136761600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:136760400-136761400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:136760600-136761400	Enhancers	Fetal Brain Female	brain
13	chr3:136760800-136761200	Enhancers	Fetal Brain Male	brain
14	chr3:136760800-136765400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:136761000-136761600	Strong transcription	NHEK	skin
16	chr3:136761000-136761800	Enhancers	Pancreatic Islets	Pancreatic Islet
17	chr3:136761000-136765600	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:136761000-136765600	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr3:136761000-136765600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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

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