Variant report

Variant	rs623404
Chromosome Location	chr11:94382129-94382130
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:94381480..94383118-chr11:94391514..94393231,2	K562	blood:
2	chr11:94380753..94383227-chr11:94390461..94393231,3	K562	blood:

Extended variants
information (count: 14 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1790234	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs487814	0.89[AMR][1000 genomes]
rs539786	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs570186	0.81[JPT][hapmap];0.81[AMR][1000 genomes]
rs572309	0.81[AMR][1000 genomes]
rs576108	0.81[AMR][1000 genomes]
rs592834	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs606227	0.80[AMR][1000 genomes]
rs621995	0.81[AMR][1000 genomes]
rs622022	0.80[AMR][1000 genomes]
rs635232	0.81[AMR][1000 genomes]
rs649944	0.81[AMR][1000 genomes]
rs656256	0.83[AMR][1000 genomes]
rs686807	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs623404	SNORD5	cis	cerebellum	SCAN
rs623404	TAF1D	cis	cerebellum	SCAN
rs623404	ENDOD1	cis	cerebellum	SCAN
rs623404	SNORA40	cis	cerebellum	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:94374600-94382400	Weak transcription	Placenta	Placenta
2	chr11:94374800-94383600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr11:94377400-94383600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr11:94378800-94382200	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr11:94379200-94382400	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr11:94380400-94382600	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
7	chr11:94380400-94382800	Transcr. at gene 5' and 3'	ES-I3 Cell Line	embryonic stem cell
8	chr11:94380400-94383000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr11:94380400-94383200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr11:94380600-94382800	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr11:94380800-94383800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr11:94381000-94383800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr11:94381200-94383200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr11:94381400-94382600	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:94381400-94382600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
16	chr11:94381400-94383000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr11:94381400-94383400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr11:94381400-94383600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr11:94381600-94383000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr11:94381600-94383200	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr11:94381800-94382200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr11:94381800-94383200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr11:94382000-94382200	Flanking Active TSS	H9 Cell Line	embryonic stem cell
24	chr11:94382000-94382600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
25	chr11:94382000-94383200	Weak transcription	Adipose Nuclei	Adipose

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