Variant report

Variant	rs10805936
Chromosome Location	chr5:80365987-80365988
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11738712	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11741062	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11745040	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.86[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11749100	0.81[CEU][hapmap];0.93[EUR][1000 genomes]
rs11750489	0.81[CEU][hapmap]
rs16878399	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16878400	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs252581	0.80[JPT][hapmap]
rs465909	0.80[JPT][hapmap]
rs6453538	0.81[EUR][1000 genomes]
rs72635623	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72635624	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72635625	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72635626	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72635627	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72635628	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72635629	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7722354	0.81[CEU][hapmap];0.81[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7736964	0.87[CEU][hapmap];0.81[JPT][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9763589	0.89[EUR][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	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv830360	chr5:80283278-80446040	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv965553	chr5:80360468-80369049	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10805936	FUCA1	trans	lymphoblastoid	seeQTL

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80319600-80374200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr5:80337200-80368600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr5:80338200-80370600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr5:80338200-80376200	Weak transcription	NHLF	lung
5	chr5:80339200-80368600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr5:80339800-80374200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr5:80343200-80366000	Weak transcription	Adipose Nuclei	Adipose
8	chr5:80343200-80394400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr5:80344400-80368800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr5:80344800-80382600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:80346600-80367000	Weak transcription	Brain Angular Gyrus	brain
12	chr5:80353600-80375400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr5:80354200-80382400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr5:80354400-80367800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr5:80356200-80370400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr5:80356600-80374600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr5:80361400-80374200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr5:80361400-80374600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr5:80361400-80374600	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr5:80361600-80374200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr5:80361600-80374200	Weak transcription	Brain Substantia Nigra	brain
22	chr5:80361600-80374600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr5:80362800-80366000	Weak transcription	Left Ventricle	heart
24	chr5:80363200-80374600	Weak transcription	Duodenum Mucosa	Duodenum
25	chr5:80363800-80366200	Strong transcription	Primary T cells from cord blood	blood
26	chr5:80363800-80367000	Strong transcription	HepG2	liver
27	chr5:80364000-80366600	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr5:80364000-80367000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr5:80364200-80384200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr5:80364200-80386200	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr5:80364400-80366600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr5:80364600-80368800	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr5:80364600-80382800	Weak transcription	Gastric	stomach
34	chr5:80364800-80366600	Strong transcription	Primary T helper cells PMA-I stimulated	--
35	chr5:80364800-80366600	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr5:80364800-80371000	Weak transcription	Right Ventricle	heart
37	chr5:80365000-80370600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr5:80365200-80374600	Weak transcription	Fetal Intestine Small	intestine
39	chr5:80365800-80366600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr5:80365800-80366600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
41	chr5:80365800-80366600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

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