Variant report

Variant	rs17107446
Chromosome Location	chr14:78822966-78822967
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10132310	1.00[CHB][hapmap]
rs10134028	0.87[CEU][hapmap]
rs10140699	0.87[CEU][hapmap]
rs11851070	0.87[CEU][hapmap]
rs12434281	0.87[CEU][hapmap]
rs12435130	0.87[CEU][hapmap]
rs12435691	0.87[CEU][hapmap]
rs12436458	0.87[CEU][hapmap]
rs12892860	0.87[CEU][hapmap]
rs17107366	1.00[JPT][hapmap]
rs17107393	1.00[JPT][hapmap]
rs17107411	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17107429	1.00[CEU][hapmap];0.93[CHD][hapmap];0.97[EUR][1000 genomes]
rs17107436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17107437	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs17107482	0.88[CEU][hapmap]
rs17107725	0.87[CEU][hapmap]
rs214016	0.81[EUR][1000 genomes]
rs214028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs214029	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs214030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs214031	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2192416	0.87[CEU][hapmap]
rs2192420	0.88[CEU][hapmap]
rs2215834	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2215835	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2215836	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2366154	0.95[ASN][1000 genomes]
rs3891717	0.95[ASN][1000 genomes]
rs4384537	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs4520775	0.95[ASN][1000 genomes]
rs6574436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6574438	0.93[CHD][hapmap]
rs7146066	0.95[ASN][1000 genomes]
rs7147592	0.87[CEU][hapmap]
rs7148862	0.95[ASN][1000 genomes]
rs7149532	0.95[ASN][1000 genomes]
rs7149679	0.95[ASN][1000 genomes]
rs7152492	0.87[CEU][hapmap]
rs719055	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs73316006	0.85[EUR][1000 genomes]
rs73327202	0.94[EUR][1000 genomes]
rs7492592	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs759230	0.95[ASN][1000 genomes]
rs759231	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8009240	0.87[EUR][1000 genomes]
rs887892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs887893	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs887894	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs887895	1.00[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs929607	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9323666	0.87[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832837	chr14:78766805-78946526	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17107446	L1TD1	trans	lymphoblastoid	seeQTL

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:78814600-78825600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr14:78820200-78826000	Enhancers	Brain Germinal Matrix	brain
3	chr14:78821600-78826600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr14:78821600-78827000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr14:78822200-78823400	Enhancers	Brain Cingulate Gyrus	brain
6	chr14:78822200-78823800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr14:78822200-78825200	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr14:78822400-78823000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr14:78822400-78823400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr14:78822400-78825400	Enhancers	Brain Anterior Caudate	brain
11	chr14:78822600-78823200	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr14:78822600-78823600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr14:78822600-78825200	Enhancers	Brain Hippocampus Middle	brain
14	chr14:78822600-78825200	Enhancers	Brain Substantia Nigra	brain
15	chr14:78822600-78826000	Enhancers	Fetal Brain Male	brain
16	chr14:78822800-78823000	Enhancers	Brain Angular Gyrus	brain
17	chr14:78822800-78823000	Enhancers	Fetal Brain Female	brain

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