Variant report

Variant	rs7737716
Chromosome Location	chr5:118217474-118217475
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10519564	1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs11959589	1.00[CHB][hapmap]
rs12109156	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs12109252	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs1510970	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1510971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17132677	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap]
rs17144552	1.00[CHB][hapmap]
rs17144715	0.82[YRI][hapmap]
rs17144806	0.91[YRI][hapmap]
rs17144824	0.89[CEU][hapmap];1.00[CHB][hapmap];0.82[TSI][hapmap]
rs17144836	0.88[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.85[LWK][hapmap];0.95[MKK][hapmap];0.91[YRI][hapmap]
rs17144872	1.00[CHB][hapmap]
rs17144877	1.00[CHB][hapmap]
rs17144885	1.00[CHB][hapmap]
rs17144893	1.00[CHB][hapmap]
rs17381247	0.89[CEU][hapmap]
rs17440213	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs2029036	0.89[CEU][hapmap]
rs2084460	1.00[CHB][hapmap]
rs2217310	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap]
rs2377127	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs4392657	1.00[CHB][hapmap]
rs4634381	1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4895183	0.90[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs55671162	0.83[AFR][1000 genomes]
rs56406364	0.86[AFR][1000 genomes]
rs57581390	0.86[AFR][1000 genomes]
rs6860946	1.00[CHB][hapmap]
rs6862297	1.00[CHB][hapmap]
rs6863802	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6870923	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs6871241	0.82[YRI][hapmap]
rs6874109	0.82[LWK][hapmap];0.81[MKK][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs6874399	1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[MEX][hapmap]
rs6880144	1.00[CHB][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs6892437	1.00[CHB][hapmap]
rs73792419	0.83[ASN][1000 genomes]
rs7706037	1.00[CHB][hapmap]
rs7710339	0.86[CEU][hapmap];1.00[CHB][hapmap]
rs7724403	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs7724753	1.00[CHB][hapmap]
rs7734815	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7737388	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882767	chr5:117931730-118385691	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv599562	chr5:118122504-118230640	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv882771	chr5:118170135-118230640	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv882772	chr5:118173127-118230640	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv882773	chr5:118175640-118241854	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv599563	chr5:118191798-118241854	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv526318	chr5:118210835-118221589	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7737716	LRTOMT	trans	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118209800-118218000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:118216000-118224000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr5:118216600-118244800	Weak transcription	Primary T cells from cord blood	blood
4	chr5:118217000-118217600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr5:118217200-118219200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr5:118217200-118219400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr5:118217200-118220000	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr5:118217400-118217600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr5:118217400-118218800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
10	chr5:118217400-118219400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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