Variant report

Variant	rs4778674
Chromosome Location	chr15:82578566-82578567
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11630197	0.89[ASN][1000 genomes]
rs11631813	0.87[ASN][1000 genomes]
rs11633000	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11854289	0.87[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs11854483	0.87[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12324875	0.82[ASN][1000 genomes]
rs1501367	0.90[ASN][1000 genomes]
rs1566559	0.89[ASN][1000 genomes]
rs1566560	0.89[ASN][1000 genomes]
rs1566561	0.82[ASN][1000 genomes]
rs16973457	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1846908	0.89[ASN][1000 genomes]
rs1948742	0.80[ASN][1000 genomes]
rs1972460	0.81[ASN][1000 genomes]
rs2016372	0.83[ASN][1000 genomes]
rs2047679	0.91[ASN][1000 genomes]
rs2665103	0.81[ASN][1000 genomes]
rs28454949	0.92[ASN][1000 genomes]
rs28522807	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28610286	0.82[ASN][1000 genomes]
rs3759800	0.91[ASN][1000 genomes]
rs3902959	0.91[ASN][1000 genomes]
rs4238534	0.87[ASN][1000 genomes]
rs4267268	0.81[ASN][1000 genomes]
rs4296215	0.87[ASN][1000 genomes]
rs4778986	0.82[ASN][1000 genomes]
rs4778987	0.84[ASN][1000 genomes]
rs4778990	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56398167	0.81[ASN][1000 genomes]
rs61554133	0.87[ASN][1000 genomes]
rs62012055	0.80[ASN][1000 genomes]
rs7167504	0.80[ASN][1000 genomes]
rs7176926	0.91[ASN][1000 genomes]
rs72749557	0.80[ASN][1000 genomes]
rs72749560	0.80[ASN][1000 genomes]
rs72749561	0.80[ASN][1000 genomes]
rs72749564	0.81[ASN][1000 genomes]
rs72749586	0.83[ASN][1000 genomes]
rs7403041	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7403244	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8025964	0.81[ASN][1000 genomes]
rs8027301	0.80[ASN][1000 genomes]
rs8027661	0.80[ASN][1000 genomes]
rs8033313	0.84[ASN][1000 genomes]
rs9972440	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv570245	chr15:82456227-82591082	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1041040	chr15:82465124-82606410	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv1801737	chr15:82468455-82589044	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS 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	nsv570246	chr15:82485707-82581264	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1041506	chr15:82496164-82581427	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	esv1798145	chr15:82506790-82581264	Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv904440	chr15:82524544-82591082	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv904441	chr15:82532963-82580736	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv1054025	chr15:82540486-83058214	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4778674	FAM154B	cis	frontal cortex	BrainEAC

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:82576200-82580800	Enhancers	Primary T helper naive cells from peripheral blood	blood
2	chr15:82576400-82580600	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr15:82576400-82580800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr15:82576400-82581400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr15:82576600-82580400	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr15:82577200-82579000	Enhancers	Primary T cells from cord blood	blood
7	chr15:82577200-82579400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr15:82577400-82579400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr15:82577400-82580400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr15:82577600-82579000	Enhancers	GM12878-XiMat	blood
11	chr15:82577600-82579800	Enhancers	Primary hematopoietic stem cells	blood
12	chr15:82577600-82580000	Enhancers	Primary T cells fromperipheralblood	blood
13	chr15:82577600-82580000	Enhancers	K562	blood
14	chr15:82577600-82580400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr15:82578000-82580200	Enhancers	Primary B cells from peripheral blood	blood
16	chr15:82578200-82578800	Enhancers	Spleen	Spleen
17	chr15:82578200-82579600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr15:82578200-82580000	Enhancers	Primary B cells from cord blood	blood
19	chr15:82578400-82579000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr15:82578400-82580000	Enhancers	Fetal Thymus	thymus
21	chr15:82578400-82580200	Enhancers	Thymus	Thymus

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