Variant report

Variant	rs10844626
Chromosome Location	chr12:9886353-9886354
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFIC	chr12:9884090-9886395	GM12878	blood:	n/a	n/a
2	SPI1	chr12:9885386-9886414	GM12878	blood:	n/a	chr12:9885965-9885972 chr12:9885962-9885975 chr12:9885964-9885973 chr12:9885963-9885976

Variant related genes	Relation type
CLECL1	TF binding region

Extended variants
information (count: 100 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs1008610	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10466829	0.94[ASN][1000 genomes]
rs10492165	0.96[ASN][1000 genomes]
rs10492166	0.96[ASN][1000 genomes]
rs10743819	0.92[ASN][1000 genomes]
rs10743823	0.84[ASN][1000 genomes]
rs10772046	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10772062	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10772070	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772071	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772072	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772073	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772074	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772079	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772085	0.94[ASN][1000 genomes]
rs10772087	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772090	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10772091	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772092	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772094	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10772102	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10772108	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844380	0.81[ASN][1000 genomes]
rs10844427	0.83[EUR][1000 genomes]
rs10844456	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844468	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844503	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10844537	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10844562	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10844569	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844597	0.89[ASN][1000 genomes]
rs10844609	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844610	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10844615	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10844617	0.94[ASN][1000 genomes]
rs10844620	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844622	0.96[ASN][1000 genomes]
rs10844627	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844630	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844632	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844633	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844635	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844636	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844637	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10844638	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10844639	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10844640	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10844657	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10844682	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11052372	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11052423	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11052426	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11052552	0.89[ASN][1000 genomes]
rs11052604	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11052710	0.94[ASN][1000 genomes]
rs11052713	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11052717	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11052750	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052751	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052752	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052756	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11052877	0.80[ASN][1000 genomes]
rs12227655	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12228641	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12304510	0.96[ASN][1000 genomes]
rs12317499	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17806710	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1985788	0.81[ASN][1000 genomes]
rs2058560	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2080206	0.81[ASN][1000 genomes]
rs2114870	0.82[ASN][1000 genomes]
rs2192437	0.94[ASN][1000 genomes]
rs2268146	0.94[ASN][1000 genomes]
rs2401390	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2401391	0.94[ASN][1000 genomes]
rs2401393	0.94[ASN][1000 genomes]
rs2401394	0.94[ASN][1000 genomes]
rs2401395	0.94[ASN][1000 genomes]
rs3764021	0.89[ASN][1000 genomes]
rs3764022	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4763839	0.83[ASN][1000 genomes]
rs4763840	0.84[ASN][1000 genomes]
rs7296241	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7306304	0.94[ASN][1000 genomes]
rs7306557	0.94[ASN][1000 genomes]
rs7307111	0.92[ASN][1000 genomes]
rs741199	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs741200	0.82[ASN][1000 genomes]
rs7956831	0.97[ASN][1000 genomes]
rs7964018	0.82[ASN][1000 genomes]
rs7968401	0.87[ASN][1000 genomes]
rs7970116	0.94[ASN][1000 genomes]
rs7973535	0.94[ASN][1000 genomes]
rs7973638	0.94[ASN][1000 genomes]
rs7976584	0.94[ASN][1000 genomes]
rs7977720	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758293	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
2	esv2759878	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv983235	chr12:9852218-9893776	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv2757490	chr12:9855958-9888553	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10844626	CLECL1	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:9884800-9886800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr12:9884800-9887200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr12:9885000-9892000	Enhancers	Primary hematopoietic stem cells	blood
4	chr12:9885800-9886600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr12:9885800-9886800	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr12:9885800-9889200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr12:9885800-9889400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr12:9885800-9889600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr12:9885800-9890600	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr12:9885800-9892400	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr12:9886000-9886400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr12:9886000-9886800	Flanking Active TSS	GM12878-XiMat	blood
13	chr12:9886000-9889400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr12:9886000-9889600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr12:9886000-9890600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr12:9886000-9891800	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr12:9886000-9892000	Enhancers	Primary B cells from peripheral blood	blood
18	chr12:9886000-9894600	Enhancers	Primary B cells from cord blood	blood
19	chr12:9886200-9887200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr12:9886200-9889000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr12:9886200-9889000	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr12:9886200-9889200	Weak transcription	Primary T cells from cord blood	blood
23	chr12:9886200-9889200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr12:9886200-9889200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr12:9886200-9889400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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