Variant report

Variant	rs2433604
Chromosome Location	chr15:45649256-45649257
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1055395	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11070455	1.00[EUR][1000 genomes]
rs1145072	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1145073	0.82[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1145075	0.93[YRI][hapmap]
rs1145082	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1145092	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1145094	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1145099	0.86[YRI][hapmap]
rs1153848	0.93[YRI][hapmap]
rs1153850	1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1153851	1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1153856	1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1153859	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1346265	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1403319	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1464558	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706775	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706781	0.80[AMR][1000 genomes]
rs1706782	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706783	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706784	1.00[EUR][1000 genomes]
rs1706786	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706788	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706789	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706790	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706794	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706795	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706796	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706797	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1706800	0.80[YRI][hapmap]
rs1706801	0.90[YRI][hapmap]
rs1719242	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1719249	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1874318	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2217121	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2433603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2433605	0.82[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2433606	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2433609	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2433610	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2453544	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2461704	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2467852	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2467855	1.00[EUR][1000 genomes]
rs2467856	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2467857	0.82[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2486271	1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2486273	0.83[AFR][1000 genomes]
rs2486287	0.81[YRI][hapmap]
rs2486289	0.82[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2486290	0.81[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2668740	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2687513	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57553327	1.00[EUR][1000 genomes]
rs7163395	1.00[EUR][1000 genomes]
rs7163751	1.00[EUR][1000 genomes]
rs7164252	1.00[EUR][1000 genomes]
rs7169175	1.00[EUR][1000 genomes]
rs7173541	1.00[EUR][1000 genomes]
rs7179186	1.00[EUR][1000 genomes]
rs7179844	1.00[EUR][1000 genomes]
rs74009622	1.00[EUR][1000 genomes]
rs8028061	1.00[EUR][1000 genomes]
rs8033329	1.00[EUR][1000 genomes]
rs8040380	1.00[EUR][1000 genomes]
rs9806260	1.00[EUR][1000 genomes]
rs9972564	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916374	chr15:45058112-45769052	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv932147	chr15:45319178-45872076	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv869616	chr15:45401411-45736209	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv569315	chr15:45446156-45772448	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
5	nsv469721	chr15:45608881-45788002	Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
6	nsv482380	chr15:45608881-45788002	Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45626000-45652000	Weak transcription	Brain Substantia Nigra	brain
2	chr15:45634600-45651600	Weak transcription	Brain Hippocampus Middle	brain
3	chr15:45639200-45664200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:45639600-45661800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr15:45640400-45650000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr15:45640600-45664200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr15:45640800-45664200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr15:45641000-45651600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr15:45641200-45656400	Weak transcription	Gastric	stomach
10	chr15:45641400-45650000	Weak transcription	Fetal Intestine Large	intestine
11	chr15:45641400-45651000	Weak transcription	Fetal Intestine Small	intestine
12	chr15:45642600-45655600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr15:45645600-45650400	Weak transcription	Fetal Muscle Trunk	muscle
14	chr15:45645600-45651400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:45646000-45651600	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:45646200-45652000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr15:45646200-45652400	Weak transcription	Colon Smooth Muscle	Colon
18	chr15:45646600-45652200	Weak transcription	Placenta	Placenta
19	chr15:45647600-45651600	Weak transcription	Adipose Nuclei	Adipose
20	chr15:45647600-45651600	Weak transcription	Left Ventricle	heart
21	chr15:45647600-45657800	Weak transcription	Rectal Smooth Muscle	rectum
22	chr15:45647800-45651000	Weak transcription	Fetal Muscle Leg	muscle
23	chr15:45647800-45651400	Weak transcription	Brain Cingulate Gyrus	brain
24	chr15:45647800-45652000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr15:45647800-45661600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr15:45648000-45650800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr15:45648200-45651400	Weak transcription	Primary B cells from peripheral blood	blood
28	chr15:45648200-45668600	Weak transcription	Colonic Mucosa	Colon
29	chr15:45648400-45650000	Weak transcription	Brain Anterior Caudate	brain
30	chr15:45648400-45651400	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr15:45648400-45651400	Weak transcription	Psoas Muscle	Psoas
32	chr15:45648400-45651600	Weak transcription	Ovary	ovary
33	chr15:45648400-45651600	Weak transcription	GM12878-XiMat	blood
34	chr15:45648400-45654200	Weak transcription	Brain Angular Gyrus	brain
35	chr15:45648400-45664000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr15:45648800-45650400	Weak transcription	Pancreas	Pancrea
37	chr15:45649200-45649800	Weak transcription	Liver	Liver
38	chr15:45649200-45652600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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