Variant report

Variant	rs2838410
Chromosome Location	chr21:45246723-45246724
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:45244798..45246785-chr21:45283892..45286070,2	MCF-7	breast:
2	chr21:45231023..45235105-chr21:45244093..45247662,3	MCF-7	breast:
3	chr21:45238343..45240639-chr21:45244780..45247104,2	MCF-7	breast:
4	chr21:45245397..45247406-chr21:45719221..45721877,2	K562	blood:

Variant related genes	Relation type
ENSG00000160216	Chromatin interaction
ENSG00000141959	Chromatin interaction
ENSG00000215458	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs2070540	0.80[ASN][1000 genomes]
rs2838383	0.80[ASN][1000 genomes]
rs2838388	0.80[ASN][1000 genomes]
rs2838389	0.80[ASN][1000 genomes]
rs2838403	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2838406	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2838408	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34016850	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34746583	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4290737	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4358219	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4419312	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4524200	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56283062	0.86[ASN][1000 genomes]
rs58078050	0.80[ASN][1000 genomes]
rs58464891	0.80[ASN][1000 genomes]
rs66472331	0.80[ASN][1000 genomes]
rs67002472	0.80[ASN][1000 genomes]
rs67083338	0.80[ASN][1000 genomes]
rs67157971	0.88[ASN][1000 genomes]
rs67443123	0.80[ASN][1000 genomes]
rs67883823	0.80[ASN][1000 genomes]
rs73224970	0.80[ASN][1000 genomes]
rs73224973	0.80[ASN][1000 genomes]
rs73224979	0.82[ASN][1000 genomes]
rs73224984	0.86[ASN][1000 genomes]
rs73224988	0.90[ASN][1000 genomes]
rs73367288	0.80[ASN][1000 genomes]
rs73367302	0.86[ASN][1000 genomes]
rs73379050	0.80[ASN][1000 genomes]
rs73379055	0.80[ASN][1000 genomes]
rs73379058	0.80[ASN][1000 genomes]
rs753125	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9981647	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531545	chr21:45095397-45395904	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv913876	chr21:45119629-45267193	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	esv2830066	chr21:45133868-45258047	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv913880	chr21:45145286-45263920	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv913881	chr21:45145286-45267193	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv470904	chr21:45151045-45258047	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv913882	chr21:45151874-45370715	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
8	nsv834107	chr21:45155325-45294546	Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
9	esv33817	chr21:45169412-46031810	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
10	nsv834108	chr21:45178037-45369641	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
11	nsv913883	chr21:45191139-45252838	Weak transcription Strong transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
12	nsv913884	chr21:45191139-45255836	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS 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	23 gene(s)	inside rSNPs	diseases
13	nsv544469	chr21:45194085-45257959	Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
14	nsv913885	chr21:45206355-45249474	Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
15	nsv587718	chr21:45210932-45252838	Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
16	nsv1065007	chr21:45212880-45257959	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
17	nsv544470	chr21:45212880-45257959	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
18	nsv459292	chr21:45218440-45269841	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
19	nsv587719	chr21:45218440-45269841	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
20	nsv913886	chr21:45220483-45267193	Active TSS Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
21	nsv587720	chr21:45232322-45263920	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
22	nsv519385	chr21:45237039-45263920	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS 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
rs2838410	CSTB	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:45211000-45257200	Weak transcription	Right Atrium	heart
2	chr21:45244200-45247200	Enhancers	Psoas Muscle	Psoas
3	chr21:45245200-45246800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr21:45245200-45246800	Weak transcription	NHDF-Ad	bronchial
5	chr21:45245200-45247200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr21:45245200-45249000	Weak transcription	K562	blood
7	chr21:45245400-45247000	Weak transcription	NH-A	brain
8	chr21:45245600-45247400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
9	chr21:45245800-45246800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr21:45245800-45247200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr21:45245800-45247200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr21:45245800-45247600	Bivalent Enhancer	Fetal Muscle Leg	muscle
13	chr21:45246000-45246800	Enhancers	H1 Cell Line	embryonic stem cell
14	chr21:45246000-45246800	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr21:45246000-45246800	Bivalent Enhancer	Fetal Stomach	stomach
16	chr21:45246000-45246800	Enhancers	Right Ventricle	heart
17	chr21:45246000-45247000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr21:45246000-45247000	Enhancers	Pancreas	Pancrea
19	chr21:45246000-45247000	Bivalent Enhancer	Stomach Mucosa	stomach
20	chr21:45246000-45247200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
21	chr21:45246000-45247200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
22	chr21:45246200-45246800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr21:45246200-45246800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr21:45246200-45246800	Bivalent Enhancer	Placenta	Placenta
25	chr21:45246200-45247000	Enhancers	Fetal Heart	heart
26	chr21:45246200-45247200	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr21:45246200-45247200	Bivalent Enhancer	Stomach Smooth Muscle	stomach
28	chr21:45246200-45247200	Flanking Bivalent TSS/Enh	HepG2	liver
29	chr21:45246400-45246800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
30	chr21:45246400-45246800	Weak transcription	Esophagus	oesophagus
31	chr21:45246400-45246800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr21:45246400-45247000	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr21:45246400-45247000	Bivalent Enhancer	Fetal Lung	lung
34	chr21:45246400-45247000	Enhancers	Gastric	stomach
35	chr21:45246400-45247200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr21:45246400-45247200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr21:45246600-45246800	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
38	chr21:45246600-45246800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr21:45246600-45246800	Bivalent Enhancer	Colon Smooth Muscle	Colon
40	chr21:45246600-45247000	Enhancers	iPS-20b Cell Line	embryonic stem cell
41	chr21:45246600-45247000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr21:45246600-45247000	Enhancers	Ovary	ovary
43	chr21:45246600-45247200	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr21:45246600-45247200	Flanking Active TSS	Hela-S3	cervix
45	chr21:45246600-45250200	Weak transcription	Spleen	Spleen

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