Variant report

Variant	rs17141103
Chromosome Location	chr3:46454391-46454392
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:46447273..46450533-chr3:46451811..46454983,6	K562	blood:
2	chr3:46454231..46455815-chr3:46459560..46462072,2	K562	blood:
3	chr3:46447193..46451507-chr3:46453329..46458994,6	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCRL2-1	chr3:46453946-46454488	ENSG00000240310.1

Variant related genes	Relation type
ENSG00000121797	Chromatin interaction
ENSG00000223552	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10049113	1.00[AMR][1000 genomes]
rs13433751	1.00[AMR][1000 genomes]
rs1800945	1.00[AMR][1000 genomes]
rs28361974	1.00[AMR][1000 genomes]
rs28366811	1.00[AMR][1000 genomes]
rs28483827	1.00[AMR][1000 genomes]
rs28543044	1.00[AMR][1000 genomes]
rs28620009	1.00[AMR][1000 genomes]
rs3918377	1.00[AMR][1000 genomes]
rs41485850	1.00[AMR][1000 genomes]
rs4987124	1.00[AMR][1000 genomes]
rs9830751	1.00[AMR][1000 genomes]
rs9840685	1.00[AMR][1000 genomes]
rs9842607	1.00[AMR][1000 genomes]
rs9856343	1.00[AMR][1000 genomes]
rs9873805	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3323840	chr3:46352348-46497196	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3389382	chr3:46352798-46496696	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46438800-46459800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:46448600-46460000	Weak transcription	Gastric	stomach
3	chr3:46449600-46457600	Weak transcription	Primary B cells from cord blood	blood
4	chr3:46450000-46457600	Weak transcription	Stomach Mucosa	stomach
5	chr3:46450000-46457800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr3:46450200-46456800	Weak transcription	Fetal Intestine Large	intestine
7	chr3:46450200-46457400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr3:46450200-46457600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:46450600-46457000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr3:46451000-46457600	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr3:46451600-46458400	Enhancers	Fetal Heart	heart
12	chr3:46451800-46456800	Weak transcription	Fetal Intestine Small	intestine
13	chr3:46452000-46454400	Weak transcription	Dnd41	blood
14	chr3:46452600-46455000	Weak transcription	Placenta	Placenta
15	chr3:46452600-46456800	Weak transcription	Spleen	Spleen
16	chr3:46452800-46456400	Weak transcription	Lung	lung
17	chr3:46452800-46457400	Weak transcription	Left Ventricle	heart
18	chr3:46453000-46454400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:46453600-46455800	Enhancers	Primary hematopoietic stem cells	blood
20	chr3:46453600-46456200	Enhancers	Fetal Thymus	thymus
21	chr3:46453800-46454400	Enhancers	Right Atrium	heart
22	chr3:46453800-46454800	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr3:46453800-46455400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr3:46453800-46455800	Enhancers	Adipose Nuclei	Adipose
25	chr3:46453800-46456000	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr3:46453800-46456000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr3:46454000-46454400	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr3:46454000-46454400	Enhancers	Psoas Muscle	Psoas
29	chr3:46454000-46454400	Enhancers	Right Ventricle	heart
30	chr3:46454000-46454400	Enhancers	Monocytes-CD14+_RO01746	blood
31	chr3:46454000-46454600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:46454000-46454600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:46454000-46454600	Enhancers	Skeletal Muscle Female	skeletal muscle
34	chr3:46454000-46455000	Enhancers	Brain Hippocampus Middle	brain
35	chr3:46454200-46454400	Enhancers	HSMM	muscle
36	chr3:46454200-46454600	Enhancers	Fetal Lung	lung
37	chr3:46454200-46454600	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr3:46454200-46454600	Enhancers	Thymus	Thymus
39	chr3:46454200-46454600	Enhancers	K562	blood
40	chr3:46454200-46454800	Enhancers	Primary T cells from cord blood	blood
41	chr3:46454200-46455000	Flanking Active TSS	HUVEC	blood vessel
42	chr3:46454200-46457400	Weak transcription	Small Intestine	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links