Variant report

Variant	rs41295265
Chromosome Location	chr10:5985747-5985748
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:5977248..5980846-chr10:5983799..5986728,4	K562	blood:
2	chr10:5984527..5986987-chr10:6018100..6019838,2	MCF-7	breast:
3	chr10:5983248..5985908-chr10:6017920..6022464,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IL15RA-1	chr10:5985467-5985752	ENSG00000232807.1
2	lnc-IL15RA-1	chr10:5985453-5985878	ENSG00000232807.1

Variant related genes	Relation type
ENSG00000134470	Chromatin interaction
ENSG00000134452	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12722596	1.00[AFR][1000 genomes]
rs12722610	1.00[AFR][1000 genomes]
rs1323653	1.00[AFR][1000 genomes]
rs41293983	1.00[AFR][1000 genomes]
rs41293989	1.00[AFR][1000 genomes]
rs41294153	1.00[AFR][1000 genomes]
rs41294595	1.00[AFR][1000 genomes]
rs41294609	1.00[AFR][1000 genomes]
rs41294625	1.00[AFR][1000 genomes]
rs41294627	1.00[AFR][1000 genomes]
rs41294655	1.00[AFR][1000 genomes]
rs41295261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62626308	1.00[AFR][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	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS 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	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1041261	chr10:5962635-6052196	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1050983	chr10:5963921-6052196	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5969600-5987800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr10:5969600-6012000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr10:5971400-6013200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr10:5972800-5986800	Weak transcription	Hela-S3	cervix
5	chr10:5977600-5986800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr10:5978800-5988200	Weak transcription	Fetal Brain Male	brain
7	chr10:5979200-5986800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr10:5980000-5991000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:5980000-6013200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr10:5980200-5987200	Weak transcription	Primary B cells from cord blood	blood
11	chr10:5980200-5987800	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr10:5980400-5987800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr10:5980600-5985800	Weak transcription	Aorta	Aorta
14	chr10:5980600-5987400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:5980600-5987400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr10:5980800-5986400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:5980800-5986600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr10:5980800-5987400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr10:5980800-5987400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr10:5980800-5987400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr10:5980800-5987400	Weak transcription	Liver	Liver
22	chr10:5980800-5991000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr10:5980800-5994600	Weak transcription	Gastric	stomach
24	chr10:5980800-6017800	Weak transcription	Thymus	Thymus
25	chr10:5981000-5986000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr10:5981000-5986200	Weak transcription	Brain Substantia Nigra	brain
27	chr10:5981000-5986400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr10:5981000-5986400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr10:5981000-5986400	Weak transcription	A549	lung
30	chr10:5981000-5986600	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr10:5981000-5986800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr10:5981000-5987600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr10:5981000-5987600	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr10:5981000-5987800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr10:5981000-5988000	Weak transcription	Brain Cingulate Gyrus	brain
36	chr10:5981000-6003600	Weak transcription	Primary T cells from cord blood	blood
37	chr10:5981200-5986000	Weak transcription	Fetal Thymus	thymus
38	chr10:5981200-5987400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr10:5981200-5987400	Weak transcription	Primary B cells from peripheral blood	blood
40	chr10:5981200-5987600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr10:5982800-5987000	Enhancers	Primary monocytes fromperipheralblood	blood
42	chr10:5982800-5987200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr10:5982800-5995000	Weak transcription	GM12878-XiMat	blood
44	chr10:5983200-5986800	Enhancers	Fetal Muscle Leg	muscle
45	chr10:5983200-5987200	Enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr10:5983200-5987400	Enhancers	Stomach Smooth Muscle	stomach
47	chr10:5983400-5985800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr10:5983400-5989000	Enhancers	Fetal Stomach	stomach
49	chr10:5983600-5987800	Enhancers	K562	blood
50	chr10:5983600-5988600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

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