Variant report

Variant	rs27882
Chromosome Location	chr5:14680139-14680140
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:14663911..14666053-chr5:14679468..14682192,2	MCF-7	breast:
2	chr5:14663431..14670152-chr5:14672054..14680588,17	K562	blood:

Variant related genes	Relation type
ENSG00000154124	Chromatin interaction
ENSG00000261360	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10062487	0.88[EUR][1000 genomes]
rs10078335	0.90[EUR][1000 genomes]
rs149181	0.82[ASN][1000 genomes]
rs149493	0.84[ASN][1000 genomes]
rs149617	0.84[ASN][1000 genomes]
rs152788	0.83[ASN][1000 genomes]
rs153829	0.86[ASN][1000 genomes]
rs153830	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs166127	0.88[ASN][1000 genomes]
rs183681	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs250435	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs250439	0.84[ASN][1000 genomes]
rs250440	0.85[ASN][1000 genomes]
rs250862	0.86[ASN][1000 genomes]
rs251496	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs258290	0.81[ASN][1000 genomes]
rs258374	0.84[ASN][1000 genomes]
rs25945	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs25951	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs25952	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs25986	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs25987	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs25988	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs25992	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs26307	0.83[ASN][1000 genomes]
rs27911	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28004	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31919	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31920	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs31921	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs31922	0.82[ASN][1000 genomes]
rs31923	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31924	0.83[ASN][1000 genomes]
rs31925	0.83[ASN][1000 genomes]
rs31926	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31928	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31929	1.00[ASN][1000 genomes]
rs31930	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31968	0.84[ASN][1000 genomes]
rs40578	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs42358	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs42410	1.00[ASN][1000 genomes]
rs42681	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs456180	0.93[ASN][1000 genomes]
rs459467	0.87[ASN][1000 genomes]
rs466880	0.93[ASN][1000 genomes]
rs6554856	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73048831	0.88[EUR][1000 genomes]
rs73048837	0.86[EUR][1000 genomes]
rs73048838	0.82[EUR][1000 genomes]
rs95492	0.93[ASN][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	nsv1026914	chr5:14237782-14751588	Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	esv1801565	chr5:14671030-14684471	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs27882	FAM105B	cis	Whole Blood	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14666400-14681600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr5:14666400-14688200	Weak transcription	Ovary	ovary
3	chr5:14666600-14688200	Weak transcription	Brain Germinal Matrix	brain
4	chr5:14667000-14681200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr5:14667000-14690400	Weak transcription	Fetal Brain Male	brain
6	chr5:14672000-14684200	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr5:14672200-14690400	Strong transcription	Hela-S3	cervix
8	chr5:14673000-14681400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr5:14673200-14681400	Weak transcription	Brain Angular Gyrus	brain
10	chr5:14673800-14690000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:14674000-14712800	Strong transcription	Fetal Intestine Large	intestine
12	chr5:14674600-14681400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr5:14674600-14687200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr5:14674600-14688400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:14674600-14695600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr5:14675200-14695800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr5:14675600-14682200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr5:14675800-14680600	Enhancers	Fetal Heart	heart
19	chr5:14675800-14685400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:14676000-14682000	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr5:14676200-14681600	Weak transcription	Brain Substantia Nigra	brain
22	chr5:14676600-14681400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr5:14676800-14680400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr5:14676800-14680600	Weak transcription	Colonic Mucosa	Colon
25	chr5:14676800-14681200	Weak transcription	Fetal Lung	lung
26	chr5:14676800-14681400	Weak transcription	Small Intestine	intestine
27	chr5:14676800-14683600	Weak transcription	Brain Hippocampus Middle	brain
28	chr5:14676800-14687800	Weak transcription	Fetal Kidney	kidney
29	chr5:14676800-14690600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr5:14676800-14705600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr5:14677000-14680400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr5:14677000-14680400	Weak transcription	Spleen	Spleen
33	chr5:14677000-14681200	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr5:14677000-14681400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr5:14677000-14681600	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr5:14677000-14682200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr5:14677000-14685800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr5:14677000-14688400	Weak transcription	Stomach Mucosa	stomach
39	chr5:14677000-14695200	Strong transcription	K562	blood
40	chr5:14677200-14680400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr5:14677600-14689800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr5:14677600-14705600	Strong transcription	Dnd41	blood
43	chr5:14677800-14685600	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr5:14677800-14685800	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr5:14677800-14704000	Strong transcription	HepG2	liver
46	chr5:14678000-14680800	Genic enhancers	Primary B cells from peripheral blood	blood
47	chr5:14678000-14683200	Strong transcription	Liver	Liver
48	chr5:14678000-14685200	Strong transcription	Fetal Muscle Leg	muscle
49	chr5:14678000-14686000	Strong transcription	Primary T cells from cord blood	blood
50	chr5:14678000-14689800	Strong transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links