Variant report

Variant	rs62316050
Chromosome Location	chr4:69210620-69210621
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:69197134..69202591-chr4:69207411..69211710,5	K562	blood:
2	chr2:113031752..113034339-chr4:69209531..69211318,2	MCF-7	breast:
3	chr4:69201801..69210708-chr4:69210917..69216982,18	MCF-7	breast:
4	chr4:69210254..69212514-chr4:69233666..69236534,2	MCF-7	breast:
5	chr4:69194830..69197133-chr4:69209748..69212433,2	K562	blood:

Variant related genes	Relation type
ENSG00000188177	Chromatin interaction
ENSG00000083896	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs4860293	1.00[ASN][1000 genomes]
rs62316207	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008084	chr4:68797598-69482831	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv537131	chr4:68797598-69482831	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	esv1806586	chr4:68943858-69592846	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv461546	chr4:69049643-69223057	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv594506	chr4:69049643-69223057	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv537132	chr4:69149648-69482831	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	esv2757061	chr4:69178920-69631668	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
8	nsv437385	chr4:69204755-69383357	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62316050	YTHDC1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:69182600-69213200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:69184200-69212200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr4:69184200-69212800	Weak transcription	Aorta	Aorta
4	chr4:69189200-69214400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:69198600-69212800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr4:69199000-69213800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:69202400-69213000	Weak transcription	Fetal Stomach	stomach
8	chr4:69203000-69213400	Weak transcription	Colonic Mucosa	Colon
9	chr4:69203200-69211600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:69203400-69212000	Weak transcription	HSMMtube	muscle
11	chr4:69203400-69212200	Weak transcription	Stomach Smooth Muscle	stomach
12	chr4:69203400-69213000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr4:69203600-69211800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr4:69203600-69212000	Weak transcription	Placenta	Placenta
15	chr4:69203600-69212400	Weak transcription	Fetal Kidney	kidney
16	chr4:69203600-69212600	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr4:69203600-69213400	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr4:69203600-69214000	Weak transcription	Fetal Muscle Trunk	muscle
19	chr4:69203800-69213000	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr4:69204000-69212800	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr4:69204200-69212200	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr4:69204400-69212200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
23	chr4:69204400-69213600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr4:69204400-69213800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr4:69204600-69212000	Weak transcription	Fetal Thymus	thymus
26	chr4:69204600-69214600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr4:69204800-69212800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr4:69207000-69211400	Weak transcription	Primary B cells from cord blood	blood
29	chr4:69207200-69212000	Enhancers	Fetal Intestine Large	intestine
30	chr4:69208000-69211400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr4:69208000-69211600	Weak transcription	Spleen	Spleen
32	chr4:69208200-69211400	Weak transcription	Brain Anterior Caudate	brain
33	chr4:69208200-69211400	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr4:69208200-69211400	Weak transcription	Hela-S3	cervix
35	chr4:69208200-69211600	Weak transcription	Gastric	stomach
36	chr4:69208200-69211600	Weak transcription	Right Ventricle	heart
37	chr4:69208200-69212000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr4:69208200-69212200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr4:69208200-69212200	Weak transcription	HSMM	muscle
40	chr4:69208200-69212200	Weak transcription	NH-A	brain
41	chr4:69208200-69212400	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr4:69208200-69212400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr4:69208200-69213000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr4:69208200-69213800	Weak transcription	Fetal Muscle Leg	muscle
45	chr4:69208400-69211400	Weak transcription	Fetal Brain Male	brain
46	chr4:69208400-69211600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr4:69208400-69212000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr4:69208400-69212200	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr4:69208600-69211400	Weak transcription	Brain Germinal Matrix	brain
50	chr4:69208600-69211600	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links