Variant report

Variant	rs2412726
Chromosome Location	chr4:56917614-56917615
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	chr4:56914879..56917642-chr4:56927334..56929102,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10517367	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1108947	0.86[EUR][1000 genomes]
rs1108948	0.86[EUR][1000 genomes]
rs11721368	0.81[EUR][1000 genomes]
rs11934389	0.86[EUR][1000 genomes]
rs11938852	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13102087	0.87[EUR][1000 genomes]
rs13112752	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13113844	0.86[EUR][1000 genomes]
rs13121092	0.84[EUR][1000 genomes]
rs13139132	0.90[EUR][1000 genomes]
rs13147381	0.86[EUR][1000 genomes]
rs17086249	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2412717	0.86[EUR][1000 genomes]
rs2412718	0.86[EUR][1000 genomes]
rs2412719	0.85[EUR][1000 genomes]
rs2412720	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2412721	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2412722	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2412725	0.90[ASN][1000 genomes]
rs2412728	0.91[EUR][1000 genomes]
rs2702332	0.90[EUR][1000 genomes]
rs2899054	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34181414	0.86[EUR][1000 genomes]
rs34546346	0.85[ASN][1000 genomes]
rs34577487	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34683632	0.86[EUR][1000 genomes]
rs34796075	0.84[EUR][1000 genomes]
rs35400594	0.86[EUR][1000 genomes]
rs35417087	0.81[EUR][1000 genomes]
rs35736349	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35770075	0.86[EUR][1000 genomes]
rs35786306	0.86[EUR][1000 genomes]
rs35786805	0.87[EUR][1000 genomes]
rs35976456	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36092812	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4355456	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4364320	0.86[EUR][1000 genomes]
rs4645275	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58795379	0.86[EUR][1000 genomes]
rs59053231	0.91[ASN][1000 genomes]
rs59838410	0.85[ASN][1000 genomes]
rs60296378	0.85[ASN][1000 genomes]
rs6554328	0.86[EUR][1000 genomes]
rs6819574	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6826903	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6836376	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6839220	0.85[EUR][1000 genomes]
rs6839870	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71601617	0.85[EUR][1000 genomes]
rs73155600	0.93[ASN][1000 genomes]
rs73155601	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73162699	0.93[ASN][1000 genomes]
rs73162701	0.88[ASN][1000 genomes]
rs7657181	0.83[EUR][1000 genomes]
rs7659694	0.86[EUR][1000 genomes]
rs7663270	0.84[EUR][1000 genomes]
rs7672541	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7676365	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7685766	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv1005845	chr4:56522075-56980357	Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2412726	KIAA1211	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:56914400-56917800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr4:56914800-56919600	Active TSS	Fetal Brain Female	brain
3	chr4:56916400-56919800	Active TSS	Brain Germinal Matrix	brain
4	chr4:56916400-56936200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr4:56916600-56918600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr4:56916600-56921200	Weak transcription	Fetal Intestine Small	intestine
7	chr4:56916600-56921400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr4:56916600-56921600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr4:56916600-56929400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:56916600-56931600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr4:56916600-56934200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr4:56916800-56921400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr4:56917000-56921200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr4:56917200-56917800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr4:56917200-56917800	Active TSS	Fetal Kidney	kidney
16	chr4:56917200-56918000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr4:56917200-56918200	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr4:56917200-56918600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr4:56917200-56918800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr4:56917200-56921000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr4:56917200-56921000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr4:56917200-56921200	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr4:56917200-56921200	Weak transcription	Primary hematopoietic stem cells	blood
24	chr4:56917200-56921200	Weak transcription	Fetal Intestine Large	intestine
25	chr4:56917200-56921200	Weak transcription	HepG2	liver
26	chr4:56917200-56921600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr4:56917200-56922400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr4:56917200-56923600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr4:56917200-56934600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr4:56917400-56917800	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr4:56917400-56917800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr4:56917400-56918600	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr4:56917400-56919000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr4:56917600-56917800	Enhancers	H9 Cell Line	embryonic stem cell
35	chr4:56917600-56917800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr4:56917600-56918000	Enhancers	Fetal Brain Male	brain
37	chr4:56917600-56918000	Enhancers	Fetal Heart	heart
38	chr4:56917600-56918800	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr4:56917600-56919000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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