Variant report

Variant	rs1374028
Chromosome Location	chr5:58575831-58575832
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10077993	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10472101	0.80[ASN][1000 genomes]
rs10472102	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs10491353	0.94[CHB][hapmap];0.94[CHD][hapmap];0.85[TSI][hapmap];0.89[ASN][1000 genomes]
rs11955452	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11956680	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12653844	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12655617	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs12658554	0.88[ASN][1000 genomes]
rs13359998	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28372523	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4700335	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[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	nsv598252	chr5:58487764-58618889	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1023628	chr5:58557950-58757438	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv917274	chr5:58565291-58814374	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58571800-58579400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:58572000-58582800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:58572200-58583000	Weak transcription	Left Ventricle	heart
4	chr5:58572800-58577800	Enhancers	Hela-S3	cervix
5	chr5:58573200-58576000	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr5:58573400-58583400	Weak transcription	Colon Smooth Muscle	Colon
7	chr5:58573600-58576400	Weak transcription	Fetal Intestine Small	intestine
8	chr5:58573600-58582800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr5:58573600-58583000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr5:58573600-58583000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr5:58573800-58576600	Weak transcription	Fetal Heart	heart
12	chr5:58573800-58581400	Weak transcription	Brain Hippocampus Middle	brain
13	chr5:58574200-58590200	Weak transcription	Right Atrium	heart
14	chr5:58574800-58582800	Weak transcription	Psoas Muscle	Psoas
15	chr5:58575400-58581800	Weak transcription	HUVEC	blood vessel
16	chr5:58575800-58576000	Enhancers	A549	lung
17	chr5:58575800-58576600	Weak transcription	Fetal Intestine Large	intestine

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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