Variant report

Variant	rs1549622
Chromosome Location	chr5:151266049-151266050
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1062177	0.94[CEU][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs12518238	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12518722	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12653926	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1346489	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1428155	0.87[ASN][1000 genomes]
rs1428158	0.87[ASN][1000 genomes]
rs1465555	0.87[ASN][1000 genomes]
rs1549920	0.84[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs177349	0.83[CHB][hapmap];1.00[YRI][hapmap]
rs17741826	0.94[CEU][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs188553	1.00[YRI][hapmap]
rs2584895	1.00[YRI][hapmap]
rs2913884	0.90[ASN][1000 genomes]
rs2913885	0.87[ASN][1000 genomes]
rs2915822	0.84[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap]
rs2915826	0.83[CEU][hapmap];1.00[YRI][hapmap]
rs2915827	1.00[YRI][hapmap]
rs2915876	0.94[CEU][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs2915882	0.94[CEU][hapmap]
rs2964565	0.98[ASN][1000 genomes]
rs2964574	0.84[CEU][hapmap];0.92[GIH][hapmap];0.92[TSI][hapmap]
rs2964584	0.94[CEU][hapmap];0.94[TSI][hapmap]
rs2964587	1.00[YRI][hapmap]
rs2964591	0.89[TSI][hapmap]
rs2964592	0.80[MEX][hapmap];0.89[TSI][hapmap]
rs2964607	0.87[ASN][1000 genomes]
rs2964608	0.87[ASN][1000 genomes]
rs302392	0.81[JPT][hapmap];1.00[YRI][hapmap]
rs302395	1.00[YRI][hapmap]
rs400545	1.00[YRI][hapmap]
rs4279329	0.87[ASN][1000 genomes]
rs4302572	0.87[ASN][1000 genomes]
rs59580263	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62394146	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62394155	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62395861	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6884630	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6892117	0.92[EUR][1000 genomes]
rs6896664	0.92[EUR][1000 genomes]
rs892006	0.94[CEU][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap]
rs919262	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs919263	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1549622	CD74	cis	cerebellum	SCAN
rs1549622	C5orf46	cis	parietal	SCAN
rs1549622	RP11-54C4.1	cis	Nerve Tibial	GTEx
rs1549622	SYNPO	cis	parietal	SCAN
rs1549622	RP11-54C4.1	cis	Thyroid	GTEx

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151264600-151266800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr5:151265200-151266200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:151265200-151266200	Weak transcription	Gastric	stomach
4	chr5:151265200-151268400	Weak transcription	Fetal Heart	heart
5	chr5:151265200-151275800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr5:151265400-151266200	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr5:151265400-151266200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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