RetrogeneDB ID:
retro_ecab_890
Organism:
Horse ( Equus_caballus )
Location:
6:82964842-82965215 (+)
Status:
NOVEL
Ensembl ID:
None
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
55.22 %
Coverage:
63.41 %
Frameshifts:
2
Stop codons:
0


Parental gene:
Parental gene symbol:
HMGB3
Parental gene aliases:
No gene alias available
Parental gene description:
high mobility group box 3 [Source:HGNC Symbol;Acc:5004]

Genomic region (view in browser)





>retro_ecab_890
ACAGTCAGGATAGCTACACGTGACCTCAAGAAAGCAAAGCACGAGCTGTCTGTTCATGCC
TTCTTTGGGAAGACCTGCTGGGAGGGACACATGAGGAAAAACCCAGAGACCCCTGTGAAC
TGTGTGTTTTCCAAGTGCTCTGAGAGGGGCAATACAGGGTGTGGGAAAGAGAAGTACAAA
TTGATGAAATGGCAAAGTGCACCAGATCAGGAAATGAAGGATTGGAGACCAGCTAAGGGA
GGCAACAAGAAAGATCGTACTATCCCAAATACCCTCATACTCCACTTGGCTTCTTCCTCT
TCTGCTTAGACCTCTGCCTAAGGTCAAATCCATAAACCTAGGCATTTCCATTGGAGACCT
GGCCAAATGGCTG

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.0
SRP021940_cerebellum 0.0
SRP021940_embryo 0.12
SRP021940_placental_villous 0.4
SRP021940_synovial_membrane 0.05
SRP021940_testis 0.0

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
TVRMAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKFDEMAKADKVRYDREMKDYGPAKGGKKKKDPNAP-KRP
TVR.A..D.KK.K...S..AFF..TC.E.H..KNPE.PVN...FSK.CSER..T..GKEK.K......A.....D.EMKD..PAKGG.K.KD...P.K.P
Retrocopy
TVRIATRDLKKAKHELSVHAFFGKTCWEGHMRKNPETPVNCV-FSK-CSERGNTGCGKEKYKLMKWQSAP----DQEMKDWRPAKGGNK-KDRTIP/KYP


Parental protein
--PSGFFLFCSEF-RPKIKSTNPGISIGDVAKKL
..P.GFFLFC.....PK.KS.N.GISIGD.AK.L
Retrocopy
HTPLGFFLFCLDL/LPKVKSINLGISIGDLAKWL


Legend:
*
Stop codon
\
Forward frameshift by one nucleotide
/
Reverse frameshift by one nucleotide