RetrogeneDB ID:
retro_ecab_712
Organism:
Horse ( Equus_caballus )
Location:
3:32729729-32730536 (+)
Status:
NOVEL
Ensembl ID:
None
Aliases:
No gene alias available
Located in intron of:
Alignment summary

Identity:
95.17 %
Coverage:
100.0 %
Frameshifts:
0
Stop codons:
1


Parental gene:
Parental gene symbol:
YBX1
Parental gene aliases:
No gene alias available
Parental gene description:
Y box binding protein 1 [Source:HGNC Symbol;Acc:8014]

Genomic region (view in browser)





>retro_ecab_712
TCAACGAAGGTTTTGGGAACAGTAAAATGGCTCAATGTAAGAAACGGATATGGTTTCATC
AACAGGAATGACACCAAGGAAGATGTATTTGTACACCAGACTGCCATAAAGAAGAATAAC
CCCAGGAAGTACCTTCGCAGTGTAGGAGATGGAGAGACTGTGGAGTTTGATGTTGTTGAA
GGAGAAAAGGGTGCGGAGTCGGCAAATGTTACAGGTCCTGGTGGAGTTCCAGTGCAAGGC
AGTAAATATGCAGCAGACCGTAACCATTATAGACGCTGTCCACGTCGCAGGGGTCCTCCA
CGCAATTACCAGCAGAATTACCAGAATAGTGAGAGAGGGGAAAAGAATGAGGGATCGGAG
AGCGCTCCCGAAGGCCAGGCCCAACAGCGCCGGCCCTACCGCAGGCAACGGTTCCCACCT
TACTACATGCGGAGACCCTATGGGCGTCGACCACAGTATTCCAACCCTCCTGTGCAAGGA
GAAGTGATGGAGGGTGCTGACAACCAGGGTGCAGGAGAACAAGGTAGACCAGTGAGGCAG
AATATGTATCCGGGTTATAGACCACGATTCCGCAGGGGCCCTCCTGGCCAAAGACAGCCC
AGAGAGGATGGCAATGAAGAAGATAAGGAAATTCAAGGCGATGAGACCCACGGTCAGCAG
CCACCTCAACGTCGGTACCGCCGCAACTTCAATTACTGACGCAGATGCCCAGAAAACCCT
AAACCACAAGATGGCAAAGAGACAAAAGCAGCCGATCCACCAGCTGAGAATTCGTCCGCT
CCCCAGGCTGAGCAGGGCGGGGCTGAG

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.12
SRP021940_cerebellum 0.05
SRP021940_embryo 0.12
SRP021940_placental_villous 0.09
SRP021940_synovial_membrane 0.03
SRP021940_testis 0.18

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
ATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPP
.TKVLGTVKW.NVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAE.ANVTGPGGVPVQGSKYAADRNHYRR.PRRRGPP
Retrocopy
STKVLGTVKWLNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAESANVTGPGGVPVQGSKYAADRNHYRRCPRRRGPP


Parental protein
RNYQQNYQNSESGEKNEGSESAPEGQAQQRRPYRRRRFPPYYMRRPYGRRPQYSNPPVQGEVMEGADNQGAGEQGRPVRQNMYRGYRPRFRRGPPRQRQP
RNYQQNYQNSE.GEKNEGSESAPEGQAQQRRPYRR.RFPPYYMRRPYGRRPQYSNPPVQGEVMEGADNQGAGEQGRPVRQNMY.GYRPRFRRGPP.QRQP
Retrocopy
RNYQQNYQNSERGEKNEGSESAPEGQAQQRRPYRRQRFPPYYMRRPYGRRPQYSNPPVQGEVMEGADNQGAGEQGRPVRQNMYPGYRPRFRRGPPGQRQP


Parental protein
REDGNEEDKENQGDETQGQQPPQRRYRRNFNYRRRRPENPKPQDGKETKAADPPAENSSAPEAEQGGAE
REDGNEEDKE.QGDET.GQQPPQRRYRRNFNY.RR.PENPKPQDGKETKAADPPAENSSAP.AEQGGAE
Retrocopy
REDGNEEDKEIQGDETHGQQPPQRRYRRNFNY*RRCPENPKPQDGKETKAADPPAENSSAPQAEQGGAE


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