RetrogeneDB ID:
retro_ecab_461
Organism:
Horse ( Equus_caballus )
Location:
19:24024171-24024976 (+)
Status:
KNOWN_PSEUDOGENE
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
84.87 %
Coverage:
100.0 %
Frameshifts:
2
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_461
GCAAGGAAGGTTTTGGGAACAGTAAAACGGTTCAAGGTAAGAAACGGATATGGTTTCATC
CACAGGAATGATACCAAGAAAGATGTATTTGTACACCAGACTGCCATAAAGAAGAATAAC
CCCAGGAAGTACCTTCGCAGTGTAGGAGATGGAGAGACTGTGGAGTTTGATGTTGTTGAA
GGGGAAAAGGGTGTGGAGGCCACAAATGTTACCGGCCCTGGTGAAGTTCCAGGGCAAGGC
GGTAAATATGCAGCAGACTGTAACCATTATAGACACTACCCACGTCGCAGGGGTCCTCCA
CGCAATTACCAGCAGAATTACCAGAATACTGAGAGCAGGGAAAAGAATGAGGGATCCGAG
AGCATCCCCGAAGGCCAGGCCCAACAGCACCGGCCCTACCGCAGGCGGCAGTTCCCACCT
TACTACACACGGAGACCCTTTGGGCTTCGAGCACAGTATTCCAACCCTCCTGTGCAAGGA
GAAGTGATGGAGGGTGCTGACAGCCAGGGTGCAGGAGACCAAGGTAGACCAGTGAGGCAG
AATACATATCGGGTTTATAGACCACGATTCTGCAGGGGCCCTCCTTGCTAAAGACAGCCT
AGAGAGGACAGCAACGAAGAAGATAAGGAAAATCAAGGAGATGAGACCCAAGGTCAGCAG
CCACCTCAACGTTGGTACCACCGCAACTTCAATTACGAAGCAGACGCCCAGAAAACCCTA
AGCTGCAAGATGGCAAAGAGACAAAGCAGCCTATCCGCTAATTGAAAATTTGTCTGCTCC
GGAGGTTGAGCAGGACGGGGCTGAG

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.06
SRP021940_cerebellum 0.05
SRP021940_embryo 0.31
SRP021940_placental_villous 0.09
SRP021940_synovial_membrane 0.18
SRP021940_testis 0.59

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
ATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPP
A.KVLGTVK.F.VRNGYGFI.RNDTK.DVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKG.EA.NVTGPG.VP.QG.KYAAD.NHYR.YPRRRGPP
Retrocopy
ARKVLGTVKRFKVRNGYGFIHRNDTKKDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKGVEATNVTGPGEVPGQGGKYAADCNHYRHYPRRRGPP


Parental protein
RNYQQNYQNSESGEKNEGSESAPEGQAQQRRPYRRRRFPPYYMRRPYGRRPQYSNPPVQGEVMEGADNQGAGEQGRPVRQNMYRGYRPRFRRGPPRQRQP
RNYQQNYQN.ES.EKNEGSES.PEGQAQQ.RPYRRR.FPPYY.RRP.G.R.QYSNPPVQGEVMEGAD.QGAG.QGRPVRQN.YR.YRPRF.RGPP..RQP
Retrocopy
RNYQQNYQNTESREKNEGSESIPEGQAQQHRPYRRRQFPPYYTRRPFGLRAQYSNPPVQGEVMEGADSQGAGDQGRPVRQNTYRVYRPRFCRGPPC*RQP


Parental protein
REDGNEEDKENQGDETQGQQPPQRRYRRNFNY-RRRRPENPKPQDGKET-KAADPPAENSSAPEAEQGGAE
RED.NEEDKENQGDETQGQQPPQR.Y.RNFNY.R.RRPENPK.QDGKET.KAA.P..EN.SAPE.EQ.GAE
Retrocopy
REDSNEEDKENQGDETQGQQPPQRWYHRNFNY/RSRRPENPKLQDGKET/KAAYPLIENLSAPEVEQDGAE


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