RetrogeneDB ID:
retro_ecab_435
Organism:
Horse ( Equus_caballus )
Location:
18:54515901-54516663 (+)
Status:
NOVEL
Ensembl ID:
None
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
73.73 %
Coverage:
96.56 %
Frameshifts:
0
Stop codons:
1


Parental gene:
Parental gene symbol:
RPS4
Parental gene aliases:
No gene alias available
Parental gene description:
40S ribosomal protein S4 [Source:UniProtKB/Swiss-Prot;Acc:P55832]

Genomic region (view in browser)





>retro_ecab_435
GCTCTTGGTCCCAAGAAGCATCTGAAGTATGTAGCAGCTCCAAAGCATTGGATTCTGGAT
AAACAGCCCAGCGTGTTTGCTCCTTGTCCATCTACCGGTGCCCACAAGCTGAGAGAATGT
CTCTTCCTCATCATTTTCCTAAGGAACAGACTTAAGCATGCCCTAACAGGAGATGAAGTA
AAAAATATCTGCATGCAGTGGTTCATTAAGATTGGCAAGGTCCCAACTGATATAACCTAC
CCTGCTGGTTTCATGGATGTCGTCAGCATTGACAAGCCTGTAGAGAACTTCCAGGTGGTC
TATGACAGTGAGGGTGGCCTTGCTGTTCATAGTATCACACCCAAGGAGGCCAAGGTATTG
TACAAGTTGCACAAAGTGAGAAAGATCTTTGTAGGCGTGAAAGGAATTCTTCATCTGGTG
ACCCATGATGCTCACACCATCCACTACCCTGATTGCCTCATCGACGTGAACACCACCATC
CAGACTGATTTGGAGACTGGAAAGATCACCAGCTTCACAAAGTCCGACAGTGCTAACCTG
TGTATGGTGACCAGAGGTGCTAACCTGGGAGGAACGAGTGTGGTCACCAACAGAGACAGA
CAACCTGGTTCTTTTGATGTGGTTCACGTGCAAGATTCCAGTGGCAACAGCTTTCCCACC
TGATTCTGCAACATTTTTGTTATTTGCAAACGCAACAAAACACGGATTTCTCTTCCGCAA
AGAAAAGATATCCACCTCATCATTGCTGAAGAGAGACAGGAG

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.0
SRP021940_cerebellum 0.0
SRP021940_embryo 0.02
SRP021940_placental_villous 0.0
SRP021940_synovial_membrane 0.03
SRP021940_testis 0.36

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
ARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNRLKYALTGDEVKKICMQRFIKIDGKVRTDITYPAGFMDVISIDKTGENFRL
A.GPKKHLK.VAAPKHW.LDK...VFAP.PSTG.HKLRECL.LIIFLRNRLK.ALTGDEVK.ICMQ.FIKI.GKV.TDITYPAGFMDV.SIDK..ENF..
Retrocopy
ALGPKKHLKYVAAPKHWILDKQPSVFAPCPSTGAHKLRECLFLIIFLRNRLKHALTGDEVKNICMQWFIKI-GKVPTDITYPAGFMDVVSIDKPVENFQV


Parental protein
IYDTKGRFAVHRITPEEAK--YKLCKVRKIFVGTKGIPHLVTHDARTIRYPDPLIKVNDTIQIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRE
.YD..G..AVH.ITP.EAK..YKL.KVRKIFVG.KGI.HLVTHDA.TI.YPD.LI.VN.TIQ.DLETGKIT.F.K.D..NLCMVT.GANLG...V.TNR.
Retrocopy
VYDSEGGLAVHSITPKEAKVLYKLHKVRKIFVGVKGILHLVTHDAHTIHYPDCLIDVNTTIQTDLETGKITSFTKSDSANLCMVTRGANLGGTSVVTNRD


Parental protein
RHPGSFDVVHVKDANGNSFATRLSNIFVIGKGNKPWISLPRGKGIRLTIAEERDK
R.PGSFDVVHV.D..GNSF.T...NIFVI.K.NK..ISLP..K.I.L.IAEER..
Retrocopy
RQPGSFDVVHVQDSSGNSFPT*FCNIFVICKRNKTRISLPQRKDIHLIIAEERQE


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