RetrogeneDB ID:

retro_ecab_545

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:20:2849058..2849516(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSECAG00000018840
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ecab_545
GAAGAGAGGGAGAGGGGGAAGAGAGTTTACTTAAAGAATTAAGAGCTGAAAACTTTCCAAACTTGGGGAAGGACTTTGAC
ATGCAAGTTCACAAAGCTAATAGAACACCCTATTATTTCAGTGCACAAACACCTTTTCCAAGACACATTATAATGAAACT
GTCAAAAATCAATGATAAAGAAAAAAATCTTGAAGGCAACCAGGAGTATAAGACAGTAATCTACAAAGGAATCCCCATTA
GGTATCAGTGGATTTCTCAGCAGAAACCCTATAGGCCAGGAGAGCGGAATGACATATTCAAAGTGTTGAAAGATATAAAT
TGCCAGCCAAGAATACTTTATCTGGCAAAGTTATCCTTCAGGTATGGAAGGGAAATTAATACTTTCCCAGACACATAAAA
GCTGAGGGAGTTCACCACCACTAGACCTGCCTTGAAAGAAATGCTCAAAGGACTTCTA

ORF - retro_ecab_545 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.95 %
Parental protein coverage: 76.88 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalEERQNRR-ESLFKEIITENFLNLGKGLEIQVKEANRTPNYINVERPSPRHILVKLAKLVMKEYIMAEAAR
EER.....ESL.KE...ENF.NLGK....QV..ANRTP.Y.....P.PRHI..KL.K...KE........
RetrocopyEERERGK<ESLLKELRAENFPNLGKDFDMQVHKANRTPYYFSAQTPFPRHIIMKLSKINDKEKNLEGNQE
ParentalQKKITYKGSPIRLSADFSQTVQTRREWNDIIKILKYKNYPPRILYPVKLSFRYGREIKAFQDKQKLREFI
.K...YKG.PIR......Q......E.NDI.K.LK..N..PRILY..KLSFRYGREI..F.D..KLREF.
RetrocopyYKTVIYKGIPIRYQWISQQKPYRPGERNDIFKVLKDINCQPRILYLAKLSFRYGREINTFPDT*KLREFT
ParentalTTRPPLQEMMKTAL
TTRP.L.EM.K..L
RetrocopyTTRPALKEMLKGLL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP021940_articular_cartilage 0 .00 RPM 0 .00 RPM
SRP021940_cerebellum 0 .00 RPM 0 .00 RPM
SRP021940_embryo 0 .00 RPM 0 .03 RPM
SRP021940_placental_villous 0 .00 RPM 0 .00 RPM
SRP021940_synovial_membrane 0 .00 RPM 0 .00 RPM
SRP021940_testis 0 .00 RPM 0 .00 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_545 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_545 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_545 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 1 parental gene, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000018840 28 retrocopies



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