RetrogeneDB ID:

retro_ecab_1011

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:9:50943517..50943967(+)
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_1011
AGGGAGAAAGGAGCAGACAGTTTGTTTGAATGAATAACAGCTAAGAATTTCACAAAGCTAGGGAAAGAACTGGATTACAA
GTATATGAAGTCAATAGAACTCCTAATTACATCAATGCAAAAAGACCTTTGCCAAGGCATATAGTAGTAAAACTGGCAAA
AGTCAACAACAAAGATAAAGTATTAAAGGCAGCAAGGCAGAAGAGACTAATCTACAAAGGAATGCCTATCTAGCTTTCAG
TGGAATTCTCAGCAGAAACTACAGGCTAAGAGAGATTGGAATGTTATATTCAACATACTGAAAGACAAAAACTTTCAGCC
AAGAATACTCTATCCAGCAAAACTATGCTTTAAATATGATGGAGAAATAAAAGCTCTCCCAGATAAACAAAAGCTGAGGG
AGTTCATTGCCACTAGACCTCCCTTATGAGCAATGAGAAAGGATGCCCTC

ORF - retro_ecab_1011 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.48 %
Parental protein coverage: 75.88 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalRQNRRESLFKEIITENFLNLGKGLE-IQVKEANRTPNYINVERPSPRHILVKLAKLVMKEYIMAEAARQK
R.....SLF..I...NF..LGK.L...QV.E.NRTPNYIN..RP.PRHI.VKLAK...K......AARQK
RetrocopyREKGADSLFE*ITAKNFTKLGKELD<LQVYEVNRTPNYINAKRPLPRHIVVKLAKVNNKDKVL-KAARQK
ParentalKITYKGSPIRLSADFS-QTVQTRREWNDIIKILKYKNYPPRILYPVKLSFRYGREIKAFQDKQKLREFIT
...YKG.PI.LS..FS.Q..Q..R.WN.I..ILK.KN..PRILYP.KL.F.Y..EIKA..DKQKLREFI.
RetrocopyRLIYKGMPI*LSVEFS>QKLQAKRDWNVIFNILKDKNFQPRILYPAKLCFKYDGEIKALPDKQKLREFIA
ParentalTRPPLQEMMKTAL
TRPPL..M.K.AL
RetrocopyTRPPL*AMRKDAL

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_1011 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_1011 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_1011 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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