RetrogeneDB ID:

retro_ecab_833

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:5:45007234..45007506(+)
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:ENSECAG00000017627
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ecab_833
CAGAACCAGCAGCAGTGCCAGCCCCCTCCCAAGTGCCTTCCCAAGTGCCCCCAAAAATGTCCACCTAAGTGCCCCCCCAG
TACCCAGCCCCGTGTCCCCCTCCAGTCTCCTCCTGCTGTGACCCCAGCTCTGGGGGCTGCCGCAGCTCTGGGGGAGGGGG
CTGCTGCCTGAGCCACCACAGGTCCCATCTCTTCCACCGGCGGTGGCACCAGAGCCCCGACTGCTGTGAGGGTGAGCCCT
CGGGGGGCTCCGGCTGCTACGGCAGCTCTGGG

ORF - retro_ecab_833 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.04 %
Parental protein coverage: 82.76 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQPPPKCSPKCSPKCTPKCPPKCPPKCPP-QCPAPCPPPVSSCCGPSSGGCCSSGGGGCCLSHHRRRRSHR
Q....C.P...PKC.PKCP.KCPPKCPP.Q.PAPCPPPVSSCC.PSSGGC.SSGGGGCCLSHHR....HR
RetrocopyQNQQQCQPP--PKCLPKCPQKCPPKCPP<QYPAPCPPPVSSCCDPSSGGCRSSGGGGCCLSHHRSHLFHR
ParentalRRQQSSDCCNSGSGQQSGGSSCCHESG
R..QS.DCC....G..SGGS.C...SG
RetrocopyRWHQSPDCC---EGEPSGGSGCYGSSG

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 .05 RPM 0 .00 RPM
SRP021940_embryo 0 .05 RPM 0 .00 RPM
SRP021940_placental_villous 0 .00 RPM 0 .05 RPM
SRP021940_synovial_membrane 0 .00 RPM 0 .00 RPM
SRP021940_testis 0 .00 RPM 0 .13 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_833 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_833 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_833 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000017627 1 retrocopy
retro_ecab_833 ,



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