RetrogeneDB ID:

retro_ecab_1111

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:X:48662607..48662925(-)
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:ENSECAG00000015686
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ecab_1111
AATATATGAAAAGTCCAAACAGATGTTACAAAACTGAAGAATGCAATAACTGAACCAAGAAATACACTAGAGGGATTCAA
TAACAAACTACATGAAGCTGAAGAAAGAATCAGTAAACTTGAAGACAGGACGAAGGAACTTGCCCAATGAGAGCAACAAA
AAGAAAAAAGAATTTAAAAAAGTGAAGATAGCTTAATGGACTTATAGGACAACATCAAGTGGATTAACATTCCCTATATA
GGAGTCCCACAAGGAGAAGAGATAGAGAAAGGGGTAGAGTTATTTGAAAAAATAATGGCAGAAAACTTCCTTAACCTG

ORF - retro_ecab_1111 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.07 %
Parental protein coverage: 62.35 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSIRKCQIEVTELKNTIPELTNTLEGFNSRLDEAEERISELNDRA-ELTQSEQQKEKRMKNTDNSLRELWD
.I.K.Q..VT.LKN.I.E..NTLEGFN..L.EAEERIS.L.DR..EL.Q.EQ...........SL..L.D
RetrocopyNI*KVQTDVTKLKNAITEPRNTLEGFNNKLHEAEERISKLEDRTKELAQ*EQXXXXXXXXXEDSLMDL*D
ParentalNIKHANIRIIGVPEGEERDKGAENLFVEIIQENFPNL
NIK..NI..IGVP.GEE..KG.E.LF..I..ENF.NL
RetrocopyNIKWINIPYIGVPQGEEIEKGVE-LFEKIMAENFLNL

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 .00 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_1111 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_1111 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_1111 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 1 parental gene, and 14 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000015686 14 retrocopies



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