RetrogeneDB ID:

retro_ecab_829

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:5:39494118..39494538(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DCTD
Ensembl ID:ENSECAG00000017516
Aliases:None
Description:dCMP deaminase [Source:HGNC Symbol;Acc:2710]


Retrocopy-Parental alignment summary:






>retro_ecab_829
AAGATCAGAGCCTGAATCATGAATGCATAAAACATGATTGTAGGGACTGGGTACAACAGAATACCAAATGGGTACAGTGA
TGACCTCTTCCCTTAGAGGACAGCAGAGAGTAAGCCAGATACCAAATACCTGTACATGTGCCGTGCCAAACTGAATGTCG
TCATGAACAGAAATTCATCAAGTATAAAAGGATGTACTATACATGTCACCTTGTCCCTATGCAATGAGTGTGTTAAACTT
ATCATCCAGACAGGTATAAAAGAAGTTATTTTCATGTCTGATAAATACCGTGATAGTTATGAGACAACAGCTGTGAGGTT
CATATTTGACATGGCTGTGGTTACATTCAGGAACTTCACACTGAAGTGCAGCAAGATTGCTTTTGATTCATTTGGCAGTA
GACCAAGTCAGGAGCTTCAG

ORF - retro_ecab_829 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.03 %
Parental protein coverage: 79.44 %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalQVGACIVNAENKIVGIGYNGMPNGCSDDLLPWRRTAENKLDTKYPYVCHAELNAIMNKNSADVKGCTMYV
...A.I.NA.N.IVG.GYN..PNG.SDDL.P.R.TAE.K.DTKY.Y.C.A.LN..MN.NS...KGCT..V
RetrocopyKIRA*IMNA*NMIVGTGYNRIPNGYSDDLFP*R-TAESKPDTKYLYMCRAKLNVVMNRNSSSIKGCTIHV
ParentalALFPCNECAKLIIQAGIKEVIFMSDKYHDSDEATAARLLFDMAGVTFRKFTPKCSKIVIDFDSINSRPTQ
.L..CNEC.KLIIQ.GIKEVIFMSDKY.DS.E.TA.R..FDMA.VTFR.FT.KCSKI...FDS..SRP.Q
RetrocopyTLSLCNECVKLIIQTGIKEVIFMSDKYRDSYETTAVRFIFDMAVVTFRNFTLKCSKIA--FDSFGSRPSQ
ParentalKPQ
..Q
RetrocopyELQ

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 5 .67 RPM
SRP021940_cerebellum 0 .00 RPM 0 .88 RPM
SRP021940_embryo 0 .00 RPM 7 .39 RPM
SRP021940_placental_villous 0 .00 RPM 5 .10 RPM
SRP021940_synovial_membrane 0 .00 RPM 8 .07 RPM
SRP021940_testis 0 .00 RPM 2 .24 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_829 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_829 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_829 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000017516 3 retrocopies
retro_ecab_829 , retro_ecab_830, retro_ecab_915,
Mus musculus ENSMUSG000000315621 retrocopy
Rattus norvegicus ENSRNOG000000132151 retrocopy
Sarcophilus harrisii ENSSHAG000000152181 retrocopy
Tursiops truncatus ENSTTRG000000014601 retrocopy



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