RetrogeneDB ID:

retro_ecab_643

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:25:8724171..8724803(+)
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:ENSECAG00000009821
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ecab_643
CAGGAACTCAATAGCAGAGTAGATGATATAGAAGAATGGATCAGTGAGCTAAGCGAAAGACTAGAAGAAATCACCCAAGC
TGAAGAGATAAAAGGAAAAAAAATTAGACAGAATGAGAACATTCTAAGGGAATTCTGGGACAATATCAAGTGCAATAACA
TTCATATTATAGGTGTCTGAGAAGGAGAAGAGAGAAACAAAGGGGTAGAAAATCTATTTGAAGAAACAGTGGCTGAAAAT
TTTCCTAACCTAAGGAAGGAAACAGACATCCAAGTACAGGAAGCACAGAGAGCTCTAAAAAAGATAAGCCCAAAGAGGCC
CACACCAAGACACATTATAATTAAACTCTCCAAAATTAAGGATAGAGAATCCTAAAAGTTACAAGAGAAAGGCAATAAGT
GACATACAAAGGAAATCCCATAAGGCTATCAGTGGACTTCTCAGCCAAAAACCTACAGGTGAGAAGAGAATGACATGACA
TATTTAAAGTGCTAAAAACAAAAAACCAACAGCCAAGAATACTCTATCAAGCAAGGGTGTCATTCAGAATGGAAGGAGAG
ATAAAGAGCTTCCCAGAGAAGCAAAAACTAAAGGAATTTATCACCAAGAAACTGGTTCTACAAAAAATGCTG

ORF - retro_ecab_643 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.32 %
Parental protein coverage: 85.89 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalERLNSRVSDTHEQMSEIDERLEEISQAEQKKEKRIRQNENSLRELWDNIKCTNIRFIGVPEGEERDKEAE
..LNSRV.D..E..SE..ERLEEI.QAE.......RQNEN.LRE.WDNIKC.NI..IGV.EGEER.K..E
RetrocopyQELNSRVDDIEEWISELSERLEEITQAEEXXXXXXRQNENILREFWDNIKCNNIHIIGV*EGEERNKGVE
ParentalN----RVAENFPNLKKETDIHIQEAQRTPKKISPKRATPRHIIIKISKMNDKERIPRAARQKK-ISYKGT
N.....VAENFPNL.KETDI..QEAQR..KKISPKR.TPRHIIIK.SK..D.E.........K...YKG.
RetrocopyNLFEETVAENFPNLRKETDIQVQEAQRALKKISPKRPTPRHIIIKLSKIKDRES*KLQEKGNK<VTYKGN
ParentalPIRLSVHFSTETLQARRDWNDIFKTLKDKNLQPRILYPAKIFFRYEGEIKSFPDNQKLRDFVATSPPLQE
PIRLSV.FS...LQ.RR...DIFK.LK.KN.QPRILY.A...FR.EGEIKSFP..QKL..F......LQ.
RetrocopyPIRLSVDFSAKNLQVRRE*HDIFKVLKTKNQQPRILYQARVSFRMEGEIKSFPEKQKLKEFITKKLVLQK
ParentalIL
.L
RetrocopyML

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 .03 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 .06 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_643 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_643 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_643 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 1 parental gene, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000009821 7 retrocopies



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