RetrogeneDB ID:

retro_ecab_749

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:30:616681..617648(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ABI1
Ensembl ID:ENSECAG00000015467
Aliases:None
Description:abl-interactor 1 [Source:HGNC Symbol;Acc:11320]


Retrocopy-Parental alignment summary:






>retro_ecab_749
AAGCATGGAAATAACCAGCCTGCAAGAACTGGCACTCTGTCGAGAACAAATCCTCCTACTCAGAAGCCACCGAGTCCTCC
CACGTCAGGCCGGGGACGCTGGGGCGGAATACTCCTTACAAAACCCTGGAGCCTGTTAAACCCCACCGTTCCTAGTGACT
ACATGACAAGTCCTGCTACGCTCGGAAGTCAGCATAGCCCAGGCAGGACAGCTTCTTTAAATCAGAGACCGAGGACACAC
AGTGGAAGCAGTGGAGGAAGTGGAAGTCGAGAAAACAGTGGAAGCAGCAGTATTGGCATTCCCACTGCCGTGCCTACACC
CTCAGCACCCGCTGTTGGACCAGCCGCCCGCGGCTCAGCTCCTGGTTCCCAGTACGGCACAATGACCAGGCAGATCTCTC
AACACAACTCTACCACTTCCTCGACATCTTCTGCTGCATACAGACGAACTCCGTCTGTGACTGCTCAATTTTCTGCTCAG
CCTCATGTTAATGGAGGTCCACTTTATTCTCAAAATTCAATTTCTATTGCTCCACCCCCTCCCCGTACGCCTCAGTTGAC
TCCACAGATACCTCTCATAGGCTTCGTGGCCTGGGGGCAGGAAAACATTGCTGATAGTCCAACTCCACCCCCACCCACCT
CCACCAGATGACATTCCCATGTTTGATGACTCTTCACCTCCACAGCACCACCTCCAGTGGATTATGAAGACAAGGAGGCT
GCAGTGGTTCAGTATAATGATCCAAATGCAGATGGGGATCCTGCTTGGGCCCGCAAGAATTATATTGAGAAAGTTGTGGC
AATATATGGTTATACAAAAGACAAAGATGATGAGCTATCATTTATGGAGAGTACAATCATTTGTGTAATAAAGAAGAATG
ATGACGACTGGTATGAAGGAGTCTGCAATCAGAGTGACTGGTCTGTTCCCTGGGAACTATGTCACATCAATCATGTACTA
GACTGAT

ORF - retro_ecab_749 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.67 %
Parental protein coverage: 72.91 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalKHGNNQPARTGTLSRTNPPTQK---PPSPPMSGRGTLGRNTPYKTLEPVKPPTVPNDYMTSPARLGSQHS
KHGNNQPARTGTLSRTNPPTQK...PP.......G......P...L.....PTVP.DYMTSPA.LGSQHS
RetrocopyKHGNNQPARTGTLSRTNPPTQKPPSPPTSGRGRWGGILLTKPWSLLN----PTVPSDYMTSPATLGSQHS
ParentalPGRTASLNQRPRTHSGSSGGSGSRENSGSSSIGIPIAVPTPSPPTIGPAAPGSAPGSQYGTMSRQISRHN
PGRTASLNQRPRTHSGSSGGSGSRENSGSSSIGIP.AVPTPS.P..GPAA.GSAPGSQYGTM.RQIS.HN
RetrocopyPGRTASLNQRPRTHSGSSGGSGSRENSGSSSIGIPTAVPTPSAPAVGPAARGSAPGSQYGTMTRQISQHN
ParentalSTTSSTSSGGYRRTPSVTAQFSAQPHVNGGPLYSQNSISIAPPPPPMPQLTPQIPLTGFVARVQENIADS
STTSSTSS..YRRTPSVTAQFSAQPHVNGGPLYSQNSISIAPPPP..PQLTPQIPL.GFVA..QENIADS
RetrocopySTTSSTSSAAYRRTPSVTAQFSAQPHVNGGPLYSQNSISIAPPPPRTPQLTPQIPLIGFVAWGQENIADS
ParentalPTPPP-PPPPDDIPMFDDSPPP-PPPPPVDYEDEEAAVVQYNDPYADGDPAWAPKNYIEKVVAIYDYTKD
PTPPP.PPPPDDIPMFDDS.PP...PPPVDYED.EAAVVQYNDP.ADGDPAWA.KNYIEKVVAIY.YTKD
RetrocopyPTPPP>PPPPDDIPMFDDSSPP<TAPPPVDYEDKEAAVVQYNDPNADGDPAWARKNYIEKVVAIYGYTKD
ParentalKDDELSFMEGAIIYVIKKNDDGWYEGVCN-RVTGLFPGNYVESIMHYTD
KDDELSFME..II.VIKKNDD.WYEGVCN.RVTGLFPGNYV.SIM..TD
RetrocopyKDDELSFMESTIICVIKKNDDDWYEGVCN>RVTGLFPGNYVTSIMY*TD

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 .12 RPM 42 .91 RPM
SRP021940_cerebellum 0 .00 RPM 38 .07 RPM
SRP021940_embryo 0 .43 RPM 29 .69 RPM
SRP021940_placental_villous 0 .48 RPM 49 .36 RPM
SRP021940_synovial_membrane 0 .52 RPM 36 .73 RPM
SRP021940_testis 0 .77 RPM 26 .28 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_749 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_749 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_749 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 ENSECAG00000015467 1 retrocopy
retro_ecab_749 ,



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