RetrogeneDB ID:

retro_ecab_770

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:31:19580849..19582035(-)
Located in intron of:ENSECAG00000019757
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PNPLA8
Ensembl ID:ENSECAG00000012878
Aliases:None
Description:patatin-like phospholipase domain containing 8 [Source:HGNC Symbol;Acc:28900]


Retrocopy-Parental alignment summary:






>retro_ecab_770
TCACTGAAACCACAGAAAGAGACATCGAGGATAAGCGGGGACTACTGTCTTGATGACCAAACTTGGGCGTTAGGTCAAGC
ACTGAGGACACCTGATTCAAAGCTCTGCATTAACAGGGTTGAAGAACTTGACTTTTCATCTTCCAGAACTTCCTGAAGGA
AAAGGAGTGGCTTCCAAGGAAAGAATTACTCCATATTTATTATGACTGAGACAAATTAAGGATGGCACTCTTCAGGCTGC
AGTGACAGAAATTTTGGCCTTAATTGGCTATGCAAATCCAGCGAAAGGAAGAGGTATCTGAATTCTCACAATTGATGACG
GAGGAGCGAGGGATGCAGTTGCTCTTCAGATATGGTGAAAGTCAGTTCAACGCACTCGAAAGCCAGCTGTCAGCTCTTTG
ATTGCATTTCTGGTGTAAGCACAGGTGCCATATTAGCTTTCATGTTGGGATTGTTTCATATGCCCCTGGACAAACATGAG
GCAGTTATTATAAATTAGGATCACATGTGTTTTCACAAAATATTGCTGTTGGAATGGTCAAAATGAGCTGGAGCCATGCA
TTTTATGACCGTCAAATGTGGGGAATTTTCTTAAGGATAGAATGGGATATGCACTCATGATTGAAACAGCAAGAAGTCCA
TATGTCCAAAGGTAGCAGCATCAAGTCCCATGGTATAAAGTGGGGTAATGCCAAAAGTTTGCAGGTTCAGAAACTATGCT
CACCCTCCTGAAGTCAACTCTCACTGTTTGGGAGGCTGTCAGTATAAACTGTGGCAGGCCACTAGAGCTCCACCTGCTGC
TTCAGGCTACTGTGCAGAGTGTGCTTTTGGGAAACGATCCCCATCAAGATGGAGGTTTTCTTCTGAATAACCTTTCAGCA
TTAGCAATGCATGAGTGTAAGTGTTGGCCAGACGTCCCATTAGAGTGCATAGCATCCCTGGGCATTGGATGTTATGAGTA
TATGAGAAGCACCATGATATACATGAGCTTGAAAACCACACAGCCTAATGTCATCAACAGTGCTACAGATATAGAAGTCC
ATGTAATACTCGATAACCTATTACCTCCTGACACTTATTTCAGATTCAGTCCTGTATTGTGTGAAAACATATCTCTAGAT
GAAAGTCTAAATGAAAAACTTTATCAGATGCAGTTGGAACGGTTGAAGTACATAGAAAGCAATGAA

ORF - retro_ecab_770 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.97 %
Parental protein coverage: 51.09 %
Number of stop codons detected: 4
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalSLQREKASYSIIARVSIDNRTRALVQALRRTTDPKLCINRVEEL-TFHLLEFPEGKGVAVKEKIIPCLLR
SL...K....I......D..T.AL.QALR.T.D.KLCINRVEEL.TFHL.E.PEGKGVA.KE.I.P.LL.
RetrocopySLKPQKETSRISGDYCLDDQTWALGQALR-TPDSKLCINRVEEL>TFHLPELPEGKGVASKERITPYLL*
ParentalLRQIKDETLQAAVREILALIGYVDPVKGRGIRILAIDGGGTRGVVALQTLRKLVELTQKPV-HQLFDYIC
LRQIKD.TLQAAV.EILALIGY..P.KGRGI.IL.ID.GG.R..VALQ...K.V..T.KP...QLFD.I.
RetrocopyLRQIKDGTLQAAVTEILALIGYANPAKGRGI*ILTIDDGGARDAVALQIW*KSVQRTRKPA<CQLFDCIS
ParentalGVSTGAILAFMLGLFHMPLDECEEL-YRKLGSDVFSQNVIVGTVKMSWSHAFYDSQTW-ENILKDRMGSS
GVSTGAILAFMLGLFHMPLD..E...Y.KLGS.VFSQN..VG.VKMSWSHAFYD.Q.W..N.LKDRMG..
RetrocopyGVSTGAILAFMLGLFHMPLDKHEAV<YYKLGSHVFSQNIAVGMVKMSWSHAFYDRQMW<GNFLKDRMGYA
ParentalLMIETARNP-TCPKVAAVSTIVNRGITPKAFVFRNYGHFPGINSHYLGGCQYKMWQAIRASSAAPGYFEE
LMIETAR.P..CPKVAA.S..V..G..PK...FRNY.H.P..NSH.LGGCQYK.WQA.RA..AA.GY..E
RetrocopyLMIETARSP<ICPKVAASSPMV*SGVMPKVCRFRNYAHPPEVNSHCLGGCQYKLWQATRAPPAASGYCAE
ParentalYA-LGNDLHQDGGLLLNNPSALAMHECKCLWPDVPLECIVSLGTGRYESDVRNAVTYTSLKTKLSNVINS
.A.LGND.HQDGG.LLNN.SALAMHECKC.WPDVPLECI.SLG.G.YE...R....Y.SLKT...NVINS
RetrocopyCA>LGNDPHQDGGFLLNNLSALAMHECKC-WPDVPLECIASLGIGCYEY-MRSTMIYMSLKTTQPNVINS
ParentalATDTEEVHIMLDGLLPPDTYFRFNPVMCENIPLDESRNEKLDQLQLEGLKYIERNE
ATD..EVH..LD.LLPPDTYFRF.PV.CENI.LDES.NEKL.Q.QLE.LKYIE.NE
RetrocopyATDI-EVHVILDNLLPPDTYFRFSPVLCENISLDESLNEKLYQMQLERLKYIESNE

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 8 .44 RPM
SRP021940_cerebellum 0 .00 RPM 8 .57 RPM
SRP021940_embryo 0 .00 RPM 19 .49 RPM
SRP021940_placental_villous 0 .00 RPM 18 .23 RPM
SRP021940_synovial_membrane 0 .00 RPM 9 .64 RPM
SRP021940_testis 0 .00 RPM 17 .39 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_770 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_770 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_770 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 ENSECAG00000012878 1 retrocopy
retro_ecab_770 ,



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