RetrogeneDB ID:

retro_etel_1694

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_288023:40880..41617(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HADH
Ensembl ID:ENSETEG00000013807
Aliases:None
Description:hydroxyacyl-CoA dehydrogenase [Source:HGNC Symbol;Acc:4799]


Retrocopy-Parental alignment summary:






>retro_etel_1694
CGGACTTGCCGCCACTGCTGCTCCGTGGCTTTCGTGACCAGGCAGTTCATGCGCTCTGTGTCCTCCCGGTCCGCCGCCTT
GGCCACGGCGAAGAAAATCGTCCTCAAACACGTGACAGTCATCGCGGTGGACTGATGGGGGCCGGCATCACCCAGGTTGC
TGCAGCAACTGGCCACACAGTAGTGCTGGTAGACAGGCAGGCAGAGGGCATCCCGGCAAAATCTAAAAAGGGGATTGAGG
AAAGCCTTAAGAAAGTGGCCAAGAAGAAGTTTGCAGACAACCCAAAGGCCACCGAGGAGTTGGTTGGGAAGACCCTGAAC
AGCATCTCGACCAGCATGGACGCTGCGTCTGTGGTCCACAGCGCAGACCTGGTGGTGGAGGCCATCGTGGAGAACCTGAC
GGGGAAGAATGAGCTCTTCGGCAGGCTGGACAAGTTCGCTGCTGAACATACAATTTTTGCCAGCAACACTTCCTCTTTGC
AAATCACAAGCATAGCCAGTGCCACCACCAGACAAGACCGATTTGCCGGGCTCCACTTCTTCAACCCAGTGCCCCTCATG
AAGCTTGTGGAGGTCATTAAAACCCCCATGACCAGCCAGAAGACATTTGAATCTCTGATAGACTTTAGCAAAACCCTAGG
AAAGCATCCTATTTCTTGCAAGGACACTCCGGGGTTTATTGTCAACCGTCTGCTGGTGCGGTACCTCATGGAAGCAATCA
GCCTGTATGAACGAGGG

ORF - retro_etel_1694 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.66 %
Parental protein coverage: 66.22 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalRRRRRLCTMAFVTRQFVRSVSSSSTASATAKKIVLKHVTVIG-GGLMGAGIAQVAAATGHTVVLVD-QAE
R..R..C..AFVTRQF.RSVSS.S.A.ATAKKIVLKHVTVI..GGLMGAGI.QVAAATGHTVVLVD.QAE
RetrocopyRTCRHCCSVAFVTRQFMRSVSSRSAALATAKKIVLKHVTVIA<GGLMGAGITQVAAATGHTVVLVDRQAE
ParentalDILAKSKKGIEESLKKMAKKKFADNPQAAEEFVGKTLNSISTSMDAASVVHSTDLVVEAIVENLKVKNEL
.I.AKSKKGIEESLKK.AKKKFADNP.A.EE.VGKTLNSISTSMDAASVVHS.DLVVEAIVENL..KNEL
RetrocopyGIPAKSKKGIEESLKKVAKKKFADNPKATEELVGKTLNSISTSMDAASVVHSADLVVEAIVENLTGKNEL
ParentalFARLDKFAAEHTIFASNTSSLQITSIANATTRQDRFAGLHFFNPVPLMKLVEVIKTPMTSQKTFESLIDF
F.RLDKFAAEHTIFASNTSSLQITSIA.ATTRQDRFAGLHFFNPVPLMKLVEVIKTPMTSQKTFESLIDF
RetrocopyFGRLDKFAAEHTIFASNTSSLQITSIASATTRQDRFAGLHFFNPVPLMKLVEVIKTPMTSQKTFESLIDF
ParentalSKTLGKHPVSCKDTPGFIVNRLLVPYLMEAIKLYERG
SKTLGKHP.SCKDTPGFIVNRLLV.YLMEAI.LYERG
RetrocopySKTLGKHPISCKDTPGFIVNRLLVRYLMEAISLYERG

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_1694 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000020492 retrocopies
Callithrix jacchus ENSCJAG000000159381 retrocopy
Echinops telfairi ENSETEG00000013807 1 retrocopy
retro_etel_1694 ,
Felis catus ENSFCAG000000222601 retrocopy
Homo sapiens ENSG000001387961 retrocopy
Gorilla gorilla ENSGGOG000000044231 retrocopy
Macaca mulatta ENSMMUG000000232541 retrocopy
Nomascus leucogenys ENSNLEG000000129511 retrocopy
Pongo abelii ENSPPYG000000149861 retrocopy
Pan troglodytes ENSPTRG000000163511 retrocopy



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