RetrogeneDB ID: retro_etel_597

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_101111:617..1767(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000001358
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000015680
• Aliases: None
• Description: None

Sequence

>retro_etel_597
GAGGGCACCTTCCTGTTCACCTCGGAGTCCGTGGGGGAAGGACACCCAGATAAGATTTGTGACCAGATCAGTGATGCTGT
TCTTGATGCCCACCTTCAGCAGGACCCTGATGCCAAAGTGGCTTGTGAAACTGTTATTATTAACACTGGACTTGTTATTC
TTGCTGGGAAAATTACATCCAGAGCTGCCGTTGACTACCAGAAAGTAGTTCATGATACCATCAAGCACATTGGCTATGAT
GATTCTTCCAAAGGATTTGACTACAAGACTTGTGCTGTTCAGGTGGCTTTGGAACAACAGTCACCAGATATTGCTCAAGG
GGATCACCTTGACCTGAATGAGAAGGAGGTTGGTGCAGGAGACTACCAGGGCATGGTGTTTGGTTATGCCACTGATGAAA
CTGAGGAATGTATGCCTTTAACCCTTGCCTTAGCCCACAAGCTCAATGCCAAACTTGCTGACCTACGTCGCAATGGCACC
TTCCCTTGGTCATGCCCAGATTCTAAAACTCAAGTGACTGTGCAGTACATGAGGGATTGAGGTGCTGTGCTGCCCATCAG
AATCCACGCTATTGTTACATCTGTTCAGCGTGATGAAGATGTTTCTCTGGATGAGATGAGGGAGGTCCTGAAGGAGAAAG
TCATTAAAGTCGTTGTTCCTGCAATGTATCTTGATGAGGATATAATCTACCACCTACAGCCTAGTGGCAGATTTGTAATT
GGGGGCTCTCAGGCTAGTACTGGTTTGAGTGGCCAGAAGATAATTTTGGACACTTATGGAGGCTGGGGAGCTCATGGAGG
AGGTGCCTTTTCAGGAAAGGATTGTACCAAGGTGGACCGCTCAGCTGCTTATGCTGCCCGTTGGGTGGCAAAATCCCTCA
CTGAAAGAGATCTGTGCAGAAGGGTGCTTGTGCAGGTCAATGACGCTGTTGGAGTTTCTCACCCATTATCAATTTCCCTT
TTTCCATTACGGCACCTCTGAGAAGAGAGAGCAAGACCTAGTAGATAGTGTGAAGAAGAATTTTGACCTCCGCCCTGAAG
CCATTGTCAGGGATCTGGATCTGAAGAAGCCAATTTATCAGAGGACTGCAGCCTATGGCCACTTTGGGAGGGAAGACTTC
CACTGAGAAGTGCCCCAAAAGTTTAAATAT

Alignment

ORF - retro_etel_597 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.46 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EDTFLFTLEAVGEGHPDKICDQISDAVLDAHLQQDPDAKVACETVIINTGLVILAGKITSRAAVDYQKVV
          E.TFLFT.E.VGEGHPDKICDQISDAVLDAHLQQDPDAKVACETVIINTGLVILAGKITSRAAVDYQKVV
Retrocopy EGTFLFTSESVGEGHPDKICDQISDAVLDAHLQQDPDAKVACETVIINTGLVILAGKITSRAAVDYQKVV

Parental  RDTIKHIGYDDSSKGFDYKTCALQVALEQQSPDIAQGGHLDLDQKEVGAGDYQGMVFGYAIDESEECMPL
          .DTIKHIGYDDSSKGFDYKTCA.QVALEQQSPDIAQG.HLDL..KEVGAGDYQGMVFGYA.DE.EECMPL
Retrocopy HDTIKHIGYDDSSKGFDYKTCAVQVALEQQSPDIAQGDHLDLNEKEVGAGDYQGMVFGYATDETEECMPL

Parental  TLALAHQLNAKLAELRRNGTLPWLRPDSKTQVTMQYKKDQGAVLPIRVHEIVISVQHDEDVSLHEMREAL
          TLALAH.LNAKLA.LRRNGT.PW..PDSKTQVT.QY..D.GAVLPIR.H.IV.SVQ.DEDVSL.EMRE.L
Retrocopy TLALAHKLNAKLADLRRNGTFPWSCPDSKTQVTVQYMRD*GAVLPIRIHAIVTSVQRDEDVSLDEMREVL

Parental  KEKVIEVVVPTVFLDENIIYHLQPSGRFVTGGPQASTGMSGRKIIEDTYGGWGAHGGGAFSGKDCTKVDR
          KEKVI.VVVP...LDE.IIYHLQPSGRFV.GG.QASTG.SG.KII.DTYGGWGAHGGGAFSGKDCTKVDR
Retrocopy KEKVIKVVVPAMYLDEDIIYHLQPSGRFVIGGSQASTGLSGQKIILDTYGGWGAHGGGAFSGKDCTKVDR

Parental  SAAYAARWVAKSLIDRDLCRRVLVQVNYAIGVAHPLSISI-SHYGTSEKSEQELVDIVKKNFDLRPEVIV
          SAAYAARWVAKSL..RDLCRRVLVQVN.A.GV.HPLSIS...HYGTSEK.EQ.LVD.VKKNFDLRPE.IV
Retrocopy SAAYAARWVAKSLTERDLCRRVLVQVNDAVGVSHPLSISL>FHYGTSEKREQDLVDSVKKNFDLRPEAIV

Parental  RDLDLKKPIYQRTAVYGHFGREGFPWEVPKKFKY
          RDLDLKKPIYQRTA.YGHFGRE.F..EVP.KFKY
Retrocopy RDLDLKKPIYQRTAAYGHFGREDFH*EVPQKFKY

Legend:

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

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_597 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013959	1 retrocopy	retro_chof_30,
Echinops telfairi	ENSETEG00000007634	2 retrocopies	retro_etel_1308, retro_etel_1532,
Echinops telfairi	ENSETEG00000015680	4 retrocopies	retro_etel_1669, retro_etel_1813, retro_etel_597 , retro_etel_977,
Ornithorhynchus anatinus	ENSOANG00000003060	1 retrocopy	retro_oana_84,
Otolemur garnettii	ENSOGAG00000026925	1 retrocopy	retro_ogar_1580,
Rattus norvegicus	ENSRNOG00000013520	2 retrocopies	retro_rnor_2032, retro_rnor_955,