RetrogeneDB ID: retro_etel_1096

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_210956:722..2005(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000013057
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: OTUD5
• Ensembl ID: ENSETEG00000007970
• Aliases: None
• Description: OTU domain containing 5 [Source:HGNC Symbol;Acc:25402]

Sequence

>retro_etel_1096
GGCCCTGGAGGTCCCGGAGGTGGTCCGGGGGACGCGCTGGGAGCCCCGGCGGCGGGCGTGGGGGGGACCGTAGGTGTGGG
CAGCTGCTGCTCTGGGCCAGGGCACAGCAAGCGGCGCCGCCAAGCGCCCGGGGTTGGCGCGGTTGGCGGCGGCAGTCCCG
AGCGGGAAGAGGTCGGTGCGGGCTGCAACAGCGAGGATGAGTACGAAACGGCTGCAGCGCGCATCGAGGCCATGGACCCT
GCCACTGTCGAGCAGCGGGAGCGCTGGTTTGAAAAGGCCCTGCGAGACAAGAAGGGTTTCGTCATCAAGCAGATGAAGGA
GGACGGCGCCTGTCTCTTCCGGGCTGTAGCCGACCAAGTATATGGTGACCAGGACATGCACGAGGTTGTGCGAAAGCACT
GCATGGACTATCTGATGAAGAATGCAGACTACTTCTCCAACTACGTCACAGAGGACTTCACCACCTATATAAACCGGAAG
CGAAAAAATAACTGCCATGGCAACCACATCGAGATGCAGGCCATGGCAGAGATGTACAATCGCCCCGTCGAGGTGTATCA
ATACGGCACAGAACCCATCAACACATTCCATGGGATCCACCAAAACGAGGATGAACCCATCCGTGTCAGCTACCATCGGA
ATAGCCACTACAACTCGGTGGTGAATCCCAATAAGGCCACCATTGGCGTGGGGTTGGGCCTACCATCCTTCAAACCGGGG
TTTGCAGAGCAATCCCTCATGAAAAGTGCCATAAAAACATCAGAGGAATCATGGATTGAGCAGCAGATGTTGGAAGACAA
GAAACGGGTCACAGACTGGGAGGCCACCAATGAGGCCATTGAGGAGCAGGTGGCTCGGGAATCCTACTTGCAGTGGCTCC
GGGATCAGGAGAAACAGGCCCGCCAGGTGCGTGGCCCCACCCAGCCCCGGAAAGCCAGCGCCACGTGCAGTTCGGCCACA
GCCGCAGCCTCCAATGGCCTGGAGGAGTGGACCAACCGGTCCCCGCGGCAGCGGAGTTCAGCTTCATCTCCTGAGAACCC
TGAGCTGCATGCTGAGCTGGGCATTAAGCCCCCTTCTCCAGGCACTGTCCTAGCGCTTGCCAAACCTCCTTCACCCTGTG
CACCCGGTACAAGCAGCCAGTTGTCAGCAGGGGGCGATCCGGCCAACTCTCCTCTCGTGTCCCTCTACCCTGCTCTGGAG
TGCCGGGCTCTCATTCAGCAGATGTCCCCTTCTGCCTTTGGTCTGAATGACTGGATGATGATGAGATCCTAGCATCGGTG
CTG

Alignment

ORF - retro_etel_1096 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.75 %
• Parental protein coverage: 77.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GQGDALGASAAGVGATGVVVGVGGTVGVGSCCSGPGHSKRRRQAPGVGAVGGGSPEREEVGAGYNSEDEY
          G.G...G......GA.....GVGGTVGVGSCCSGPGHSKRRRQAPGVGAVGGGSPEREEVGAG.NSEDEY
Retrocopy GPGGPGGGPGDALGAPAA--GVGGTVGVGSCCSGPGHSKRRRQAPGVGAVGGGSPEREEVGAGCNSEDEY

Parental  ETAAARIEAMDPATVEQQEHWFEKALRDKKGFIIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYL
          ETAAARIEAMDPATVEQ.E.WFEKALRDKKGF.IKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYL
Retrocopy ETAAARIEAMDPATVEQRERWFEKALRDKKGFVIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYL

Parental  MKNADYFSNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTPINTFHGIHQNEDEPI
          MKNADYFSNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQY.T..PINTFHGIHQNEDEPI
Retrocopy MKNADYFSNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYGT-EPINTFHGIHQNEDEPI

Parental  RVSYHRNIHYNSVVNPNKATIGVGLGLPSFKPGFAEQSLMKNAIKTSEESWIEQQMLEDKKRVTDWEATN
          RVSYHRN.HYNSVVNPNKATIGVGLGLPSFKPGFAEQSLMK.AIKTSEESWIEQQMLEDKKRVTDWEATN
Retrocopy RVSYHRNSHYNSVVNPNKATIGVGLGLPSFKPGFAEQSLMKSAIKTSEESWIEQQMLEDKKRVTDWEATN

Parental  EAIEEQVARESYLQWLRDQEKQARQVRGPTQPRKASATCSSATAAASSGLEEWTNRSPRQRSSASSPENP
          EAIEEQVARESYLQWLRDQEKQARQVRGPTQPRKASATCSSATAAAS.GLEEWTNRSPRQRSSASSPENP
Retrocopy EAIEEQVARESYLQWLRDQEKQARQVRGPTQPRKASATCSSATAAASNGLEEWTNRSPRQRSSASSPENP

Parental  ELHAELGIKPPSPGTVLALAKPPSPCAPGTSSQLSAGADPANSPLVSLYPALECRALIQQMSPSAFGLND
          ELHAELGIKPPSPGTVLALAKPPSPCAPGTSSQLSAG.DPANSPLVSLYPALECRALIQQMSPSAFGLND
Retrocopy ELHAELGIKPPSPGTVLALAKPPSPCAPGTSSQLSAGGDPANSPLVSLYPALECRALIQQMSPSAFGLND

Parental  W-DDDEILASVL
          W.DDDEILASVL
Retrocopy W<DDDEILASVL

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_1096 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000007970	1 retrocopy	retro_etel_1096 ,
Otolemur garnettii	ENSOGAG00000009614	1 retrocopy	retro_ogar_51,