RetrogeneDB ID: retro_etel_1065

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_205894:2914..3774(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000008880
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MINA
• Ensembl ID: ENSETEG00000010104
• Aliases: None
• Description: MYC induced nuclear antigen [Source:HGNC Symbol;Acc:19441]

Sequence

>retro_etel_1065
CCCCCCCATTATGATGATGTCGAGGTGTTCATCCTGCAGCTGGAGGGCGAGAAGCACTGGCGCCTCTACCGCCCCACGGT
GCCCCTGGCCCAAGGGTGCAGCGTGGAGGCCGAGGACAGGATTGGGAAGCCAACGCACGAGTTCACGTTGAAGCCCGGTG
ACTTGCTCTACTTTCCCAGAGGGACCATCTATCAAGCAGAGACCCCTCCAGGACTGGCCCACTCTACTCACGTGACCTTC
AGCACCTTCCAGAACAGTTCCTGGGGAGACTGTCTTTTGGATACCATTCCTGGGCTTGTGTTTGATATTGCAACGGAAGA
CGTGGCATTACGGGCTGGCTTACCCCGGCAGCTGCTCCTGCAGGTGGAAAGCACAGCGATCCGAAGGAGATTAAGTGGCT
TCCTGCGGATGCTTGCAGACCGGCTGGAGAGCACCCAAAACTGCTGCCCTCCGACATGAAGAAGGATTTCGTTCTGAACA
GACTCCCGCCTTACCACGTGGGGGACGGCACGGAGCTCTCAACACCAGGTGGAACGTGGCCACAGCTGGGCAGCAGAGTG
AGCCTGCGGTTGAAAGAACACATAGTCCTCACCGTAGGGCCCGATCTGGAGCGATGTGATGAAACTCCAGAAAAGATGGT
TTACGTCTATCATTCCTTAGGAAACAGAAGAGAGACACACATGATGGGCAATGAAGAAACCAAGTCTCACGGACTTCGGT
TTCCTCTGTCACATCTGCATGCCCTGAAGCAAATGTGGAGCCATGCGGCTCTTCCTGTCCAGGACCTGGAACTTCCTACA
AATGAGGAAAAGGAGAGCCTGGTGCTATCCCTGTGGACAGAATATTTGATCCAAGTAGTC

Alignment

ORF - retro_etel_1065 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.79 %
• Parental protein coverage: 90.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PPHYDDVEVFILQLEGEKHWRLYRPTVPLARGYSVEAEDRIGKPTHEFTLKPGDLLYFPRGTIHQAETPP
          PPHYDDVEVFILQLEGEKHWRLYRPTVPLA.G.SVEAEDRIGKPTHEFTLKPGDLLYFPRGTI.QAETPP
Retrocopy PPHYDDVEVFILQLEGEKHWRLYRPTVPLAQGCSVEAEDRIGKPTHEFTLKPGDLLYFPRGTIYQAETPP

Parental  GLAHSTHVTISTFQNSCWGDCLLDTIPGLVFDIAKEDVALRAGLPRQLLLQVESTAIRRRLSGFLRMLAD
          GLAHSTHVT.STFQNS.WGDCLLDTIPGLVFDIA.EDVALRAGLPRQLLLQVESTAIRRRLSGFLRMLAD
Retrocopy GLAHSTHVTFSTFQNSSWGDCLLDTIPGLVFDIATEDVALRAGLPRQLLLQVESTAIRRRLSGFLRMLAD

Parental  RLESTQ-ELLPSDMKKDFVMNRLPPYHVGDGTELSTPGGTWPQLGSRVSLRFKEHIVLTVGPDLERSDET
          RLESTQ..LLPSDMKKDFV.NRLPPYHVGDGTELSTPGGTWPQLGSRVSLR.KEHIVLTVGPDLER.DET
Retrocopy RLESTQ<KLLPSDMKKDFVLNRLPPYHVGDGTELSTPGGTWPQLGSRVSLRLKEHIVLTVGPDLERCDET

Parental  PEKMVYVYHSLRNRRETHMMGNEETESHGLRFPLSHLRALKQMWSHAALPVQDLELPTNEEKESLVLSLW
          PEKMVYVYHSL.NRRETHMMGNEET.SHGLRFPLSHL.ALKQMWSHAALPVQDLELPTNEEKESLVLSLW
Retrocopy PEKMVYVYHSLGNRRETHMMGNEETKSHGLRFPLSHLHALKQMWSHAALPVQDLELPTNEEKESLVLSLW

Parental  TECLIQVV
          TE.LIQVV
Retrocopy TEYLIQVV

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_1065 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015546	1 retrocopy	retro_btau_678,
Echinops telfairi	ENSETEG00000010104	1 retrocopy	retro_etel_1065 ,
Mus musculus	ENSMUSG00000022724	1 retrocopy	retro_mmus_2829,
Ochotona princeps	ENSOPRG00000015755	1 retrocopy	retro_opri_5,