RetrogeneDB ID: retro_etel_433

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_712:230184..230901(-)
• Located in intron of: ENSETEG00000014708

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000005109
• Aliases: None
• Description: None

Sequence

>retro_etel_433
GACGCGGAGCGCAGCTGGGTGGCCGTGCAGCAGCTGCAGACGGAGGGCCTGAGCCTGTGCTTCCACCAGCTGGACATCCA
CGACCCGCAGAGCATCCGCGCCCTGCAGGACTTCCTGCGCTGCGAGTATAGCTGGCTGGACGTGCTGGTCAACAACGCGG
GCATCACCTTAAAAAATGCTGATCCCACACCCTTTCATATTCAAGCAGAGGTGACCCTGAAAACCAACTTTTTTAGTACC
CGGCATGTCTACACAGAATTACTGCCTCTCATAAAGCCCCAAGGTAGAGTGGTCAATGTGTCCAGCATGGTTAGTCTCCG
TGCACTGAAGTCCTGCAGCCCGGAGCTGCAGCAGAAGTTCTGCAGTGACACCATCACAGAGGAAAAGCTGGTGGCCCTCA
TGAGCAAGTTCGTAGAAGACACAAAGAAAGGGGTGCACCAGAAGGAGGGCTGGCCCAACACTACCTATGGCCTGTTGAAG
ATCGGCGTCACCGTGCTGTCCGGGATCAACGCCAGGAACCTGAGTGCACAGAGTCCAGGCGACAAGATCCTCCTGAATGC
CTGCTGTCCCGGGTGGGTGAGAACTGACATGGCAGGGCCCAAGGCCACCAAAAGCCCAGAAGAAGGCGCAGAGACCCCCG
TGTAGTTGGCCCTCTTGCCCTCAGATGCTGAGGGGCCTCACGGGGAGTTTGTTTTGGAGAAGAAAGTTGAGCCGTGG

Alignment

ORF - retro_etel_433 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.87 %
• Parental protein coverage: 86.28 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DAERGRAAVQQLQTEGLNPRFHQLDIDDPQSIRALRDFLRREYGGLDVLVNNAGIAFKNADPTPFHIQAE
          DAER...AVQQLQTEGL...FHQLDI.DPQSIRAL.DFLR.EY..LDVLVNNAGI..KNADPTPFHIQAE
Retrocopy DAERSWVAVQQLQTEGLSLCFHQLDIHDPQSIRALQDFLRCEYSWLDVLVNNAGITLKNADPTPFHIQAE

Parental  VTLKTNFFSTRNICTELLPLIKPQGRVVNVSSMVSVRALKSCSPELQQKFRSDTITEEELVALMNKFVED
          VTLKTNFFSTR...TELLPLIKPQGRVVNVSSMVS.RALKSCSPELQQKF.SDTITEE.LVALM.KFVED
Retrocopy VTLKTNFFSTRHVYTELLPLIKPQGRVVNVSSMVSLRALKSCSPELQQKFCSDTITEEKLVALMSKFVED

Parental  TEKGVHQKEGWPNTAYGVSKIGVTVLSRIYARNLSAQRPGDKILLNACCPGWVRTDMAGPKATKSPEEGA
          T.KGVHQKEGWPNT.YG..KIGVTVLS.I.ARNLSAQ.PGDKILLNACCPGWVRTDMAGPKATKSPEEGA
Retrocopy TKKGVHQKEGWPNTTYGLLKIGVTVLSGINARNLSAQSPGDKILLNACCPGWVRTDMAGPKATKSPEEGA

Parental  ETPVYLALLPSDAEGPHGEFVSEKKVEPW
          ETPV.LALLPSDAEGPHGEFV.EKKVEPW
Retrocopy ETPV*LALLPSDAEGPHGEFVLEKKVEPW

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_433 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	ENSETEG00000005109	1 retrocopy	retro_etel_433 ,
Monodelphis domestica	ENSMODG00000021047	1 retrocopy	retro_mdom_278,