RetrogeneDB ID: retro_etel_1397

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_259293:2037..2463(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000013097
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: C12orf10
• Ensembl ID: ENSETEG00000002112
• Aliases: None
• Description: chromosome 12 open reading frame 10 [Source:HGNC Symbol;Acc:17590]

Sequence

>retro_etel_1397
TCTTTCACTGAGACCACGAGCTCCCTGTCCCCTGGGAAGCCTTGGCAGACCAAGCTGAGCAGTGCGGCACTCATCTTCGG
GCACAAGCTGCTGGCCCAGTTGCGGGACACTAGTGAAGAGGACAGCATGGTGGGCACCCTCTATGACAAGATGTATGAGA
ACTTCGTGGAGGAGGTGGACGCCATGGACAATGGAATTGCCCAATGGGAGGAAGGGGAGCTTTGATATGCACTGACCACT
AGCCTGCGTGCCCGAGTGGTTCCACTGAATTTCACCTAGAACCAGCCCAACCAAGACACGGAGGCAGGGTTTCAGCGTGC
AATGGATCTGGTTTGAGAGGAGTTTCTGCAGAGACTAGAGTTCTACCAGAACAGCTGGCTACCAGCCCGGGCCCTGGTGG
AAGAGGCCCTGGCCCAGCGGTTCCAG

Alignment

ORF - retro_etel_1397 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.52 %
• Parental protein coverage: 54.31 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SFTETMSSLAPGKPWQTKLSSAGLVYLHFGHKLLAQLLGTSEEDSMVGTIYDKMYENFVEEVDAVDNGIA
          SFTET.SSL.PGKPWQTKLSSA.L....FGHKLLAQL..TSEEDSMVGT.YDKMYENFVEEVDA.DNGIA
Retrocopy SFTETTSSLSPGKPWQTKLSSAALI---FGHKLLAQLRDTSEEDSMVGTLYDKMYENFVEEVDAMDNGIA

Parental  QWEEGEPRYALTTTLSARVARLNPTWNQPNQDTEAGFQRAMDLVREEFLQRLDFYQNSWLPARALVEEAL
          QWEEGE..YALTT.L.ARV..LN.T.NQPNQDTEAGFQRAMDLV.EEFLQRL.FYQNSWLPARALVEEAL
Retrocopy QWEEGEL*YALTTSLRARVVPLNFT*NQPNQDTEAGFQRAMDLV*EEFLQRLEFYQNSWLPARALVEEAL

Parental  AQRFQ
          AQRFQ
Retrocopy AQRFQ

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_1397 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002112	1 retrocopy	retro_etel_1397 ,