RetrogeneDB ID: retro_etel_73

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_1260:12219..12825(+)
• Located in intron of: ENSETEG00000004401

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000016200
• Aliases: None
• Description: None

Sequence

>retro_etel_73
GTAACCAGCCATGTGGATGATGAGTATCGATGGGCAGGGCTTGAAGACCCCAAGATCATGATCACCACCTCCCGAGATCC
CAGTTCGCACCTCAAGATGTTTGCAAAGGAAGTGACACTGGTGTTCCCAGGTGCACAGCGCATGAACCGAGGCCGGCATG
AGGTGGGCGTGCTAGTGCGAGCTTGCAAAGCCAATGGAGTAACGGACTTGCAGGTAGTTCACGAGCGCCGTGGCATGCCA
GTGGGGCTCATTATCAGCCACCTGCCGTCCGGCCCCCCCTGCATACTTCAACCTTTGCAACGTCTCGTCATGCGGCATGA
CATCCCTGACCTGGGCACAATGTCAGAAGCCAAGCCCCACCTCAGTATGCACGGTTTCTCCTCCCGCCTGGACAAACGGG
TCTCTGACATCCTGAAGTATCTGCTCCCTGTCCCCAAAGATGACAGCCACAGGATCATCATTTTTGCAAACCAGGATGAC
TACATCTCGTTCCAACACCACACCTACAAGAAGGTGGACCACCACAATGTGGAGCTGACTGAAGCCGGACCTGGCGTTGA
GCTAAAGTTGTACATGATTCGCCTGGGCACGTTGGCACAGGAGGCT

Alignment

ORF - retro_etel_73 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.14 %
• Parental protein coverage: 89.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTSHADDEYRWAGVEDPKIMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDL
          VTSH.DDEYRWAG.EDPKIMITTSRDPSS.LKMFAKE..LVFPGAQRMNRGRHEVG.LVRACKANGVTDL
Retrocopy VTSHVDDEYRWAGLEDPKIMITTSRDPSSHLKMFAKEVTLVFPGAQRMNRGRHEVGVLVRACKANGVTDL

Parental  LVVHEHRGMPVGLIISHLPFGPTAYFT-LCNVVMRHDIPDLGTMSEAKPHLIMHGFSSRLGKRVSDILKY
          .VVHE.RGMPVGLIISHLP.GP......L...VMRHDIPDLGTMSEAKPHL.MHGFSSRL.KRVSDILKY
Retrocopy QVVHERRGMPVGLIISHLPSGPPCILQPLQRLVMRHDIPDLGTMSEAKPHLSMHGFSSRLDKRVSDILKY

Parental  LFPVPKDDSHRVITFANQDDYISFRHHTYKKVDHHNVELTEVGPRFELKLYMIRLGTLEQEA
          L.PVPKDDSHR.I.FANQDDYISF.HHTYKKVDHHNVELTE.GP..ELKLYMIRLGTL.QEA
Retrocopy LLPVPKDDSHRIIIFANQDDYISFQHHTYKKVDHHNVELTEAGPGVELKLYMIRLGTLAQEA

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_73 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000016200	2 retrocopies	retro_etel_1844, retro_etel_73 ,
Macropus eugenii	ENSMEUG00000008058	1 retrocopy	retro_meug_1463,
Sarcophilus harrisii	ENSSHAG00000008267	1 retrocopy	retro_shar_48,