RetrogeneDB ID: retro_etel_886

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_179999:2603..3638(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000003779
• Aliases: None
• Description: None

Sequence

>retro_etel_886
TCGGTGCAGAGTGCTCAGCGGGCCAAGGCCTCTCTCAATGAGGCTGACATCTACTCTGGCTGCTGCACTCTGAAGATCGA
ATATGCCAAGCCTACACGCTTGAATGTGTTCAAGAATGACCAGGATACTTGGGATTACACAAACCCCAACCTCAGTGGAC
AAGATGACCCTGGCAGCAACCCTAACAAACGCCAGAGACAGCCCCCCCTTCTGGGAGATCACCCCGCAGAATATGGAGGG
CCCCACGGTGGGTATCACAGCCATTATCATGATGAGGGCTACGGGCCTCCCCCGCCTCACTACGAAGGGAGACTCATGGG
CCCACCAGTGGGGGGTCACCGTCGGGACCCTAGCCGTTATGGCCCCCAGTATGGGCATCCCCCACCCCCTCAATATGGCC
CCCACGCCGACAGCCCTGTGCTCATGGTCTATGGCTTGGACCAGTCTAAGATGAACTGTGATCGAGTCTTCAACGTCTTC
TGCTTGTACGGCAATGTGGAGGTGAAATTCATGAAAAGCAAGCCAGGGGCTGCCATGGTAGAAATGGCTGATGGCTATGC
TGTAGACCGGGCCATCACCCACCTCAACAACAACTTCATGTTCGGGCAGAAACTGAATGTCTGCGTCTCCAAGCAACCAG
CCATCATGCCTGGGCAGTCGTACGGGCTAGAAGACGGCTCCTGCAGTTACAAAGACTTCAATGGCTCCAGGAACAATCGC
TTCTCCACCCCAGAGCAGGCAGCCAAGAATCGCATCCAGCACCCCAGCAACGTGCTGCATTTCTTCAACGCCCCCCTGGA
GGTGACCGAGGAGAACTTCTTTGAGATCTGTGACGAGCTGGGAGTGAAGAGGTCCTCCTCTGTGAAGGTGTTTTCAGGCA
AAAGTGAAAGCAGCTCCTCTGGGCTGCTGGAGTGGGAGTCCAAGAGCGATGCCCTGGAGACACTGGGCTTCCTGAACCAT
TACCAGATGAAAAACCCAAATGGGCCATACCCGTACACCCTGAAGTTGTGTTTCTCCACTGCTCAGCACGCCTCC

Alignment

ORF - retro_etel_886 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96. %
• Parental protein coverage: 60.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AMQSAQRAKASLNGADIYSGCCTLKIEYAKPTRLNVFKNDQDTWDYTNPNLSGQGDPGSNPNKRQRQPPL
          ..QSAQRAKASLN.ADIYSGCCTLKIEYAKPTRLNVFKNDQDTWDYTNPNLSGQ.DPGSNPNKRQRQPPL
Retrocopy SVQSAQRAKASLNEADIYSGCCTLKIEYAKPTRLNVFKNDQDTWDYTNPNLSGQDDPGSNPNKRQRQPPL

Parental  LGDHPAEYGGPHGGYHSHYHDEGYGPPPPHYEGRRMGPPVGGHRRGPSRYGPQYGHPPPPPPPPEYGPHA
          LGDHPAEYGGPHGGYHSHYHDEGYGPPPPHYEGR.MGPPVGGHRR.PSRYGPQYGH....PPPP.YGPHA
Retrocopy LGDHPAEYGGPHGGYHSHYHDEGYGPPPPHYEGRLMGPPVGGHRRDPSRYGPQYGH----PPPPQYGPHA

Parental  DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKL
          DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVE.VKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKL
Retrocopy DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVE-VKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKL

Parental  NVCVSKQPAIMPGQSYGLEDGSCSYKDFNGSRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFE
          NVCVSKQPAIMPGQSYGLEDGSCSYKDFNGSRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFE
Retrocopy NVCVSKQPAIMPGQSYGLEDGSCSYKDFNGSRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFE

Parental  ICDELGVKRPSSVKVFSGKSERSSSGLLEWESKSDALETLGFLNHYQMKNPNGPYPYTLKLCFSTAQHAS
          ICDELGVKR.SSVKVFSGKSE.SSSGLLEWESKSDALETLGFLNHYQMKNPNGPYPYTLKLCFSTAQHAS
Retrocopy ICDELGVKRSSSVKVFSGKSESSSSGLLEWESKSDALETLGFLNHYQMKNPNGPYPYTLKLCFSTAQHAS

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_886 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000003779	1 retrocopy	retro_etel_886 ,
Echinops telfairi	ENSETEG00000006890	1 retrocopy	retro_etel_1573,
Nomascus leucogenys	ENSNLEG00000014696	1 retrocopy	retro_nleu_2327,
Pongo abelii	ENSPPYG00000009945	2 retrocopies	retro_pabe_1282, retro_pabe_3576,
Pan troglodytes	ENSPTRG00000010941	1 retrocopy	retro_ptro_1043,
Tupaia belangeri	ENSTBEG00000016563	1 retrocopy	retro_tbel_1340,