RetrogeneDB ID: retro_etel_1905

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_312763:91041..91896(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TIMMDC1
• Ensembl ID: ENSETEG00000002519
• Aliases: None
• Description: translocase of inner mitochondrial membrane domain containing 1 [Source:HGNC Symbol;Acc:1321]

Sequence

>retro_etel_1905
ATGGAGGATCCCCGGAAGGTGCCTCCGAGCTGCCTCCGCAGGGCACTAGGTCCTTTCCCCAGAGTCTTTGCTGCTGAAGC
AGTGGCCGCCGAGTTCCAGACCTCTGCTGAGCGACCGAAGCTGCCTCCCTCCATCCCAGAATCCCATTACCCGGAATCCG
GATGGGATCTCCTCCGAGAGCTGTTTATTAAAGATGACCAGCAGAGAACATCTGAAGAACTTCAGAATATTTGTAAGGCA
GCAGTTTCAGCAGGCATCATTGGCTTTGTCTATGGAGGAGTACCTGCCTTTGTACATGCCAAACAATGCTACGTTGAGCA
GAGCCAAGCAGACATCTATCATAACCGATTTGATGCTGTGCAAGCTGCCCACTGTGCTGCCACTCGGGCCTTCATTCGGT
ATGGCTGGCGCTGGCGCTGGAGAACTGCGGCGTTTATGACCACATTCAACTCAGTGACCACTGGTCTGAATGTGTACCGA
AATAAAAATGCCCTCAGTCATTTTGTCATTGCTGGAGCTGTCACAGGAAGTCTTTTCAGAATAAACTTAGGCCTGCGTGG
TCTGATGGCTGGTGGTATAATTGGAGCCTTGCTGGGTACCCCTATTAGGAGCCTGTTGATGCTGCTGCAGAGGTACTGTG
GAGAGACTGTTCAACAGAGGAAAGAGAAGGATCATAAGGTACTCCATGAGCGGCAACTGGAAGAATGGAAGGCCAAGCTT
CAAATTACTGAGTTCCTCCCAGAAGAGATTGCAAGTGGTTTACAACAAAATCAATCTGAAGATGATGCTAGGAAAATTGA
AGCCCCGCTAAGCCTTCTTAGAAACCCTTCGACAACAGATAAACAAGACAAGGAC

Alignment

ORF - retro_etel_1905 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.77 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEEPRKAPPSCLRRALGPFPRVFAAEAVAAESQTPAERPKPPPYVPESHYPESGWDRLRELFIKDDQQRR
          ME.PRK.PPSCLRRALGPFPRVFAAEAVAAE.QT.AERPK.PP..PESHYPESGWD.LRELFIKDDQQR.
Retrocopy MEDPRKVPPSCLRRALGPFPRVFAAEAVAAEFQTSAERPKLPPSIPESHYPESGWDLLRELFIKDDQQRT

Parental  SEELQNICKAAVSAGIIGFVYGGVPAFVHAKQRYVEQSQAEIYHNRFDAVQAAHRAATRGFIRYGWRWSW
          SEELQNICKAAVSAGIIGFVYGGVPAFVHAKQ.YVEQSQA.IYHNRFDAVQAAH.AATR.FIRYGWRW.W
Retrocopy SEELQNICKAAVSAGIIGFVYGGVPAFVHAKQCYVEQSQADIYHNRFDAVQAAHCAATRAFIRYGWRWRW

Parental  RTAVFVTTFNSVTTGLNVYRNKNALSHFVIAGAVTGSLFRINLGLRGLVAGGVIGALLGTPIGSLLMLLQ
          RTA.F.TTFNSVTTGLNVYRNKNALSHFVIAGAVTGSLFRINLGLRGL.AGG.IGALLGTPI.SLLMLLQ
Retrocopy RTAAFMTTFNSVTTGLNVYRNKNALSHFVIAGAVTGSLFRINLGLRGLMAGGIIGALLGTPIRSLLMLLQ

Parental  RYCGETVQERKERDRKSLHERQLEEWKARLQVTEFLPEEIESSVQQNQSEDDARKIEALLNLPRNPSTMD
          RYCGETVQ.RKE.D.K.LHERQLEEWKA.LQ.TEFLPEEI.S..QQNQSEDDARKIEA.L.L.RNPST.D
Retrocopy RYCGETVQQRKEKDHKVLHERQLEEWKAKLQITEFLPEEIASGLQQNQSEDDARKIEAPLSLLRNPSTTD

Parental  KQDKD
          KQDKD
Retrocopy KQDKD

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_1905 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002519	1 retrocopy	retro_etel_1905 ,
Macropus eugenii	ENSMEUG00000003777	1 retrocopy	retro_meug_1317,
Monodelphis domestica	ENSMODG00000018197	2 retrocopies	retro_mdom_1842, retro_mdom_419,
Oryctolagus cuniculus	ENSOCUG00000009500	1 retrocopy	retro_ocun_940,