RetrogeneDB ID: retro_etel_17

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_310350:42900..44046(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000001335
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000003826
• Aliases: None
• Description: None

Sequence

>retro_etel_17
GATATCCCACTTAATCGTCCTAAGAAAAAGAAGTCCAGGCCAAAAAACACACTTGTCAGTACCTCTTTGGATGGTCTTGT
CCAGGCTGCTGTCCGTGGGCCTTCTGAAGTCAGTGAGCCAACGAAAGAGCCCACGGAGCAGCCAGAAGCTCCTGGTCAAA
GGAGAAACAAGAAGACAAGACTTCCCCTTGAATTGGAGACTTCCTTTCCCCAAAGAAAGGCATCCAGTCCGTCTTCATTA
CGCAATGAAAATGGCCTGGATGTGGAGCCAGCTGAGGAGGCAGTGATTCAAAAACCTCGAAAAAAGACAAACAGGAAGAC
GAAGCCACCAGAATCACAGTATGCCAATGAGCTAGGCGTGGAAGATGAAGACATAATTACTGACGAGCCAAACAGTGTAG
AGCAGCGCACTGTCTTCACTGCCCCCACTGGCACCAGCCAGCCTGTGGGCAAAATATTTGTGGAAAAAAGCCGGCGGTTC
CAGGCCGCGGATCGGTCAGAGCTGATAAAGACCACAGGAAATGTAGAAATGTCCATGGACATGAAGCCCTCCTGGACGAC
TAGAGATGTGGCTCTCTCCATACACCGGGCTTTCAGGATGCTTGGTCTCTTTTCTCACGGCTTCTTGGCTGGCTGTGCCG
TGTGGAATACTGTTGTGATATATGTTCTGGCAGGAGATCAGCTCTCGAACCTTTCCAACCTTCTGCAGCAGTACAAGACC
TTGGCCTATCCATTCCAGAGTCTCCTCTACTTGCTTTTGGCTCTAAGTACTGTCTCAGCTTTTGACAGAATCGACTTTGC
TAAGACATCGGTGGCAATCCGGAGTTTGCTTGCCTTGGATCCAACCGCTTTAGCATCTTTCTTGTACTTCACTGCTCTGA
GCCTATCTCTGAGCCAACAAATGACAAGTGACAGGATCCACCTGTACACACCTGCCTCTGTCAATGGGAGCCTCTGGGCA
GCCGGAACTGAGGAGCAGATTCTGCAGCCGTGGATGGTGGTGAATCTGGTGCTAGCTCTGCTGGTTGGATTGTCCTGGCT
CTTTTTATCTTATCGGCCTGAGATGGATCTTAGTGAAGAGCTGATGTTCTCCTCAGGTGTGGAAGAGTCTCCTGCTCAAG
GCCCAAGGACCAAAGGCTCCGCATAA

Alignment

ORF - retro_etel_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.48 %
• Parental protein coverage: 88.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DIPLNRPKKKKSRPKNTLVSTSLDGLVQAAVRGPSEVSEPTKEPTEQPEAPGQRRNKKTRLPLELETSFP
          DIPLNRPKKKKSRPKNTLVSTSLDGLVQAAVRGPSEVSEPTKEPTEQPEAPGQRRNKKTRLPLELETSFP
Retrocopy DIPLNRPKKKKSRPKNTLVSTSLDGLVQAAVRGPSEVSEPTKEPTEQPEAPGQRRNKKTRLPLELETSFP

Parental  QRKASSPSSLRNENGLDVEPAEEAVIQKPRKKT-KKTKPPESQYANELGVEDEDIITDEPNSVEQRTVFT
          QRKASSPSSLRNENGLDVEPAEEAVIQKPRKKT..KTKPPESQYANELGVEDEDIITDEPNSVEQRTVFT
Retrocopy QRKASSPSSLRNENGLDVEPAEEAVIQKPRKKTNRKTKPPESQYANELGVEDEDIITDEPNSVEQRTVFT

Parental  APTGTSQPVGKIFVEKSRRFQAADRSELIKTTGNVEMSMDMKPSWTTRDVALSIHRAFRMLGLFSHGFLA
          APTGTSQPVGKIFVEKSRRFQAADRSELIKTTGNVEMSMDMKPSWTTRDVALSIHRAFRMLGLFSHGFLA
Retrocopy APTGTSQPVGKIFVEKSRRFQAADRSELIKTTGNVEMSMDMKPSWTTRDVALSIHRAFRMLGLFSHGFLA

Parental  GCAVWNTVVIYVLAGDQLSNLSNLLQQYKTLAYPFQSLLYLLLALSTVSAFDXXXXXXXXXXXXXXXXXX
          GCAVWNTVVIYVLAGDQLSNLSNLLQQYKTLAYPFQSLLYLLLALSTVSAFD..................
Retrocopy GCAVWNTVVIYVLAGDQLSNLSNLLQQYKTLAYPFQSLLYLLLALSTVSAFDRIDFAKTSVAIRSLLALD

Parental  XXALASFLYFTALTLSLSQQMTSDRIHLYTPASVNGSLW-AGTEEQILQPWMMVNLVLALLVGLS-LFLS
          ..ALASFLYFTAL.LSLSQQMTSDRIHLYTPASVNGSLW.AGTEEQILQPWM.VNLVLALLVGLS.LFLS
Retrocopy PTALASFLYFTALSLSLSQQMTSDRIHLYTPASVNGSLWAAGTEEQILQPWMVVNLVLALLVGLSWLFLS

Parental  YQPEMDLSE
          Y.PEMDLSE
Retrocopy YRPEMDLSE

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_17 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000002126	1 retrocopy	retro_dnov_440,
Echinops telfairi	ENSETEG00000003826	1 retrocopy	retro_etel_17 ,
Tupaia belangeri	ENSTBEG00000009845	1 retrocopy	retro_tbel_3487,