RetrogeneDB ID: retro_etel_2145

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_75766:279..996(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS35
• Ensembl ID: ENSETEG00000005034
• Aliases: None
• Description: mitochondrial ribosomal protein S35 [Source:HGNC Symbol;Acc:16635]

Sequence

>retro_etel_2145
CTAGAAGGCATTAAAACTTCCAGAAATGAAAGACTGATGAGAAGAAGGGTACTGCCTCCTCGGACGGAGAAAATGGCTGT
TGACCAAGACTGGCCTAGTGTCTACCCTGTTGCAGCGCCGTTTAAACCCTCCGCTGTGCCTCTTCCTCTTCGGATGGGTT
ATCCAGTAAAAAGAGGAGTACCCATGGCAAAGGAAGGAAATCTAGAGCTTTTAAAGATCCCCAACTTTCTGCATTTGACA
CCTGTAGCAATTAAAAAGCACTGTGAAGCTCTTAAAGATTTCTGCACTGAGTGGCCAGCGGCACTAGACAGTGATGAGAA
ATGTGAGAAGCATTTTCCTATTGAAATTGACACAGCTGATTATGTTTCATCGGGACCGTCTGTTCGAAACCCCAAAGCAC
GAGTAGTGACCTTAAGGGTTAAACTTTCCAGTCTCAATTTAGATGATCATGCAAAGAAGAAACTTATTAAACTTGTAGGA
GAGCGATACTGCAAGACCACAGATGTGCTCACCATCAAGACCGATAGGTGCCCTTTAAAGCGACAGAATTATGATTATGC
AATGTATCTGCTAACGGTTTTATACCATGAATCTTGGAAAACTGAAGAGTGGGAGAAAAGTAAGACTGAAGCAGACATGG
AGGAGTACATATGGGAAAACAGCCCCTCAGAAAGAAATGTCCTAGAAACGCTAATCCAAATCAAAGCTGCCGAGAGG

Alignment

ORF - retro_etel_2145 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.91 %
• Parental protein coverage: 73.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LEGIKTSRNERLMRRRVLPPRTEKMAVDQDCPSVYPVADRFKPSAVPLPLRMGYPGKRGVPMAKEGNLEL
          LEGIKTSRNERLMRRRVLPPRTEKMAVDQD.PSVYPVA..FKPSAVPLPLRMGYP.KRGVPMAKEGNLEL
Retrocopy LEGIKTSRNERLMRRRVLPPRTEKMAVDQDWPSVYPVAAPFKPSAVPLPLRMGYPVKRGVPMAKEGNLEL

Parental  LKIPNFLHLTPVAIKKHCEALKDFCTEWPAALDSDEKCEKHFPIEIDTADYVSSGPSVRNPKARVVTLRV
          LKIPNFLHLTPVAIKKHCEALKDFCTEWPAALDSDEKCEKHFPIEIDTADYVSSGPSVRNPKARVVTLRV
Retrocopy LKIPNFLHLTPVAIKKHCEALKDFCTEWPAALDSDEKCEKHFPIEIDTADYVSSGPSVRNPKARVVTLRV

Parental  KLSSLNLDDHAKKKLIKLVGERYCKTTDVLTIKTDRCPLKRQNYDYAMYLLTVLYHESWKTEEWEKSKTE
          KLSSLNLDDHAKKKLIKLVGERYCKTTDVLTIKTDRCPLKRQNYDYAMYLLTVLYHESWKTEEWEKSKTE
Retrocopy KLSSLNLDDHAKKKLIKLVGERYCKTTDVLTIKTDRCPLKRQNYDYAMYLLTVLYHESWKTEEWEKSKTE

Parental  ADMEEYIWENSSSERNVLETLIQIKAAER
          ADMEEYIWENS.SERNVLETLIQIKAAER
Retrocopy ADMEEYIWENSPSERNVLETLIQIKAAER

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_2145 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.

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005034	1 retrocopy	retro_etel_2145 ,
Loxodonta africana	ENSLAFG00000010490	1 retrocopy	retro_lafr_449,
Oryctolagus cuniculus	ENSOCUG00000016214	1 retrocopy	retro_ocun_866,
Otolemur garnettii	ENSOGAG00000010630	2 retrocopies	retro_ogar_1121, retro_ogar_2807,