RetrogeneDB ID: retro_etel_543

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8954:51326..52324(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000001307
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SARS
• Ensembl ID: ENSETEG00000020092
• Aliases: None
• Description: seryl-tRNA synthetase [Source:HGNC Symbol;Acc:10537]

Sequence

>retro_etel_543
AAGGAGCCAGTGGGAGACAATGAAGCGGCCCCGGGGCACGTACTGCACCTCGATGACCTCACGGCGGACACGTTAGCTAA
CCTCCAAGTCTCACAAATCGGAAAGGTCCGGCTCCTTATCGACGATGCCATCCTGAGGTGCGATGCCGAGCGCGTCGAGC
TGGAAGCCGAGAGGTTTGAGCGCCTCCGTGAGATTGGGAACCTTCTTCACCCCTCGGTGCCCATCAGCCACGCCGAGGAC
GCCGACAACAAAGTCGAGAGGATTTGGGGAGACTGCACAGTCAGGAAGAAGTACTCCCACGTGGACCTGGTGGGGATGGG
AGATGGCTTCGCAGGCGAAAAGGGCGCAGTGGTGGCCGGAGTCGAGGGTACTTCCTGAAGGGGGTCCTGGAACAGGCACT
CATCCAATGTGCCCTTCGCACCTTGGGAAGTCGGGGCTACACCCCCTTCTTCAAGAGGAAGGAGGTCATGCAGGGAGTGG
CGCAGCTCAGCCAGTTTGATGAGGACCTTTATCAGGTGATAGGCACAGGCCGCGAGAAGTCGGATGACAACCCCTATGAC
GAGAAATACCTGCTCGCCACCTCCGAGCAGCCCAGCCCTGCGCTCCACCGGGACGAGGGGCTGCGCCCCGAGGACCTGCC
CATCAAGTATGCCGGCCTGTCCACCTGCTTCCGCCAGGTGGGCTCCCACCGCCGCCACCCCCGCGGCATCTTCCGAGTCC
ACAGTTTGAGAAGATTGAGCAGTTTGTCTACTCGTCCCCGCGTGACACAGTCATGGGAGATGCTTGACGAGATGATCGCC
GCCGCAGAGGGGTTCTACCAGTCTCGGGGGATCCCGGGCCACATTGTGAACATGGTAGCAGGTTCTTTGAATCACGCTGC
CGGTAAGGAGCTCCACCTGGAGGCCTGGTTTCCGGGCTCTGGGGCCTTCCGAGAGCTGGTCTCCTGCTCCAACTGCACGG
ACTGCCAGGCACGCCGGCTCCCAATCCGATCCGGCCAA

Alignment

ORF - retro_etel_543 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.76 %
• Parental protein coverage: 66.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KEPVGDNEAVPEHVLHLDDLTADTLANLQVSQIKKVRLLIDDAVLKCDAERLKLEAERFESLREIGNLLH
          KEPVGDNEA.P.HVLHLDDLTADTLANLQVSQI.KVRLLIDDA.L.CDAER..LEAERFE.LREIGNLLH
Retrocopy KEPVGDNEAAPGHVLHLDDLTADTLANLQVSQIGKVRLLIDDAILRCDAERVELEAERFERLREIGNLLH

Parental  PSVPISNDEDADNKVERIWGDCTVRKKYSHVDLVVMVDGFEGEKGAVVAG-SRGYFLKGVLVFLEQALIQ
          PSVPIS..EDADNKVERIWGDCTVRKKYSHVDLV.M.DGF.GEKGAVVAG.SRGYFLKGV...LEQALIQ
Retrocopy PSVPISHAEDADNKVERIWGDCTVRKKYSHVDLVGMGDGFAGEKGAVVAG<SRGYFLKGV---LEQALIQ

Parental  YALRTLGSRGYTPIYTPFFMRKEVMQEVAQLSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAAL
          .ALRTLGSRG....YTPFF.RKEVMQ.VAQLSQFDE.LY.VIG.G.EKSDDN.YDEKYL.ATSEQP..AL
Retrocopy CALRTLGSRG----YTPFFKRKEVMQGVAQLSQFDEDLYQVIGTGREKSDDNPYDEKYLLATSEQPSPAL

Parental  HRDEWLRPEDLPIKYAGLSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFDEMIATAE
          HRDE.LRPEDLPIKYAGLSTCFRQ.VGSH.R..RGIFRVH............P....SWEM.DEMIA.AE
Retrocopy HRDEGLRPEDLPIKYAGLSTCFRQ-VGSHRRHPRGIFRVHSLRRLSS-LSTRPRVTQSWEMLDEMIAAAE

Parental  EFYQSLGIPYHIVNIVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQ
          .FYQS.GIP.HIVN.V.GSLNHAA.K.L.LEAWFPGSGAFRELVSCSNCTD.QARRL.IR.GQ
Retrocopy GFYQSRGIPGHIVNMVAGSLNHAAGKELHLEAWFPGSGAFRELVSCSNCTDCQARRLPIRSGQ

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_543 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000020092	1 retrocopy	retro_etel_543 ,
Felis catus	ENSFCAG00000015258	1 retrocopy	retro_fcat_117,