RetrogeneDB ID: retro_etel_614

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_102926:1..728(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000007354
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BCKDK
• Ensembl ID: ENSETEG00000014497
• Aliases: None
• Description: branched chain ketoacid dehydrogenase kinase [Source:HGNC Symbol;Acc:16902]

Sequence

>retro_etel_614
GATACGGTGACCCTCCTAGCCGAGGGCCTTCGGGAGAGCCGAAAGCCTAGCAAGGACGAGAAACTCGTCCGCTGTTTCTT
GGACAAGACCTTGACGTCATGGCTTGGTATCACATGTTGGCTACGCATCACTTGGCACTGCACGAGGACAAGCCCGACTT
GGTTGGCATCATCTGCACTCGCCTTTCACCAAAGAAGATTATTGAAAAGTGGGCAGACGTTGCCAGACGCCTGTGTGAAC
ACAAATATGGCAATGCCCCCCATGTCTGCATCAACGGGCACGTGGCTGCCCGTTTCCCCTTCATCCCCATGCCACTGGAC
TACGTCCTGCCCGAGCTGCTCAGGAATGCCATGAGGGCTACAATGGAGAGTCACCTAGACACCCCCTACAATGTCCCCGA
TGTGGCCATCACCATTGCCAACAGCGCTATCGATCTTGTCATCAGGATCTCAGACGGGGCGGGGGCATCGCTCACAAGGA
CCTGGAGCGGGTCATGGACAACCACTTCACCACGGCCGAAGCCAGCACCCAGGACCCCCGGATCAGCCCCCTTTTTGGCC
ACCTGGACATGCTCAGTGGTGGCCAGTCAGGACCTATGCACGGCTTTGGCTTCGGGCTGCCCATGTCTCGGGCGGAGTAC
CTTGGCAGTTCCCTGAGCCTGCAGTCCCTGCAGGGCACCAGCACAGGACTCTACCGGCGACTGCACCCCATTGATGGCCG
TGAGGGG

Alignment

ORF - retro_etel_614 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.02 %
• Parental protein coverage: 59.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DVVTLLAEGLRESRKHIEDEKLVRFFLDKTLTSRLGI-RMLATHHLALHEDKPDFVGIICTRLSPKKIIE
          D.VTLLAEGLRESRK...DEKLVR.FLDKTLTS.LGI..MLATHHLALHEDKPD.VGIICTRLSPKKIIE
Retrocopy DTVTLLAEGLRESRKPSKDEKLVRCFLDKTLTSWLGI<HMLATHHLALHEDKPDLVGIICTRLSPKKIIE

Parental  KWVDFARRLCEHKYGNAPRVRINGHVAARFPFIPMPLDYILPELLKNAMRATMESHLDTPYNVPDVVITI
          KW.D.ARRLCEHKYGNAP.V.INGHVAARFPFIPMPLDY.LPELL.NAMRATMESHLDTPYNVPDV.ITI
Retrocopy KWADVARRLCEHKYGNAPHVCINGHVAARFPFIPMPLDYVLPELLRNAMRATMESHLDTPYNVPDVAITI

Parental  ANNDIDLVIRISD-RGGGIAHKDLERVMDYHFTTAEASTQDPRISPLFGHLDMLSGGQSGPMHGFGFGLP
          AN..IDLVIRISD.RGGGIAHKDLERVMD.HFTTAEASTQDPRISPLFGHLDMLSGGQSGPMHGFGFGLP
Retrocopy ANSAIDLVIRISD<RGGGIAHKDLERVMDNHFTTAEASTQDPRISPLFGHLDMLSGGQSGPMHGFGFGLP

Parental  MSRAEYLGSSLSLQSLQGTSTD-YRRLHPIDGREG
          MSRAEYLGSSLSLQSLQGTST..YRRLHPIDGREG
Retrocopy MSRAEYLGSSLSLQSLQGTSTGLYRRLHPIDGREG

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_614 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
Echinops telfairi	ENSETEG00000014497	1 retrocopy	retro_etel_614 ,
Monodelphis domestica	ENSMODG00000001837	1 retrocopy	retro_mdom_1033,
Rattus norvegicus	ENSRNOG00000019485	1 retrocopy	retro_rnor_2322,