RetrogeneDB ID: retro_etel_1185

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_224342:689..1014(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000008874
• Aliases: None
• Description: None

Sequence

>retro_etel_1185
AGACCGGAGTGCAGGGGACCCCAGAGCTGTTTCACAATGAGGACGAAGCCCCGAAAATACATTTCAACTCCGAGATGATT
GACATCCAGACCACGATGGCCCACCAGGCCCCGGAGCTGCCCGTACTGCCTGAGGACCAGCCCTGCTACCTGCTGGATAT
CGCTGCGGCTCTGGACGGAGCAGGGACTTTATCTGGGATGGGGAACACAATCGGGTAGGCCTGGACATTGGCACCATCAT
GCTGAATATGGCCTTGTACCGAGACAGAGAGGGAGGCCTGCTCCCAGGGGCCACGAGCCAGGGCATCTCCTGGAGTCCAG
GTTCC

Alignment

ORF - retro_etel_1185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 71.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RPEHGGP-PELFYNEDEARKYVRNSRMIDIQTKMAGRALELLSLPEDQPCYLLDIG-CGSGLSGDFISDE
          RPE..GP.PELF.NEDEA.K...NS.MIDIQT.MA..A.EL..LPEDQPCYLLDI..CGSG.S.DFI.D.
Retrocopy RPECRGP<PELFHNEDEAPKIHFNSEMIDIQTTMAHQAPELPVLPEDQPCYLLDIA<CGSGRSRDFIWDG

Parental  GHYWVGLDISTAMLNAALDRDTEGDLLLGDMGQGIPFRPGS
          .H..VGLDI.T.MLN.AL.RD.EG.LL.G...QGI...PGS
Retrocopy EHNRVGLDIGTIMLNMALYRDREGGLLPGATSQGISWSPGS

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_1185 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016799	1 retrocopy	retro_cjac_2908,
Echinops telfairi	ENSETEG00000008874	1 retrocopy	retro_etel_1185 ,
Oryctolagus cuniculus	ENSOCUG00000017297	1 retrocopy	retro_ocun_758,
Tupaia belangeri	ENSTBEG00000007038	1 retrocopy	retro_tbel_4216,