RetrogeneDB ID: retro_etel_1329

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_247749:6318..6646(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000010391
• Aliases: None
• Description: None

Sequence

>retro_etel_1329
ATGCCCACGGCCAAGGGTAAGACCCGGAGGCAGAAGTTGGGTTACAATATCCACTGAAAGTGGATAAATGGGAATGCTCC
TTTGAAGGCTGCGCAGCACATGGCGTGCTCTCACGGCTGACACGCCTGGGACCACACCAAATTGGTGCAGCAGAGCCTGG
CTGAGATGGGGCTGGCCACGGACCCCCACAAGATCGTACCCTCCTAAAAAGAGGTGCATGGTGGAGGTGGATGGCGAGTG
GAAGAGCGAGCTCGTGCGGAAGCCCTATGCGTTGAATGAGCTGGAGGCGGAAGCCAGCCTCCCCGCAAAGCTAGATAGGA
CCTCATCG

Alignment

ORF - retro_etel_1329 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.61 %
• Parental protein coverage: 56.92 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPKAKGKTRRQKFGYNVNRKRMNRHARRKAAPRIECSHIRHAWDHAKSVRQNLAEMGLAMDPNKVL-PLR
          MP.AKGKTRRQK.GYN...K..N..A..KAA....CSH..HAWDH.K.V.Q.LAEMGLA.DP.K...P..
Retrocopy MPTAKGKTRRQKLGYNIH*KWINGNAPLKAAQHMACSHG*HAWDHTKLVQQSLAEMGLATDPHKIV>PPK

Parental  KRKVHAMEVDGGRRKELVRKPYVLNELEAEASLPEKKDHSLS
          KR.....EVDG....ELVRKPY.LNELEAEASLP.K.D...S
Retrocopy KRCM--VEVDGEWKSELVRKPYALNELEAEASLPAKLDRTSS

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_1329 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016694	2 retrocopies	retro_cfam_1790, retro_cfam_1793,
Callithrix jacchus	ENSCJAG00000012315	1 retrocopy	retro_cjac_2208,
Cavia porcellus	ENSCPOG00000026072	1 retrocopy	retro_cpor_129,
Echinops telfairi	ENSETEG00000010391	1 retrocopy	retro_etel_1329 ,
Myotis lucifugus	ENSMLUG00000003504	1 retrocopy	retro_mluc_2425,
Mustela putorius furo	ENSMPUG00000012552	1 retrocopy	retro_mputfur_381,
Mus musculus	ENSMUSG00000025869	2 retrocopies	retro_mmus_3033, retro_mmus_3258,
Otolemur garnettii	ENSOGAG00000000824	2 retrocopies	retro_ogar_1323, retro_ogar_2299,
Rattus norvegicus	ENSRNOG00000017284	1 retrocopy	retro_rnor_2739,
Sus scrofa	ENSSSCG00000029577	1 retrocopy	retro_sscr_510,
Ictidomys tridecemlineatus	ENSSTOG00000004869	1 retrocopy	retro_itri_1124,