RetrogeneDB ID: retro_etel_128

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_2389:23345..23832(-)
• Located in intron of: ENSETEG00000000397

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000015365
• Aliases: None
• Description: None

Sequence

>retro_etel_128
ATGGCAGGACAGATGACAATGCAGCTGCTGTTCCTCTTGCTGCTGGTGGCTGATGGATGGGGTATCATGCGCCAGACTAT
GGAGGCCTGGATGGAACTCCTCAATGTCTGCATGGACACCAAGCACCACAAGGAAAAGCCAGGCCCTGAGGACAAGTTGC
ACGACCAGTGCAGCCCCTGGAAGAATGCCTGCTGCTCCGACAACACCAGCCAGGAAGCCCACAAGGTCTTTCCCTACATG
TACAGATTCAACTGGGACCACTGCGGGAAGATGCAGCCTGCCTGCAAGCGCCACTTCAGTCAGGACGCCTGCTTCTGAGT
GCTCCCCCAACTTGGGACCCTGGCTCCAACAGGTAGACCAGAGCAGGCGCAAAGAGCGGGTGCTGAACGTGCCCCTGTGC
CAAGAGGACTGTCAGAGGTGATGAGAGGATTGCCACCTGTCTTATACCTGCAAGACCAACTGGCACAAGGGATGGAACTG
GACTTCA

Alignment

ORF - retro_etel_128 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.42 %
• Parental protein coverage: 63.81 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGQVTMQLLFLLLLVADGWGIMRQSRPARTELLNVCMDAKHHKEKPGPEDKLHDQCTPWKKNACCSVNT
          MAGQ.TMQLLFLLLLVADGWGIMRQ...A..ELLNVCMD.KHHKEKPGPEDKLHDQC.PW.KNACCS.NT
Retrocopy MAGQMTMQLLFLLLLVADGWGIMRQTMEAWMELLNVCMDTKHHKEKPGPEDKLHDQCSPW-KNACCSDNT

Parental  SQEAHKDVSYLYRFNWDHCGKMQPACKRHFIQDTCFYECSPNLG-PWIQQVDQSWRKERVLNVPLCQEDC
          SQEAHK...Y.YRFNWDHCGKMQPACKRHF.QD.CF....P.LG.PW.QQVDQS.RKERVLNVPLCQEDC
Retrocopy SQEAHKVFPYMYRFNWDHCGKMQPACKRHFSQDACF-*VLPQLG>PWLQQVDQSRRKERVLNVPLCQEDC

Parental  QMWWEDCRSSYTCKTNWHKGWNWTS
          Q...EDC..SYTCKTNWHKGWNWTS
Retrocopy QR**EDCHLSYTCKTNWHKGWNWTS

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_128 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 12 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005777	1 retrocopy	retro_cfam_1723,
Callithrix jacchus	ENSCJAG00000015224	1 retrocopy	retro_cjac_3330,
Dasypus novemcinctus	ENSDNOG00000000856	1 retrocopy	retro_dnov_1751,
Echinops telfairi	ENSETEG00000015365	2 retrocopies	retro_etel_1160, retro_etel_128 ,
Myotis lucifugus	ENSMLUG00000014126	2 retrocopies	retro_mluc_1199, retro_mluc_567,
Monodelphis domestica	ENSMODG00000008017	1 retrocopy	retro_mdom_990,
Monodelphis domestica	ENSMODG00000008032	1 retrocopy	retro_mdom_588,
Monodelphis domestica	ENSMODG00000008042	1 retrocopy	retro_mdom_648,
Mus musculus	ENSMUSG00000001827	1 retrocopy	retro_mmus_1438,
Oryctolagus cuniculus	ENSOCUG00000000165	1 retrocopy	retro_ocun_472,
Otolemur garnettii	ENSOGAG00000000641	5 retrocopies	retro_ogar_2539, retro_ogar_2666, retro_ogar_2758, retro_ogar_2908, retro_ogar_532,
Tarsius syrichta	ENSTSYG00000003503	3 retrocopies	retro_tsyr_1057, retro_tsyr_111, retro_tsyr_1651,