RetrogeneDB ID: retro_etel_522

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8691:577872..578381(+)
• Located in intron of: ENSETEG00000001280

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000013003
• Aliases: None
• Description: None

Sequence

>retro_etel_522
ATTGAAAGACTTGAAGCCAAAGTAGTTGAACCTTTGAAAGTTTATGGAACCATTGTAAAAATGGAGTGCGAGGACCTTAA
AGCAACATTAACAGCAAGAAATTGAGAAGCTAAGCAGTTAACCCAGTTAGAAAGGACATGTCAGGGAACTCCATCTGATA
GACATATTATTTCACAGGAAGAAACGGAATTACAGAGTGACAATGGACGCTACCCCAGCAACTCATCATCAGGAAGAAAC
TATGGACAACTTTGAAAAACAAAATAAAAGGCATAAAGAATATATTTTCAGAATTTATCACTATTGAAATGTTATTTCAT
GGGAAAGCTTTAGAGGTCAATACCACTGCACCAAAATATACCAAAAATGATGAGGAAGAAAATTTAGAGGTTTCCCAGAC
CGCTCTGTATCTACCAGATTATTCATCTCGTTTAGATACTATAAAGGCAAATTCAAAGTCGCCTCTTCAGAGATCACTGT
CAGTTAAATGTGTATCTGGGACAGGCCAG

Alignment

ORF - retro_etel_522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.79 %
• Parental protein coverage: 94.44 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VERLEAKVVEPLKAYGAIVKMKRDDLKATLTARNREAKQLTQLE-TRQRNPSDRHVIXAET-ELQRATMD
          .ERLEAKVVEPLK.YG.IVKM...DLKATLTARN.EAKQLTQLE.T.Q..PSDRH.I..E.....R.TMD
Retrocopy IERLEAKVVEPLKVYGTIVKMECEDLKATLTARN*EAKQLTQLERTCQGTPSDRHIISQEE>RNYRVTMD

Parental  ATRTTRHLEETIDNFEKQ-KIKDIKNIFSEFITIEMLFHGK-ALEVYTAAYQNIQKIDEEEDLEVFRNSL
          AT..T.H.EET.DNFEKQ.K.K.....F.........F.GK.ALEV.T.A.....K.DEEE.LEV....L
Retrocopy ATPATHHQEETMDNFEKQ<K*KA*RIYFQNLSLLKCYFMGK<ALEVNTTA-PKYTKNDEEENLEVSQTAL

Parental  YPPDYSSRLDIVRANSKSPLQRSLSAKGISGTGQ
          Y.PDYSSRLD...ANSKSPLQRSLS.K..SGTGQ
Retrocopy YLPDYSSRLDTIKANSKSPLQRSLSVKCVSGTGQ

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_522 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 15 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009105	1 retrocopy	retro_cfam_1072,
Echinops telfairi	ENSETEG00000013003	1 retrocopy	retro_etel_522 ,
Homo sapiens	ENSG00000188343	1 retrocopy	retro_hsap_1485,
Gorilla gorilla	ENSGGOG00000006452	1 retrocopy	retro_ggor_1137,
Loxodonta africana	ENSLAFG00000003954	1 retrocopy	retro_lafr_201,
Microcebus murinus	ENSMICG00000006797	1 retrocopy	retro_mmur_415,
Monodelphis domestica	ENSMODG00000007447	2 retrocopies	retro_mdom_1239, retro_mdom_827,
Mustela putorius furo	ENSMPUG00000009112	1 retrocopy	retro_mputfur_1183,
Nomascus leucogenys	ENSNLEG00000002773	1 retrocopy	retro_nleu_1707,
Otolemur garnettii	ENSOGAG00000002972	1 retrocopy	retro_ogar_654,
Oreochromis niloticus	ENSONIG00000002446	1 retrocopy	retro_onil_57,
Procavia capensis	ENSPCAG00000011171	1 retrocopy	retro_pcap_272,
Pongo abelii	ENSPPYG00000018744	2 retrocopies	retro_pabe_1235, retro_pabe_2497,
Tarsius syrichta	ENSTSYG00000012502	1 retrocopy	retro_tsyr_975,
Tursiops truncatus	ENSTTRG00000012378	1 retrocopy	retro_ttru_45,