RetrogeneDB ID: retro_etel_1335

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_248481:6051..6458(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000014070
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000016120
• Aliases: None
• Description: None

Sequence

>retro_etel_1335
ATGCTCGCCCTCCGGGGCAGCCTGAGCAGGGTTCTGGCCGCGCAGCCGGCGCGCTTCAGGTGTGTTCATCTTTTGCCTCA
GGCCCCAGACAGTGCGATGGGACCTTCTATGGATTTCGTTCTTATTACCTTCAACCCTCGAAGATGAATGCGTTCCTCGA
AAATATGAATAAATACATTCATCTTCAGACAGCTCACTCTGAACTGATTGGCTACTGGAGCTTAGAATTCGGAGGCAGAA
CGAATAGAGTGTTTCATATTTGGAAGTACGGTAATTTTGCTCATCGAGCTGAGGTTCGGAAAGCTTTGGCCAAAGATAAG
GAATGGCAAGAACAATTCCTCATTCCCAATTTGCTTCCTATGGATAAACAAGTGTGTGACATTACTTACCTGGTACCATG
GTGCAAA

Alignment

ORF - retro_etel_1335 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.24 %
• Parental protein coverage: 71.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MLALRSSLSRVLAARPA-ALQVCSSFASGPRQCDGTFYEFRSYYLKPSKMNEFLENMKKYIHLRTAHSEL
          MLALR.SLSRVLAA.PA.ALQVCSSFASGPRQCDGTFY.FRSYYL.PSKMN.FLENM.KYIHL.TAHSEL
Retrocopy MLALRGSLSRVLAAQPA<ALQVCSSFASGPRQCDGTFYGFRSYYLQPSKMNAFLENMNKYIHLQTAHSEL

Parental  IGYWSIEFGGRTNRVFHIWKYDNFAHRAEVRKALAKDKEWQEQFLIPNLLHMEKQVCDITYLVPWCK
          IGYWS.EFGGRTNRVFHIWKY.NFAHRAEVRKALAKDKEWQEQFLIPNLL.M.KQVCDITYLVPWCK
Retrocopy IGYWSLEFGGRTNRVFHIWKYGNFAHRAEVRKALAKDKEWQEQFLIPNLLPMDKQVCDITYLVPWCK

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_1335 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000014253	1 retrocopy	retro_acar_133,
Ailuropoda melanoleuca	ENSAMEG00000005118	1 retrocopy	retro_amel_552,
Canis familiaris	ENSCAFG00000023949	1 retrocopy	retro_cfam_295,
Cavia porcellus	ENSCPOG00000009373	1 retrocopy	retro_cpor_690,
Dasypus novemcinctus	ENSDNOG00000000943	1 retrocopy	retro_dnov_482,
Equus caballus	ENSECAG00000008088	1 retrocopy	retro_ecab_978,
Echinops telfairi	ENSETEG00000016120	1 retrocopy	retro_etel_1335 ,
Myotis lucifugus	ENSMLUG00000010147	1 retrocopy	retro_mluc_924,
Mustela putorius furo	ENSMPUG00000007103	1 retrocopy	retro_mputfur_1471,
Oryctolagus cuniculus	ENSOCUG00000007880	1 retrocopy	retro_ocun_1385,
Tursiops truncatus	ENSTTRG00000012307	1 retrocopy	retro_ttru_1702,