RetrogeneDB ID: retro_etel_272

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4548:76952..77203(-)
• Located in intron of: ENSETEG00000013254

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000012291
• Aliases: None
• Description: None

Sequence

>retro_etel_272
CAGTACCAGAACTGGCAGGAGGTTAGCCGAGCCACCAAGCAGCTTTACCTCACTGACCCAATGAAGCCACATGTGGTTCT
TAAATACAGGCATACTATAGGGAGTCTGTGTGTGAACATAAATGGTGATTTAGTTTGTCTCAAGCACAGAGCAGACTAAG
CTCAAGATGTAAAGCAGTTGAGAAATTCCACAGTCAACTAATGCAGCTTAGGGTAGCCAAGGAATCCCGAAATGTTGCCA
TGGAAACAGAC

Alignment

ORF - retro_etel_272 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.71 %
• Parental protein coverage: 97.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QFQTWEEFSRAAEKLYLADPMKARVVLKYRHTDGSLCVKVTDDVVXXXXXXXXAQDVKK-IEKFHSQLMR
          Q.Q.W.E.SRA...LYL.DPMK..VVLKYRHT.GSLCV....D.V........AQDVK...EKFHSQLM.
Retrocopy QYQNWQEVSRATKQLYLTDPMKPHVVLKYRHTIGSLCVNINGDLVCLKHRAD*AQDVKQ<VEKFHSQLMQ

Parental  LMVAKESRSVAMETD
          L.VAKESR.VAMETD
Retrocopy LRVAKESRNVAMETD

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_272 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014744	2 retrocopies	retro_amel_1168, retro_amel_898,
Canis familiaris	ENSCAFG00000016162	2 retrocopies	retro_cfam_1034, retro_cfam_1527,
Dasypus novemcinctus	ENSDNOG00000013412	3 retrocopies	retro_dnov_1947, retro_dnov_2181, retro_dnov_742,
Echinops telfairi	ENSETEG00000012291	1 retrocopy	retro_etel_272 ,
Homo sapiens	ENSG00000143742	1 retrocopy	retro_hsap_711,
Loxodonta africana	ENSLAFG00000004081	3 retrocopies	retro_lafr_1184, retro_lafr_377, retro_lafr_648,
Mus musculus	ENSMUSG00000026511	1 retrocopy	retro_mmus_1952,
Otolemur garnettii	ENSOGAG00000001752	1 retrocopy	retro_ogar_230,
Ochotona princeps	ENSOPRG00000012133	2 retrocopies	retro_opri_1135, retro_opri_324,
Pteropus vampyrus	ENSPVAG00000008142	2 retrocopies	retro_pvam_1064, retro_pvam_351,
Tupaia belangeri	ENSTBEG00000005634	3 retrocopies	retro_tbel_1490, retro_tbel_4067, retro_tbel_4739,