RetrogeneDB ID: retro_etel_1726

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_290182:42236..42672(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000013761
• Aliases: None
• Description: None

Sequence

>retro_etel_1726
GAAACCGTCACCGTGGACGAGGTCTCCGAGGTCCTGAGCGGGCTGCGGGCCGTGGTGCACAGCGAGGTGGAGTCCCAGCT
CCTCAACGGCGCCCCACCAGTGTGCTCCTGCTGCGGCAGCTCTTTGCTCAGGCCGAGAAGTGGTACCTCAGGCTCCAGTC
AGACATCTCTGAACTTGGAAACAGAGTTAGTAGAACAAGTTGCAGAATTTGAAAAGGCAGAGTTGATATCTTCAAAAAGC
CCATCGCAGACATCATGAAGCCAAAACTGGGCTCCTCCTGAATGAAACCAGCACAGCGGAGCTCCTACACAGGGACATGT
TAAGGCTGCAAGAAGAGAATGAGACATTGACGTCCAGGCTGAAGAACGTCGAGATACGCGCCATCAGTGCGCTGGATGCG
AAGTCAAAGCTCCAGCGAGCGCTGCGAGACGCACAC

Alignment

ORF - retro_etel_1726 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.0 %
• Parental protein coverage: 57.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  ETFTVDEVSEVLSGLRAVVHSEVESELINTAH-TNVLLLRQLFAQAEKWYLKLQTDISELENRE-LEQVA
          ET.TVDEVSEVLSGLRAVVHSEVES.L.N.A..T.VLLLRQLFAQAEKWYL.LQ.DISEL.NR...EQVA
Retrocopy ETVTVDEVSEVLSGLRAVVHSEVESQLLNGAP<TSVLLLRQLFAQAEKWYLRLQSDISELGNRV>VEQVA

Parental  EFEVEFTSSNK-KPIADIMKPKL-AP-LNETGTAELLNKEILRLQEENEKLKSRLKTVEIQATSALDAKS
          EFE.....S.K.KPIADIMKPKL.AP.LNET.TAELL....LRLQEENE.L.SRLK.VEI.A.SALDAKS
Retrocopy EFEKAELISSK<KPIADIMKPKL>AP>LNETSTAELLHRDMLRLQEENETLTSRLKNVEIRAISALDAKS

Parental  KLERALRDAH
          KL.RALRDAH
Retrocopy KLQRALRDAH

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_1726 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003899	1 retrocopy	retro_chof_1935,
Echinops telfairi	ENSETEG00000013761	1 retrocopy	retro_etel_1726 ,
Loxodonta africana	ENSLAFG00000010237	1 retrocopy	retro_lafr_155,
Mus musculus	ENSMUSG00000025245	3 retrocopies	retro_mmus_1834, retro_mmus_3266, retro_mmus_3276,
Procavia capensis	ENSPCAG00000009783	1 retrocopy	retro_pcap_313,