RetrogeneDB ID: retro_etel_1631

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_284118:58382..58825(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000010479
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000001688
• Aliases: None
• Description: None

Sequence

>retro_etel_1631
ATGACAGTTCAAGAGGGACAAATGGCCAATAGAGGCTGGTGCTTCTAGTGGGTCATTGAGCTAAGTGGGCCTGGAGGACG
CAGCAGGGGCTGAAGCACCTAAGTCAGTGGACAGGGAGACTCCCTGTACCCAGTTGGTTCCTTGGACAAGCAAGTGCCTG
ACACCAGCATGCAAGAGACAGACTGGATCCTGGTAGACAAGTGCTGCTGGGATATCACCCTGCGACCCCTGAAACAGATT
CCCAGAAACCTCTTCCTTATGTGCATGGCTGGCAATACTGTTTCCATCTTTTCTACTATGACGGTGTACATCATGGCCTG
GTGGCCTATTCAGACACTTATGGTGATTTCAGCCACTTCCAACTGGAAAATTAAAGCCAGAAATTTCTTCAGAGTTTGGT
TTATCTCATTGGGAACTTTGTGAGTTTGGAATTGGCTGTCCAC

Alignment

ORF - retro_etel_1631 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.33 %
• Parental protein coverage: 81.42 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTTQGGLVANRGRRFKWAIELSGPGGSSRGRSDRGSGQGDSLYPVGYLDKQVPDTSVQETDRILVEKRCW
          MT.Q.G..ANRG..F.W.IELSGPGG.SRG.S...SGQGDSLYPVG.LDKQVPDTS.QETD.ILV.K.CW
Retrocopy MTVQEGQMANRGWCF*WVIELSGPGGRSRG*ST*VSGQGDSLYPVGSLDKQVPDTSMQETDWILVDKCCW

Parental  DIALGPLKQIPMNLFIMYMAGNTISIFPTMMVCMMAWRPIQALMAISAT-FKMLESSSQKFLQGLVYLIG
          DI.L.PLKQIP.NLF.M.MAGNT.SIF.TM.V..MAW.PIQ.LM.ISAT.F...E..SQKFLQ.LVYLIG
Retrocopy DITLRPLKQIPRNLFLMCMAGNTVSIFSTMTVYIMAWWPIQTLMVISAT<FQL-EN*SQKFLQSLVYLIG

Parental  NLMGLALAVY
          N...L.LAV.
Retrocopy NFVSLELAVH

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_1631 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 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005576	2 retrocopies	retro_chof_1859, retro_chof_254,
Dipodomys ordii	ENSDORG00000008407	2 retrocopies	retro_dord_387, retro_dord_581,
Echinops telfairi	ENSETEG00000001688	1 retrocopy	retro_etel_1631 ,
Felis catus	ENSFCAG00000001736	1 retrocopy	retro_fcat_759,
Macropus eugenii	ENSMEUG00000004615	1 retrocopy	retro_meug_1129,
Microcebus murinus	ENSMICG00000003864	2 retrocopies	retro_mmur_1313, retro_mmur_180,
Oryctolagus cuniculus	ENSOCUG00000006160	4 retrocopies	retro_ocun_1686, retro_ocun_395, retro_ocun_719, retro_ocun_817,
Ochotona princeps	ENSOPRG00000009190	1 retrocopy	retro_opri_605,
Pteropus vampyrus	ENSPVAG00000003824	1 retrocopy	retro_pvam_386,
Rattus norvegicus	ENSRNOG00000005719	1 retrocopy	retro_rnor_897,
Ictidomys tridecemlineatus	ENSSTOG00000000516	1 retrocopy	retro_itri_1008,