RetrogeneDB ID: retro_etel_1113

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_213482:2500..3196(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000004925
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CORO1A
• Ensembl ID: ENSETEG00000018964
• Aliases: None
• Description: coronin, actin binding protein, 1A [Source:HGNC Symbol;Acc:2252]

Sequence

>retro_etel_1113
GACCTCATCTACAACGTGTGCTGGAACCACAACGGTAGCCTCTTCTACTCTGCCTGCAAGGACAAGAGCGTGCGCATCAT
CGACCCCCGCTGGGGCACCCTGGTGGCGGAGCGGGAGAAGGCCCACGAGGGCGCCAGGCCCATGCGGGCCGTCTTCCTAG
CCGATGGCAAGGTGCTCACCACAGGATTCAGCCGCATGAGTGAGCGGCAACTGGCACTCTGGGACCCTGACAACCTGGAG
GAGCCCATGGCTCTGCAGGAGCTGGATTCCAGCAACGGTACCCTGCTGCCCTTCTACGACCCGGACACCAGCGTGGTCTA
TGTCTGTGGCAAGGGTGACTCCAGCATCTGGTACTTTGAGATCACTAACGAGGCCCCCTACATCCACTTCCTGAACACCT
TTACCAGCAAAGAGCCGCAGAGGGGCATGGGCAGCATGCCCAAGAGGGGCTTGAAGGTCAGCAAGTGTGAGATTGCCCGG
TTCTATAAGCTTCATGAGCGCAAGTGTGAGCCCATTGTCATGACTGTGCCAAGAAAGTCGGACTTTTTCCAGGATGACCT
GTACCCTGACACAGCAGGGCCCGAGGCAGCCCTGGAAGCAGAGGAGTGGGTGAGCGGCCGGGATGCTGACCCCACCCTTA
TCTCCCTGCGGGAGGCTTACGTGCCCAGCAAGCAGCGAGACCTGAAGGTCAGCCGG

Alignment

ORF - retro_etel_1113 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.24 %
• Parental protein coverage: 54.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DTIYSVDWSRDGGLICTSCRDKRVRVIEPRKGTVVAEKDRPHEGTRPVHAVFVSDGKILTTGFSRMSERQ
          D.IY.V.W...G.L....C.DK.VR.I.PR.GT.VAE....HEG.RP..AVF..DGK.LTTGFSRMSERQ
Retrocopy DLIYNVCWNHNGSLFYSACKDKSVRIIDPRWGTLVAEREKAHEGARPMRAVFLADGKVLTTGFSRMSERQ

Parental  VALWDTKHLSEPLSLQELDTINGRR-PFFELD-NIVYHCG-GDSSIRYFEITSEAPYLHYLCMFSSKESQ
          .ALWD...L.EP..LQELD..NG...PF...D...VY.CG.GDSSI.YFEIT.EAPY.H.L..F.SKE.Q
Retrocopy LALWDPDNLEEPMALQELDSSNGTLLPFYDPDTSVVYVCGKGDSSIWYFEITNEAPYIHFLNTFTSKEPQ

Parental  RGMGYMPKRGLEVNKCEIARFYKLHERKCEPIAMTVPRKSDLFQEDLYPPTAGPDPALTAEEWFGGRDAG
          RGMG.MPKRGL.V.KCEIARFYKLHERKCEPI.MTVPRKSD.FQ.DLYP.TAGP..AL.AEEW..GRDA.
Retrocopy RGMGSMPKRGLKVSKCEIARFYKLHERKCEPIVMTVPRKSDFFQDDLYPDTAGPEAALEAEEWVSGRDAD

Parental  PLLISLKDGYVPSKSRELRVNR
          P.LISL...YVPSK.R.L.V.R
Retrocopy PTLISLREAYVPSKQRDLKVSR

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_1113 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000018964	2 retrocopies	retro_etel_1113 , retro_etel_604,