RetrogeneDB ID: retro_etel_604

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_102297:629..1379(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000013262
• 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_604
GACCTCATCTACAACGTGTGCTGGAACCACAACGGTAGCCTCTTCTGCTCTGCCTGCAAGGACAAGAGCGTGCGCATCAT
CGACCCCCGCCGGGGCACCCTGGTGGCGGAGCGGGAGAAGGCCCACGAGGGCGCCAGGCCCATGCGGGGCCGTCTTCCTA
GCGGATGGCAAGGTGCTCACCACAGGATTCAGCCGTATGAGTGAGTGGCAGCTGGCACTCTGGGGCCCCGACAACCTGGA
GGAGCCCATGGCTCTGCAGGAGCTGGATTCCAGCAACAGGACCCTGCTGCCCTTCTACGACCCGGACACCAGCGTGGTCT
ATGTCTGTGACTCCAGCATCCGGTACTTTGAGATCACCAATGAGGCCCCCTACATCCACTTCCTGAACACCTTCACCAGC
AAAGAGCCGCAGAGGGGCATGGGCAGCATGCCCAAGAGGGGCTTGGAGGTCAGCAAGTGTGAGATTGCCCGGTTCTATAA
GCTTCATGAGCCCAAGTGTGAGCCCATTGTCATGACTGTGCCAAGAAAGTCGGACCTTTTCCGGATGACCTGCACCCTGA
CACAGCAGGGCCCGAGGCGGCCCTGGAAGCAGAGGAGTGGGTGAGCGGCCGGGCTGCTGACCCCATCCTCATCTCCCTGC
GGGAGGCTTACGTCCCCAGCAAGCAGGGAGACCTGAAGGTCAGCCGGCAGAATGTGCTGTCAGACAGCCGGCCCTCCGCC
ACCCCCGCCCTGACCACTACCAGCAGCAGC

Alignment

ORF - retro_etel_604 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.81 %
• Parental protein coverage: 58.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DTIYSVDWSRDGGLICTSCRDKRVRVIEPRKGTVVAEKDRPHEGTRPVH-AVFVSDGKILTTGFSRMSER
          D.IY.V.W...G.L.C..C.DK.VR.I.PR.GT.VAE....HEG.RP...AVF..DGK.LTTGFSRMSE.
Retrocopy DLIYNVCWNHNGSLFCSACKDKSVRIIDPRRGTLVAEREKAHEGARPMR>AVFLADGKVLTTGFSRMSEW

Parental  QVALWDTKHLSEPLSLQELDTINGR-RPFFELD-NIVYHCGGDSSIRYFEITSEAPYLHYLCMFSSKESQ
          Q.ALW....L.EP..LQELD..N....PF...D...VY.C..DSSIRYFEIT.EAPY.H.L..F.SKE.Q
Retrocopy QLALWGPDNLEEPMALQELDSSNRTLLPFYDPDTSVVYVC--DSSIRYFEITNEAPYIHFLNTFTSKEPQ

Parental  RGMGYMPKRGLEVNKCEIARFYKLHERKCEPIAMTVPRKSDLFQ-EDLYPPTAGPDPALTAEEWFGGRDA
          RGMG.MPKRGLEV.KCEIARFYKLHE.KCEPI.MTVPRKSDLF...DL.P.TAGP..AL.AEEW..GR.A
Retrocopy RGMGSMPKRGLEVSKCEIARFYKLHEPKCEPIVMTVPRKSDLFR<DDLHPDTAGPEAALEAEEWVSGRAA

Parental  GPLLISLKDGYVPSKSRELRVNRG--LDSGRRRAAPESCGTPSS
          .P.LISL...YVPSK...L.V.R...L...R..A.P....T.SS
Retrocopy DPILISLREAYVPSKQGDLKVSRQNVLSDSRPSATPALTTTSSS

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_604 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 ,