RetrogeneDB ID: retro_etel_449

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_7419:61387..62100(+)
• Located in intron of: ENSETEG00000012566

Retrocopy information

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

Parental gene information

• Parental gene symbol: DNAJC3
• Ensembl ID: ENSETEG00000003185
• Aliases: None
• Description: DnaJ (Hsp40) homolog, subfamily C, member 3 [Source:HGNC Symbol;Acc:9439]

Sequence

>retro_etel_449
AGTGAAAATGAGGAAAAGGAAGCCCAGGCCCAACTTTTGAAGTCTGATGAAATGCAACACTGCTGCTCACAGCACGTTAA
GCTTTCGAAGATGCAGATTAAACTGCTGCCATCACCTTCCTTGATAAGATGGTAGAGGTTTGTGTTTGGGATGCAGACTT
ATGAGAACTTCGAGCTGAAGGTTTCATGAAAGGAAGGGAACCTAAGAAAGCCATCAGTGATTTAAAAGCTGCATCCAAAT
TGAAGAATGGTAACCCAGAGGCCTTTCGTAAAATCAGCACACTGTACTACCAACTAGGAGACCATGAAATGTCCCTCAGT
GAAGTCCGTGAATGTCTTAAACTTGACCAGGATCATAAAAGGTGTTTTGCACACTATAAATAAGTGAAGAAACTGAGTAA
GCTGATTGAGTCACCCGAAGAGCTCATCAGAGGTGGCAGGTACATGGATGCGACCAGCAAATATTAATCTGTAATGAAAA
CAGAGCCAAGTGTTTCTGATTATATAATTCATTCAAAAGAAAAAATCTGCCACTGCTTTTCTAAGGACGAGAAGCCTGTT
GAAGCTCTTACAACCTGTTCTGACGTTTTATAGCTGGAACCTCATAATGTGAATGCTCTGAAAGAGCAAGCAGAGGCCTA
TTATATAGAGGAAATGTATGATGAAGCTATGGAGGGTTATGAAACTGCTCAGGAGCACAATGAAAAGGACCAG

Alignment

ORF - retro_etel_449 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.92 %
• Parental protein coverage: 52.08 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SENEEKEAQAQLLKSGEMQHLRSQ-ALYAFEGADYTAAITFLDTILEVCVWDADLRELRAECFIQEGEPR
          SENEEKEAQAQLLKS.EMQH..SQ.A..AFE.AD.TAAITFLD...EVCVWDADL.ELRAE.F....EP.
Retrocopy SENEEKEAQAQLLKSDEMQHCCSQ<AR*AFEDAD*TAAITFLDKMVEVCVWDADL*ELRAEGFMKGREPK

Parental  KAISDLKAASKLKNDNTEAFYKISILYYQLGDHEMSLSEVRECLKLDQDHKRCFAHYKQVKKLSKLIESA
          KAISDLKAASKLKN.N.EAF.KIS.LYYQLGDHEMSLSEVRECLKLDQDHKRCFAHYK.VKKLSKLIES.
Retrocopy KAISDLKAASKLKNGNPEAFRKISTLYYQLGDHEMSLSEVRECLKLDQDHKRCFAHYK*VKKLSKLIESP

Parental  EELIRDGRYTEATSKYESVMKTEPSVSEYTIRSKERICHCFSKDEKPVEAIRTCSEVLQLEPDNVNALKD
          EELIR.GRY..ATSKY.SVMKTEPSVS.Y.I.SKE.ICHCFSKDEKPVEA..TCS.VL.LEP.NVNALK.
Retrocopy EELIRGGRYMDATSKY*SVMKTEPSVSDYIIHSKEKICHCFSKDEKPVEALTTCSDVL*LEPHNVNALKE

Parental  RAEAYLIEEMYDEAIQDYGIAQEQNENNQ
          .AEAY.IEEMYDEA...Y..AQE.NE..Q
Retrocopy QAEAYYIEEMYDEAMEGYETAQEHNEKDQ

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_449 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000003185	1 retrocopy	retro_etel_449 ,