RetrogeneDB ID: retro_etel_928

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_185531:7449..8345(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000001110
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000014303
• Aliases: None
• Description: None

Sequence

>retro_etel_928
GATTCCAGCCTAGTTGCTGCCCCCCTGATGAAGCAGCTTAAAGAGGCCCACGTTCAGTATCCCTTCCAGACGTTTGCGAT
TGGTATGGAAGACAGTCCTGATTTCCAGGCAGCTAGAAAAGGAGCAAATCACATCGGAAGTGAGCACCACGAGGTCCTCT
TTAATGCTGACGAAGGAATTCAGGCCCTGGATGAAGCCATATTTTCCTTGGAAACTTATGACATTACAACAGTTTGTGCT
TCCGCAGTATGTATTTAATTTCCAAATACATCCAGAAGAACACAAATAGTGTGGCGATCTTCTCTAGAGAAGGTTCAGAT
GAACTTACATAAGGTTACCTGCATTTTCACAAGGCCCCGTCTGCTGAGAAAACTGAGGAAGAGAGTGAGAGGCTCCTAAG
AGAACTCTACTTATTTGATGTTCTCCGTGCATATAGAACTACTGCTGTCCATGGCCTTGAATTGAGAGTCCCGTTCCTGG
ATCACCGATTCACTTCCTACCACTTGTCTCTCCCACCAGAAATGTGGATTCCAAAGCATGGGATAGAGAAACATCTCCTG
TGAGAGTCCTTTGAGGACACTAACCTGTTACCTAAAGAGATTCTTTGGTGACCGAAAGAAGCTTTAAGCGACGGGATAAC
CTCGGTAAAGAATTCTTGGTTTAAGATTTTACAGGACTTTGTTGAACATCATGCTGATGATACAATGATGGCAACTGCCT
CCGAGAAGTTTCCCTTCCACACTCTGCAAACGAAAGAAGCTCACTACTACCGCCAGCTCTCTGAACACCACTACCCTGGT
GAGGCTGACTGGCTGATCCATTACTGGATGCCTAAGTGGACCAATGACACTGACCCTTCCGCCGGTACACTCACCCATTA
CAAGTCAGCTGCCCAA

Alignment

ORF - retro_etel_928 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.0 %
• Parental protein coverage: 52.96 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DSSLVAATLWRQLKEAHVQYPFQTFAIGMEDSPDL-AARKVANHIGSEHPEVLFNSEEGIQALDEVIFSL
          DSSLVAA.L..QLKEAHVQYPFQTFAIGMEDSPD..AARK.ANHIGSEH.EVLFN..EGIQALDE.IFSL
Retrocopy DSSLVAAPLMKQLKEAHVQYPFQTFAIGMEDSPDFQAARKGANHIGSEHHEVLFNADEGIQALDEAIFSL

Parental  ETYDITTVRASV-GMYLVSKYIRKNTNSVVIFSGEGSDELTQGYIYFHKAPSAEQAEEESERLLRELYLF
          ETYDITTV.AS...MYL.SKYI.KNTNSV.IFS.EGSDELT.GY..FHKAPSAE..EEESERLLRELYLF
Retrocopy ETYDITTVCASA<SMYLISKYIQKNTNSVAIFSREGSDELT*GYLHFHKAPSAEKTEEESERLLRELYLF

Parental  DVLRADRTTAAHGLELRVSF-DHRFTSYYLSFPPEMRIPKHGAEKHLLREAIEDTNRFPKAILWRPKEAF
          DVLRA.RTTA.HGLELRV.F.DHRFTSY.LS.PPEM.IPKHG.EKHLL.E..EDTN..PK.ILW.PKEA.
Retrocopy DVLRAYRTTAVHGLELRVPFLDHRFTSYHLSLPPEMWIPKHGIEKHLL*ESFEDTNLLPKEILW*PKEAL

Parental  SDGKTSVKNSWFQILQDFVEHQADDTRRATASEKFP-STPKTKEASYYRQTFERHDPGRG-WLTHYWRPK
          SDG.TSVKNSWF.ILQDFVEH.ADDT..ATASEKFP..T..TKEA.YYRQ..E.H.PG...WL.HYW.PK
Retrocopy SDGITSVKNSWFKILQDFVEHHADDTMMATASEKFPFHTLQTKEAHYYRQLSEHHYPGEADWLIHYWMPK

Parental  WISATDPSAHTLTHYKSAAK
          W...TDPSA.TLTHYKSAA.
Retrocopy WTNDTDPSAGTLTHYKSAAQ

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_928 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000014303	1 retrocopy	retro_etel_928 ,
Loxodonta africana	ENSLAFG00000000909	1 retrocopy	retro_lafr_130,
Tursiops truncatus	ENSTTRG00000003498	1 retrocopy	retro_ttru_411,