RetrogeneDB ID: retro_etel_1447

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_267374:3507..4642(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000004748
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DEPDC7
• Ensembl ID: ENSETEG00000017093
• Aliases: None
• Description: DEP domain containing 7 [Source:HGNC Symbol;Acc:29899]

Sequence

>retro_etel_1447
TTCACAACGGTGCCCAATCAAGACAGTCCATCGGGCAAGGAGAACCAACTTCACTCGCCTTCTCGGGATGCGGGTGCATT
ATTTAAATCATCTGATATCAAATCGGCAAGTTTAGAGGATCTCTGGGAAAATCTGAGTTTAAAGCCCACAAACTCCCCTC
ATGTGAATCTCTCTGCAACCCTGTCTCCAAAAGTGATTAATGAAGTATGGCAAGAAGAAACGATTGGGCGTCTACTTCAA
CTTGTGGACCTTTCCCTTCTTGACTCCTTGCTCAAACAGCGAGACATTGTTCCTAAAGCTCTTCAACCCACGAGGCAGCC
TGACTTGATCTACAACAGTAGCTATCTGGACCGAAGGATTCTCAAGGCTTATAGTGACGCTCAGGAAGATGAGTGGCTCT
CTGCAGCTACTGACTGCGTGGAGTACCTTCCCGACCAGATGGTGGTGGACATAAGCAGAAACTTTCCTGAGCAGCCACAT
AGAACAGACATCGTGAAAGGACTTTTGTTTGATGCCATTGGCAGCTATTACAGTCACAGGGCGCCTCTGTTGAATCACTT
ATCCGATGTCCATAATGGAATTGCCGAACTCTTAGTGAATGGGAACACTGAAATAGCACTGGAAGCTACACAGCTCTTTC
TGAAGCTTTTGGATTCCCCAAACCGAGAAGAATTTAGAAGACTGCTGTATTTCATGGCTGTGCGCCGCACATCCTTCCGA
GTTCAAATTACAGAAAGAAAGTGACAATCGAATGGTTGTAAAAAGGATATTCTCAAAAGCAATTGTTGACAATAAAAATT
TATGCAAAGGCAAGACTGATCTTCTAGTACTCTTTTTAATGGATCATCAAAAAGATGTTTTTAAGATTCCTGGAACTCTA
CATAAAATTGTCAGTGTGAAGCTCATGGCCTTACAAGAGGGGAGAGATCCAAACAGTGAAGCAGGGTATATATATTGCCA
GAGAATGGATCAAATGGACTATCCCAACAGTACACAGAAGACAACCAAAGATGAGCTGCTGAATTTAGTTAAAACTATTG
ATGAGGATTCAAAACTATCTGCCAAAGAGAAGAAAAAATTACTAGGTCAGTTCTATAAGAGCCACCCGAACATTTTTATT
GAGTATTTTGGAGCC

Alignment

ORF - retro_etel_1447 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.63 %
• Parental protein coverage: 73.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FTTVPNQDRPSGKENQLHSPSRDAGALFKSSDIKSASLEDLWENLSLKPTNSPHVSLSATLSPKVINEVW
          FTTVPNQD.PSGKENQLHSPSRDAGALFKSSDIKSASLEDLWENLSLKPTNSPHV.LSATLSPKVINEVW
Retrocopy FTTVPNQDSPSGKENQLHSPSRDAGALFKSSDIKSASLEDLWENLSLKPTNSPHVNLSATLSPKVINEVW

Parental  QEETIGRLLQLVDLSLLDSLLKQRDIVPKAPQPTRQPDLIYNSSYLDRRILKAYSDAQEDEWLSAAIDCL
          QEETIGRLLQLVDLSLLDSLLKQRDIVPKA.QPTRQPDLIYNSSYLDRRILKAYSDAQEDEWLSAA.DC.
Retrocopy QEETIGRLLQLVDLSLLDSLLKQRDIVPKALQPTRQPDLIYNSSYLDRRILKAYSDAQEDEWLSAATDCV

Parental  EYLPDQMVVDISRNFPEQPHRTDIVKGLLFDAIGSYYSHRAPLLNHLSDVHNGIAELLVNGKTEVALEAT
          EYLPDQMVVDISRNFPEQPHRTDIVKGLLFDAIGSYYSHRAPLLNHLSDVHNGIAELLVNG.TE.ALEAT
Retrocopy EYLPDQMVVDISRNFPEQPHRTDIVKGLLFDAIGSYYSHRAPLLNHLSDVHNGIAELLVNGNTEIALEAT

Parental  QLFLKLLDSPNREEFRRLLYFMAV-AAHPSEFKLQKESDNRMVVKRIFSKAIVDNKNLSKGKTDLLVLFL
          QLFLKLLDSPNREEFRRLLYFMAV.AAHPSEFKLQKESDNRMVVKRIFSKAIVDNKNL.KGKTDLLVLFL
Retrocopy QLFLKLLDSPNREEFRRLLYFMAV>AAHPSEFKLQKESDNRMVVKRIFSKAIVDNKNLCKGKTDLLVLFL

Parental  MDHQKDVFKIPGTLHKIVSVKLMALQEGRDPNSEAGYIYCQRMDQMDYPNSTQKTTKDELLNLVKTIDED
          MDHQKDVFKIPGTLHKIVSVKLMALQEGRDPNSEAGYIYCQRMDQMDYPNSTQKTTKDELLNLVKTIDED
Retrocopy MDHQKDVFKIPGTLHKIVSVKLMALQEGRDPNSEAGYIYCQRMDQMDYPNSTQKTTKDELLNLVKTIDED

Parental  SKLSAKEKKKLLGQFYKSHPNIFIEYFGA
          SKLSAKEKKKLLGQFYKSHPNIFIEYFGA
Retrocopy SKLSAKEKKKLLGQFYKSHPNIFIEYFGA

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_1447 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012405	1 retrocopy	retro_dnov_1210,
Echinops telfairi	ENSETEG00000017093	1 retrocopy	retro_etel_1447 ,
Loxodonta africana	ENSLAFG00000008704	1 retrocopy	retro_lafr_539,
Monodelphis domestica	ENSMODG00000009718	1 retrocopy	retro_mdom_1180,