RetrogeneDB ID: retro_etel_696

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_14659:15191..16611(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000010419
• Aliases: None
• Description: None

Sequence

>retro_etel_696
ATGGCCACCAACTCGTGGCCTCTGGCGGTTGATGAGCAGGAAGCAGCTGTCAAATGGATGAACAGCTTGCAGATTAAGGA
AGAGAAGAACAAAGCAGATACCAACGGAGTTATCAAAACTGATGCTCCTCCAGAGAAAACAAATGAAGAAGAAAAAGAGG
ACAAAGCCACCCAGTCCTTACTCAATAAGCTGATCAGAAGCAACTTGATCGATAACACAAACCAGGTGGAAGTCTTGCAG
CGGTACCCAAACTCTCCCCTCTACTCTGTAAAGTCTTTTGAATAGCTCAAGCTGAAACCACAGCTTCTCCAGGGAGTCTA
CGCCATGGGCTTCAACCAACCCTCCAAGATACAAGAGAGCGCATTACCCATGATACCTGCTGATTCCCTACAGAATCTGA
TTGCTCAGTCTCAGTCTGGTACTGGCAAGACGGCTGCCTTTGTCTTGGCCATGCTCAGCCGAGTGGAACCAACAGACACA
TGCCCCCAGTGTTTGTACCTCTCCCCAACTTATGAGCTGGCTCTTCAAACCGAAAAAAGTGATTGAGCAGATGGTCAAAT
TTTATCCAGAGCTAAAGCTTGCCTATGCTGTTCAAGGCAATAAATTGGAAAGAGGTCAAAAGATCAGTGAACAGATTGTC
ATCCGCACCCTTGGAATCGTGCTGGACCGGTGTGCCAAGTTCAATTTCATTGACCCCAAGAAGATCAAGATGTTTGTTCT
GGATGAGGCTGATGTAATGATAGCCACTCAGGGCCACCAGGATCAGAGAATCCGCATCCAGAGGATGCTGCCCAGGAATT
GCCAGATGCTGCTTTTCTCGGCCACTTTTGAAGACTCCGTGTGGAAGTTTTCCCAGAAAGTGGTCCCCGACCCCAACATC
ATCAAACTGAAGCATGAGGAGGAGACCTTGGACACCATCAAGCAGTATTACATCCTAGGCAATAACAGAGACGAGAAGTT
CCAAGCCTTCTATAACCTCTACGGAGCTATCACCATTGCCCAAGCCACGATCTTCCGCCACACCCACAAGACAGCAGCAG
AGCTCTTGAAGGAAGGCCACCAGGTGGCTCTTCTGACTGGTGAGATGGTGGTGGAGCAGAGAGCTGTGGTGATGGAGCGC
TTCTGAGAGGGCAAGGAGAAGGTTCTGGTGACCACCAACGTGTGCGCCCGGGGCATCGATGTGGAGCAAGTGTCTGTCGT
CATCAACTTTGCCCTTCCAGGGGACAAGGATGTGAACCCGGACAATGAGAGGTACCTGCACCGCATCAGGCGCACTGGCT
GCTTTGGCAAGAGAGGCCTGGCCATGAACATGGTGGACAGCAAGCACAGCATGAACATCCTCAACAGGATCCAGGAGCAT
TTCAATAAGAAGATATAAAGATTGGACACGGATGACTTAGACTAGATTGAGAAAATCGCC

Alignment

ORF - retro_etel_696 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.66 %
• Parental protein coverage: 99.79 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MATDSWALAVDEQEAAVKSMNSLQIKEETSKADTNGVIKTSAPPEKINEEEKEDKAAQSLLNKLIRSNLV
          MAT.SW.LAVDEQEAAVK.MNSLQIKEE..KADTNGVIKT.APPEK.NEEEKEDKA.QSLLNKLIRSNL.
Retrocopy MATNSWPLAVDEQEAAVKWMNSLQIKEEKNKADTNGVIKTDAPPEKTNEEEKEDKATQSLLNKLIRSNLI

Parental  DNTNQVEVLQRDPNSPLYSVRSFEELRLKPQLLQGVYAMGFNRPSKIQESALPMMLAEPPQNLIAQSQSG
          DNTNQVEVLQR.PNSPLYSV.SFE.L.LKPQLLQGVYAMGFN.PSKIQESALPM..A...QNLIAQSQSG
Retrocopy DNTNQVEVLQRYPNSPLYSVKSFE*LKLKPQLLQGVYAMGFNQPSKIQESALPMIPADSLQNLIAQSQSG

Parental  TGKTAAFVLAMLSRVEPTDTCPQCLCLSPTYELALQT-GKVIEQMGKFYPELKLAYAVRGNKLERGQKIS
          TGKTAAFVLAMLSRVEPTDTCPQCL.LSPTYELALQT..KVIEQM.KFYPELKLAYAV.GNKLERGQKIS
Retrocopy TGKTAAFVLAMLSRVEPTDTCPQCLYLSPTYELALQT>KKVIEQMVKFYPELKLAYAVQGNKLERGQKIS

Parental  EQIVIGTPGTVLDWCAKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDS
          EQIVI.T.G.VLD.CAK..FIDPKKIK.FVLDEADVMIATQGHQDQ.IRIQRMLPRNCQMLLFSATFEDS
Retrocopy EQIVIRTLGIVLDRCAKFNFIDPKKIKMFVLDEADVMIATQGHQDQRIRIQRMLPRNCQMLLFSATFEDS

Parental  VWKFAQKVVPDPNIIKLKREEETLDTIKQYYVLCNNRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLA
          VWKF.QKVVPDPNIIKLK.EEETLDTIKQYY.L.NNRDEKFQA..NLYGAITIAQA.IF.HT.KTA....
Retrocopy VWKFSQKVVPDPNIIKLKHEEETLDTIKQYYILGNNRDEKFQAFYNLYGAITIAQATIFRHTHKTA----

Parental  AELSKEGHQVALLSGEMVVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN
          AEL.KEGHQVALL.GEMVVEQRA.V.ERF.EGKEKVLVTTNVCARGIDVEQVSVVINF.LP.DKD.NPDN
Retrocopy AELLKEGHQVALLTGEMVVEQRAVVMERF*EGKEKVLVTTNVCARGIDVEQVSVVINFALPGDKDVNPDN

Parental  ETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDEIEKIA
          E.YLHRI.RTG.FGKRGLA.NMVDSKHSMNILNRIQEHFNKKI.RLDTDDLD.IEKIA
Retrocopy ERYLHRIRRTGCFGKRGLAMNMVDSKHSMNILNRIQEHFNKKI*RLDTDDLD*IEKIA

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_696 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000010419	1 retrocopy	retro_etel_696 ,
Ictidomys tridecemlineatus	ENSSTOG00000006938	1 retrocopy	retro_itri_1336,