RetrogeneDB ID: retro_etel_1387

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_257437:3704..4924(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MPHOSPH10
• Ensembl ID: ENSETEG00000016641
• Aliases: None
• Description: M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein) [Source:HGNC Symbol;Acc:7213]

Sequence

>retro_etel_1387
TCAGGCAACATTTCCAGAAACCTGAAATACAAAGATTTATTTGATCCACTTGAAAGTGATGAAGATAAAGCAAGTATTCA
TGGTGAACTAGGTTCAAATGAAGAAGAAATAGCTGAAGAAAAATAAGGGATTTTTGAAATGGATGAAGGTTTTGACCTTG
AAGAAAATGAAGACAGTAAACAATATAAAGGATTACGATGTGTGACCTTTGCTCTACCAAATGAAAATGAAACTGAAGAT
CTACATAAGTTAAATGTAAAGAAAGATTCTGATGAAATTAAATAATCGTTTGAAAAAAAGACAGGAAAAGAATGAGAAGA
TTGCATTTTTAGAAAAAGAACTGTTGGGGGAAAAACACATGGCAGCTTCAAGGGGAAGTAACAGCACAAAAGAGACCAGA
AAACAGCCTTCCAGAGGAGACCCCGCACTTCGACCATGCAGTCCGGCTGGCACCTGTGATCACAGAGGAAACCACCCTTC
AACTAGAAGATATTATTAAGCAGAGGATAAAAGATCGGGCTTGGGGTGATGTAGTACATAAATAAAAACCCAAAGAAGAC
ACATATGAATGTAAAAAGCATTTAATATTAGACCATGAGAAAAGGAAATTGAGTCTTGCGGAAATTTATGAACAGGAATA
TATCAAACTCAGCCAGCAAAAAACAACAGAAGAAGAAAATCCAGAGCATGTAGAAATTCAGAAGATGATGGATTTGCTTT
TCTTAAAATTGGATGCCCTTTCAAATTTCCACTTCATACCTAAACCTTCTGCACCTGAGATTAAAGTTGTGTCAAATCTC
CCAACAATAGCCGTGGAAGAAGTAGCCCCAGTGAGTGTTAGTGATGAAACTCTCTTGGCCCCTGAGGAAATCAAGGAAAT
AAATAAAGCTGGAGACATAAAAACAGCTGCTGAGAAACCAGCCACAGACGAGAAATGAGAACGAAGGAAAAAGAAATATC
AAAAACATATGAACATAAATTCAAAGGAAACGCAGAGTAAATTGCTAGAAAAGTGTGGCCCAGATCAGGCAGGGAAATAC
ACCAAAGCATTGGCCTCAAATAAATTAAAACAGTTGACAAAGGCAGGCAAAGCATCCCTACTGAAGGATGATGGGAAAGA
CAAGACCTTGAAGTCATCTCAAGCATTCTTTTCTAAGTTACAAGATCAAGTGAAGAAGCAAATCCACGACAAGAAGAAAA
CAGAAATAAGAAAACACAAA

Alignment

ORF - retro_etel_1387 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.35 %
• Parental protein coverage: 97.36 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SGKSSRNLKYKDFFDPLESDEDKASVHDELGSNEEEMAEEK-DIFDMDEGFDLEENEDGKQHKGLRRVTF
          SG..SRNLKYKD.FDPLESDEDKAS.H.ELGSNEEE.AEEK..IF.MDEGFDLEENED.KQ.KGLR.VTF
Retrocopy SGNISRNLKYKDLFDPLESDEDKASIHGELGSNEEEIAEEK*GIFEMDEGFDLEENEDSKQYKGLRCVTF

Parental  ALPDDNETEELNTLSVKKDSGEIKSSFEK-RQEKMNEKIASLEKELLEKK-PWQLQGEVTAQKRPENSLL
          ALP..NETE.L..L.VKKDS.EIK.SFEK.RQEK.NEKIA.LEKELL..K..WQLQGEVTAQKRPENSL.
Retrocopy ALPNENETEDLHKLNVKKDSDEIK*SFEK>RQEK-NEKIAFLEKELLGEK>TWQLQGEVTAQKRPENSLP

Parental  EETLHFDHAVRMAPVITEETTLQLEDIIKQRIRDQAWDDVVRKEKPKEDAYEYKKQLTLDHEKSKLSLAE
          EET.HFDHAVR.APVITEETTLQLEDIIKQRI.D.AW.DVV.K.KPKED.YE.KK.L.LDHEK.KLSLAE
Retrocopy EETPHFDHAVRLAPVITEETTLQLEDIIKQRIKDRAWGDVVHK*KPKEDTYECKKHLILDHEKRKLSLAE

Parental  IYEQEYIKLNQQKTTEEENPEHVEIQKMMDLLFLKLDALSNFHFIPKPPAPEIKVVSNLPAIAMEEVAPV
          IYEQEYIKL.QQKTTEEENPEHVEIQKMMDLLFLKLDALSNFHFIPKP.APEIKVVSNLP.IA.EEVAPV
Retrocopy IYEQEYIKLSQQKTTEEENPEHVEIQKMMDLLFLKLDALSNFHFIPKPSAPEIKVVSNLPTIAVEEVAPV

Parental  SVSDETLLAPEEIKEKNKAGDIKTAAEKTATDKKRERRKKKYQKHMKIKAKEKQSKLLEKSCPDQAGKYT
          SVSDETLLAPEEIKE.NKAGDIKTAAEK.ATD.K.ERRKKKYQKHM.I..KE.QSKLLEK..PDQAGKYT
Retrocopy SVSDETLLAPEEIKEINKAGDIKTAAEKPATDEK*ERRKKKYQKHMNINSKETQSKLLEKCGPDQAGKYT

Parental  KALASNKLKQLTKAGKAXXXXDDGKDKALKSSQAFFSKLQDQVKMQIHDKKKAENRNKK
          KALASNKLKQLTKAGKA....DDGKDK.LKSSQAFFSKLQDQVK.QIHDKKK.E.R..K
Retrocopy KALASNKLKQLTKAGKASLLKDDGKDKTLKSSQAFFSKLQDQVKKQIHDKKKTEIRKHK

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_1387 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
Bos taurus	ENSBTAG00000009854	1 retrocopy	retro_btau_1333,
Echinops telfairi	ENSETEG00000016641	1 retrocopy	retro_etel_1387 ,
Otolemur garnettii	ENSOGAG00000003177	1 retrocopy	retro_ogar_313,