RetrogeneDB ID: retro_macu_52

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 5:26415428..26416451(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr8G28120_001
• Aliases: None
• Description: None

Sequence

>retro_macu_52
TCTCTGAAATTAGAGGACAATGAAGTAGACATCGTCGTTGCTGCACTCCGTCCTAACCTTAATACTTTTCTGGAGGAATG
GCGATCATTCTTTTCCAATTTCCACCTTATTATTGTAAAAGATCCTAACTTGGAAGAGGACCTTCAGATTCCCCCAGGGT
TCGACCATCAGGTGTATACTAAATCTGACATGGACAGAGTTCTAAATGGTGCTTCCATTAACTTCTCTGGACATTCATGC
CGCTACTTTGGGTATCTCATTTCTCGAAAGAAATATATAATCTCAATTGATGACGACTGCCTTCCAGCTAGGGACAACTC
TGGTGTCATAGTTGATGCTGTGGCACAACACATATCCAACCTCCAGACACCTGCCACGCCGTTCTTCTTCAATACACTCT
ATGATCCATATCGTCAGGGTGCGGATTTTGTCCGTGGGTACCCATTCAGTTTGCGTGATGGTGTTGAATGCCTGTTATCA
TGTGGTTTGTGGCTGAACATAGCTGACTATGATGCTCCAACTCAGATTGTCAAGCCACATGAGCGGAACACTCGTTATGT
AGATGCAGTAATGACTGTTCCGCTCAGGGCAATGATGCCGTTGAGTGGAATAAATATTGGATTCAACAGGGAGGTGCTAG
GGCCTGCATTGGTTCCAGGACTGCGGTTAGACGGGGAGGGGAAGCGAAGATGGGAAACTATAGAGGATATATGGTCAGGA
ATGTGTGCGAAAGTGATTTGCGACCACTTGGGATGTGGTGTGAAGAGTGGGCTGCCTTACGTATGGAGAGGTGTCGGTTC
AGACGCAGACAACGCTATGGATAGTCTGAAGAAGGAATGGGAAGGGGTGAAGTTGATGGAGGAGGTAGTTCCCTTCTTCC
AGTCTGTGAAGTTCCCGAAGACTGCAGTCACAGCAGCTGATTGTGTGATTGAAATTTCAAGGATGGCAAGGGAGAATCTA
GCAAGTCTGAATCCAGTATACGCACAAGCAGCAGATACCATGGAAGCATGGGTCGATCTCTGG

Alignment

ORF - retro_macu_52 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.19 %
• Parental protein coverage: 90.05 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SISLLKDELDIVIPTIR-NLD-FLEMWRPFFQPYHLIIVQDGDPSKTIRVPDGFDYKLYNRNDINRILGP
          S..L...E.DIV....R.NL..FLE.WR.FF...HLIIV.D.........P.GFD...Y...D..R.L..
Retrocopy SLKLEDNEVDIVVAALRPNLNTFLEEWRSFFSNFHLIIVKDPNLEEDLQIPPGFDHQVYTKSDMDRVLN-

Parental  KAACISFKDSACRCFGYLISKKKYIFTIDDDCFVAKDPSGKEINALEQHIKNLLSPSTPFFFNTLYDPYR
          ..A.I.F....CR.FGYLIS.KKYI..IDDDC..A.D.SG....A..QHI.NL..P.TPFFFNTLYDPYR
Retrocopy -GASINFSGHSCRYFGYLISRKKYIISIDDDCLPARDNSGVIVDAVAQHISNLQTPATPFFFNTLYDPYR

Parental  EGADFVRGYPFSLREGVQTAVSHGLWLNIPDYDAPTQLVKPLERNKRYVDAVLTVPMGTLFPMCGMNLAF
          .GADFVRGYPFSLR.GV....S.GLWLNI.DYDAPTQ.VKP.ERN.RYVDAV.TVP.....P..G.N..F
Retrocopy QGADFVRGYPFSLRDGVECLLSCGLWLNIADYDAPTQIVKPHERNTRYVDAVMTVPLRAMMPLSGINIGF

Parental  NRELIGPAMYFGLMGDGQPIGRY---DDMWAGWCMKVICDHLGLGVKTGLPYIWH---SKASNPFVNLKK
          NRE..GPA...GL..DG....R.....D.W.G.C.KVICDHLG.GVK.GLPY.W....S.A.N....LKK
Retrocopy NREVLGPALVPGLRLDGEGKRRWETIEDIWSGMCAKVICDHLGCGVKSGLPYVWRGVGSDADNAMDSLKK

Parental  EYKGIYWQEELIPFFQTAVLPKECTTVQTCYLELSKLVKAKLGKVDDYFNKLADAMVTWIEAW
          E..G....EE..PFFQ....PK...T...C..E.S......L..........AD.M..W...W
Retrocopy EWEGVKLMEEVVPFFQSVKFPKTAVTAADCVIEISRMARENLASLNPVYAQAADTMEAWVDLW

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Musa acuminata was not studied using RNA-Seq expression data.

ChIP-Seq

Musa acuminata was not studied using ChIP-Seq data.

EST

Musa acuminata was not studied using EST data.

TSS

Musa acuminata was not studied using FANTOM5 data.

Lab

retro_macu_52 was not experimentally validated.

Homology

Retrocopy orthology:

Musa acuminata 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr8G28120_001	1 retrocopy	retro_macu_52 ,
Prunus persica	PRUPE_ppa007588mg	1 retrocopy	retro_pper_48,