RetrogeneDB ID: retro_macu_17

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 10:26003151..26003823(+)
• Located in intron of: GSMUA_Achr10G19750_001

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr8G01610_001
• Aliases: None
• Description: None

Sequence

>retro_macu_17
AGAGAAAACAGTGACCCCGTCGCGATCGAACTACCGCGGTCGGCTACCTCAGCAGTCTCAAGGGTCGTTCAGGAAGATCT
CCAATCATTCGGACTCAAACCCAACCGTATTGGCCTCGAGGCCACGGCGTAAAGATGTTGACACTAACAGTTTGACGTTA
GAGGAAGGGCCCGAATGTCGAGGGATCGGTAGATCAACCCAGACGAACCCACAACTGAGGAGTTGCACCTGATCAGGGCT
CCGAGGGAACGCCCCTCGCATGGTGAACCTCGAGCTGAGCACCCCGTCGCGACCTCAGAGCGCTATTGGCGGTTATTCAA
TGACCCGGGTTTGTCACCGCCCGAAGGCGCCCCAATCGACCCGTCGCCCGTATCGCCCGAGGCCTTTCAGGACCTCGCTC
ATCAAGTCCAAGCTCTGACTGGGATGGTGCAGACCATTATCCCGCTCATTTCTCATCCGACGCACCCACCTACGATCCAA
CCACTACGACAACAAGAGTCGCCCGTTCGGGCTCACACGGTACCTCCGGAACTCCCCGCGTCGCCTCAGGTCCGATCGGC
CCTGCTCGAGGATCGAGCAATGGGAAACCTGAGCGCCTGCCCGGAGCCCGAGGTGTTATCTTCAGATTTAATGGGCTCCC
TGCGAGCCTAGCTACGCTTCGTTAACCAGCGA

Alignment

ORF - retro_macu_17 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.65 %
• Parental protein coverage: 52.62 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KDKEDILKWGIPNKIIMIALRKSPSDVQA-SSSFLEETATSLRLKVVSHNRLML-KGGLGMSGDHSSGSD
          ....D......P........R....D.Q..S.S.....A...R.K.V..N.L.L..G...MS.D.....D
Retrocopy RENSDPVAIELPRSATSAVSRVVQEDLQS>SDSNPTVLASRPRRKDVDTNSLTL<RGRARMSRDR*INPD

Parental  ESTVERSHPIEVSGEHPSHGDNRDEHPATTSERYWRIFNDQGLSSPNGAPTDSTPVSPEAFQDLARQVRA
          E.T.E..H.I....E.PSHG..R.EHP..TSERYWR.FND.GLS.P.GAP.D..PVSPEAFQDLA.QV.A
Retrocopy EPTTEELHLIRAPRERPSHGEPRAEHPVATSERYWRLFNDPGLSPPEGAPIDPSPVSPEAFQDLAHQVQA

Parental  LMEMVKTIILLVSHPVHPPAIEPLRQRKAPVRAHITLPEPPTSPRVRLAPLGDPVMANPSGRSEPEALSS
          L..MV.TII.L.SHP.HPP.I.PLRQ...PVRAH...PE.P.SP.VR.A.L.D..M.N.S...EPE.LSS
Retrocopy LTGMVQTIIPLISHPTHPPTIQPLRQQESPVRAHTVPPELPASPQVRSALLEDRAMGNLSACPEPEVLSS

Parental  D---SLRAQLRFVNQR
          D...SLRA.LRFVNQR
Retrocopy DLMGSLRA*LRFVNQR

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_17 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr8G01610_001	1 retrocopy	retro_macu_17 ,