RetrogeneDB ID: retro_macu_51

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 5:12288177..12288741(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr2G11080_001
• Aliases: None
• Description: None

Sequence

>retro_macu_51
GAGACTTCCTTTCATGTTCGTTCAGTCAGTCTGCCATCCCAAGTTCAACCAACAACGCTATGGATCGTAGAAGAGCTGCA
AAAACTCAATACTTTTGTAGAATCATCAGTTTCGACAGTTCCCTCCATGACAAGGGAGATGATTTCCAATGGATTGAGGC
AGCTTGCTAATATGCATGATGGCATTGAGGATCTTCTTCGCCTTCCAAGCATCCAACAAGGCCTATTCTACTCTGACCAG
AGGAAATGGTTGGAGGAGGATGTGGAGGGATTAATGAGGTTACTGGACCTCTGTGGCACCATGAAGGATGCAACCACCAC
ATTGAAAGAGTATGTTCACGATCTTCGGTTTGCACTTGGAAGAAGAGGTGACAACTCTACTGGACAAAGGGTGCAGGATT
ACGTTCGCTCGAGGAAGGAGATACAGAAGATCATTAAGAAAAGCTATAAAGATTTGAAGCAAATGGATGGCAGATGTCAA
CCAGCCTCTCTGATCTCGCAAGACCCGAATCTCTCGGTGGTCTTAAATGTGTTGAATGAGGCAAGAGAGATTACTATATC
TCTT

Alignment

ORF - retro_macu_51 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.47 %
• Parental protein coverage: 84.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EKTFHVRSVSLPSRTHPTTFRVEEELHKLKPFVESSLASMPSITNEVICNGLKDLAALYDGIEDLLHQPN
          E..FHVRSVSLPS...PTT....EEL.KL..FVESS....PS.T.E.I.NGL..LA...DGIEDLL..P.
Retrocopy ETSFHVRSVSLPSQVQPTTLWIVEELQKLNTFVESSVSTVPSMTREMISNGLRQLANMHDGIEDLLRLPS

Parental  IQQGLRRSNQTKALEEDVDGSMRLLDLCGTMKDAVVTSKEHAQDLQLALRRRGDSSTGEKVHAYICSRKE
          IQQGL..S.Q.K.LEEDV.G.MRLLDLCGTMKDA..T.KE...DL..AL.RRGD.STG..V..Y..SRKE
Retrocopy IQQGLFYSDQRKWLEEDVEGLMRLLDLCGTMKDATTTLKEYVHDLRFALGRRGDNSTGQRVQDYVRSRKE

Parental  TQKTIKKCYKDLKQMDAKCQCVSLTSEDSDLPAMRTMMGQNQLKALEISL
          .QK.IKK.YKDLKQMD..CQ..SL.S.D..L.........N......ISL
Retrocopy IQKIIKKSYKDLKQMDGRCQPASLISQDPNLSVVLNVL--NEAREITISL

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_51 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_Achr2G11080_001	1 retrocopy	retro_macu_51 ,