RetrogeneDB ID: retro_macu_41

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 2:7042195..7042525(+)
• Located in intron of: GSMUA_Achr2G01280_001

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_AchrUn_randomG26900_001
• Aliases: None
• Description: None

Sequence

>retro_macu_41
ATGTCGTATGAGCATAGTTTTAGAAAAAAAACGTGATAGTTAAAAGTTTTTGCAATGTCGAGGTTCGATCGATTTTTTGC
GCACCATCTCAAAAATTCAAAAAATTGATCACTCATAACATATTTGCCCTAGGGTAGTCAATATAAGCATAGTTTCGGAA
AAAGATGTGACAGTCATAAACTTTACGAAAAATCGAAGTTTAATTGGTTTATTATGCACCGTCTCAAAATTTTATTAACC
ATTCCTAACATATTAGCCCAAGAAAATTTGGGCATAATGTTGACCATTCCCAACATATTATCTCAAGAAAATTTGTACAA
GCCAAGTAGG

Alignment

ORF - retro_macu_41 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.43 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSYEHSFRKKN-VIVKSFCNVEVRSIFCALSQKFKILTIPKKFTFRKS-YMLGFVKKRGGHKFCTKSRFD
          MSYEHSF.....VIVKSFCNVEVRSIFCA.SQKFK.L.....F....S.Y...F.K....HK...KS...
Retrocopy MSYEHSFXXXX<VIVKSFCNVEVRSIFCAPSQKFKKLITHNIFALG*S>YKHSFGKRCDSHKLYEKSK--

Parental  RFNRFIMNRLKILLTIPNILAQENLGIMLTIPNILSQENLYKPSR
          .FN.FIM.RLKILLTIPNILAQENLGIMLTIPNILSQENLYKPSR
Retrocopy -FNWFIMHRLKILLTIPNILAQENLGIMLTIPNILSQENLYKPSR

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_41 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_AchrUn_randomG26900_001	7 retrocopies	retro_macu_100, retro_macu_102, retro_macu_108, retro_macu_110, retro_macu_41 , retro_macu_97, retro_macu_98,