RetrogeneDB ID: retro_macu_23

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 10:28399557..28399941(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr10G24310_001
• Aliases: None
• Description: None

Sequence

>retro_macu_23
AAACTTCGGGGCGAGGTTCTTCTCCACGTTGTAGCATAAGTATCTAGGATCCGCAGATATCACCTTCCTGATACCGGCGC
CGTCGAAGCCCTGAGATCTCATGAAGTTAAGGATGGCGTCGGGTTTCTCGGTGGCTCGGAGGTGCGCAAGGGGTTTAGAG
ACCTTGGCTGCCTCGGAGGGGGAGAACCCGCAGGAGTTCACGAGGTATTCCACCATGAAGTGGGGATCTGGAGACATGGT
GCCGCCTACGGTGACGGCGGCAGCGTCGACAGAGGAGGAGAAGAAGAGGCGATCTCGAAGGTGGCAGGTTTCGAATAAGG
GCAGGAGGAGATTGCGGCGGAGTACGGAGCGGAGCGTCGCAGCCGCCATTGTGGGAGAAGAAAG

Alignment

ORF - retro_macu_23 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.25 %
• Parental protein coverage: 66.15 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KARSDFGLFVIN-LAGIRRYHLPDTGAIEALRSHEVKDGVGFLGGSEVRKRLRELGYLGGGEPAGVHEVF
          K.R....L.V......IRRYHLPDTGA.EALRSHEVKDGVGFLGGSEVRK..R.LG.LGGGEPAGVHEVF
Retrocopy KLRGEVLLHVVA*VSRIRRYHLPDTGAVEALRSHEVKDGVGFLGGSEVRKGFRDLGCLGGGEPAGVHEVF

Parental  HHEVGIWRHGAAYGDGGSVDRGGEEEAISKAAGFEQGKEAIAAEYGAQRRSRHRGRGK
          HHEVGIWRHGAAYGDGGSVDRGGEEEAISK.AGFE.G.E.IAAEYGA.RRSRH.GR.K
Retrocopy HHEVGIWRHGAAYGDGGSVDRGGEEEAISKVAGFE*GQEEIAAEYGAERRSRHCGRRK

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_23 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr10G24310_001	11 retrocopies	retro_macu_23 , retro_macu_26, retro_macu_27, retro_macu_28, retro_macu_29, retro_macu_30, retro_macu_31, retro_macu_32, retro_macu_33, retro_macu_34, retro_macu_99,