RetrogeneDB ID: retro_macu_31

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 10:28853620..28854061(-)
• 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_31
ATTCATGATGGCATCGACGATGTCCGACTCCGATAGGTCCAAATCGCGTAAGAACTGAAACTTCGGCGCGAGGTTCTTCT
CCACGTTGTAGCACAAGTATCTGGGATACGCAGATATCACCTTCCTGATACCGGCGCCGTCGAAGCCCTGAGATCTCATG
AAGTTAAGGACGGCGTCTGGTTTCTTGGTGGCTCGGAGGTGCGCAAGAGGTTTAGAGACCTTGGCTGCCTCGGAGGGGGA
GAACCCCCAGGAGTTTACGAGGTATTCCACCATGAAGTGGGGATCTGGAGACATGGTGCCGCCTACGGTGACGGCGGCAG
CGTCTACAGAGGAGGAGAAGAAGAGGCGGTCTCGAAGGTGGCAGGTTTCGAACAAGGGCAGGAGGCGATTGCGGCGGAGC
ACGGAGCGGAGCGTCGCAGCCGCCATTGTGGGAGACGAAAG

Alignment

ORF - retro_macu_31 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.79 %
• Parental protein coverage: 76.04 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VHTNIRDCRGIPSSSALATKARSDFGLFVI-NLAGIRRYHLPDTGAIEALRSHEVKDGVGFLGGSEVRKR
          .H..I.D.R......A...K.R....L.V.....GIRRYHLPDTGA.EALRSHEVKDGV.FLGGSEVRKR
Retrocopy IHDGIDDVRLR*VQIA*ELKLRREVLLHVVAQVSGIRRYHLPDTGAVEALRSHEVKDGVWFLGGSEVRKR

Parental  LRELGYLGGGEPAGVHEVFHHEVGIWRHGAAYGDGGSVDRGGEEEAISKAAGFEQGKEAIAAEYGAQRRS
          .R.LG.LGGGEP.GV.EVFHHEVGIWRHGAAYGDGGSV.RGGEEEA.SK.AGFEQG.EAIAAE.GA.RRS
Retrocopy FRDLGCLGGGEPPGVYEVFHHEVGIWRHGAAYGDGGSVYRGGEEEAVSKVAGFEQGQEAIAAEHGAERRS

Parental  RHRGRGK
          RH.GR.K
Retrocopy RHCGRRK

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_31 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,