RetrogeneDB ID: retro_macu_68

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 7:10661674..10662101(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr2G01730_001
• Aliases: None
• Description: None

Sequence

>retro_macu_68
ATAACCCTAAAGCTTTTCATCAAGCTTTACGGGCTTCTCGTTTGGAGGATCGAGAGCAAGTTCAATGCAATGATAACTTT
AAACATTTCTTCATGAGTAAGATCAATCGACAATCGCCAATCTCCCTCGAGAGAGTCATTATTTATTTTCATGAAAGGAA
AAGATAATAAGATAGTCATTATTGTTGATATAGTAGCATATGATAAAGAGAATGTACAAAGTGTCAACCATGAAGGTGAC
AACTCTGAGATTCATGAAGACTACTAGTGCGAGAATTTTGAAGGCCAATGGGGAGTGCTCGATTTTCGACCAACTCGTCC
TCTAAACTCTTCTCGGATAGAACACAATTATCTAAAGAGGCTCAAAGAATGCCTAGGAAGTCATTAAACATTTTGGTAAA
ACTTCTAATGTGCTCTCCATCCACTCG

Alignment

ORF - retro_macu_68 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.75 %
• Parental protein coverage: 69.15 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VYLKLLVKLYRFLVRRTESKFNAVILKRL---FMSKNNRPPISLKRLITFMERKDDKIAVIVGTVTDDK-
          ..LKL..KLY..LV.R.ESKFNA.I.........S..NR...S...L..FM..KD.KI..IV..V..DK.
Retrocopy ITLKLFIKLYGLLVWRIESKFNAMITLNISS*VRSIDNRQSPSRESLFIFMKGKDNKIVIIVDIVAYDK>

Parental  RVYDVPAMKVTALRFTETARARILKAGGECLTFDQLALRAPLGQNTVLLRGPKNAREAVKHFGKAPGVPH
          R.Y.V..MKVT.LRF..T..ARILKA.GEC..FDQL.L...LG.NT...RG.KNA.E..KHFGK...V..
Retrocopy RMYKVSTMKVTTLRFMKTTSARILKANGECSIFDQLVL*TLLG*NTII*RGSKNA*EVIKHFGKTSNVLS

Parental  SHT
          .H.
Retrocopy IHS

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_68 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr2G01730_001	1 retrocopy	retro_macu_68 ,
Triticum aestivum	Traes_2AS_E714D8C86	1 retrocopy	retro_taes_47,