RetrogeneDB ID: retro_macu_7

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 3:9363385..9363841(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GSMUA_Achr3G12630_001
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr7G17320_001
• Aliases: None
• Description: None

Sequence

>retro_macu_7
ATGGAGTTGTACGCGGACGTGACGCCGAAGACGGCGGAGAACTTCCGGGCCCTCTGCACGGGCGAGAAGGGGATGGGGCG
CTGCGGCAAGCCCCTCCACTACAAGGGTTCCTCCTTCCACCGGGTGATCCCCGGGTTCATGTGCCAGGGCGGTGACTTCA
CTCGCGGCAACGGCACCGGCGGAGAGTCGATCTACGGGGAGAAGTTCGCCGACGAGAACTTCGTGAAGAAGCACACGGGC
CCTGGCGTGCTTTCCATGGCGAACGCCGGGAAGCATACTAACGGGTCGCAGTTCTTCATCTGCACCGCGCAGACCTCGTG
GCTCGATGGCAAGCACGTCGTGTTCGGCCGCGTGGTGGAGGGGTTGGAGGTGGTGAAGGCCATCGAAGCGGTGGGATCGC
AAAGCGGCACCACCAAGAAGACCGTCGTCGTCGCCGACTGCGGTCAGCTGTCTTAG

Alignment

ORF - retro_macu_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.33 %
• Parental protein coverage: 71.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGLFGKAVPKTAENFRALCTGEKGIGKSGKTLHYKGSAFHRIIPSFMIQGGDFTLGDGRGGESIYGSKFA
          M.L.....PKTAENFRALCTGEKG.G..GK.LHYKGS.FHR.IP.FM.QGGDFT.G.G.GGESIYG.KFA
Retrocopy MELYADVTPKTAENFRALCTGEKGMGRCGKPLHYKGSSFHRVIPGFMCQGGDFTRGNGTGGESIYGEKFA

Parental  DENFKLKHTGPGLLSMANAGPDTNGSQFFITTVTTSWLDGKHVVFGKVLSGMDVVYKIEAEGRQNGSPKS
          DENF..KHTGPG.LSMANAG..TNGSQFFI.T..TSWLDGKHVVFG.V..G..VV..IEA.G.Q.G..K.
Retrocopy DENFVKKHTGPGVLSMANAGKHTNGSQFFICTAQTSWLDGKHVVFGRVVEGLEVVKAIEAVGSQSGTTKK

Parental  KVVIADSGEL
          .VV.AD.G.L
Retrocopy TVVVADCGQL

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_7 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_31129	1 retrocopy	retro_atau_3,
Musa acuminata	GSMUA_Achr7G17320_001	1 retrocopy	retro_macu_7 ,
Musa acuminata	GSMUA_Achr10G06300_001	1 retrocopy	retro_macu_5,
Oryza nivara	ONIVA06G29530	1 retrocopy	retro_oniv_31,