RetrogeneDB ID: retro_macu_6

Retrocopy location

• Organism: Wild banana (Musa acuminata)
• Coordinates: 9:6208146..6210420(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GSMUA_Achr9G09530_001
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GSMUA_Achr2G11210_001
• Aliases: None
• Description: None

Sequence

>retro_macu_6
ATGGAGCCACTGAGGTCGTCGTCATTGATGTTACTGCTGCTGGTGATATGCTGCAGCAGCACCGCGGCGGTGGCGGCCGC
CAAGAAGCGGACGTATATTGTCCACATGGCCAAGTCGCAGATGCCGCCTGCGTTCGCGGAGCACCGCCACTGGTACGACG
CCTCGCTGAGGTCCGTCTCCGACACCGCCGAGATCCTCTACGCCTACGACACGGTCGCCCACGGCTTCTCCGCGCGGCTC
ACGCCGGCGGAGGCCCGCGCCATGGAGCGCCGCCCGGGCGTGCTGGGCGTCATGGCCGAGGCTCGGTACGAGCTCCACAC
GACGCGCACCCCGGAGTTCCTCGGCCTCGACCGCACCGAGGGGTTCATCCCCCAGTCGAACACCACGAGCGACGTCGTCG
TCGGGGTCCTCGACACGGGCGTGTGGCCGGAGCGCAAGAGCTACGACGACGCTGGGCTCGGGCCGGTCCCGGCGAGCTGG
AAGGGCGCGTGTGAGGAGGGAAAGGACTTCAAAGCCGCGAACGCGTGCAACCGGAAGCTGGTCGGCGCGCGATTCTTCTC
AAAGGGGTATGAAGCGCGCATGGGCCCTATCAACTTGACCAAGGAGTCGAGATCCCCCCGGGACAACGACGGCCACGGCA
CCCATACCTCTTCCACCGTCGCTGGCTCAGCCGTCCCCGACGTCGACTTTCTTGGCTACGCCGCCGGCACCGCCCGCGGC
ATGTCCACCCGCGCGCGCATCGCCGTGTACAAGGTCTGCTGGCTCGGTGGGTGCTTCGGCTCCGACATCCTCGCTGCAAT
GGACAAGGCCATCGAGGACGGCTGTGGCGTCCTGTCCCTGTCCCTGGGCGGCGGGATGTCGGACTACTATCGCGACAACA
TCGCCGTCGGGGCTTTCAGCGCCATGGCGATGGGGGTCGTGGTCTCCTGCTCCGCCGGCAATGCCGGCCCCGGGGCTTCT
ACCCTCTCCAACGTAGCGCCGTGGATCACCACCGTCGGTGCCGGCACGCTCGACCGCGACTTCCCCGCCAACGTCCTGCT
CAGCAACGGTAAGAATTACACCGGCGTCTCGCTCTACAGCGGGAAGCCACTTCCCTCCTCGCCGCTCCCATTCATTTACG
CCGGGAACGCCACCAACACTACCAACGGGAACCTCTGCATAACGGGGACCCTCCTGCCCGACAAGGTCGCCGGAAAGATC
GTCCTCTGCGACCGCGGGATCAACGCCCGGGTCCAAAAGGGGTTGGTCGTGCGTGACGCTGGAGGGGCGGGCATGATCCT
GGCCAACACCGCCGCCAACGGGGAAGAGCTTGTGGCCGACGCGCACCTCCTCCCCGCCACCGCCGTCGGGGAAATAGCCG
GGGACGCCATCAAGTCCTACCTCTTCTCCGATCCGAACCCAACGGCTACCATTGCGTTCAGGGGTACGAAGGTCGGTGTC
AAGCCGTCGCCGGTGGTTGCGGCGTTCTCCTCCCGCGGGCCAAGCGCCATCACTCCGGACATCTTGAAGCCGGACCTGAT
CGCCCCGGGGGTGAACATCCTCGCCGCCTGGACGGGCTCGGTTGGGCCCACGGGGCAGGCGGTGGACCCGCGGCGGACGG
AGTTCAACATCATCTCCGGCACGTCCATGTCGTGCCCCCACGTCAGCGGCCTGCTGGCGCTCCTCAAGGGAGCGCACCCG
GACTGGAGCCCCGGCGCCATCAAGTCCGCCCTCATGACCACCGCTTACGCCGCTTACCCCGGCGACGGTGGCATCCTCGA
CGTGGCCACCGGCCGCGCTGCCACTCCCTTCGACTTCGGCGCCGGCCACGTGGACCCGCCGAAGGCACTGGACCCCGGCC
TCGTCTACAACCTAACCAACGAAGACTACCTCGACTTCCTCTGCGCCCTTAACTACACCCCCCTCCAGATCGCGCGACTC
TCCCGGCTGACCAACTACACCTGCGATAGACAAAAGGCCTACGAGGTATCGGACCTCAACTACCCCTCCTTCGCGGTGGC
GTTCGCAACGGCGTCGACGACGGTGAAGCACACAAGAACGCTGACCAACGTCGGGGCACCTGGGACGTACAAGGCGACAG
TGTCGGCGCCGGAGGACGTTAAGGTGGTGGTGGAGCCGACGGCTCTGACCTTCGCGGCGCTGGGGGAGAAGAAGAACTAT
ACCGTGACTTTCTCAACGGCGTCGCAGCCGTCGGGATCGACCGCGTTCGGCCGCCTCGAGTGGTCCGACGCCCAGCACGT
GGTCGCGAGCCCCCTGGCCTTCTCATGGACCTAA

Alignment

ORF - retro_macu_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.97 %
• Parental protein coverage: 60. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TVESRSPRDAD--GHGTHTASTAAGRHAVATYKVCWKGSGCLDSDILAGFDRAVADGVDVISVSIGGGDG
          TV......D.D..G....TA.....R...A.YKVCW.G.GC..SDILA..D.A..DG..V.S.S.GGG..
Retrocopy TVAGSAVPDVDFLGYAAGTARGMSTRARIAVYKVCWLG-GCFGSDILAAMDKAIEDGCGVLSLSLGGG--

Parental  IASPYYLDPIAIGSFGAVSRGVFVASSAGNDGPTSMSVTNVAPWLTTVGAGTIDRTFPADVILGDGRRLS
          ..S.YY.D.IA.G.F.A...GV.V..SAGN.GP......NVAPW.TTVGAGT.DR.FPA.V.L..G....
Retrocopy -MSDYYRDNIAVGAFSAMAMGVVVSCSAGNAGPGASTLSNVAPWITTVGAGTLDRDFPANVLLSNGKNYT

Parental  GVSLYSGKPLTGSKYPLVYPGKSGGLS-ASLCMDNSLDPKMVGGKIVICDRGSSPRVAKGHVVKDAGGVG
          GVSLYSGKPL..S..P..Y.G.........LC....L.P..V.GKIV.CDRG...RV.KG.VV.DAGG.G
Retrocopy GVSLYSGKPLPSSPLPFIYAGNATNTTNGNLCITGTLLPDKVAGKIVLCDRGINARVQKGLVVRDAGGAG

Parental  MILANGLSNGEGLVGDAHVLPACAVGYSEGDVIKAYVASAAVPTATIQFRGTVLGVKPAPVVASFSGRGP
          MILAN...NGE.LV.DAH.LPA.AVG...GD.IK.Y..S...PTATI.FRGT..GVKP.PVVA.FS.RGP
Retrocopy MILANTAANGEELVADAHLLPATAVGEIAGDAIKSYLFSDPNPTATIAFRGTKVGVKPSPVVAAFSSRGP

Parental  NGLTPSILKPDLIAPGVNILAAWTGAAGPTGLDSDSRRTEFNILSGTSMACPHVSGAAALLKSAHPDWSP
          ...TP.ILKPDLIAPGVNILAAWTG..GPTG...D.RRTEFNI.SGTSM.CPHVSG..ALLK.AHPDWSP
Retrocopy SAITPDILKPDLIAPGVNILAAWTGSVGPTGQAVDPRRTEFNIISGTSMSCPHVSGLLALLKGAHPDWSP

Parental  AAIRSAMMTTGRLDDNRRKSMTDESTGKPATPFDIGAGHLNLDRAMDPGLVYDIATQDYRPAAEDLNYPS
          .AI.SA.MTT............D..TG..ATPFD.GAGH.....A.DPGLVY.....DY......LNY..
Retrocopy GAIKSALMTTAYAAYPGDGGILDVATGRAATPFDFGAGHVDPPKALDPGLVYNLTNEDYLDFLCALNYTP

Parental  ISV
          ...
Retrocopy LQI

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_6 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr2G11210_001	1 retrocopy	retro_macu_6 ,