RetrogeneDB ID: retro_meug_1127

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold299010:267..1205(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FMO1
• Ensembl ID: ENSMEUG00000004428
• Aliases: None
• Description: flavin containing monooxygenase 1 [Source:HGNC Symbol;Acc:3769]

Sequence

>retro_meug_1127
ACTATTATCTGCAATGTGAAAAAAATGTCCAGATTTCTCTACCTCTGGCCAGGAGGAGGTAGCCACTGAACATGAAGGGA
AGCAAGAGTCAGCCATATTTGATGCTGTCATGGTCTGCACTGGTTTTGTCACTGACCCGTTTTTGCCACTAGATACTTTG
CCAGGTATCAACACTTTTAAAGGTAAGTACTTGCACAGCAGGGAGTACAAGCATTCAGGTCTGTTCAAGGATAAGAGAGT
TCTTGTGATTGGCATGGGGATTTCTGGCGCAGATATTGCTGTGGAGGCCCAGTCACATGGCTAAAAAGATGTTGCTCAGC
ACCACTGGAGGTGCATGGCTGATAAATCGATTTCTTGACCATGGGTATCCTTGGGATATGGTGTTCACTTCTCGATTTCA
AAGCACATTAAGAAATTCCCTCCAGACTTCTGTTGTAAACTGGCTATTTGGCAAAACAGCAAATAGCAGGTTTGATCATG
CAAACTATAGTTTGATTCCAGAAAACAGGACTTCTGTAAGAGAACCTATAGTGAATGGTGAGCTCCCAGGACGCATAATT
ACTGGGAAGGTGTTGATCAAACCCAGTGTGGAGAAAGTAAAAGAAAGCTCTGTGATGTTTAAGAATACTTCAGAAGAAGA
GCCTATTGATATCATTGTCTTGGCCACAGGATATACTTTTGCTTTCCCTTTCCTTGATGAGTCTATAGTGAAAGTTGAAA
ATAATCAGGCCTGTTTGTATAAGTAAATATTCCCTGCACATTTAGAAAAACCAACTCTGGCTGTCATTAGCCTCATGAAG
CCTTCAGGATCTTTGGTTTGCACAGCAGAAGTACAAGCCCGATGGGTCACACAAGTCCTAAAGGGCTTGAATAAACTACC
ACCACCAGATGCCATGAGAGAAGACATTAACACAAAGAAAGCAAATAAAGCTACTGGG

Alignment

ORF - retro_meug_1127 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.85 %
• Parental protein coverage: 58.76 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TIVCNVKK-CPDFSTSGQWEVTTEHEGKQESAIFDAVMVGTGYLTNPFLPLDTLPGINTFKGKYFHSREY
          TI.CNVKK.CPDFSTSGQ.EV.TEHEGKQESAIFDAVMV.TG..T.PFLPLDTLPGINTFKGKY.HSREY
Retrocopy TIICNVKK>CPDFSTSGQEEVATEHEGKQESAIFDAVMVCTGFVTDPFLPLDTLPGINTFKGKYLHSREY

Parental  KHLDIFKDKRVLVIGMGNSGTDIAVEA-SHVAKKVFLSTTGGAWLISRVFDHGYPWDMVFTTRFQSALRS
          KH...FKDKRVLVIGMG.SG.DIAVEA.SH.AKK..LSTTGGAWLI.R..DHGYPWDMVFT.RFQS.LR.
Retrocopy KHSGLFKDKRVLVIGMGISGADIAVEA>SHMAKKMLLSTTGGAWLINRFLDHGYPWDMVFTSRFQSTLRN

Parental  YLPTSVVNWLFGQKANSWFDHANYGLVPEKRNFLREPILNDELPGQIISGKVLIKPKVEKVKENSVVFKN
          .L.TSVVNWLFG..ANS.FDHANY.L.PE.R...REPI.N.ELPG.II.GKVLIKP.VEKVKE.SV.FKN
Retrocopy SLQTSVVNWLFGKTANSRFDHANYSLIPENRTSVREPIVNGELPGRIITGKVLIKPSVEKVKESSVMFKN

Parental  TPEEEPIDIIVLATGYTFAFPFLDESVVKVENNQASLYKYIFPAHLEKPTLAVIGLIKPLGALTCTTEVQ
          T.EEEPIDIIVLATGYTFAFPFLDES.VKVENNQA.LYK.IFPAHLEKPTLAVI.L.KP.G.L.CT.EVQ
Retrocopy TSEEEPIDIIVLATGYTFAFPFLDESIVKVENNQACLYK*IFPAHLEKPTLAVISLMKPSGSLVCTAEVQ

Parental  ARWVTRVLKGLNKLPPPEVMREDINTRKANKPTG
          ARWVT.VLKGLNKLPPP..MREDINT.KANK.TG
Retrocopy ARWVTQVLKGLNKLPPPDAMREDINTKKANKATG

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1127 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1127 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000004428	3 retrocopies	retro_meug_1127 , retro_meug_1522, retro_meug_1794,