RetrogeneDB ID: retro_mmur_1405

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_54911:3776..4167(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDO1
• Ensembl ID: ENSMICG00000009005
• Aliases: None
• Description: cysteine dioxygenase type 1 [Source:HGNC Symbol;Acc:1795]

Sequence

>retro_mmur_1405
TTGGAGCTGTCCGAGGTGCTGAAGCCTCAGACTCTGGCCCTTCTGATCTGCATCCTGTACCAGCTCTTGGCCAGAGATGA
AAGCAACGTAGAGGAGGTGCAAGCCCTGATGGAAGCCTACAAAAGCGACTCTGCAGAGTGGGCAGTGTAAGCCAAGTTCA
ATTCCTACAGGTATAGTTGAAATCTTGTGGATCGAGGAAATGGAAAATTTAATCTGAGGATTCTATGTTAGGGTGAAGGA
CATGGCTGCAGTAGTCATGATCACATCGACTCTCACTGTTTTATGAAAATGATTCAGGGAAATCTAAAGGAGGCATTATT
TGCCACGCCTGACAAAAACCTCCAACGATATGGCCAAGAAGTCTGAAGGAATCTTGAGAGAAAACCACTGT

Alignment

ORF - retro_mmur_1405 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.28 %
• Parental protein coverage: 65.33 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEHTEVLKPRTLADLIRILHQLFARDEINVEEVQAVMEAYESDPAEWAKYAKFDQYRYTRNLVDQGNGKF
          .E..EVLKP.TLA.LI.IL.QL.ARDE.NVEEVQA.MEAY.SD.AEWA..AKF..YRY..NLVD.GNGKF
Retrocopy LELSEVLKPQTLALLICILYQLLARDESNVEEVQALMEAYKSDSAEWAV*AKFNSYRYS*NLVDRGNGKF

Parental  NLMILCWGEGHGSSIHDHTDSHCFLKMLQGNLKETLFAWPDKK-SNEMIKKSERILRDNQC
          NL.ILC.GEGHG.S.HDH.DSHCF.KM.QGNLKE.LFA.PDK..SN.M.KKSE.ILR.N.C
Retrocopy NLRILC*GEGHGCSSHDHIDSHCFMKMIQGNLKEALFATPDKN>SNDMAKKSEGILRENHC

Legend:

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

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1405 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1405 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000009577	1 retrocopy	retro_dnov_2171,
Microcebus murinus	ENSMICG00000009005	1 retrocopy	retro_mmur_1405 ,
Otolemur garnettii	ENSOGAG00000009306	1 retrocopy	retro_ogar_660,
Tupaia belangeri	ENSTBEG00000003937	2 retrocopies	retro_tbel_3406, retro_tbel_4269,