RetrogeneDB ID: retro_mmur_1262

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_37258:854..1478(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SFXN3
• Ensembl ID: ENSMICG00000000018
• Aliases: None
• Description: sideroflexin 3 [Source:HGNC Symbol;Acc:16087]

Sequence

>retro_mmur_1262
GATTCAGCTTTTCACCCTGACGCTGGTGAAAAGATTTTAATGGGAAGAATGTCAGCTTGGGTTCTAATGAACATGAGCAT
CACGGGTTGTATGATGGCATTTTATAGGACTACACCAGCTGTGTTTCTGGCAATAGATTACCCAGTTCTTCAATGCTGCT
GTCAGTTACAACAACAGACATGGAGATGTTCCCCTCACTGTAAATGAATTGGGAACGGCTTACATTTCTTCAACTGGTGC
TGTAGCAACAGCTCTAGGACTTCATGCATTAACCAAGCATGTCTCACCACTGATAGGACGTTCTGTTCCCTTTGCTGCCG
TAGCTGCTGCTAATTGCATTAATATTCCATTAATGAGGCAAAGGGAACTTAAAGTTGGTATTCCTGTCACAGATGAAAAC
AGGAAATGCTTAGAACTGGCAAATGCTGCAAAGCAAGTCGTCACACAAGTTGTCATCCCCAGAATTCTCTTGGCAGCCCC
TGGCATGGCCAGCCTTCCATTGATTATGAACACACTTTAGAAAAGGCCCTTTTGAAGAGGTTCCCATGGATGAGTGTGCC
TATTCGAGTTGGATTAGTTGGCTTGTTTGGTGTTTGCTATACCCCTATGTTGTGCTGTTTCCTC

Alignment

ORF - retro_mmur_1262 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.55 %
• Parental protein coverage: 64.92 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DSAFHPDTGEKVVLIGRMSAQVPMNMTITGCMLTFYRQTPTVVF-WQWVNQSFNAIVNYSNRSGDAPITV
          DSAFHPD.GEK..L.GRMSA.V.MNM.ITGCM..FY..T...VF.WQ...Q.FNA.V.Y.NR.GD.P.TV
Retrocopy DSAFHPDAGEKI-LMGRMSAWVLMNMSITGCMMAFY-RTTPAVF>WQ*ITQFFNAAVSYNNRHGDVPLTV

Parental  RQLGTAYVSATTGAVATALGLKSLTKHLPPLVGRFVPFAAVAAANCINIPLMRQRELQVGIPVTDEAGQR
          ..LGTAY.S.T.GAVATALGL..LTKH..PL.GR.VPFAAVAAANCINIPLMRQREL.VGIPVTDE....
Retrocopy NELGTAYISST-GAVATALGLHALTKHVSPLIGRSVPFAAVAAANCINIPLMRQRELKVGIPVTDE-NRK

Parental  LGHSVTAAKQGIFQVVVSRVCMAIPAMAIPPLIMDALEKKDF-LKRRPWLGAPLQVGLVGFCLVFATP-L
          ......AAKQ...QVV..R...A.P.MA..PLIM..L.K..F.LKR.PW...P..VGLVG...V..TP.L
Retrocopy CLELANAAKQVVTQVVIPRILLAAPGMASLPLIMNTL*KRPF<LKRFPWMSVPIRVGLVGLFGVCYTPML

Parental  CCAL
          CC.L
Retrocopy CCFL

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_1262 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1262 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000012508	1 retrocopy	retro_etel_1107,
Microcebus murinus	ENSMICG00000000018	2 retrocopies	retro_mmur_1262 , retro_mmur_920,