RetrogeneDB ID: retro_mmur_334

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_244:76536..77418(+)
• Located in intron of: ENSMICG00000009316

Retrocopy information

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

Parental gene information

• Parental gene symbol: NT5DC4
• Ensembl ID: ENSMICG00000013300
• Aliases: None
• Description: 5'-nucleotidase domain containing 4 [Source:HGNC Symbol;Acc:27678]

Sequence

>retro_mmur_334
GTGTTTGTGAACAGATTTTAGCCATGGAGAAAATAAAGTGTTTTGGTTTTGATATGGATTACACCCTTGCTGTGTACAAG
TCCCCAGAGTATGAATCCCTTGGCTTTGAGCTTACTGTGGAAAGATTAGTTTCTATTGGCTATCCCCAGGAGCTACTCAG
TTTTGCTTATGAGTCTACATTCCCTACCAGGGGGCTTGTCTTTGACACACTATATGGAAATCTTTTGAAAGTTGATGCCT
ATGGAAACCTCTTGGTTTGTGCACATGGATTTAACTTCATAAGGGGACCAGAAACTAGAAAGCAATATCCAAATAAATTT
ATCCAACGAGATGACACTGAAAGATTTTACATTCTGAACACATTATTCAACCTACCAGAGACCTACCTGTTGGCCTGCCT
AGTAGATTTTTTTACTAATTGTCCCAGATATACCAGCTGTGAAACAGGATTTAAAGATGGGGACCCCTTCATGTCCTACC
AGAGTATGTTCAGGATGTAAGAGATGCTGTTGACTGGGTTCATTATAAGGGCTCCCTTAAGGAGAAGACAGTTGAAAATC
TTGAGAAGTATGTAGTCAAAGATGGAAAACTGCCTTTGCTTCTGAGCCGGATGAAAGAAGTAGGGAAAGTGTTTCTTGCC
TCCAACAGTGACTGTATATATACAGATAAAATTATGATTTACCTGTTCGATTTCCCACATGGCCCCAAGCCTGAGAGCTC
CCACCGACCATGGCAGTCCTACTTTGACCTGATCTTGGTGGATGCACGGAAACCACTCTTTTTTGGAGAAGGCACAGTAC
TGCGTCAAGTGGATACCAAAACTGGCGAGCTGAAAATTGGTACCTACACAGGCCCCTACAGCATGACATCGTCCACTCAG
GA

Alignment

ORF - retro_mmur_334 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.76 %
• Parental protein coverage: 65.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  IFVNRS-LALGKIRCFGFDMDYTLAAYKSPAYEALAFELLLERLVCIGYPHEILRYTYDPAFPTRGLV-D
          .FVNR..LA..KI.CFGFDMDYTLA.YKSP.YE.L.FEL..ERLV.IGYP.E.L...Y...FPTRGLV.D
Retrocopy VFVNRF<LAMEKIKCFGFDMDYTLAVYKSPEYESLGFELTVERLVSIGYPQELLSFAYESTFPTRGLVFD

Parental  ALYGNLLKVDAHGNVLLGAHGFTFLSEAEIWSFYPSKFIQRDDLQRFHVLNTLFNLPETYLYACLVDFFS
          .LYGNLLKVDA.GN.L..AHGF.F....E....YP.KFIQRDD..RF..LNTLFNLPETYL.ACLVDFF.
Retrocopy TLYGNLLKVDAYGNLLVCAHGFNFIRGPETRKQYPNKFIQRDDTERFYILNTLFNLPETYLLACLVDFFT

Parental  GCSRYTNCDTGYQHGNLFMSFRSLF-QDVTEAMNNIHQSGCLKEKTLENLEKYVEKDARIPVLLGKMKEV
          .C.RYT.C.TG...G..FMS..S.F.QDV..A....H..G.LKEKT.ENLEKYV.KD...P.LL..MKEV
Retrocopy NCPRYTSCETGFKDGDPFMSYQSMF<QDVRDAVDWVHYKGSLKEKTVENLEKYVVKDGKLPLLLSRMKEV

Parental  GKVFLATNSSYDYTDAIMTYLFGVSEAAAPA---RPWRSFFDLIVVDTQKPRFFAEGTVLRQVNTDSGKL
          GKVFLA.NS...YTD.IM.YLF.......P....RPW.S.FDLI.VD..KP.FF.EGTVLRQV.T..G.L
Retrocopy GKVFLASNSDCIYTDKIMIYLFDFPHGPKPESSHRPWQSYFDLILVDARKPLFFGEGTVLRQVDTKTGEL

Parental  RVGTYTGPH-QHCAVYSG
          ..GTYTGP..QH..V.SG
Retrocopy KIGTYTGPY<QHDIVHSG

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_334 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_334 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000012316	1 retrocopy	retro_mmur_1476,
Microcebus murinus	ENSMICG00000013300	1 retrocopy	retro_mmur_334 ,