RetrogeneDB ID: retro_mmur_457

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3244:646049..646802(-)
• Located in intron of: ENSMICG00000009022

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDC
• Ensembl ID: ENSMICG00000015671
• Aliases: None
• Description: nuclear distribution C homolog (A. nidulans) [Source:HGNC Symbol;Acc:8045]

Sequence

>retro_mmur_457
GGGGTTGCAATGGAGCAGGAGGGGTTCCCCCATGTATCGTTGGCCACAGGGCGCAGCACAGGGGGGGGGGGGGTATAGCA
GCTTGGGAACACTTTCTCCTGCTTCCTTTCATGCAAAACAGACTTTTTCACTGAGGAGAAGAGGGGATGACAGAGAAGCT
TATCACACAGACAGTACCACAATCTGCTGGCAGACAAGGCCGAGCAGGAGAGGAAGGATCTGCAGGAAACTGAGGGGTGG
CAGAAGGCAGAGTGGGCAGTCAGGCTGGCCAAGGAGCCACGTCAGAGATCCCTGGGCCCCAGATTAAGGAGCTTACTAAC
AAGGAATGAGGCAGAGAGGATGTAGCCTCTGACCAGGAAAAATGGTGCAAAGAATCATAAAGCCCAGTTCAAGAGTGGCA
GCCTTGGCTCATCAGGGAAGCAGGAGACTGAGGAGGATGAAGAGGAGGAAGATGAGAAGGACAAAGGAAAACTGAAGCCC
AACCTAGGCAACAGGGCAGACCTGCCCAATTACTGCTGGACCCAGACCCTGTCAGAGCTGGACCTGGCCGTGCCCTTCTG
TGAGAACTTCTGGCTGAAGGAGAAGGACAAGGTGGTGGACATTCGCCCGTGGCACCTCCAGGTAGGGCCCAAGCAGCAGA
TGACAAGCATCGACAGCGAGTCCTACACCCAAGAGGAGGTGGAGGAGAACTTGTGGTTCATTGAGGTGACTGTGCATCTG
GAGAAGATCAATAAGATGGGGTGGTGGAAACAG

Alignment

ORF - retro_mmur_457 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.35 %
• Parental protein coverage: 77.11 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GGEQEEERFDGMLLAMAQQHEGGVQ-ELVNTFFSFLRRKTDFFIGGEEGMAEKLITQTFSHHNQLAQKAR
          G...E.E.F....LA............L.NTF..FL..KTDFF.....G....L.......HN.LA.KA.
Retrocopy GVAMEQEGFPHVSLATGRSTXXXXX*QLGNTFSCFLSCKTDFFTEEKRG*QRSLSHRQY--HNLLADKAE

Parental  REKRARQEAERREKAERAARLAKE-AKSEPPGPQIKELTDEEAERLQLEIDQKK-DAETHEAQDKNGSLS
          .E....QE.E...KAE.A.RLAKE.A.SE.PGPQIKELT..E..R.....DQ.K..A..H.AQ.K.GSL.
Retrocopy QERKDLQETEGWQKAEWAVRLAKE<ATSEIPGPQIKELTNKE*GREDVASDQEK>GAKNHKAQFKSGSLG

Parental  SPGKQEAEEDEEEEDEKDKGKLKPNLGNGADLPNYRWTQTLSELDLAVPFRVNFRLKGKDVVVDIQRRHL
          S.................KGKLKPNLGN.ADLPNY.WTQTLSELDLAVPF..NF.LK.KD.VVDI...HL
Retrocopy SSXXXXXXXXXXXXXXXXKGKLKPNLGNRADLPNYCWTQTLSELDLAVPFCENFWLKEKDKVVDIRPWHL

Parental  RVGLKGQPAIIDGELYNEVKVEESSWLIEDGKVVTVHLEKINKMEWWNR
          .VG.K.Q...ID.E.Y....VEE..W.IE....VTVHLEKINKM.WW..
Retrocopy QVGPKQQMTSIDSESYTQEEVEENLWFIE----VTVHLEKINKMGWWKQ

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_457 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_457 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 10 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000001291	1 retrocopy	retro_eeur_526,
Homo sapiens	ENSG00000090273	2 retrocopies	retro_hsap_2168, retro_hsap_2183,
Gorilla gorilla	ENSGGOG00000015314	2 retrocopies	retro_ggor_1720, retro_ggor_1730,
Microcebus murinus	ENSMICG00000015671	1 retrocopy	retro_mmur_457 ,
Mus musculus	ENSMUSG00000028851	1 retrocopy	retro_mmus_3181,
Nomascus leucogenys	ENSNLEG00000009404	2 retrocopies	retro_nleu_2545, retro_nleu_312,
Pongo abelii	ENSPPYG00000001673	2 retrocopies	retro_pabe_2055, retro_pabe_2064,
Pan troglodytes	ENSPTRG00000000395	2 retrocopies	retro_ptro_1655, retro_ptro_1661,
Pteropus vampyrus	ENSPVAG00000004408	1 retrocopy	retro_pvam_434,
Rattus norvegicus	ENSRNOG00000007399	2 retrocopies	retro_rnor_2009, retro_rnor_2108,