RetrogeneDB ID: retro_mmur_355

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_2594:27223..27477(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFS4
• Ensembl ID: ENSMICG00000015138
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase) [Source:HGNC Symbol;Acc:7711]

Sequence

>retro_mmur_355
GGGGTAACCAAGACCAAGACATGGAAGGTGGAATTTGATACCAGGGAGCGATGGGAAAATCCTTTGATGGGTTGAGTATC
AACGGTGGATCCTTTGTCCAACATGGTTCTAACCTTTAGTACTGAAGAAGATGCAGCTGCCTTGGAAAAAATGGATGGAG
CTATTACATTGAAGAGAGGAAGGTTCTAAAACCCAAGTCCAAGTCTTAGGGTGCAAACTTTTCTTGGAACAAAAGAACAA
GAGCATCCACAAAA

Alignment

ORF - retro_mmur_355 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.91 %
• Parental protein coverage: 60.56 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GVNNTKKWKMEFDTRERWENPLMGWASTADPLSNMVLTFSTKEDAAAFAEK-NGWSYYIEERKVPKPKSK
          GV..TK.WK.EFDTRERWENPLMG..ST.DPLSNMVLTFST.EDAAA..EK.NGWSYYIEERKV.KPKSK
Retrocopy GVTKTKTWKVEFDTRERWENPLMG*VSTVDPLSNMVLTFSTEEDAAAL-EK<NGWSYYIEERKVLKPKSK

Parental  SYGANFSWNKRTRVSTK
          S.GANFSWNKRTR.STK
Retrocopy S*GANFSWNKRTRASTK

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_355 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_355 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000005452	1 retrocopy	retro_cpor_1111,
Erinaceus europaeus	ENSEEUG00000015851	3 retrocopies	retro_eeur_133, retro_eeur_30, retro_eeur_347,
Macropus eugenii	ENSMEUG00000001362	1 retrocopy	retro_meug_651,
Microcebus murinus	ENSMICG00000015138	1 retrocopy	retro_mmur_355 ,
Monodelphis domestica	ENSMODG00000019465	1 retrocopy	retro_mdom_1227,
Pongo abelii	ENSPPYG00000015455	1 retrocopy	retro_pabe_193,
Sus scrofa	ENSSSCG00000016893	1 retrocopy	retro_sscr_999,
Tupaia belangeri	ENSTBEG00000004605	1 retrocopy	retro_tbel_2068,