RetrogeneDB ID: retro_mmur_1403

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_5472:112090..112563(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TWISTNB
• Ensembl ID: ENSMICG00000017730
• Aliases: None
• Description: TWIST neighbor [Source:HGNC Symbol;Acc:18027]

Sequence

>retro_mmur_1403
GGCAGGGCCTGTGTCTTGTCTTTCCTAGAGCTGTTGACCTACGCTGCTGCTTGGGTGCTAGTAAATGGTCGCTACTCCTG
CCTACTGGCTGGGCCGCACTGAAAGCACATCATGCTATCACCCTGTCACTTTAACAGGAAACACACTGGTATCAGAGAGA
AGCTCAATATGGAACTCTTGAGCTATTCTGAGAGTCTTTCAGATAGCTCTACTGCATATAACATCAAATTTGTGGATGAA
CTGGGAGATATTTAAGATGACCAAGGACACAATTCATCTTAACACTGAAGCAGATTTTGTCATTTTCTGCCCTGAACGAG
GGCAAAAGCTTATGGGTACGGTTAATAAAGTGTCTACTAGACACACTGACTACTTAGTACAAGGGCTGTTTTAATACCTT
CATCTCTAAATCTGAGCACATGTCAGCTGAGTGTTGGCAAACCACAGAGATAAACATGAGTGATGAACTAGAT

Alignment

ORF - retro_mmur_1403 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.12 %
• Parental protein coverage: 77.07 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GSAGVLPCLELPTYAAACALVNSRYSCLVAGPHRRHIALSPRYLNRKRTGIREQLDAELLRYSESLLGVP
          G.A.VL..LEL.TYAAA..LVN.RYSCL.AGPH..HI.LSP...NRK.TGIRE.L..ELL.YSESL....
Retrocopy GRACVLSFLELLTYAAAWVLVNGRYSCLLAGPH*KHIMLSPCHFNRKHTGIREKLNMELLSYSESLSDSS

Parental  IAYDNIKVVGELGDIYDDQGH-IHLNIEADFVIFCPEPGQKLMGTVNKVSSSHIGCLVH-GCFNASIPKP
          .AY.NIK.V.ELGDI.DDQGH.IHLN.EADFVIFCPE.GQKLMGTVNKVS..H...LV..GCFN..I.K.
Retrocopy TAY-NIKFVDELGDI*DDQGH>IHLNTEADFVIFCPERGQKLMGTVNKVSTRHTDYLVQ>GCFNTFISKS

Parental  ELLSAEQWQTLQINLGDELE
          E..SAE.WQT..IN..DEL.
Retrocopy EHMSAECWQTTEINMSDELD

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_1403 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1403 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000019157	1 retrocopy	retro_etel_1874,
Microcebus murinus	ENSMICG00000017730	2 retrocopies	retro_mmur_1403 , retro_mmur_1427,
Mus musculus	ENSMUSG00000020561	1 retrocopy	retro_mmus_1516,