RetrogeneDB ID: retro_mmur_1595

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_8946:53849..54203(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPCS3
• Ensembl ID: ENSMICG00000001987
• Aliases: None
• Description: signal peptidase complex subunit 3 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:26212]

Sequence

>retro_mmur_1595
AGTGATTTAGGATTCATTGCATTTCATATAACTGCTAATCTGGAGAAGACATTTGATTGGAGTGTCAAGCAGCTTTTTCT
TTATGCAACAGCAGAATATTCAACAAAAATATAATAGTCTGTCGTCCTTTGGGACAACATTGTTCAGAAAGGTAATAATA
TCAAGCTGCTGTTGAAAGATATGAAAATAGTGTATTATTTCTTTGATAATGGAAATGGTCTTCAGGGAATCAGGAATGTC
ACTTTGACCCTATCTTGGAATGTTGTACCGAATGCTGGAATTCTACCTCTTATGACAGGACCAGGACATGTATTAGTATC
ATTTCAAGATACATATGAAATAACAAAGAGTTAT

Alignment

ORF - retro_mmur_1595 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SDLGFITFDI-ADIEKDFNIFDWNVKQLFLYLSAEYSTKNNALNQVVLWDKIVLRGDNPKLLLKDMKTKY
          SDLGFI.F.I.A..EK....FDW.VKQL...L.A...........VVLWD.IV..G.N.KLLLKDMK..Y
Retrocopy SDLGFIAFHITANLEKT---FDWSVKQL--FLYATAEYSTKI**SVVLWDNIVQKGNNIKLLLKDMKIVY

Parental  FFFDDGNGLKGNRNVTLTLSWNVVPNAGILPLVTGSGHVSVPFPDTYEITKSY
          .FFD.GNGL.G.RNVTLTLSWNVVPNAGILPL.TG.GHV.V.F.DTYEITKSY
Retrocopy YFFDNGNGLQGIRNVTLTLSWNVVPNAGILPLMTGPGHVLVSFQDTYEITKSY

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_1595 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1595 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000001987	2 retrocopies	retro_mmur_1595 , retro_mmur_731,
Oryctolagus cuniculus	ENSOCUG00000029741	1 retrocopy	retro_ocun_119,
Pongo abelii	ENSPPYG00000015218	1 retrocopy	retro_pabe_138,
Sarcophilus harrisii	ENSSHAG00000015012	1 retrocopy	retro_shar_481,
Ictidomys tridecemlineatus	ENSSTOG00000013678	1 retrocopy	retro_itri_57,