RetrogeneDB ID: retro_mmur_618

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4227:128342..128814(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SAR1A
• Ensembl ID: ENSMICG00000001638
• Aliases: None
• Description: SAR1 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:10534]

Sequence

>retro_mmur_618
ATGTCTTTCATTTTTTAGTGGATTTACAAATGGCCTCAACAATGTGCTCCAGTTCCTAGAACTCTACACTAAATCTGGAA
AACTTGTATTCTTGGGCTTGGACAATGCAGGCAAAACCACATGCTCAAAGATGACAGATCGAGTCGGTATGTTCCAGTAC
TACATCTGATGTCAGAAGAGCTAACAGTTGCTGCAATGACTTTACAACGTTTGATCTTGATGGGCATGAGCAAGCATGTT
GGGTTTGGAAAAATTATCTCCCACCAATGAATGGGGTTGTCTTTCTGGTGAACTGTGGAGATCATTCTCACCACAATATG
GAATCCAAAGTTGAGCTAATGCTTTAATGACTGATTAAACAATATCCAAGGTGCCAATCCTTAACTTGGGTAACAAAACT
GACAGAACAGGTACAATCAATGAAGAAAAACTTAATGAGACATTTGAGCTTTATGGACAGACCACTGGAAAG

Alignment

ORF - retro_mmur_618 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.91 %
• Parental protein coverage: 80.81 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MSFIFEWIY-NGFSSVLQFLGLYKKSGKLVF-LGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEELTIAG
          MSFIF.WIY.NG...VLQFL.LY.KSGKLVF.LGL...G.....HMLKDDR....VP.LH..SEELT.A.
Retrocopy MSFIF*WIY>NGLNNVLQFLELYTKSGKLVF<LGL---GQCRQNHMLKDDRSSRYVPVLHLMSEELTVAA

Parental  MT-FTTFDLGGHEQARRVWKNYLPAINGIVFLVDCADHSRL-MESKVEL-NALMTDETISNVPILILGNK
          MT.FTTFDL.GHEQA..VWKNYLP..NG.VFLV.C.DHS...MESKVEL.NALMTD.TIS.VPIL.LGNK
Retrocopy MT<FTTFDLDGHEQACWVWKNYLPPMNGVVFLVNCGDHSHHNMESKVEL<NALMTD*TISKVPILNLGNK

Parental  IDRTDAISEEKLREIFGLYGQTTGK
          .DRT..I.EEKL.E.F.LYGQTTGK
Retrocopy TDRTGTINEEKLNETFELYGQTTGK

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_618 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_618 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 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000024879	3 retrocopies	retro_ggor_144, retro_ggor_2408, retro_ggor_2929,
Microcebus murinus	ENSMICG00000001638	5 retrocopies	retro_mmur_1291, retro_mmur_1517, retro_mmur_1633, retro_mmur_260, retro_mmur_618 ,
Myotis lucifugus	ENSMLUG00000006626	2 retrocopies	retro_mluc_1317, retro_mluc_1996,
Tupaia belangeri	ENSTBEG00000008657	5 retrocopies	retro_tbel_1060, retro_tbel_14, retro_tbel_2319, retro_tbel_2366, retro_tbel_2846,
Vicugna pacos	ENSVPAG00000002631	2 retrocopies	retro_vpac_5, retro_vpac_77,