RetrogeneDB ID: retro_mmur_480

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3407:135705..136434(+)
• Located in intron of: ENSMICG00000001892

Retrocopy information

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

Parental gene information

• Parental gene symbol: GOT2
• Ensembl ID: ENSMICG00000008954
• Aliases: None
• Description: glutamic-oxaloacetic transaminase 2, mitochondrial [Source:HGNC Symbol;Acc:4433]

Sequence

>retro_mmur_480
ATGGCCCTGCTGCACTCCGGCCGCGTCCTCTCTGGGATTGCCAACGCCTTCCACCCAGGCCTCACCGCCGCAGCCTCTGC
CTGAGCCAGCTCCTGGTGGGCCCATGTGGAGATGGGACCCCCAGATCCCATCCTGGGAGTCACCGAAGCCTTTAAGAGAG
ACACCAATAGCAAAAAGATGAATCTGGGAGTTGGTGCCTATCGTGATGATAACAGAAAGCCTTACGTGCTCCCTAGTGTC
CGCAAGGCAGAGGCCCAGATTGCTGCAAAAAATCTGGATAAGGAATACCTGCCCATCGGAGGACTGGCTGAATTTTGCAA
GGCATCTGCAGAACTAGCCCTTGGTGAGAACAGCGAAGTGTTGAAAAGTGGCCGGTATGTCACCGTGCAGACCATTTCTG
GAACTGGGGCCTTAAGGATTGGAGCCAGTTTTCTGCAAAGATTTTTTAAGTTCAGCCGAGATGTCTTTCTGCCCAAACCA
TCCTGGGGAAATCACACACCCATCTTCAGGGATGCTGGCATGCAGCTACAAGGTTATCGATACTATGACCCCAAGACTTG
CGGCTTTGACTTCGAGGGCGCTATGGAGGACATTTCAAAAATACCAGAGCAAAGTGTTCTTCTTCTCCATGCCTGTGCCC
ATAATCCCACAGGAGTGGACCCTCATCCAGAGCAGTGGAAGGAAATAGCAGCAGTGGTGAAGAAAAAGAATCTCTTTGCA
TTCTTTGAC

Alignment

ORF - retro_mmur_480 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.48 %
• Parental protein coverage: 75.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALLHSGRVLSGIANAFHPGLAAAASARASSWWAHVEMGPPDPILGVTEAFKRDTNSKKMNLGVGXXXXX
          MALLHSGRVLSGIANAFHPGL.AAASA.ASSWWAHVEMGPPDPILGVTEAFKRDTNSKKMNLGVG.....
Retrocopy MALLHSGRVLSGIANAFHPGLTAAASA*ASSWWAHVEMGPPDPILGVTEAFKRDTNSKKMNLGVGAYRDD

Parental  XXXXXXXXXXXXAEAQIAAKNLDKEYLPIGGLAEFCKASAELALGENSEVLKSGRYVTVQTISGTGALRI
          ............AEAQIAAKNLDKEYLPIGGLAEFCKASAELALGENSEVLKSGRYVTVQTISGTGALRI
Retrocopy NRKPYVLPSVRKAEAQIAAKNLDKEYLPIGGLAEFCKASAELALGENSEVLKSGRYVTVQTISGTGALRI

Parental  GASFLQRFFKFSRDVFLPKPSWGNHTPIFRDAGMQLQGYRYYDPKTCGFDFEGAMEDISKIPEQSVLLLH
          GASFLQRFFKFSRDVFLPKPSWGNHTPIFRDAGMQLQGYRYYDPKTCGFDFEGAMEDISKIPEQSVLLLH
Retrocopy GASFLQRFFKFSRDVFLPKPSWGNHTPIFRDAGMQLQGYRYYDPKTCGFDFEGAMEDISKIPEQSVLLLH

Parental  ACAHNPTGVDPRPEQWKEIAAVVKLQEVKGMAD
          ACAHNPTGVDP.PEQWKEIAAVVK........D
Retrocopy ACAHNPTGVDPHPEQWKEIAAVVKKKNLFAFFD

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_480 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_480 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 11 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017346	3 retrocopies	retro_amel_1805, retro_amel_815, retro_amel_846,
Canis familiaris	ENSCAFG00000008357	2 retrocopies	retro_cfam_586, retro_cfam_816,
Callithrix jacchus	ENSCJAG00000011234	1 retrocopy	retro_cjac_2916,
Homo sapiens	ENSG00000125166	4 retrocopies	retro_hsap_4687, retro_hsap_473, retro_hsap_960, retro_hsap_971,
Gorilla gorilla	ENSGGOG00000005767	3 retrocopies	retro_ggor_2912, retro_ggor_449, retro_ggor_774,
Microcebus murinus	ENSMICG00000008954	1 retrocopy	retro_mmur_480 ,
Macaca mulatta	ENSMMUG00000006000	1 retrocopy	retro_mmul_1337,
Mustela putorius furo	ENSMPUG00000004862	1 retrocopy	retro_mputfur_567,
Pongo abelii	ENSPPYG00000007413	3 retrocopies	retro_pabe_3640, retro_pabe_823, retro_pabe_901,
Pan troglodytes	ENSPTRG00000008185	4 retrocopies	retro_ptro_3115, retro_ptro_354, retro_ptro_665, retro_ptro_670,
Rattus norvegicus	ENSRNOG00000011782	1 retrocopy	retro_rnor_2695,