RetrogeneDB ID: retro_mmur_1026

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_16520:1144..1486(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AP1S1
• Ensembl ID: ENSMICG00000005406
• Aliases: None
• Description: adaptor-related protein complex 1, sigma 1 subunit [Source:HGNC Symbol;Acc:559]

Sequence

>retro_mmur_1026
AAAAGGATTGCAAGAGAATTTGTTCAAACTGTTTTAGCAAGGAAACCTAAATGTGCAGCTTCCTTGAGTGGCGAGATCTG
GAGATTGTTTACAAAAGATATGGTAGTCTGTATTTGCTGTGCTATTGAGGGTCAGGACAATTAACTAATTATCCTGTAAA
TAATTCACTGTTATGTGGAATTACTTGACAAGTATTTTGGCAGTGTGTGCGAACTTGATATCATCTTTAATTTTGAGAAG
GCATATTTTATTTGAGATGAGTATCTTTTGGGAGAGGAAGCTCAGTAAACATCGAAGAACAATGTCCTTAGAGCAATTGA
GCAGACTGACCTACTGCAGGAG

Alignment

ORF - retro_mmur_1026 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.48 %
• Parental protein coverage: 73.25 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKMVRELMQVVLARKPKMCSFLEWRDLKVVYKRYASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSV
          K...RE..Q.VLARKPK....L.........K.......CCAIEGQDN.LI.L..IH.YVELLDKYFGSV
Retrocopy KRIAREFVQTVLARKPKCAASLSGEIWRLFTKDMV-VCICCAIEGQDN*LIIL*IIHCYVELLDKYFGSV

Parental  CELDIIFNFEKAYFILDEFLMGGDVQDTSKKSVLKAIEQADLLQE
          CELDIIFNFEKAYFI.DE.L.G...Q.TSK..VL.AIEQ.DLLQE
Retrocopy CELDIIFNFEKAYFI*DEYLLGEEAQ*TSKNNVLRAIEQTDLLQE

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_1026 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1026 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 9 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000002673	1 retrocopy	retro_amel_210,
Felis catus	ENSFCAG00000029169	1 retrocopy	retro_fcat_152,
Homo sapiens	ENSG00000106367	1 retrocopy	retro_hsap_3765,
Macropus eugenii	ENSMEUG00000016245	3 retrocopies	retro_meug_1011, retro_meug_154, retro_meug_2051,
Microcebus murinus	ENSMICG00000005406	2 retrocopies	retro_mmur_1026 , retro_mmur_1368,
Microcebus murinus	ENSMICG00000014406	1 retrocopy	retro_mmur_1492,
Myotis lucifugus	ENSMLUG00000009898	2 retrocopies	retro_mluc_1493, retro_mluc_2061,
Mustela putorius furo	ENSMPUG00000015867	1 retrocopy	retro_mputfur_1184,
Pan troglodytes	ENSPTRG00000019520	3 retrocopies	retro_ptro_1234, retro_ptro_24, retro_ptro_2554,