RetrogeneDB ID: retro_mmur_39

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_20149:1292..2426(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000016056
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMICG00000008789
• Aliases: None
• Description: None

Sequence

>retro_mmur_39
ATTGTGAAGGAGACCGAGTATTATGACATCCTGGGGGTGAAGCCCAGCGCCTCCCCAGAGGAGATCAAGAAGGCCTATCG
CAAGCTGGCGCTCAAGTACCACCCGGACAAGAACCCGGATGAGGGCGAGAAGTTTAAACTTATATCCCAGGCATATGAAG
TGCTTTCAGATCCCAAGAAAAGGGACATTTATGACCAGGGCAGAGAACAGGCAATTAAAGAAGGACGCTCAGGTGGCCCC
AGCTTCTCTTCACCCATGGAAATCTTTGACATGTTCTTTGGTGGTGGAGGACAGATGGCCAGAGAGAGAAGAGGCAAGAA
TGTTGTACATCAGTTGTCTGTAACTCTTGAAGACTTATATAATGGAGTCACAAAGAAATTGGCCCTCCAGAAAAATGTAA
TTTGTGAGAAATGTGAAGGCATTGGTGGGAAGAAGGGGTCCGTGGAAAAGTGCCCGCTGTGCAAGGGGCGGGGGATGCAG
ATCCACATCCAGCAGATCGGACCGGACATGGTGCAGCAGATCCAGACTGTGTGCGTCGAGTGCAAGGGCCAGGGAGAGCG
CATCAACCCCAAAGACCGCTGTGAGAGCTGCAGCGGTGCCAAGGTGATCTGCAAGAAGAAGATTATCGAGGTACATGTTG
AAAAAGGTATGAAAGATGGGCAGAAGATACTGTTCCATGCAGAAGGAGATCAGGAACCTGAGCTGGAGCCCGATGATGTC
ATAATTGTGCTTGATCAGAAGGACCGTAGTGTCTTTCAGAGACGAGGCCATGACTTAATCATGAAAATGAAAATTCATCT
TTCTGAAGCTCTTTGTGGCTTCAAGAAGACAGTAAAAACCCCGGATGATCGGATTCTTGTTATTACATCCAAATCAGGTG
AGGTGATAAAGCATGGGGACCTGAAGTGTGTGCGAAACGAAGGAATGCCCATCTGCGAAGCACCCCTGGAAAAAGGGACT
CTGATCATACAATTTTTGGTAATCTTTCCTGAAACACACTGGCTTTCTCCAGAAAAGCTTCCTCAGCTGGAAGCTCTGCT
CCCTCCTCGACAGAAAGTGAGGATTACAGATGACATGGATCACGTGGAGCTGAAGGACTTTAATCCCAGTGAGCAGAGCT
GGCGCCAGCACGGG

Alignment

ORF - retro_mmur_39 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.48 %
• Parental protein coverage: 94.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KETEYYDILGVKPSASPEEIKKAYRKLALKYHPDKNPDEGEKFKLISQAYEVLSDPKKRDIYDQGGEQAI
          KETEYYDILGVKPSASPEEIKKAYRKLALKYHPDKNPDEGEKFKLISQAYEVLSDPKKRDIYDQG.EQAI
Retrocopy KETEYYDILGVKPSASPEEIKKAYRKLALKYHPDKNPDEGEKFKLISQAYEVLSDPKKRDIYDQGREQAI

Parental  KEGGSGGPSFSSPMDIFDMFFGGGGRMARERRGKNVVHQLSVTLEDLYNGVTKKLALQKNVICEKCEGIG
          KEG.SGGPSFSSPM.IFDMFFGGGG.MARERRGKNVVHQLSVTLEDLYNGVTKKLALQKNVICEKCEGIG
Retrocopy KEGRSGGPSFSSPMEIFDMFFGGGGQMARERRGKNVVHQLSVTLEDLYNGVTKKLALQKNVICEKCEGIG

Parental  GKKGSVEKCPLCKGRGMQIHIQQIGPGMVQQIQTVCVECKGQGERINPKDRCESCSGAKVIREKKIIEVH
          GKKGSVEKCPLCKGRGMQIHIQQIGP.MVQQIQTVCVECKGQGERINPKDRCESCSGAKVI..KKIIEVH
Retrocopy GKKGSVEKCPLCKGRGMQIHIQQIGPDMVQQIQTVCVECKGQGERINPKDRCESCSGAKVICKKKIIEVH

Parental  VEKGMKDGQKILFHGEGDQEPELEPGDVIIVLDQKDHSVFQRRGHDLIMKMKIHLSEALCGFKKTVKTLD
          VEKGMKDGQKILFH.EGDQEPELEP.DVIIVLDQKD.SVFQRRGHDLIMKMKIHLSEALCGFKKTVKT.D
Retrocopy VEKGMKDGQKILFHAEGDQEPELEPDDVIIVLDQKDRSVFQRRGHDLIMKMKIHLSEALCGFKKTVKTPD

Parental  DRILVITSKSGEVIKHGDLKCVRNEGMPIYKAPLEKGTLIIQFLVIFPEKHWLSPEKLPQLEALLPPRQK
          DRILVITSKSGEVIKHGDLKCVRNEGMPI..APLEKGTLIIQFLVIFPE.HWLSPEKLPQLEALLPPRQK
Retrocopy DRILVITSKSGEVIKHGDLKCVRNEGMPICEAPLEKGTLIIQFLVIFPETHWLSPEKLPQLEALLPPRQK

Parental  VRITDDMDQVELKEFNPSEQNWRQHG
          VRITDDMD.VELK.FNPSEQ.WRQHG
Retrocopy VRITDDMDHVELKDFNPSEQSWRQHG

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_39 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_39 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 10 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012576	1 retrocopy	retro_amel_1659,
Dipodomys ordii	ENSDORG00000005972	4 retrocopies	retro_dord_245, retro_dord_280, retro_dord_333, retro_dord_533,
Echinops telfairi	ENSETEG00000004320	4 retrocopies	retro_etel_1010, retro_etel_1031, retro_etel_1067, retro_etel_608,
Macropus eugenii	ENSMEUG00000015982	4 retrocopies	retro_meug_1059, retro_meug_1893, retro_meug_292, retro_meug_624,
Microcebus murinus	ENSMICG00000008789	6 retrocopies	retro_mmur_1242, retro_mmur_1460, retro_mmur_39 , retro_mmur_482, retro_mmur_496, retro_mmur_578,
Mus musculus	ENSMUSG00000032285	1 retrocopy	retro_mmus_2632,
Otolemur garnettii	ENSOGAG00000006752	5 retrocopies	retro_ogar_1760, retro_ogar_1985, retro_ogar_221, retro_ogar_2656, retro_ogar_841,
Ochotona princeps	ENSOPRG00000007594	1 retrocopy	retro_opri_1028,
Tupaia belangeri	ENSTBEG00000009268	9 retrocopies	retro_tbel_2276, retro_tbel_2308, retro_tbel_2790, retro_tbel_2831, retro_tbel_3242, retro_tbel_4322, retro_tbel_4735, retro_tbel_772, retro_tbel_796,
Tarsius syrichta	ENSTSYG00000008600	1 retrocopy	retro_tsyr_1752,