RetrogeneDB ID: retro_mmur_1059

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_18247:613..1525(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HIBADH
• Ensembl ID: ENSMICG00000000512
• Aliases: None
• Description: 3-hydroxyisobutyrate dehydrogenase [Source:HGNC Symbol;Acc:4907]

Sequence

>retro_mmur_1059
TGTTCTAGGTCACTGGCTCCTAAGACTCAGCTGGATTTATTGGACTGGGCAACACGGGAAATCCAATGGCAAAAAATCTC
ATGAAACATGGCTATCCGCTTATTGTTTATGATGTGTTCCCTGAGGCATGCAAAGAGTTTCAAGATGCGGGTGAATAGGT
AGTGTCTTCCCCAGCAGATGTAGCTGAAAAAACTGACAGAATTATTACAATGCTGCCCACCAGTATCAATGCAATAGAAG
CTTATTCTGGAGAAAACGGAATTCTAAAAAAAAGTGAAGAAAGACTCATTATTAATAGATTCCGGTACTATTGATCCTGC
AGTTTCAAAAGAATTGGCCAAAGAAGTTGAGAAAATGGGAGCAGTTTTCATGGATGCCCCTGTTTCCGGTGGTGTAGGAG
CAGCTCGCTTGGGGAACCTCACATTTATGGTGGGAGGAGTCGAAGATGCATTTGCTGCTGCCCAGGAGTTGCTGGGGTGC
ATGGGCTCCAGCCTGGTGTATTGTGGGGCAGTTGGCACGGAGCAGGCTGCAAAGACCTGCAACAACATGCTGTTGGCTAT
TAGTATGATTGGAACTGCTGAAGCTATGAATCTTGGAATCGGGTTAGGGCTTGACCCAAAACTATTGGCAAAAAACCTAA
ATATGAGCTCAGGACGGTGTTGGTCAAGTGCTACTTATAAACCTGTACCCGGAGTGATGGAAGGAGTTCCCTCAGCTAAT
GATTATCAGGGTGGATTTGGAACAACACTCATGGCTAAGGATCTGGGATTGGCACAAGACTCTGCTACCAGCACAAAGAG
TCCAATCCTTCTCGGCAGTCTGGCCCATCAGCTCTATAGGATGTGTCCAAAGGGCTACTCGAAGAAAGACTTCTCATCTG
TGTTCCAGTTTCTACGAGAAGAGGAGATCTTT

Alignment

ORF - retro_mmur_1059 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.21 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CSRSMASKTPV-GFIGLGNMGNPMAKNLMKHGYPLIVYDVFPEACKEFQDAGEQVVSSPADVAEKADRII
          CSRS.A.KT...GFIGLGN.GNPMAKNLMKHGYPLIVYDVFPEACKEFQDAGE.VVSSPADVAEK.DRII
Retrocopy CSRSLAPKTQL<GFIGLGNTGNPMAKNLMKHGYPLIVYDVFPEACKEFQDAGE*VVSSPADVAEKTDRII

Parental  TMLPTSINAIEAYSGENGILKK-VKKGSLLIDSSTIDPAVSKELAKEVEKMGAVFMDAPVSGGVGAARLG
          TMLPTSINAIEAYSGENGI....VKK.SLLIDS.TIDPAVSKELAKEVEKMGAVFMDAPVSGGVGAARLG
Retrocopy TMLPTSINAIEAYSGENGIXXX>VKKDSLLIDSGTIDPAVSKELAKEVEKMGAVFMDAPVSGGVGAARLG

Parental  NLTFMVGGVENEFAAAQELLGCMGSSVVYCGAVGTGQAAKICNNMLLAISMIGTAEAMNLGIRLGLDPKL
          NLTFMVGGVE..FAAAQELLGCMGSS.VYCGAVGT.QAAK.CNNMLLAISMIGTAEAMNLGI.LGLDPKL
Retrocopy NLTFMVGGVEDAFAAAQELLGCMGSSLVYCGAVGTEQAAKTCNNMLLAISMIGTAEAMNLGIGLGLDPKL

Parental  LAKILNMSSGRCWSSDTYNPVPGVMEGVPSANNYQGGFGTTLMAKDLGLAQDSATSTKSPILLGSLAHQL
          LAK.LNMSSGRCWSS.TY.PVPGVMEGVPSAN.YQGGFGTTLMAKDLGLAQDSATSTKSPILLGSLAHQL
Retrocopy LAKNLNMSSGRCWSSATYKPVPGVMEGVPSANDYQGGFGTTLMAKDLGLAQDSATSTKSPILLGSLAHQL

Parental  YRTMCAKGYSKKDFSSVFQFLREEETF
          YR.MC.KGYSKKDFSSVFQFLREEE.F
Retrocopy YR-MCPKGYSKKDFSSVFQFLREEEIF

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_1059 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1059 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 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005849	1 retrocopy	retro_amel_678,
Choloepus hoffmanni	ENSCHOG00000003153	1 retrocopy	retro_chof_1225,
Dasypus novemcinctus	ENSDNOG00000008640	2 retrocopies	retro_dnov_1465, retro_dnov_1997,
Microcebus murinus	ENSMICG00000000512	1 retrocopy	retro_mmur_1059 ,
Sus scrofa	ENSSSCG00000016695	1 retrocopy	retro_sscr_792,
Tursiops truncatus	ENSTTRG00000015276	4 retrocopies	retro_ttru_124, retro_ttru_150, retro_ttru_589, retro_ttru_807,