RetrogeneDB ID: retro_mmur_720

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4825:38216..39397(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FH
• Ensembl ID: ENSMICG00000003451
• Aliases: None
• Description: fumarate hydratase [Source:HGNC Symbol;Acc:3700]

Sequence

>retro_mmur_720
GCTAATGCAATGATGAAGGCAGCAGATGAGGTAGCTGAAGGTAAATTAAATGATCATTTTTCTCTCGTGGTGTGGCAGAC
TGGATCAGGAACCCAGACAAATATGAATGTAAATGAAGTCATTAGCAATAGAGCAATTGAAATGTTAGGAGGTGAACTTG
GTAGCAAGAAACCTGTGCATCCCAATGATCATGTTAATAAAAGCCAGAGCTCAAATGATAATTTCCCCACAGCAATGCAC
ATTGCTGCGGCAGTAGAAGTTCATGAAGAAATGTTACCAGGACTGCAGAAGCTATATGATGCTCTCAATGCAAAATCCAA
AGGGTTTGCACAGATAATCAAAATTGGGCGTACTCATACTCAGGATGTTGTTCCACTTACTCTTGGGCAGGAATTTAGTG
GTTATGTTCAACAAGTGTCATATGCAATGGTGAGAATAAAAGCTGCCATGCCAAGAATCTATGAGCTTGCAGCTGGAGGC
ACTGCTGTCGGTACCGGTTTAAATACTAGAATTGGCTTTGCAGGAAAGGTTGCTGCAAAAGTGGCTGCACTCACAGACTT
GCCTTTTGTCACTGCTCCAAATAAATTTGAAGCTCTGGCTGCTCATGATGTTCTGATTGAGCTCAGTGGAGCCATGAACA
CCACTGCTTGCAGTCTGATGAAGATTGCAAATGATATTCGTTTTCTGGGTTCTGGTCCTCGGTCGGGTCTGGGTGAACTG
ATCTTGCCTGAAAATGAACCAGGAAGCAGTATAATGCCAGGCAAGGTGAACCCCACTCAGTGTGAAGCGATGACTATGGT
TGCAGCCCAAGTCATGGGGAATCGTGTCGCTGTAACCGTTGGAGGCAGCAATGGACATTTCGAGTTGAATGTTTTCAAGC
CAATGATGATTAAAAATGTGTTACACTCAGCCAGGCTGCTGGGGGACACTTCGGTTTCCTTCACAGAAAACTGCGTGGTG
GGCATCGGGCCAACACAGAAAGGATCAACAAGCTCATGAACGAGCCTCTAATGTTGGTGACAGCTCTCAATCCTCACATA
GGGTATGATAAGGCAGCAAAGATTGCTAAGACAGCACACAAAAATGGATCAACCTTAAAGGAAACTGCTATTGAACTTGG
CTATCTCACAGCACAGCAGTTTGATGAGTGGGTAAAACCTAAGGACATGCTGGGTCCAAAG

Alignment

ORF - retro_mmur_720 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.94 %
• Parental protein coverage: 77.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ANAIMKAADEVAEGKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQS
          ANA.MKAADEVAEGKLNDHF.LVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQS
Retrocopy ANAMMKAADEVAEGKLNDHFSLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQS

Parental  SNDTFPTAMHIAAAVEVHEVLLPGLQKLHDALNAKSKEFAQIIKIGRTHTQDAVPLTLGQEFSGYVQQVS
          SND.FPTAMHIAAAVEVHE..LPGLQKL.DALNAKSK.FAQIIKIGRTHTQD.VPLTLGQEFSGYVQQVS
Retrocopy SNDNFPTAMHIAAAVEVHEEMLPGLQKLYDALNAKSKGFAQIIKIGRTHTQDVVPLTLGQEFSGYVQQVS

Parental  YAMARIKAAMPRIYELAAGGTAVGTGLNTRIGFAEKVAAKVAALTGLPFVTAPNKFEALAAHDALVELSG
          YAM.RIKAAMPRIYELAAGGTAVGTGLNTRIGFA.KVAAKVAALT.LPFVTAPNKFEALAAHD.L.ELSG
Retrocopy YAMVRIKAAMPRIYELAAGGTAVGTGLNTRIGFAGKVAAKVAALTDLPFVTAPNKFEALAAHDVLIELSG

Parental  AMNTTACSLMKIANDIRFLGSGPRSGLGELILPENEPGSSIMPGKVNPTQCEAMTMVAAQVMGNHVAVTV
          AMNTTACSLMKIANDIRFLGSGPRSGLGELILPENEPGSSIMPGKVNPTQCEAMTMVAAQVMGN.VAVTV
Retrocopy AMNTTACSLMKIANDIRFLGSGPRSGLGELILPENEPGSSIMPGKVNPTQCEAMTMVAAQVMGNRVAVTV

Parental  GGSNGHFELNVFKPMMIKNVLHSARLLGDASVSFTE-CVVGI-QANTERINKLMNESLMLVTALNPHIGY
          GGSNGHFELNVFKPMMIKNVLHSARLLGD.SVSFTE.CVVGI..ANTERINKLMNE.LMLVTALNPHIGY
Retrocopy GGSNGHFELNVFKPMMIKNVLHSARLLGDTSVSFTENCVVGI<RANTERINKLMNEPLMLVTALNPHIGY

Parental  DKAAKIAKTAHKNGSTLKETAIELGYLTAEQFDEWVKPKDMLGPK
          DKAAKIAKTAHKNGSTLKETAIELGYLTA.QFDEWVKPKDMLGPK
Retrocopy DKAAKIAKTAHKNGSTLKETAIELGYLTAQQFDEWVKPKDMLGPK

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_720 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_720 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017359	1 retrocopy	retro_cjac_2339,
Echinops telfairi	ENSETEG00000018721	2 retrocopies	retro_etel_1069, retro_etel_1457,
Microcebus murinus	ENSMICG00000003451	2 retrocopies	retro_mmur_1215, retro_mmur_720 ,
Mus musculus	ENSMUSG00000026526	1 retrocopy	retro_mmus_3600,
Oryctolagus cuniculus	ENSOCUG00000021494	1 retrocopy	retro_ocun_50,
Otolemur garnettii	ENSOGAG00000009936	1 retrocopy	retro_ogar_322,
Rattus norvegicus	ENSRNOG00000003653	1 retrocopy	retro_rnor_2979,
Xenopus tropicalis	ENSXETG00000032112	1 retrocopy	retro_xtro_55,