RetrogeneDB ID: retro_mmur_1215

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_33499:1160..2342(+)
• 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_1215
GCTAATGCAATAATGAAGGCAGCAGATGAGGTAGCCGAAGGTAAATTAAATGATCATTTTCCTCTCGTGGTGTGGCAGAC
TGGATCAGGAACCCAGACAAATATGAATGTAAATGAAGTCATTAGCAATAGAGCAATTGAAATGTTAGGAGGTGAACTTG
GTAGCAAGAAACCTGTGCATCCCAATGATCATGTTAATAAAAGCCAGAGCTCAAATGATACTTTCCCCACAGCAATGCAC
ATTGCTGCGGCAGTAGAAGTTCATGAAGTACTGCTACCAGGACTACAGAAGCTACATGATGCTCTCAATGCAAAATCCAA
AGAGTTTGCACAGATCATCAAAATTGGGCGTACTCATACTCAGGATGCTGTTCCACTTACTCTTGGGCAGGAATTTAGTG
GTTATGTTCAACAAGTGTCATATGCGATGGCAAGAATAAAAGCTGCCATGCCAAGAATCTATGAGCTTGCAGCTGGAGGC
CCCGCTGTTGGTACTGGTTTAAATACTAGAATTGGCTTTGCAGAAAAGGTTGCTGCAAAAGTGGCTGCACTCACAGGCTT
GCCTTTTGTCACTGCTCCAAATAAATTTGAAGCTCTGGCTGCTCATGATGCTCTGGTTGAGCTCAGTGGAGCCATGAACA
CCACTGCTTGCAGTCTGATGAAGATCGCAAATGATATTCGTTTTCTGGGTTCTGGTCCTCGGTCGGGTCTGGGTGAACTG
ATCTTGCCTGAAAATGAACCAGCAAGCAGTATCATGCCAGGCAAGGTGAACCCCACTCAGTGTGAAGCGATGACTATGGT
CGCAGCCCAAGTCATGGGGAATCATGTTGCTGTAACCGTTGGAGGCAGCAATGGACATTTCGAGTTGAATGTTTTCAAGC
CAATGATGATTAAAAATGTGTTACACTCAGCCAGGCTGCTGGGGGACACTTCAGTTTCCTTCACAGAAAACTGCGTGGTG
GGCATCCAGGCCAACACAGAAAGGATCAACAAGCTCATGAACGAGTCTCTAATGTTGGTGACAGCTCTCAATCCTCACAT
AGGGTATGATAAGGCAGCAAAGATTGCTAAGACAGCACACAAAAATGGATCAACCTTAAAGGAAACTGCTATTGAACTTG
GCTATCTCACAGCAGAGCAGTTTGATGAGTGGGTAAAACCTAAGGACATGCTGGGTCCAAAA

Alignment

ORF - retro_mmur_1215 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.98 %
• Parental protein coverage: 77.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ANAIMKAADEVAEGKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQS
          ANAIMKAADEVAEGKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQS
Retrocopy ANAIMKAADEVAEGKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQS

Parental  SNDTFPTAMHIAAAVEVHEVLLPGLQKLHDALNAKSKEFAQIIKIGRTHTQDAVPLTLGQEFSGYVQQVS
          SNDTFPTAMHIAAAVEVHEVLLPGLQKLHDALNAKSKEFAQIIKIGRTHTQDAVPLTLGQEFSGYVQQVS
Retrocopy SNDTFPTAMHIAAAVEVHEVLLPGLQKLHDALNAKSKEFAQIIKIGRTHTQDAVPLTLGQEFSGYVQQVS

Parental  YAMARIKAAMPRIYELAAGGTAVGTGLNTRIGFAEKVAAKVAALTGLPFVTAPNKFEALAAHDALVELSG
          YAMARIKAAMPRIYELAAGG.AVGTGLNTRIGFAEKVAAKVAALTGLPFVTAPNKFEALAAHDALVELSG
Retrocopy YAMARIKAAMPRIYELAAGGPAVGTGLNTRIGFAEKVAAKVAALTGLPFVTAPNKFEALAAHDALVELSG

Parental  AMNTTACSLMKIANDIRFLGSGPRSGLGELILPENEPGSSIMPGKVNPTQCEAMTMVAAQVMGNHVAVTV
          AMNTTACSLMKIANDIRFLGSGPRSGLGELILPENEP.SSIMPGKVNPTQCEAMTMVAAQVMGNHVAVTV
Retrocopy AMNTTACSLMKIANDIRFLGSGPRSGLGELILPENEPASSIMPGKVNPTQCEAMTMVAAQVMGNHVAVTV

Parental  GGSNGHFELNVFKPMMIKNVLHSARLLGDASVSFTE-CVVGIQANTERINKLMNESLMLVTALNPHIGYD
          GGSNGHFELNVFKPMMIKNVLHSARLLGD.SVSFTE.CVVGIQANTERINKLMNESLMLVTALNPHIGYD
Retrocopy GGSNGHFELNVFKPMMIKNVLHSARLLGDTSVSFTENCVVGIQANTERINKLMNESLMLVTALNPHIGYD

Parental  KAAKIAKTAHKNGSTLKETAIELGYLTAEQFDEWVKPKDMLGPK
          KAAKIAKTAHKNGSTLKETAIELGYLTAEQFDEWVKPKDMLGPK
Retrocopy KAAKIAKTAHKNGSTLKETAIELGYLTAEQFDEWVKPKDMLGPK

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_1215 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1215 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,