RetrogeneDB ID: retro_mmur_1438

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_60274:4945..5550(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FHL1
• Ensembl ID: ENSMICG00000009342
• Aliases: None
• Description: four and a half LIM domains 1 [Source:HGNC Symbol;Acc:3702]

Sequence

>retro_mmur_1438
ATGGCTGAGAAGTTCAATTGCCACTATTGCCAGGAAGCCTTGCAAGGGAAGAAGTACGTGGAGAAGGATGGCCACCACTG
CTGCCGAAGTGCTTTGACAAGTTCTGCGCCAACACCTGCCTGGAATGCTGCAAGCCCATTGGTGCGGACGCCAAGGAAGT
GCACTATAAGAACCGCTTCTGGCACGACACCTGCTTCCGCTGCTCCAAGTGCCTTCACCCCTTGGCCAATGAGACTTTTG
TGGCCAAGGACAGCAAGATCCTGTGCAACAACTGCACCACTCGGGAGGATTCCCCCAAGTGCAAGGGGTGCTTCAAGGCC
ATTGTGGCAGGAGATCAAAATGTGGAGTACAAGGGGTCCGTCTGGCACAAAGACTGCTTCACCTGCAGCAACTGCAAGCA
AGTCATTGGAACTGGAAGCTTCTTCCCGAAAGGGGAGAACTTCTACTGCGTGACTTGCCATGAGACCAAGTTTGCCAAGC
ATTGTGTGAAGTGCAACAAGGCCATCACATCTGGAGGAATCACTTACCAGGATCAGCCCTGGCATGCCGATTGCTTTGTG
TGTGTTACCTGCTCTAAGAAGCTGGCTGGGCAGCGTTTCACCGCT

Alignment

ORF - retro_mmur_1438 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.54 %
• Parental protein coverage: 62.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAEKFNCHYCREALQGKKYVEKDGHHCCL-KCFDKFCANTCVECRKPIGADAKEVHYKNRFWHDTCFRCS
          MAEKFNCHYC.EALQGKKYVEKDGHHCC..KCFDKFCANTC.EC.KPIGADAKEVHYKNRFWHDTCFRCS
Retrocopy MAEKFNCHYCQEALQGKKYVEKDGHHCCR<KCFDKFCANTCLECCKPIGADAKEVHYKNRFWHDTCFRCS

Parental  KCLHPLANETFVAKDSKILCNNCTTREDSPKCKGCFKAIVAGDQNVEYKGSVWHKDCFTCSNCKQVIGTG
          KCLHPLANETFVAKDSKILCNNCTTREDSPKCKGCFKAIVAGDQNVEYKGSVWHKDCFTCSNCKQVIGTG
Retrocopy KCLHPLANETFVAKDSKILCNNCTTREDSPKCKGCFKAIVAGDQNVEYKGSVWHKDCFTCSNCKQVIGTG

Parental  SFFPKGENFYCVTCHETKFAKHCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTA
          SFFPKGENFYCVTCHETKFAKHCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTA
Retrocopy SFFPKGENFYCVTCHETKFAKHCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTA

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_1438 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1438 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
Dipodomys ordii	ENSDORG00000015644	2 retrocopies	retro_dord_299, retro_dord_722,
Homo sapiens	ENSG00000022267	1 retrocopy	retro_hsap_2878,
Gorilla gorilla	ENSGGOG00000010054	1 retrocopy	retro_ggor_1994,
Microcebus murinus	ENSMICG00000009342	1 retrocopy	retro_mmur_1438 ,
Myotis lucifugus	ENSMLUG00000014336	2 retrocopies	retro_mluc_311, retro_mluc_814,
Macaca mulatta	ENSMMUG00000007922	1 retrocopy	retro_mmul_1458,
Mus musculus	ENSMUSG00000023092	1 retrocopy	retro_mmus_51,
Pongo abelii	ENSPPYG00000020761	1 retrocopy	retro_pabe_2382,