RetrogeneDB ID: retro_mmur_703

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4746:6328..6995(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CFL1
• Ensembl ID: ENSMICG00000012763
• Aliases: None
• Description: cofilin 1 (non-muscle) [Source:HGNC Symbol;Acc:1874]

Sequence

>retro_mmur_703
GCCTCTTGTGTGGCTGTCTCTGATGGCGTCATCAAGGTGTTCAATGACATGAAGGTGCGCAAGTCTTCGACACCAGAGGA
GGTGAAGCAGCGCAAGAAGGCAGTGCTCTTCTGCCTGAGTGAGGACAAAAAGAACATCATCCTGGAGGAGGGCAAGGAGA
TCCTGGTAGGTGACGTGGGCCAGACTGTTGACGATCCCTACGCCACCTTTGTCAAGGTGCTTCCAGACAAGGACTGCCAC
TATGCCCTCTATGATGCAACCTACGAGACCAAGGAGAGTAAGAAGGAAGACCTGGTGCTTATCTTTTGGGTCCCTGCGTG
TGCACCCCTTAAGAGCAATATGATCTATGCCAGCTCTAAGGATGCCGTCAAGAAGAAGCTGACAGGGATCAAGCATGAAT
TACAAGCAAACTGCTATGAGGAGGTCAAGGACCGCTGCACCCTGGCAGAGAAGCTGGGGGGCAGTGCTGTCATCTCCCTG
GAGGGGCAAGCCTTTGCGAGCCCCCTCCGACCGCCTGCCTGGAGCATCTGGCAGCCCCAGACCTGCCCCTGGGGGTTGCA
GGCTGCCCCTTTCCTGCCAGACTGGAGGGGCTGGGGGGATCCCAGCAGGGGGAGGGCAATCCCTTTACCCCAGTTGCCAA
ACAGTCCCCCCACCCCCTGGATTTTCC

Alignment

ORF - retro_mmur_703 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.03 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ASGVAVSDGVIKVFNDMKVRKSSTPEEVKKRKKAVLFCLSEDKKNIILEEGKEILVGDVGQTVDDPYATF
          AS.VAVSDGVIKVFNDMKVRKSSTPEEVK.RKKAVLFCLSEDKKNIILEEGKEILVGDVGQTVDDPYATF
Retrocopy ASCVAVSDGVIKVFNDMKVRKSSTPEEVKQRKKAVLFCLSEDKKNIILEEGKEILVGDVGQTVDDPYATF

Parental  VKMLPDKDCRYALYDATYETKESKKEDLVFIFWAPECAPLKSKMIYASSKDAIKKKLTGIKHELQANCYE
          VK.LPDKDC.YALYDATYETKESKKEDLV.IFW.P.CAPLKS.MIYASSKDA.KKKLTGIKHELQANCYE
Retrocopy VKVLPDKDCHYALYDATYETKESKKEDLVLIFWVPACAPLKSNMIYASSKDAVKKKLTGIKHELQANCYE

Parental  EVKDRCTLAEKLGGSAVISLE-GKPL-APSDPLPGASGSPRPALGGCRLPPSCQTGGPGGIPAGGRPSLY
          EVKDRCTLAEKLGGSAVISLE.GKPL.APSD.LPGASGSPRPA.GGCRLP.SCQTGG.GGIPAGG..SLY
Retrocopy EVKDRCTLAEKLGGSAVISLE>GKPLRAPSDRLPGASGSPRPAPGGCRLPLSCQTGGAGGIPAGGGQSLY

Parental  PGCQTVPPTPGYS
          P.CQTVPP.PG.S
Retrocopy PSCQTVPPPPGFS

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_703 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_703 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 12 parental genes, and 38 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021455	1 retrocopy	retro_btau_1382,
Canis familiaris	ENSCAFG00000024955	6 retrocopies	retro_cfam_1544, retro_cfam_366, retro_cfam_660, retro_cfam_67, retro_cfam_943, retro_cfam_964,
Callithrix jacchus	ENSCJAG00000001916	1 retrocopy	retro_cjac_347,
Felis catus	ENSFCAG00000013272	3 retrocopies	retro_fcat_1456, retro_fcat_303, retro_fcat_991,
Microcebus murinus	ENSMICG00000009237	1 retrocopy	retro_mmur_493,
Microcebus murinus	ENSMICG00000012763	1 retrocopy	retro_mmur_703 ,
Microcebus murinus	ENSMICG00000013687	1 retrocopy	retro_mmur_765,
Myotis lucifugus	ENSMLUG00000024685	6 retrocopies	retro_mluc_1905, retro_mluc_2114, retro_mluc_216, retro_mluc_2218, retro_mluc_455, retro_mluc_507,
Oryctolagus cuniculus	ENSOCUG00000025604	4 retrocopies	retro_ocun_1123, retro_ocun_1390, retro_ocun_324, retro_ocun_478,
Otolemur garnettii	ENSOGAG00000016503	8 retrocopies	retro_ogar_1442, retro_ogar_1581, retro_ogar_1648, retro_ogar_2192, retro_ogar_302, retro_ogar_405, retro_ogar_453, retro_ogar_828,
Rattus norvegicus	ENSRNOG00000020660	2 retrocopies	retro_rnor_1354, retro_rnor_693,
Ictidomys tridecemlineatus	ENSSTOG00000027968	4 retrocopies	retro_itri_144, retro_itri_1456, retro_itri_1734, retro_itri_685,