RetrogeneDB ID: retro_mluc_2366

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430258:278496..279288(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC39A1
• Ensembl ID: ENSMLUG00000013282
• Aliases: None
• Description: None

Sequence

>retro_mluc_2366
GGGGCCCTGAGAGAACCAGAGCTCCTGGTGTGGCGCCCAGAGGCAGTGGCCTCGGATCCCCCAGTGCCTGTGGGACTGGA
GGTGAAGTTGGGGGCCTTGGTGCTCCTGCTGGTGCTCACTCTCACCTGCAGTCCAGTGCCCATCCGTGTCCTTTGCTCGC
CTGGAACTAACCCGGAAGCCCTGAGCCTTCCGCCAGAAAGCCCTGAGCCTTGTAAGCTGCTTTGCCAGAGATGTGTTTCT
GGTCACCTGTCTCCTGGACCTGCTGCCTGACTACCTGTCTGCCATAGATGAGGCACTGGCAGCCCTGCACGTGATGCTCG
TTTCCCCTACAAGAGTTTATCCTGGTCCTGGGCTTCTTCCTGGTCCTGGTGATGGAGCAGATCATGCTGGCTTACAAGGA
GCAGTCAGTGCCACCACCTCGAGAGGAGACAAGGGCGCTGCTGGGAACAGTGAATGGTGGGCCGCAGAACTGGCACACAC
AAAGCTTCCCACAGGCAAGCAGAGCTCTGTCAGCTGCCTCAGCCCTGCGTGCCGGTGTACTGGTCTCCTCCCTGGCTCTG
CACTCAGTGTTAGAGGGGCTGGCAGTGGGACTGCAACGAGACCAGCTCGGGCCATGGAGCTGTGTTTGGCTTTGCTGCTC
CATCAGCAAAGCTGGCCCTCAGCTTGTCCCTGAGGCTGCTGCAGAGCCACCTGCGAGCAAAGGTGATGGCTGGCTGTGGC
ATTCTCTTCTCATGCACGACACCCCTGGGCATTGGGCTGGGTGCAGCTCTGGCAGAGTCAGCTGGCCCAGTC

Alignment

ORF - retro_mluc_2366 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.66 %
• Parental protein coverage: 82.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  GPWGEPELLVWRPEAVASAPPLPVGLEVKLGALVLLLVLTLICSLVPICVLRRPGASPEAS-AFRQKVLS
          G...EPELLVWRPEAVAS.PP.PVGLEVKLGALVLLLVLTL.CS.VPI.VL..PG..PEA..AFRQK.LS
Retrocopy GALREPELLVWRPEAVASDPPVPVGLEVKLGALVLLLVLTLTCSPVPIRVLCSPGTNPEAL>AFRQKALS

Parental  LVSCFAGGVFLATCLLDLLPDYLSAIDEALAALHVTL-QFP-LQEFILAMGFFLVLVMEQITLAYKEQSV
          LVSCFA..VFL.TCLLDLLPDYLSAIDEALAALHV.L..FP.LQEFIL..GFFLVLVMEQI.LAYKEQSV
Retrocopy LVSCFARDVFLVTCLLDLLPDYLSAIDEALAALHVML<RFP<LQEFILVLGFFLVLVMEQIMLAYKEQSV

Parental  PPPREETRALLGTVNGGPQHWHDGQGLPQASGVLAAPSALRACVLVFSLALHSVFEGLAVGLQRDQ-ART
          PPPREETRALLGTVNGGPQ.WH..Q..PQAS..L.A.SALRA.VLV.SLALHSV.EGLAVGLQRDQ.AR.
Retrocopy PPPREETRALLGTVNGGPQNWHT-QSFPQASRALSAASALRAGVLVSSLALHSVLEGLAVGLQRDQ<ARA

Parental  MELCLALLLHK-GILAVSLSLRLLQSHLRAKVVAGCGILFSCMTPLGIGLGAALAESAGPL
          MELCLALLLH....LA.SLSLRLLQSHLRAKV.AGCGILFSC.TPLGIGLGAALAESAGP.
Retrocopy MELCLALLLHQ<AKLALSLSLRLLQSHLRAKVMAGCGILFSCTTPLGIGLGAALAESAGPV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_2366 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010006	1 retrocopy	retro_cjac_1476,
Macropus eugenii	ENSMEUG00000006754	1 retrocopy	retro_meug_1551,
Microcebus murinus	ENSMICG00000010310	1 retrocopy	retro_mmur_162,
Myotis lucifugus	ENSMLUG00000013282	1 retrocopy	retro_mluc_2366 ,
Macaca mulatta	ENSMMUG00000005007	1 retrocopy	retro_mmul_28,
Mus musculus	ENSMUSG00000052310	1 retrocopy	retro_mmus_1899,
Oryctolagus cuniculus	ENSOCUG00000003045	1 retrocopy	retro_ocun_1792,