RetrogeneDB ID: retro_mluc_1038

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429789:11132974..11133543(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000029017
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TPM3
• Ensembl ID: ENSMLUG00000013331
• Aliases: None
• Description: tropomyosin 3 [Source:HGNC Symbol;Acc:12012]

Sequence

>retro_mluc_1038
GAGAGGGCCGAGCGCCTCCAGCGGGAAGTGGAGGGAGAAAGGCAGGCTCGGGAACAGGCTGAGGCTGAGGTGGTTGAAGA
GGAGCTGGACCGTGCTCAGGAGTGCCTGGCCACTGCCCTGCAAAAGCTGGAGGAAGCTGAGAAAGCTGCCAGTGAGAGCG
AGAGAGGTATGAAGGTTATTGAAAACCGAGCTTCAAAAGATGAAGAAAAGCTGGAACTCCAGGAAATCCAACTCAAAGAA
GCTCAGCACATTGCAGAAGAGGCAGATAGAAAGTATGAAGAAGTGGCTCGTAAGCTGGTGATTATTGAGGGAGACTGGGA
ACGCACAGAGGAACGAGCTGAGCTGGCAGAGTCCCGTTGCGGAGAGATGGATGAGCAGAGGAGACTGATGGGCCAGAACC
TGCAGTGTCTGAGTGCTGCTGAAGAAAAGTATCCTCAAAAAGAAGACAAATATGAGGAAGAGATAAAGATTCTTACTGAT
AAACTCAAGGAGGCAGAGACCCGTGCTGAGTTTGCTGCGAGATCGGTAGCCAAGCTGGAAAAGACAATTGAGATTTGGAA
GATAAACTG

Alignment

ORF - retro_mluc_1038 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.44 %
• Parental protein coverage: 66.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ELAEKKAADAEAE-VASLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRALKDEEK
          E.AE......E.E..A........VEEELDRAQE.LATALQKLEEAEKAA.ESERGMKVIENRA.KDEEK
Retrocopy ERAERLQREVEGERQAREQAEAEVVEEELDRAQECLATALQKLEEAEKAASESERGMKVIENRASKDEEK

Parental  MELQEIQLKEAKHIAEEADRKYEEVARKLVIIEGDLERTEERAELAESKCSELEEELKNVTNNLKSLEAQ
          .ELQEIQLKEA.HIAEEADRKYEEVARKLVIIEGD.ERTEERAELAES.C.E..E.......NL..L.A.
Retrocopy LELQEIQLKEAQHIAEEADRKYEEVARKLVIIEGDWERTEERAELAESRCGEMDEQRRLMGQNLQCLSAA

Parental  AEKYSQKEDKYEEEIKILTDKLKEAETRAEFAERSVAKLEKTID-DLEDEL
          .EKY.QKEDKYEEEIKILTDKLKEAETRAEFA.RSVAKLEKTI..DLED.L
Retrocopy EEKYPQKEDKYEEEIKILTDKLKEAETRAEFAARSVAKLEKTIE<DLEDKL

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_1038 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.

---

Parental genes homology:

Parental genes homology involve 13 parental genes, and 43 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011877	2 retrocopies	retro_amel_1017, retro_amel_1212,
Bos taurus	ENSBTAG00000033217	3 retrocopies	retro_btau_1166, retro_btau_210, retro_btau_933,
Canis familiaris	ENSCAFG00000017311	4 retrocopies	retro_cfam_1278, retro_cfam_1678, retro_cfam_2089, retro_cfam_983,
Cavia porcellus	ENSCPOG00000007279	1 retrocopy	retro_cpor_150,
Dasypus novemcinctus	ENSDNOG00000019156	7 retrocopies	retro_dnov_1322, retro_dnov_1767, retro_dnov_329, retro_dnov_451, retro_dnov_848, retro_dnov_878, retro_dnov_944,
Equus caballus	ENSECAG00000010942	1 retrocopy	retro_ecab_390,
Felis catus	ENSFCAG00000012596	1 retrocopy	retro_fcat_1441,
Homo sapiens	ENSG00000143549	9 retrocopies	retro_hsap_1482, retro_hsap_1639, retro_hsap_2001, retro_hsap_2011, retro_hsap_2012, retro_hsap_2237, retro_hsap_2395, retro_hsap_3711, retro_hsap_3893,
Myotis lucifugus	ENSMLUG00000013331	1 retrocopy	retro_mluc_1038 ,
Macaca mulatta	ENSMMUG00000010805	10 retrocopies	retro_mmul_1019, retro_mmul_1240, retro_mmul_1384, retro_mmul_1385, retro_mmul_1703, retro_mmul_1829, retro_mmul_2128, retro_mmul_2354, retro_mmul_314, retro_mmul_880,
Mustela putorius furo	ENSMPUG00000007875	1 retrocopy	retro_mputfur_604,
Mus musculus	ENSMUSG00000027940	1 retrocopy	retro_mmus_21,
Oryctolagus cuniculus	ENSOCUG00000011821	2 retrocopies	retro_ocun_699, retro_ocun_8,