RetrogeneDB ID: retro_mluc_574

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429768:2791315..2791912(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000023587
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PCBP3
• Ensembl ID: ENSMLUG00000003074
• Aliases: None
• Description: None

Sequence

>retro_mluc_574
GTGACTGAAGGTTGATTAAATGTCACTCTCACCATCCGCCTACTTACGCATGGAAAGGAAGTTGGCAGTATCATGGGAAA
GAAAGGAGAATCAGTTAAGAAGATGCGCAAGGAGAGTGGTGCATGTATCAACATCTCAGAAGGGAATTGTTCTGAGAGAA
TTATCACTTTGACTGGACTCACTAATGCCATCTTCAAAGCCTTTGCTATGATCACGGACAAACTGGAAGAGGACATCAGC
AGCTCTATGACCAATAGCACAGCTGCCAGTAGACCCCCAGTCACCCTGTGGCTGGTGGTCCCTGCTAGTCAATGTGGCTT
TCTCATTGGGAAAGTAGCTGCAAGATCAAGGAAATAAGAGAGAGTACAGGGGCTCAGGTCCAGGTGGCAGGGGATATGCT
CCCCAACTCAACTGAGCAGGCCATCACTATTGCTGGCATTCCGCAATCCATCATGGAGTGTGTGAAACAGATCTGCGTGA
TCATGTTGGAGTCCCCCCTAAGGGTGTGACCATCCCATACTGGCCCAAGCCGTCCAGTTCTCTGGTCTCTTTGCAGGTGG
TCAAGCCTATACCATTCAAGGAAAGTGTACCATTCCA

Alignment

ORF - retro_mluc_574 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.85 %
• Parental protein coverage: 53.91 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VSEGGLNVTLTIRLLMHGKEVGSIIGKKGETVKKMREESGARINISEGNCPERIVTITGPTDAIFKAFAM
          V.EG.LNVTLTIRLL.HGKEVGSI.GKKGE.VKKMR.ESGA.INISEGNC.ERI.T.TG.T.AIFKAFAM
Retrocopy VTEG*LNVTLTIRLLTHGKEVGSIMGKKGESVKKMRKESGACINISEGNCSERIITLTGLTNAIFKAFAM

Parental  IAYKFEEDIINSMSNSPATSKPPVTLRLVVPASQCGSLIGK-GGSKIKEIRESTGAQVQVAGDMLPNSTE
          I..K.EEDI..SM.NS.A.S.PPVTL.LVVPASQCG.LIGK....KIKEIRESTGAQVQVAGDMLPNSTE
Retrocopy ITDKLEEDISSSMTNSTAASRPPVTLWLVVPASQCGFLIGK<SSCKIKEIRESTGAQVQVAGDMLPNSTE

Parental  RAVTISGTPDAIIQCVKQICVVMLES-PPKGATIPYRPKPASTPV-IFAGGQAYTIQGQYAIP
          .A.TI.G.P..I..CVKQICV.MLES.PPKG.TIPY.PKP.S..V..FAGGQAYTIQG...IP
Retrocopy QAITIAGIPQSIMECVKQICVIMLES<PPKGVTIPYWPKPSSSLV<LFAGGQAYTIQGKCTIP

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_574 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 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000003648	1 retrocopy	retro_cpor_257,
Dipodomys ordii	ENSDORG00000003640	2 retrocopies	retro_dord_742, retro_dord_748,
Myotis lucifugus	ENSMLUG00000003074	1 retrocopy	retro_mluc_574 ,
Myotis lucifugus	ENSMLUG00000005871	2 retrocopies	retro_mluc_128, retro_mluc_561,
Myotis lucifugus	ENSMLUG00000009971	3 retrocopies	retro_mluc_2199, retro_mluc_314, retro_mluc_571,
Nomascus leucogenys	ENSNLEG00000002639	1 retrocopy	retro_nleu_2044,
Oryctolagus cuniculus	ENSOCUG00000002696	1 retrocopy	retro_ocun_1257,
Rattus norvegicus	ENSRNOG00000001245	1 retrocopy	retro_rnor_2656,
Sorex araneus	ENSSARG00000007629	1 retrocopy	retro_sara_414,
Tursiops truncatus	ENSTTRG00000015075	1 retrocopy	retro_ttru_1095,