RetrogeneDB ID: retro_mluc_2352

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430238:560094..561440(-)
• Located in intron of: ENSMLUG00000004863

Retrocopy information

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

Parental gene information

• Parental gene symbol: PDIA3
• Ensembl ID: ENSMLUG00000009380
• Aliases: None
• Description: None

Sequence

>retro_mluc_2352
TGGTGTGGACACCGCAAGAGGCTTGCCCCGAGCATGAAGCCGCAGCTACTCGATTAAAAGGAATAGTCCCATTAGCAAAG
GTTGATTGTGCTGCCAACACAAACACCTGTAACAGGTATGGAGTCAGTGGATATCCAACCCTGAAGGTATTTAGAGATGG
TGATTCTTCAGGTGCTTATGATGGCCCAGGCCTGCTGGTGGGATTGGCAGCCCCCTGAAGAAGCAAGCCGAACAGCTGCA
GTTCCTCTCAGGCCTGAGGAAGAATGTGAGAAGTTCATTGGTGATAAAGATGCTTCTGTGGTGGGTTTTTTCAAGGATTT
ATTCAGTGAAGCTCACTCTGAATTTCTAAAAGCAGCCAGCAACGTGAGGGATAACTACCGATCTGCACACACCAATATTG
AGTCTCTGGTGAACAAGTATGATGATGATGATGGAGAAGGTATCACCTTGTTTCGTCCTTCACATCTGATGAACAAGTTT
GAAGACAAAATTTCAGCATATAAAGTACAGAAAATGACCAGTGGCAAGATTAAAAAAATTATCCTTGAAAACATTTTTGG
TATCTGCCCTCACATGACAGAAGATAATAAAGACTTAATACAGGGCAAGGACTTACTTGTGGCGTACTATGACGTGGACT
ACGAAAAGAATGCTAACGGTTCCAGCGACTGGAGAAACAGGGTGATGATGGTAGCAAAGAAATTCCCGGATGCTGGACAC
TAACTTAACTTTGCTGTAGCTAGCTGCAAAACCTTTAGCCATGATCTTTCCGATTTGGGTTTGGAAAGCACTGCCAGAGA
GACTCCTGTTGTTGCTATCAGAACTGCAAAAGGAGAGAAGTTTGTCATGCAGGAGGAATTCTTGCGTGATGGCAAGGCTC
TTGAGAGATTCCTGCACGATTACTTTGATGGCAACCTGAAGAGATACCTAAAATCTGAGCCAATCACAGAGAGCAATGAT
GGACCTGTAAAGGTACTGGTAGCAGAGAATTTTGATGAAATAGTGAATCATGTGAATAAAGATGTGCTGATTGAATTCTA
TGCTCCTTGGTGTGGCCACTGTAAGAATCTGGAACCTAAGTATAAAGAACTGGGAGAGAAGCTCAGAAAAGACCCAAATA
TTATTATAGCCAGGATGGATGCCACAGCCAATGATGTGCCTTCTCCATATGAAGTCAGAGGTTTTTCTACCATCTACTTC
TCTCCAGCCAACAAGAAGCTAGATCCAAAGAAATATGAAGGTGGCCATGAATTAAGTGATTTTATTAGCTATCTACAGCG
AGAGGCTACAAACCCCCCTATAATTCAAGAAGAAAAACCAAGAAGAAGAAGGCACAGGAGGATCTC

Alignment

ORF - retro_mluc_2352 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.45 %
• Parental protein coverage: 89.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  WCGHCKRLAP-EYEAAATRLKGIVPLAKVDCTANTNTCNKYGVSGYPTLKIFRDGEEAGAYDGP-RTADG
          WCGH.KRLAP.E.EAAATRLKGIVPLAKVDC.ANTNTCN.YGVSGYPTLK.FRDG...GAYDGP.R.A.G
Retrocopy WCGHRKRLAP<EHEAAATRLKGIVPLAKVDCAANTNTCNRYGVSGYPTLKVFRDGDSSGAYDGP<RPAGG

Parental  IVSHLKKQAGP-ASVPLKTEEEFEKFIGDKDASVVGFFKDLFSEAHSEFLKAASNLRDNYRFAHTNIESL
          I.S.LKKQA...A.VPL..EEE.EKFIGDKDASVVGFFKDLFSEAHSEFLKAASN.RDNYR.AHTNIESL
Retrocopy IGSPLKKQAEQ<AAVPLRPEEECEKFIGDKDASVVGFFKDLFSEAHSEFLKAASNVRDNYRSAHTNIESL

Parental  VNKYDDD-GEGITLFRPSHLMNKFEDKTSAYKEQKMTSGKIKKFIQENIFGICPHMTEDNKDLIQGKDLL
          VNKYDDD.GEGITLFRPSHLMNKFEDK.SAYK.QKMTSGKIKK.I.ENIFGICPHMTEDNKDLIQGKDLL
Retrocopy VNKYDDDDGEGITLFRPSHLMNKFEDKISAYKVQKMTSGKIKKIILENIFGICPHMTEDNKDLIQGKDLL

Parental  VAYYDVDYEKNAKGSNYWRNRVMMVAKKFLDAGHKLNFAVASRKTFSHDLSDFGLESTAGEIPVVAIRTA
          VAYYDVDYEKNA.GS..WRNRVMMVAKKF.DAGH.LNFAVAS.KTFSHDLSD.GLESTA.E.PVVAIRTA
Retrocopy VAYYDVDYEKNANGSSDWRNRVMMVAKKFPDAGH*LNFAVASCKTFSHDLSDLGLESTARETPVVAIRTA

Parental  KGEKFVMQEEFSRDGKALERFLQDYFDGNLKRYLKSEPIPESNDGPVKVVVAENFDEIVNDVNKDVLIEF
          KGEKFVMQEEF.RDGKALERFL.DYFDGNLKRYLKSEPI.ESNDGPVKV.VAENFDEIVN.VNKDVLIEF
Retrocopy KGEKFVMQEEFLRDGKALERFLHDYFDGNLKRYLKSEPITESNDGPVKVLVAENFDEIVNHVNKDVLIEF

Parental  YAPWCGHCKNLEPKYKELGEKLRKDPNIIIAKMDATANDVPSPYEVRGFPTIYFSPANKKLDPKKYEGGR
          YAPWCGHCKNLEPKYKELGEKLRKDPNIIIA.MDATANDVPSPYEVRGF.TIYFSPANKKLDPKKYEGG.
Retrocopy YAPWCGHCKNLEPKYKELGEKLRKDPNIIIARMDATANDVPSPYEVRGFSTIYFSPANKKLDPKKYEGGH

Parental  ELSDFISYLQREATNPPVIQEEKP-KKKKKAQEDL
          ELSDFISYLQREATNPP.IQEEKP.KKK.KAQEDL
Retrocopy ELSDFISYLQREATNPPIIQEEKP<KKK-KAQEDL

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_2352 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000167004	1 retrocopy	retro_hsap_217,
Gorilla gorilla	ENSGGOG00000023440	1 retrocopy	retro_ggor_287,
Myotis lucifugus	ENSMLUG00000009380	1 retrocopy	retro_mluc_2352 ,
Otolemur garnettii	ENSOGAG00000004298	1 retrocopy	retro_ogar_1750,
Procavia capensis	ENSPCAG00000012905	1 retrocopy	retro_pcap_409,
Pan troglodytes	ENSPTRG00000007002	1 retrocopy	retro_ptro_331,