RetrogeneDB ID: retro_mluc_1828

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429923:2341822..2342764(+)
• Located in intron of: ENSMLUG00000012301

Retrocopy information

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

Parental gene information

• Parental gene symbol: P4HA1
• Ensembl ID: ENSMLUG00000006548
• Aliases: None
• Description: None

Sequence

>retro_mluc_1828
TTACTTCAATTGGTCCATACAGAGAAAGATCTGGTGCCTTCCCTGAGAGACTATATTAAGGCAGAAGAAGACAAATTAGC
AGAAATATAAAAATGGGCAGAGAAGTTAGATCGGCTAGCTAGCACAATAAAAGATCCAGAAGGATTTGTCAGGCACCCAG
TAAATGCATTCAAGTTAATGAAACATCTGAACACTGAGTGGAGTGAGTTGGAGAACCTAATCCTCAAGGATATGTCAGAT
GGCTTTATCTTTAACCTAACCATTCAGAGACAGTACTTCCCTAATGATGAAGATCAGGTTGGGGCAGCCAAAGTCCTATT
GTGTCTCCTGGACATCTACAATTTGAATACAGATACTATCTCAAAAGGTAATCTTCCAGGAGTAAAACACAAATCTTTTC
TAATAGTTGAGGACTGTTTTGAGTTGGATAAAATGGCCTATACAGAAGATTATTACTATACAGAACTGTGAATCGAACAA
GCACTCAGGAAGCTGGATGAAGGTGAGGTTTCTACCACTAATAAAGTCTCTGTTCTAGATTATTTGAGCTATTTGGTGTA
CCAGCAGGGAGACCTCGTATAAGGCACTTTTGCTTACAAAGAAGCTTCTTGAACTAGATCCTGAACATCAGAGAGCTCAT
GGTAATTTAAAATATTTTAAGTATATAATGGCTAAATAAAAAGATGGTAATAAGTCTGCTTCAGATTACCAATCTGATCA
GAAAACCATGCTGAAGAAGAAAGGGATTGCTATATTACCTGCCAGAGACAGAAGTAAGAAATGCTGTGCAGTGGGTAGGG
TATCAAAATGACTCCACCGAGATAGAAAAAAGTCTTTTGCCACTACCATGATGGAAACTGGAAACCTAAATTTATTCTGG
ATCCAGCCAAACAGTAGCATGAGTGGGACAAAAGTGGTATTATTCATTTCCATTATATTATT

Alignment

ORF - retro_mluc_1828 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.19 %
• Parental protein coverage: 59.36 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTDLIHTEKDLVTSLKDYIKAEEDKLEQIKKWAEKLDRLTSTATKDPEGFVGHPVNAFKLMKRLNTEWSE
          ...L.HTEKDLV.SL.DYIKAEEDKL..I.KWAEKLDRL.ST..KDPEGFV.HPVNAFKLMK.LNTEWSE
Retrocopy LLQLVHTEKDLVPSLRDYIKAEEDKLAEI*KWAEKLDRLASTI-KDPEGFVRHPVNAFKLMKHLNTEWSE

Parental  LENLVLKDMSDGFISNLTIQRQYFPNDEDQVGAAKALLRLQDTYNLDTDTISKGNLPGVKHKSFLTVEDC
          LENL.LKDMSDGFI.NLTIQRQYFPNDEDQVGAAK.LL.L.D.YNL.TDTISKGNLPGVKHKSFL.VEDC
Retrocopy LENLILKDMSDGFIFNLTIQRQYFPNDEDQVGAAKVLLCLLDIYNLNTDTISKGNLPGVKHKSFLIVEDC

Parental  FELGKVAYTEADYYHTELWMEQALRQLDEGEVSTTDKVSVLDYLSYAVYQQGDL-DKALLLTKKLLELDP
          FEL.K.AYTE.DYY.TEL..EQALR.LDEGEVSTT.KVSVLDYLSY.VYQQGDL..KALLLTKKLLELDP
Retrocopy FELDKMAYTE-DYYYTEL*IEQALRKLDEGEVSTTNKVSVLDYLSYLVYQQGDL>YKALLLTKKLLELDP

Parental  DHQRANGNLKYFEYIMAKEKDANKSASDDQSDQKTTLKKKGVAADYLPERQKYEMLCR-GEGIKMTPRRQ
          .HQRA.GNLKYF.YIMAK.KD.NKSASD.QSDQKT.LKKKG.A...LP.R......C..G...K...R..
Retrocopy EHQRAHGNLKYFKYIMAK*KDGNKSASDYQSDQKTMLKKKGIA--ILPARDRSKKCCAVGRVSK*LHRDR

Parental  KK-LFCRYHDGNRNPKFILAPAKQEDEWDKPRIIRFHDII
          KK..FC.YHDGN..PKFIL.PAKQ..EWDK..II.FH.II
Retrocopy KK<VFCHYHDGNWKPKFILDPAKQ*HEWDKSGIIHFHYII

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_1828 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000006548	1 retrocopy	retro_mluc_1828 ,