RetrogeneDB ID: retro_mluc_413

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: AAPE02061284:19299..20376(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000025839
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TAF4
• Ensembl ID: ENSMLUG00000010291
• Aliases: None
• Description: None

Sequence

>retro_mluc_413
CCCAATTGCATATGCCTCTGCCTCTATAGTCGGTATTGCGTTGGCGAGCAGGGGCAGCTCACGCCGCCGGTGATCCAGCA
GCCGCCCAAGTCCGGAGCACGGATCCGGTCCCCGCAGATGACGCTGACGCAGACGCCCACGGTGGCCCTCCGGCAGCCCC
ACCACCGCCTCCTGCTGACCACACCCCAGCAGACCCAGCTGAACCCACTGCAGCCAGTCCCGGTGGTGAAACCTGCTGTG
TTACCTGGAACCAAAGCTCTTTCTGCTGTCTCGGCCCAAGCAGCTGCTGCGCAGAAAAATAAACTCCAGGCGCCCGGGGG
AGGCTCGTTTCGGGACGACAATGACATTAACGACGTGGCGTCCATGGCTGGAGTAAACATATCGGAAGAAAGGACAAGGA
TCTTAGCCATGAGCTCTGAGGTGGTGGGCACGCTTACACGGTCTTGCGAAGACGAAACCTTCCTCCTGCCAGCGCCTCTG
CAGAGAAGGATATTGGAAATAGGTAAGAAACACGGCATAACGGAACTGCACCCCGACGTCGTGAGTTACGTGTCACGCGC
CACGCAACAGAGGCTGCAGAACCTCGTGGAAAAGATATCAGAAACGGCTCAGCTGAAGAACTTTTCTCATAAGGATGATG
ACAGATATGAGCAGGCAAGTGATGTTCAGGCTCAGCTCAGATTTTTTGAACAACTCGATCAGATTGAAAAACAGAGGAAA
GATGGACAGGAAAGAGAGATTTTAATGCGAGCAGCCAAGTCTCGCTCCAGACAAGAGGATCCAGAACAATTAAGGCTGAA
ACAGAAGGCGAAAGCGATGCAGCAGCAGGAGCTGGCGCAGATGAGGCTGCGTGACGCCAATCTCGCCGCGCTGGCAGCCA
TCGGGCCCCGCAAGAAGCGGAAAGTGGACTCCCCGGGACCGGGCTCCGGGACAGAGGGATCCGGCCCGGGATCTGCAGTC
CCCGGCAGCTCCGGCGTGGGAACCCCCCAACAGTTCACACGACAAAGGATCACGCGGGTCAACCTCAGGGACCTCATGTT
TTGTCTAGAAAAAGAATGTGAGACACGCCGCTCTATA

Alignment

ORF - retro_mluc_413 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.67 %
• Parental protein coverage: 56.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PPVISLTQPTQVGVGKQGQPTPLVIQQPPKPGALIRPPQVTLTQTPMVALRQPHNRIVLTTPQQIQLNPL
          P..I.L.......VG.QGQ.TP.VIQQPPK.GA.IR.PQ.TLTQTP.VALRQPH.R..LTTPQQ.QLNPL
Retrocopy PNCICLCLYSRYCVGEQGQLTPPVIQQPPKSGARIRSPQMTLTQTPTVALRQPHHRLLLTTPQQTQLNPL

Parental  QPVPVVKPAVLPGTKALSAVSAQAAAAQKNKLKEPGGGSFRRDDDDINDVASMAGVNLSEESARILATNS
          QPVPVVKPAVLPGTKALSAVSAQAAAAQKNKL..PGGGSFR.DD.DINDVASMAGVN.SEE..RILA..S
Retrocopy QPVPVVKPAVLPGTKALSAVSAQAAAAQKNKLQAPGGGSFR-DDNDINDVASMAGVNISEERTRILAMSS

Parental  ELVGTLTRSCKDETFLLPAPLQRRILEIGKKHGITELHPDVVSYVSHATQQRLQNLVEKISETAQQKNFS
          E.VGTLTRSC.DETFLLPAPLQRRILEIGKKHGITELHPDVVSYVS.ATQQRLQNLVEKISETAQ.KNFS
Retrocopy EVVGTLTRSCEDETFLLPAPLQRRILEIGKKHGITELHPDVVSYVSRATQQRLQNLVEKISETAQLKNFS

Parental  HKDDDRYEQASDVRAQLKFFEQLDQIEKQRKDEQEREILMRAAKSRSRQEDPEQLRLKQKAKEMQQQELA
          HKDDDRYEQASDV.AQL.FFEQLDQIEKQRKD.QEREILMRAAKSRSRQEDPEQLRLKQKAK.MQQQELA
Retrocopy HKDDDRYEQASDVQAQLRFFEQLDQIEKQRKDGQEREILMRAAKSRSRQEDPEQLRLKQKAKAMQQQELA

Parental  QMRQRDANLTALAAIGPRKKRKVDSPGPGSGTEGSGPGSAVPGSSGVGTPRQFTRQRITRVNLRDLIFCL
          QMR.RDANL.ALAAIGPRKKRKVDSPGPGSGTEGSGPGSAVPGSSGVGTP.QFTRQRITRVNLRDL.FCL
Retrocopy QMRLRDANLAALAAIGPRKKRKVDSPGPGSGTEGSGPGSAVPGSSGVGTPQQFTRQRITRVNLRDLMFCL

Parental  ENERETSHSL
          E.E.ET..S.
Retrocopy EKECETRRSI

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_413 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 2 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000010291	4 retrocopies	retro_mluc_2540, retro_mluc_402, retro_mluc_413 , retro_mluc_440,
Monodelphis domestica	ENSMODG00000016684	1 retrocopy	retro_mdom_230,