RetrogeneDB ID: retro_mluc_783

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429775:11531508..11532283(+)
• Located in intron of: ENSMLUG00000014707

Retrocopy information

• Ensembl ID: ENSMLUG00000023657
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: APH1A
• Ensembl ID: ENSMLUG00000013692
• Aliases: None
• Description: None

Sequence

>retro_mluc_783
ATAGGGGCCGCAGTGTTTTTCGGGTGCACCTTTGTCGCTTTCGGCCTGGACTTTGCGCTCTTGATCACTGTGCCTGAGGA
CCCACTTCGTGTCATCATCCTGGTCGCAGGGGCATTTTTCTGGCTGGTCTCTCTGCTCCTGGCCTCTGTGGTCTGGTTCA
TCTTGGTCCATGTGACCAACCCGTCAGATGCCCGGCTCCAGTATGGCCTCCTGATTTTTGGTGCTGTGCTCTCTGTCCTA
CAGGAGATGTTCCGCTTTGCTTACTACAAGCTGCTTAAGAAGGCAGATGAGGGGTTAGCATTGTGAGTGAGGACAGAAGA
TCACCCATCTCCATCCGCCAGGTGGCCTATGTGTCTGTTCTTTCTTTCGGTATCATCAGTGGTGTCTTCTCTGTTATCAA
TATTTTGGCCGATGCACTTGGGCCAGGTGTGGTTGGGATCCATGGAGATTAACCCTATTACTTCTTGGCATCGCTTTCCT
GACAGCAGCCATCATCCTGCTTCATACCTTCTGGGGAGTTGTGTTCTTTGATGCCTGTGAGAGGAGACGGTACTGGACTT
CGGGCCTGGGGGTTGGGAGTCATCTACTGACATTCCTGATCCCATGGTACGAGGCCAGCCTGCTGCCCATCTATGCAGTC
ACTGTTTCCATGGGGCTCTGGGCCTTTATTACAGCTGGAGGGTCCCTCCGAAGTATCCAGCGCAGCCTCTCGTGCCAATG
GCAGAAGGACAGTCAGGTGATGGTGTATTCTGCCCTGCACATCCCACCCGATGAT

Alignment

ORF - retro_mluc_783 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.01 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVTDPSDARLQYG
          .GAAVFFGCTFVAFG..FAL.LITV..DPLRVIILVAGAFFWLVSLLLASVVWFILVHVT.PSDARLQYG
Retrocopy IGAAVFFGCTFVAFGLDFAL-LITVPEDPLRVIILVAGAFFWLVSLLLASVVWFILVHVTNPSDARLQYG

Parental  LLIFGAAVSVLLQEMFRFAYYKLLKKADEGLAS-LSEDGRSPISIRQMAYVSGLSFGIISGVFSVINILA
          LLIFGA..SVL.QEMFRFAYYKLLKKADEGLA...SED.RSPISIRQ.AYVS.LSFGIISGVFSVINILA
Retrocopy LLIFGAVLSVL-QEMFRFAYYKLLKKADEGLAL<VSEDRRSPISIRQVAYVSVLSFGIISGVFSVINILA

Parental  DALGPGVVGIHGDSPYYFLTS-AFLTAAIILLHTFWGVVFFDACERRRYWTLGLVVGSHLLTSGLTFLNP
          DALGPGVVGIHGD.PYYFL.S.AFLTAAIILLHTFWGVVFFDACERRRYWT.GL.VGSHL....LTFL.P
Retrocopy DALGPGVVGIHGD*PYYFLAS<AFLTAAIILLHTFWGVVFFDACERRRYWTSGLGVGSHL----LTFLIP

Parental  WYEASLLPIYAVTVSMGLWAFITAGGSLRSIQRSFSCRRQEDSQVMVYSALRIPPED
          WYEASLLPIYAVTVSMGLWAFITAGGSLRSIQRS.SC..Q.DSQVMVYSAL.IPP.D
Retrocopy WYEASLLPIYAVTVSMGLWAFITAGGSLRSIQRSLSCQWQKDSQVMVYSALHIPPDD

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_783 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000013692	1 retrocopy	retro_mluc_783 ,
Rattus norvegicus	ENSRNOG00000023816	1 retrocopy	retro_rnor_2540,