RetrogeneDB ID: retro_mluc_2317

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430197:504438..505470(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000024278
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SNAPC3
• Ensembl ID: ENSMLUG00000017214
• Aliases: None
• Description: None

Sequence

>retro_mluc_2317
CCGGCATCCGAGCTGCCTGGGCAAGGAGGGGTCGCCGACCCGGGGCTGGGACGATGCCGCGGTGGCATGGGATCTGGGCT
GCAATCTGGAGGCAGGGACCGAGCTGAAGGCAGTTTGGGGCCTTGGTAAACTGCAGTGCTGTGAGGACCAGGACCCAGAA
GTCATCCCAGAGGATACTGACCTAGTGACCTTGGGGGTTAGAAAGAAGCTTTTGGAGTGTCTGGAAGAAACATTAACCAT
AGATCGGGCCTGCAGGCAAGAAATACTTGCTTATGAGATGGACTCACACGCCATAGGAAAAAAGCCTGAAAATCCAGCAG
ACTTGACTGAAGAGGGGGAACTTTTCCTGTCTGTGACTGTCTTATACCCTGTTACATTTCATAAGCACCAAGAACACAAA
CCATACCAGACGATGCTGGTACTGGGCAGTCAGAAGCTCACGGAACTAAGGGATCCAATTTGCTGTGTCAGTGACCTCCA
GATTGGTGGGGGATTCAGCTACACTCCTGACCAGGCCCTGAGCACAGCAGCAAAGACCTATACAAATCAGCCTTCTTTTA
TTTTGAAGGAACATTTTGTAACGATAGAAGATACCCTGAATGCAGAGATCTGAGCAGAACTATCATTGAGTGGTCAGAGT
CCCATGACAGAGGCTATAGAAAGTTTCAGACTGCTGAAATGGAAGATTTCACCTCCAATGACTTACATATTAAACTGGGT
TTTCCCTATTTATACCGTCACCAGGGAGACTGTGAGCATGTTGTTGTCATTACTGACATAAGGCTTGTGCCTCGAGATGA
CTGCTTGGGTAGAATACTTTATCCCCTTCTTACCAAGCATTGGCTATGGACCAGAAAATGTTTTGTTTGTAAAATGTACA
CAGCCAGATGGGTGACCAACGATGACAGTTTTGCACCAGATGATCCATGTTTCTTTTGTGATGCTTGCTTCCGAATGCTT
CACGATGACTCAGAAGGCAACAAACTGGGGGAATTTCTTGCTTATCCTTATGTTGATCCTGGAACCTTTAAT

Alignment

ORF - retro_mluc_2317 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.18 %
• Parental protein coverage: 84.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PASELPGQGGVADPG-WDDAAVARDLGCDLEAATELRAVCGLDKLQCLEEDEDPEVIPQDTDLVTLGVRK
          PASELPGQGGVADPG.WDDAAVA.DLGC.LEA.TEL.AV.GL.KLQC.E.D.DPEVIP.DTDLVTLGVRK
Retrocopy PASELPGQGGVADPG>WDDAAVAWDLGCNLEAGTELKAVWGLGKLQCCE-DQDPEVIPEDTDLVTLGVRK

Parental  KLLEHREETLTIDRACRQEILAYEMESHAIGKKPENPADMIEEGELILSVNVLYPVIFHKHKEHKPYQTM
          KLLE..EETLTIDRACRQEILAYEM.SHAIGKKPENPAD..EEGEL.LSV.VLYPV.FHKH.EHKPYQTM
Retrocopy KLLECLEETLTIDRACRQEILAYEMDSHAIGKKPENPADLTEEGELFLSVTVLYPVTFHKHQEHKPYQTM

Parental  LVLGNQKLTELRDSICCVSDLQIGGEFSNTPDQA-PEHISKDIYKSAFFYFEGTFYNDRRYPECRDLSRT
          LVLG.QKLTELRD.ICCVSDLQIGG.FS.TPDQA.PEH.SKD.YKSAFFYFEGTF.NDRRYPECRDLSRT
Retrocopy LVLGSQKLTELRDPICCVSDLQIGGGFSYTPDQA<PEHSSKDLYKSAFFYFEGTFCNDRRYPECRDLSRT

Parental  IIEWSEAHDRGYGKFKTAKMEDFTFNDLNIKLGFPYLYCHQGDCEHVVVITDIRYKRLVHRDDCLDRTLY
          IIEWSE.HDRGY.KF.TA.MEDFT.NDL.IKLGFPYLY.HQGDCEHVVVITDIR...LV.RDDCL.R.LY
Retrocopy IIEWSESHDRGYRKFQTAEMEDFTSNDLHIKLGFPYLYRHQGDCEHVVVITDIR---LVPRDDCLGRILY

Parental  PLLIKKHWLWTRKCFVCKMYTARWVTNNDSFAPDDPCFFCDACFRMLHYDSEGNKLGEFLAYPYVDPGTF
          PLL..KHWLWTRKCFVCKMYTARWVTN.DSFAPDDPCFFCDACFRMLH.DSEGNKLGEFLAYPYVDPGTF
Retrocopy PLL-TKHWLWTRKCFVCKMYTARWVTNDDSFAPDDPCFFCDACFRMLHDDSEGNKLGEFLAYPYVDPGTF

Parental  N
          N
Retrocopy N

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_2317 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	ENSMLUG00000017214	1 retrocopy	retro_mluc_2317 ,
Sus scrofa	ENSSSCG00000005184	1 retrocopy	retro_sscr_964,