RetrogeneDB ID: retro_pvam_841

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_13312:21742..22117(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MYL3
• Ensembl ID: ENSPVAG00000004194
• Aliases: None
• Description: myosin, light chain 3, alkali; ventricular, skeletal, slow [Source:HGNC Symbol;Acc:7584]

Sequence

>retro_pvam_841
AAGATCCTGTACAGCCAGCATGGGGGTGTGATGAGGGCCCTGGGCCAGAACCCCATAAATGCCGAGGTGCTCAAGATTCT
GGGGAACTCCGAGAGTGATGAGCTAAAGTCCCAGCGTGTGGACTTCGAGTCTTTCCTGCCTGTGCTCCAGGCGGTGGCCA
AGAACCGGGATCAAGGCACATATGAGGACTACCTGCAGGGGCTTTGGGTGTTTGACGAAGAAGGGAATGGCAAAGTCATG
GGAGCAGAGCTCAGATGTGTCCTCACCGCCCTGAGAGAGAAGATGACTGAAGAGGAAGTGGAGACTGTTCTGGCAGGACA
TGAGGAGAGCAATGGTTGCATCAAGTATGAAGCCTTCCTGAAGCTCATCCTAAGC

Alignment

ORF - retro_pvam_841 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.6 %
• Parental protein coverage: 64.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KITYGQCGDVLRALGQNPTQAEVLRVLGKPKQEELNTKMMDFETFLPMLQHIAKNKDTGTYEDFVEGLRV
          KI.Y.Q.G.V.RALGQNP..AEVL..LG.....EL.....DFE.FLP.LQ..AKN.D.GTYED...GL.V
Retrocopy KILYSQHGGVMRALGQNPINAEVLKILGNSESDELKSQRVDFESFLPVLQAVAKNRDQGTYEDYLQGLWV

Parental  FDKEGNGTVMGAELRHVLATLGERLTEDEVEKLMAGQEDSNGCINYEAFVKHIMA
          FD.EGNG.VMGAELR.VL..L.E..TE.EVE...AG.E.SNGCI.YEAF.K.I..
Retrocopy FDEEGNGKVMGAELRCVLTALREKMTEEEVETVLAGHEESNGCIKYEAFLKLILS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Pteropus vampyrus was not studied using RNA-Seq expression data.

ChIP-Seq

Pteropus vampyrus was not studied using ChIP-Seq data.

EST

Pteropus vampyrus was not studied using EST data.

TSS

Pteropus vampyrus was not studied using FANTOM5 data.

Lab

retro_pvam_841 was not experimentally validated.

Homology

Retrocopy orthology:

Pteropus vampyrus 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Danio rerio	ENSDARG00000011519	1 retrocopy	retro_drer_3,
Pteropus vampyrus	ENSPVAG00000004194	1 retrocopy	retro_pvam_841 ,
Tetraodon nigroviridis	ENSTNIG00000008476	1 retrocopy	retro_tnig_18,