RetrogeneDB ID: retro_pvam_1449

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_8953:28644..28938(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LAMTOR4
• Ensembl ID: ENSPVAG00000011987
• Aliases: None
• Description: late endosomal/lysosomal adaptor, MAPK and MTOR activator 4 [Source:HGNC Symbol;Acc:33772]

Sequence

>retro_pvam_1449
ACTTCTGCACTGACCCAGAGGCTGGAGAGAATCCCAGATCAACTTGGCTACCTGGTGCTGAGTGAAGGCGCAGTGCTGGT
GTCAACTGGAGATCTAGAGAATGACGAGCAGGCAACTAGCACCATCTCTGAACTGGTCAGCACAACCTGTGCTTTCTGGC
TGGACCACGGCATAAATATACCCTTCAAGCACCTGTCAGTGGTCTTTGGAGAATACACGCTACTGGTGACTGTGTCAGGA
CAGAGGATGTTTGTGGTGAAGAGGCAGAACCGAGGCCAGGAGCCCATTGATGTC

Alignment

ORF - retro_pvam_1449 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 98.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TSALTQGLERIPDQLGYLVLSEGAVLASSGDLENDEQAASAISELVSTACAFRLHHSMNIPFKRLSVVFG
          TSALTQ.LERIPDQLGYLVLSEGAVL.S.GDLENDEQA.S.ISELVST.CAF.L.H..NIPFK.LSVVFG
Retrocopy TSALTQRLERIPDQLGYLVLSEGAVLVSTGDLENDEQATSTISELVSTTCAFWLDHGINIPFKHLSVVFG

Parental  EHTLLVTVSGQRVFVVKRQNRGREPIDV
          E.TLLVTVSGQR.FVVKRQNRG.EPIDV
Retrocopy EYTLLVTVSGQRMFVVKRQNRGQEPIDV

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_1449 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014561	1 retrocopy	retro_cfam_1491,
Cavia porcellus	ENSCPOG00000013370	1 retrocopy	retro_cpor_119,
Mus musculus	ENSMUSG00000050552	1 retrocopy	retro_mmus_3544,
Ochotona princeps	ENSOPRG00000003476	1 retrocopy	retro_opri_640,
Pteropus vampyrus	ENSPVAG00000011987	1 retrocopy	retro_pvam_1449 ,