RetrogeneDB ID: retro_pvam_1045

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_24628:4191..4735(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AURKB
• Ensembl ID: ENSPVAG00000016378
• Aliases: None
• Description: aurora kinase B [Source:HGNC Symbol;Acc:11390]

Sequence

>retro_pvam_1045
GCCCTTGGCCAGAATAGCAGTGGGACACCCAACTTAATGCGGTCCTTCACAATTGACGACTTTGAGATTGGCATCCTCTG
GGCAAAGACAAGTTTGAAAGATGTACTTGTCTTCGGAGAAGAAAAGCCATTTCATTGTGGCACTCAAGGTCCTATTCAAG
TCTCAGATAGAGAAAGAGGGTGTGGAGCACCAGTTGCGCAGGGAGATCGAAATCCAGGCCCATCTGCAGCATCCCAACAT
CTTGTGTTTCTACAACTATTTCTATAACTGTCAAAGGATCTACTTGATTCTGGCATATGCCCCCTTGGGGAGCTCTACAA
GGAGGTACTGAAGAGCCAAAGTTTTGATGAGCAACGAACAGCCACCATCATGGAGAAGCTGGCAGATGCTCTGATATTCT
GCCACCGGAAGAAGGTAATTCACAGAGACATAAAGCCAGAGAATCTGCTCGTGGGGCTCCAGGGAGAGCTAAAGATTACT
GACTTCGGCTGGTCTTTATCACGCCCCCTCCCTGAGGAGGAAGACAATGTGTGGCATCCTAGAC

Alignment

ORF - retro_pvam_1045 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.87 %
• Parental protein coverage: 53.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  APGQNSSGTPNLMRSFTIDDFEIG-RPLGKGKFGN-VYLAREKKSHFIVALKVLFKSQIEKEGVEHQLRR
          A.GQNSSGTPNLMRSFTIDDFEIG..PLGK.KF....YL..EKKSHFIVALKVLFKSQIEKEGVEHQLRR
Retrocopy ALGQNSSGTPNLMRSFTIDDFEIG<HPLGKDKFER<MYLSSEKKSHFIVALKVLFKSQIEKEGVEHQLRR

Parental  EIEIQAHLQHPNILRLYNYFYDRRRIYLILEYA-PRGELYKELQKSRTFDEQRTATIMEELADALIYCHG
          EIEIQAHLQHPNIL..YNYFY...RIYLIL.YA.P.GELYKE..KS..FDEQRTATIME.LADALI.CH.
Retrocopy EIEIQAHLQHPNILCFYNYFYNCQRIYLILAYA<PLGELYKEVLKSQSFDEQRTATIMEKLADALIFCHR

Parental  KKVIHRDIKPENLLLGLQGELKIADFGWSV-HAPSLRRKTMCGTLD
          KKVIHRDIKPENLL.GLQGELKI.DFGWS..HAPSLRRKTMCG.LD
Retrocopy KKVIHRDIKPENLLVGLQGELKITDFGWSL>HAPSLRRKTMCGILD

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_1045 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000013775	1 retrocopy	retro_mmur_567,
Myotis lucifugus	ENSMLUG00000003633	2 retrocopies	retro_mluc_764, retro_mluc_798,
Macaca mulatta	ENSMMUG00000002997	1 retrocopy	retro_mmul_2367,
Pteropus vampyrus	ENSPVAG00000016378	1 retrocopy	retro_pvam_1045 ,
Tursiops truncatus	ENSTTRG00000010318	1 retrocopy	retro_ttru_542,