RetrogeneDB ID: retro_pvam_794

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_11755:320..794(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDK2
• Ensembl ID: ENSPVAG00000007555
• Aliases: None
• Description: cyclin-dependent kinase 2 [Source:HGNC Symbol;Acc:1771]

Sequence

>retro_pvam_794
ATGGAAGACTATACCAAAATAGAGAAGATCTGAGAAAGTACGTATGCAGTTGTGTATAAGGGTAGACACAAAACTGCAGG
TAAAATGGTAGCCACGAAGAAAATTAGACTAGAAAGTAAAAAGGAAGGGGTTCCTAGAACTGCAATTTGGGAAATTTCTC
TATTAAAAGAACTTTGTCATCCAACTGTAGTCAGTCTTCAAGATGTGCTCATGCAGGATTCCAGGTTATATTTCATCTTT
GAATTCCTTCTCGTGGATCTAAAGAAATACTTGGATTCTATCCTTCCTGGTAGGTTTGTGGATTCTTCACTTGTTAAGAG
TTATTTGTACCAAATCCTACAAGAGATTGTGTTTTGCCACTCTTGAAGAGTTCTATGCAGAGACGTAAAACCTCAAAATC
TATTGATTAATGACAAAGGAACAATTAAACTGTCTGATTTTGGCCTTGCCAGAGATTTTGGAATATTTATTAGA

Alignment

ORF - retro_pvam_794 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.75 %
• Parental protein coverage: 52.68 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MENFQKVEKIGEGTYGVVYKAKNKLTGEVVALKKIRLDTETEGVPSTAIREISLLKELNHPNIVKLLDVI
          ME...K.EKI.E.TY.VVYK...K..G..VA.KKIRL....EGVP.TAI.EISLLKEL.HP..V.L.DV.
Retrocopy MEDYTKIEKI*ESTYAVVYKGRHKTAGKMVATKKIRLESKKEGVPRTAIWEISLLKELCHPTVVSLQDVL

Parental  HTENKLYLVFEFLHQDLKKFMDASALTG--IPLPLIKSYLFQLLQGLAFCHSHRVLHRDLKPQNLLINAE
          .....LY..FEFL..DLKK..D.S.L.G......L.KSYL.Q.LQ...FCHS.RVL.RD.KPQNLLIN..
Retrocopy MQDSRLYFIFEFLLVDLKKYLD-SILPGRFVDSSLVKSYLYQILQEIVFCHS*RVLCRDVKPQNLLINDK

Parental  GSIKLADFGLARAFGVPVR
          G.IKL.DFGLAR.FG...R
Retrocopy GTIKLSDFGLARDFGIFIR

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_794 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
Ailuropoda melanoleuca	ENSAMEG00000003168	1 retrocopy	retro_amel_1525,
Bos taurus	ENSBTAG00000004021	1 retrocopy	retro_btau_1424,
Erinaceus europaeus	ENSEEUG00000014081	1 retrocopy	retro_eeur_445,
Pteropus vampyrus	ENSPVAG00000007555	1 retrocopy	retro_pvam_794 ,
Tupaia belangeri	ENSTBEG00000005123	1 retrocopy	retro_tbel_4151,