RetrogeneDB ID: retro_pvam_894

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_15429:14111..14492(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP1R11
• Ensembl ID: ENSPVAG00000008330
• Aliases: None
• Description: protein phosphatase 1, regulatory (inhibitor) subunit 11 [Source:HGNC Symbol;Acc:9285]

Sequence

>retro_pvam_894
ATGGAAGAGTCGACATCTAAGGTGAGAGAAGTTATCTCAGAGCCCACAGTTACCATGGCAAATGAGGTAAAGAATAGCAA
TGTACCAACTACTTTAAAGAAAGGGAAGCCAAACAAGAAGGTGGAATGGTCAAGTGACACTGTAGACAATGAGCACTTGG
GCCGTCGTTCATCTAAATGCTGCTGCATTTATGAAAAACCCAGAGCCTTTGGTGAAAGCTCCTCAGAGAGTGAAAAAGAG
GATGAGGATAACTGTGATGTTGTACTATGTGTCTGGGGTCATCACAAGGGGCGGCGTCGTGCCCTTCCAGCCAGAGATCC
TAGCACCTCATCTACAAAACCTTGAGACCAATCTCAACCCCTTCTTTCCCCTATGAAGAAC

Alignment

ORF - retro_pvam_894 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.91 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEAGAGLSETVTETTVTVTTEPENRSLTIKLRKRKPEKKVEWTSDTVDNEHMGRRSSKCCCIYEKPRAF
          M.E......E...E.TVT...E..N......L.K.KP.KKVEW.SDTVDNEH.GRRSSKCCCIYEKPRAF
Retrocopy MEESTSKVREVISEPTVTMANEVKNSNVPTTLKKGKPNKKVEWSSDTVDNEHLGRRSSKCCCIYEKPRAF

Parental  GESSTESDEEEEEGCGHTHCVRGHRKGRSRATPGPSPTTPPQPP-DPSQPPPGPMQH
          GESS.ES..E.E..C....CV.GH.KGR.RA.P...P.T....P.D.SQP...PM..
Retrocopy GESSSESEKEDEDNCDVVLCVWGHHKGRRRALPARDPSTSSTKP*DQSQPLLSPMKN

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_894 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 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020710	1 retrocopy	retro_cjac_2880,
Felis catus	ENSFCAG00000013592	1 retrocopy	retro_fcat_1794,
Gorilla gorilla	ENSGGOG00000026830	1 retrocopy	retro_ggor_80,
Macropus eugenii	ENSMEUG00000006493	2 retrocopies	retro_meug_715, retro_meug_933,
Macaca mulatta	ENSMMUG00000012122	1 retrocopy	retro_mmul_359,
Monodelphis domestica	ENSMODG00000016021	1 retrocopy	retro_mdom_98,
Nomascus leucogenys	ENSNLEG00000004933	1 retrocopy	retro_nleu_2257,
Otolemur garnettii	ENSOGAG00000001598	1 retrocopy	retro_ogar_1458,
Pongo abelii	ENSPPYG00000029642	1 retrocopy	retro_pabe_492,
Pan troglodytes	ENSPTRG00000017915	1 retrocopy	retro_ptro_2969,
Pteropus vampyrus	ENSPVAG00000008330	1 retrocopy	retro_pvam_894 ,
Ictidomys tridecemlineatus	ENSSTOG00000003632	1 retrocopy	retro_itri_159,