RetrogeneDB ID: retro_pvam_1464

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_934:197698..197899(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WDR83OS
• Ensembl ID: ENSPVAG00000013403
• Aliases: None
• Description: WD repeat domain 83 opposite strand [Source:HGNC Symbol;Acc:30203]

Sequence

>retro_pvam_1464
TTAGATGACCCGACACCAGACTACATGAACCTCCTCGGCATGATCTTCAGCATGTACAGCATGATGCTCAAGCTGAAGTG
GTGTGCTTAGGTTGTCGTCTACTGCTCCTTCATCAGCTTTGCCAAATCCCAGAGCTCTGAGACACTAAGCAAAACAAGAA
ACTTCATGCTGTCCATCTCTGCTGTGGTGATGTCATATCTG

Alignment

ORF - retro_pvam_1464 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.41 %
• Parental protein coverage: 64.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LDDPTPDYMNLLGMIFSMCGLMLKLKWCAWVAVYCSFISFANSRSSEDTKQMMSSFMLSISAVVMSYL
          LDDPTPDYMNLLGMIFSM...MLKLKWCA.V.VYCSFISFA.S.SSE.T......FMLSISAVVMSYL
Retrocopy LDDPTPDYMNLLGMIFSMYSMMLKLKWCA*VVVYCSFISFAKSQSSE-TLSKTRNFMLSISAVVMSYL

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_1464 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000028908	2 retrocopies	retro_cfam_1489, retro_cfam_1951,
Callithrix jacchus	ENSCJAG00000005285	1 retrocopy	retro_cjac_133,
Echinops telfairi	ENSETEG00000019481	1 retrocopy	retro_etel_1133,
Felis catus	ENSFCAG00000000463	1 retrocopy	retro_fcat_1902,
Macropus eugenii	ENSMEUG00000014450	3 retrocopies	retro_meug_1695, retro_meug_1733, retro_meug_2081,
Mus musculus	ENSMUSG00000059355	2 retrocopies	retro_mmus_1327, retro_mmus_2061,
Pteropus vampyrus	ENSPVAG00000013403	1 retrocopy	retro_pvam_1464 ,
Sus scrofa	ENSSSCG00000013721	1 retrocopy	retro_sscr_488,
Tupaia belangeri	ENSTBEG00000001250	1 retrocopy	retro_tbel_2034,