RetrogeneDB ID: retro_pvam_404

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_2958:293421..293697(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANAPC15
• Ensembl ID: ENSPVAG00000015797
• Aliases: None
• Description: anaphase promoting complex subunit 15 [Source:HGNC Symbol;Acc:24531]

Sequence

>retro_pvam_404
CAGCTACATCAACAGGAATAGCAGCATCAGGCCTGGCTCCAGAGCATCATGGAGAAAGACAACAACTTGGTATTTCTTTT
CAAGACAGCTTCAGAGCAATATGATGACATGAAAGAGGAGGATGATTAAGATGCGAAAGATAGTGAAGACTCAGAGAATG
ATGAGGACATGCAGGACATGGACGAGATGTGTGATTACAGTGCGTAGCTTAATGATAGAGAGGTCATTGAAGTAGACATG
GAAGGCAATGAACAAGATCAGGACCAGTGGATAATG

Alignment

ORF - retro_pvam_404 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.97 %
• Parental protein coverage: 76.86 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELQQQEQQHQAWLQSIAEKDNNLVPIGKPASEHYDDEEEEDEDDDEDSEEDSEDDEDMQDMDEMNDYNES
          .L.QQE.QHQAWLQSI.EKDNNLV...K.ASE.YDD..EED..D..DSE.DSE.DEDMQDMDEM.DY...
Retrocopy QLHQQE*QHQAWLQSIMEKDNNLVFLFKTASEQYDDMKEEDD*DAKDSE-DSENDEDMQDMDEMCDYSA*

Parental  PDDGEVNEVDMEGNEQDQDQWMI
          ..D.EV.EVDMEGNEQDQDQW..
Retrocopy LNDREVIEVDMEGNEQDQDQWIM

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_404 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 16 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010843	1 retrocopy	retro_amel_298,
Bos taurus	ENSBTAG00000002999	2 retrocopies	retro_btau_252, retro_btau_269,
Canis familiaris	ENSCAFG00000005781	1 retrocopy	retro_cfam_1752,
Equus caballus	ENSECAG00000021041	1 retrocopy	retro_ecab_470,
Felis catus	ENSFCAG00000005321	1 retrocopy	retro_fcat_1350,
Homo sapiens	ENSG00000110200	1 retrocopy	retro_hsap_4780,
Gorilla gorilla	ENSGGOG00000012501	2 retrocopies	retro_ggor_1999, retro_ggor_2977,
Myotis lucifugus	ENSMLUG00000014120	1 retrocopy	retro_mluc_238,
Macaca mulatta	ENSMMUG00000016270	1 retrocopy	retro_mmul_2551,
Mustela putorius furo	ENSMPUG00000010260	1 retrocopy	retro_mputfur_596,
Nomascus leucogenys	ENSNLEG00000017234	1 retrocopy	retro_nleu_1100,
Pongo abelii	ENSPPYG00000003646	2 retrocopies	retro_pabe_2388, retro_pabe_3720,
Pteropus vampyrus	ENSPVAG00000015797	1 retrocopy	retro_pvam_404 ,
Sorex araneus	ENSSARG00000004171	2 retrocopies	retro_sara_444, retro_sara_686,
Tarsius syrichta	ENSTSYG00000014179	1 retrocopy	retro_tsyr_35,
Tursiops truncatus	ENSTTRG00000010773	1 retrocopy	retro_ttru_277,