RetrogeneDB ID: retro_pvam_1450

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_89799:0..288(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANAPC10
• Ensembl ID: ENSPVAG00000013169
• Aliases: None
• Description: anaphase promoting complex subunit 10 [Source:HGNC Symbol;Acc:24077]

Sequence

>retro_pvam_1450
ATGACCACACCAAACAAGACACCTCCTAGTGCTGACTCTAATCAGTTGGAAAGGACAGGAACAGCACAGGAAATTGGGTC
ACAAGCTCTTTGGTCACTCTCATCTTGCAAACCAGGGTTTGGAGTAAATCAATTATGAGATGACAATCTAGAAACTTACT
GGTAATCAGATGGCTCCCAACCTCATTTAGCGAATAACCAATTCAGAAGAAAAACGACGGTGAAGACATTGTGTATTTAT
GCAAACTACAAATCTGATGAAAGCTATACTCCAAACAAGATCTCAGTC

Alignment

ORF - retro_pvam_1450 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.46 %
• Parental protein coverage: 51.89 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTTPNKTPPGADPKQLERTGTVREIGSQAVWSLSSCKPGFGVDQLRDDNLETYWQSDGSQPHLVNIQFRR
          MTTPNKTPP.AD..QLERTGT..EIGSQA.WSLSSCKPGFGV.QL.DDNLETYW.SDGSQPHL.N.QFRR
Retrocopy MTTPNKTPPSADSNQLERTGTAQEIGSQALWSLSSCKPGFGVNQL*DDNLETYW*SDGSQPHLANNQFRR

Parental  KTTVKTLCIYADYKSDESYTPSKISV
          KTTVKTLCIYA.YKSDESYTP.KISV
Retrocopy KTTVKTLCIYANYKSDESYTPNKISV

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_1450 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002663	2 retrocopies	retro_cjac_2683, retro_cjac_2999,
Dipodomys ordii	ENSDORG00000016690	1 retrocopy	retro_dord_202,
Homo sapiens	ENSG00000164162	1 retrocopy	retro_hsap_152,
Gorilla gorilla	ENSGGOG00000025091	1 retrocopy	retro_ggor_241,
Myotis lucifugus	ENSMLUG00000008607	1 retrocopy	retro_mluc_1679,
Macaca mulatta	ENSMMUG00000004432	1 retrocopy	retro_mmul_374,
Mus musculus	ENSMUSG00000036977	1 retrocopy	retro_mmus_1511,
Nomascus leucogenys	ENSNLEG00000005453	1 retrocopy	retro_nleu_1498,
Otolemur garnettii	ENSOGAG00000006902	2 retrocopies	retro_ogar_1649, retro_ogar_2510,
Pongo abelii	ENSPPYG00000015096	1 retrocopy	retro_pabe_468,
Pan troglodytes	ENSPTRG00000016480	1 retrocopy	retro_ptro_149,
Pteropus vampyrus	ENSPVAG00000013169	2 retrocopies	retro_pvam_1245, retro_pvam_1450 ,