RetrogeneDB ID: retro_pvam_649

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_558:167120..167382(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACBD7
• Ensembl ID: ENSPVAG00000007153
• Aliases: None
• Description: acyl-CoA binding domain containing 7 [Source:HGNC Symbol;Acc:17715]

Sequence

>retro_pvam_649
TTGCAGGCTAGTTTTGATTGGGCTGCAGAAAAGGAAAACAAGAGGAAGCCGAAAACAAGGCCAATGACGAAAAACTGAAA
GAACTCTATGAGCTCTACAAAGAATCTGCAATTGGAGACATTCATATTGAGCTTCCAGGAATGTTAGATTTAAAAGACAA
AGCTAAGTGAGAAGCACGGAACCTCCAAAAAGATTATCAAAGGCAGATGCCACGAGTGCCTATATTTCTAAAGCAAAAGA
GCCGGTTGAAAAATATGGAATT

Alignment

ORF - retro_pvam_649 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.11 %
• Parental protein coverage: 98.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IKANFNKAAE--DVRKLKKRP-DDEELKELYGLYKQSLHGDINTECPGVLDLKGKAKWEAWNLRKG-LSK
          ..A.F..AAE....RK.K.RP..DE.LKELY.LYK.S..GDI..E.PG.LDLK.KAK.EA.NL.K..LSK
Retrocopy LQASFDWAAEKENKRKPKTRP<NDEKLKELYELYKESAIGDIHIELPGMLDLKDKAK*EARNLQKD<LSK

Parental  EDAMTAYISKVKELIQKYGI
          .DA..AYISK.KE...KYGI
Retrocopy ADATSAYISKAKEPVEKYGI

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_649 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 10 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009249	1 retrocopy	retro_cjac_1017,
Felis catus	ENSFCAG00000027337	1 retrocopy	retro_fcat_683,
Homo sapiens	ENSG00000176244	2 retrocopies	retro_hsap_1501, retro_hsap_1669,
Gorilla gorilla	ENSGGOG00000015777	3 retrocopies	retro_ggor_1152, retro_ggor_1257, retro_ggor_625,
Macaca mulatta	ENSMMUG00000010587	2 retrocopies	retro_mmul_1577, retro_mmul_2141,
Nomascus leucogenys	ENSNLEG00000012353	2 retrocopies	retro_nleu_1147, retro_nleu_1720,
Pongo abelii	ENSPPYG00000002111	2 retrocopies	retro_pabe_1252, retro_pabe_1376,
Pan troglodytes	ENSPTRG00000041316	3 retrocopies	retro_ptro_1018, retro_ptro_1132, retro_ptro_530,
Pteropus vampyrus	ENSPVAG00000007153	1 retrocopy	retro_pvam_649 ,
Pteropus vampyrus	ENSPVAG00000014349	5 retrocopies	retro_pvam_1120, retro_pvam_1121, retro_pvam_168, retro_pvam_529, retro_pvam_85,