RetrogeneDB ID: retro_pvam_626

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_414:161178..161544(+)
• Located in intron of: ENSPVAG00000010074

Retrocopy information

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

Parental gene information

• Parental gene symbol: NTAN1
• Ensembl ID: ENSPVAG00000002982
• Aliases: None
• Description: N-terminal asparagine amidase [Source:HGNC Symbol;Acc:29909]

Sequence

>retro_pvam_626
AATGGGGCTACCTGCTTGACACATTGTGATGGAATTGACACCGAAGCTGAGGTCCCTTTGATCATGAATGCCGTAAAATC
TTTTTCTGACCACGCTCAATGTGGAAGGCTGGAAGTGTACTTCGTGGACAGCTTCAGTGACGATGGGCAGTTATCACAAA
AACTGACTCATCACCTTCTTAGCGAATTTGACAGACAAGAAGATGGCATTCGCTTAGTCATCTTACGTGTGACAGAATTA
AATGACCAGGAAAAAAATGAAAACCACTTTCTAGTAATTTATGGCATTACTGTCAACATTAAAACTACAGAGATTTACTG
AGCCTCCTTCCAAGGTCGTGGTCCAGAGGAGGAGGTGCGTGCTGCA

Alignment

ORF - retro_pvam_626 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.93 %
• Parental protein coverage: 53.98 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NGATCLTHCDGTDTKAEVPLIMNSIKSFSDQAQCGRLEVHLVGGFSDDRQLSQKLTHQLLXXXXXXXXXX
          NGATCLTHCDG.DT.AEVPLIMN..KSFSD.AQCGRLEV..V..FSDD.QLSQKLTH.LL..........
Retrocopy NGATCLTHCDGIDTEAEVPLIMNAVKSFSDHAQCGRLEVYFVDSFSDDGQLSQKLTHHLLSEFDRQEDGI

Parental  XXXXXXXXXLNDREENENHFPIIYGIAVDVRTAEVYRASFPDRGPEEELRAA
          .........LND.E.NENHF..IYGI.V...T.E.Y.ASF..RGPEEE.RAA
Retrocopy RLVILRVTELNDQEKNENHFLVIYGITVNIKTTEIY*ASFQGRGPEEEVRAA

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_626 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 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003857	1 retrocopy	retro_acar_62,
Choloepus hoffmanni	ENSCHOG00000011818	3 retrocopies	retro_chof_1148, retro_chof_1591, retro_chof_2046,
Dasypus novemcinctus	ENSDNOG00000016017	5 retrocopies	retro_dnov_1068, retro_dnov_1159, retro_dnov_129, retro_dnov_874, retro_dnov_97,
Echinops telfairi	ENSETEG00000014054	1 retrocopy	retro_etel_1914,
Microcebus murinus	ENSMICG00000014995	2 retrocopies	retro_mmur_1479, retro_mmur_959,
Myotis lucifugus	ENSMLUG00000003455	1 retrocopy	retro_mluc_1398,
Mustela putorius furo	ENSMPUG00000014327	1 retrocopy	retro_mputfur_762,
Otolemur garnettii	ENSOGAG00000002538	2 retrocopies	retro_ogar_706, retro_ogar_78,
Pteropus vampyrus	ENSPVAG00000002982	1 retrocopy	retro_pvam_626 ,
Tupaia belangeri	ENSTBEG00000014096	2 retrocopies	retro_tbel_3921, retro_tbel_905,