RetrogeneDB ID: retro_pvam_651

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: GeneScaffold_566:256030..256853(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENTPD1
• Ensembl ID: ENSPVAG00000014601
• Aliases: None
• Description: ectonucleoside triphosphate diphosphohydrolase 1 [Source:HGNC Symbol;Acc:3363]

Sequence

>retro_pvam_651
GTTGGTGAATCAGAAGAGTGCAAAGTAAAAGGTCTTGGAATCTCAAAATGTGCTCAAAAAATATTTGAAATAGGTATTTA
TCTGACTATGTATGTGGGAAAAAAACAGAGAAGTGATTCCAAAGTCCTAGCACCAAGAGACACTTATTTATCTGGGAGTC
ATGGCAGGCAAGCAGTTGCTTAGCATAGAAAATAAATGGTTGGCAGACAAGGTCCTGGTGACACCAAGCCTCAGCAACTA
CTTTAACTTCCACGGTACCAGAATCATCACTGGCAAAGAGAAAGGCACCTATGGTTGGATTACTGTCAATTATCTGCTGG
GAAAATTCACTAAGAAATTGAGGTGGCTCGACTTGACGCCAAATGAAAACAATAGTCAGGAAACTCATGCTGCTTTAGAC
CTTGGGGGAGCCTCTATGCAAATTACTGTTGTGCCCCCAAATTAGACTATTGAGTCTCCACAGAACGATCTGTACTTTCA
TCCGTATGGCAAGGACCACACTGTACACACACATAGCCTCTTGTGTTACGGGAAGGATCGAGCACTCTTGCAGAAACTGG
TCAAGGATATTCGGGGCACAAACACAACCCTCAGAGACCCATGTTTTAACTGTACATATAACAGGGTAATGAATGTAAGT
GACCTGCAAGACAGCCCCTGCACCAGGAAATTTGACAAGATTCTTCCATTCTGTTAGTTGCAAATCCAAGGCATTGGAAA
CGTTCAATGATGCCGGGAAAGCATCTTTAAACTCATCAACACCAATAACTGTGCTTACTCCCACTGCTCCTTCAATAGGA
TTTTCTTGCTGCCACTCCAAGGA

Alignment

ORF - retro_pvam_651 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.91 %
• Parental protein coverage: 54.96 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VNQLEECKVKGPGISQYANKTHEISIYLTACM-ERAKEVIPKSQYQETPVYLGATAGMRLLRIENEGLAD
          V...EECKVKG.GIS..A.K..EI.IYLT....E...EVIPKS..QET..YLG..AG..LL.IEN..LAD
Retrocopy VGESEECKVKGLGISKCAQKIFEIGIYLTMYV>EKNREVIPKS*HQETLIYLGVMAGKQLLSIENKWLAD

Parental  NVLIAVTQSLSKYSFNFQGARVISGREEGAYGWITINYLLGKFTKKSRWFNLMTNESDSQETYGALDLGG
          .VL..VT.SLS.Y.FNF.G.R.I.G.E.G.YGWIT.NYLLGKFTKK.RW..L..NE..SQET..ALDLGG
Retrocopy KVL--VTPSLSNY-FNFHGTRIITGKEKGTYGWITVNYLLGKFTKKLRWLDLTPNENNSQETHAALDLGG

Parental  ASTQITFVPQNQTIESPQNALYFRLYGKNYNVYTQSFLCYGKDQALLQKLAKDIRETDKILRDPCFNHGY
          AS.QIT.VP.N.TIESPQN.LYF..YGK...V.T.S.LCYGKD.ALLQKL.KDIR.T...LRDPCFN..Y
Retrocopy ASMQITVVPPN*TIESPQNDLYFHPYGKDHTVHTHSLLCYGKDRALLQKLVKDIRGTNTTLRDPCFNCTY

Parental  NRVMNISDLQDSPCTKKYKKILEFQQLQIQGTGNFQQCQQSIFQLFNTSNCPYSHCSFDKIFLPPLRG
          NRVMN.SDLQDSPCT.K..KIL.F..LQIQG.GN.Q.C..SIF.L.NT.NC.YSHCSF..IFL.PL.G
Retrocopy NRVMNVSDLQDSPCTRKFDKILPFC*LQIQGIGNVQ*CRESIFKLINTNNCAYSHCSFNRIFLLPLQG

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_651 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000001137	1 retrocopy	retro_dnov_1789,
Pteropus vampyrus	ENSPVAG00000014601	1 retrocopy	retro_pvam_651 ,