RetrogeneDB ID: retro_pvam_1463

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_9303:18822..19484(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTP1
• Ensembl ID: ENSPVAG00000008586
• Aliases: None
• Description: glutathione S-transferase pi 1 [Source:HGNC Symbol;Acc:4638]

Sequence

>retro_pvam_1463
TCTGCCGCCGCCGTCTTTGTCTACACCACAACCATGCCCCCTACACCTTCGTCTACTTCCCTGTTCGAGGGCGCTGCGAG
ACTATGTGCATGCTGCTGGCTGACCAGGGCCAGATCTGGAAGGAGGACATGGTGTCCATGGAGACCTGGCTGCAGGGCTC
TCTCAAGGCCTCCTGTCTGTACCCGCAGCTCCCTAAGTTCCAGGATGGAGACCTCGTCCTGTACCAGTCCAATGCCATCC
TGCGCCACCTGGGCTGCTCCCTCCGGCTGTATGGGGTGGACCAGCGGGAGGCGGCCCTGGTGGAAGTGGTGAGTGACAGC
GCGGAGGACCACCGCTGCAAATATTTCACCCTCATCTACATCAACAACGAGACTGGCAAGGAGAGCTATGTGAAGGAGCT
GCCAGGGCACCTGAAGTCTTTTGAGGCCCTGCTGTCCCAAACCAGGTGGGCCAGGCCTTCATCGTCGGCAACCAGATCTC
TTTCGCTGTCTACAACCTGCTGGACTTGCTTCTGAATCACCAGGTCCTGGCCCCTGGCCGCCTGGACTCCTTCCCCTTGC
TCTCAGCTCACGTGGCTTGCCTCCCGCGCCCGGACCAAGCTCAAGGCCTTCCTGGCCACCTCCGAGCACGTGAACCTGCC
CATCAATGGCAACGGGAAACGG

Alignment

ORF - retro_pvam_1463 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.34 %
• Parental protein coverage: 98.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SAIAFFVCAATMPP-YAIVYFPVQGRCEAMRMLLADQGQSWKEEVVTKETWLQGPLKASCLYGQLPKFQD
          SA.A.FV...TMPP.Y..VYFPV.GRCE.M.MLLADQGQ.WKE..V..ETWLQG.LKASCLY.QLPKFQD
Retrocopy SAAAVFVYTTTMPP<YTFVYFPVRGRCETMCMLLADQGQIWKEDMVSMETWLQGSLKASCLYPQLPKFQD

Parental  GDLTLYQSNAILRHLGRSLGLYGKDQREAALVDMVNDGVEDLRCKYGTFIYTNYEAGKENYVKELPEHLK
          GDL.LYQSNAILRHLG.SL.LYG.DQREAALV..V.D..ED.RCKY.T.IY.N.E.GKE.YVKELP.HLK
Retrocopy GDLVLYQSNAILRHLGCSLRLYGVDQREAALVEVVSDSAEDHRCKYFTLIYINNETGKESYVKELPGHLK

Parental  PFETLLAQ-NQGGQAFIVGNQISFADYNLLNLLLNHQVLAPSCLDSFPLLSAYVARL-SARPKLKAFLAS
          .FE.LL.Q.NQ.GQAFIVGNQISFA.YNLL.LLLNHQVLAP..LDSFPLLSA.VA.L..AR.KLKAFLA.
Retrocopy SFEALLSQ<NQVGQAFIVGNQISFAVYNLLDLLLNHQVLAPGRLDSFPLLSAHVACL>RARTKLKAFLAT

Parental  PEHVNLPINGNNKQ
          .EHVNLPINGN.K.
Retrocopy SEHVNLPINGNGKR

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_1463 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 8 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001020	3 retrocopies	retro_amel_1921, retro_amel_249, retro_amel_778,
Canis familiaris	ENSCAFG00000011349	4 retrocopies	retro_cfam_143, retro_cfam_2043, retro_cfam_46, retro_cfam_617,
Macropus eugenii	ENSMEUG00000001519	2 retrocopies	retro_meug_1519, retro_meug_1762,
Mustela putorius furo	ENSMPUG00000004029	2 retrocopies	retro_mputfur_1215, retro_mputfur_1463,
Mus musculus	ENSMUSG00000038155	1 retrocopy	retro_mmus_521,
Pteropus vampyrus	ENSPVAG00000008586	6 retrocopies	retro_pvam_1119, retro_pvam_1463 , retro_pvam_568, retro_pvam_664, retro_pvam_681, retro_pvam_718,
Pteropus vampyrus	ENSPVAG00000009559	1 retrocopy	retro_pvam_1047,
Rattus norvegicus	ENSRNOG00000018237	4 retrocopies	retro_rnor_2140, retro_rnor_2567, retro_rnor_2842, retro_rnor_769,