RetrogeneDB ID: retro_pvam_1047

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_2483:73142..73500(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTM4
• Ensembl ID: ENSPVAG00000009559
• Aliases: None
• Description: glutathione S-transferase mu 4 [Source:HGNC Symbol;Acc:4636]

Sequence

>retro_pvam_1047
ATGGCCATAACTTTTAGTTACTGGGACATCTGTGGGCTGACTCATGCCATCTGCCCGCTTCTGGAGTACACAGACTCACA
CTATGAGGAGAAATACATGAAGGGGGGATACTCCCGACTATGACAGAAGCCAGTAGCTGAGTGACAAATTCAAGCTGGTG
CTGGACTTTTCCAGTCTGCCCTACTTAATTGACGGGGCTCACAGGCTCACCCAGAGCAATGCCATCCTTCGCTACATTGC
TCATAGGCACAACCTATGTGGGGAGAGGGAAGAGAAGATTCACACGGACATTTTGGAGAACAAGGTTCTGAACATCCAAA
TGTCCCTGGTCAGGGTCTGCTATAGCCCTGACTCGGAA

Alignment

ORF - retro_pvam_1047 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.49 %
• Parental protein coverage: 55.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTMTLGYWDIRGLAHAIRLLLEYTASNYEEKKYTMG-DAPDYDRSQWLSEKFQLGLDFPNLPYLIDGSHR
          M..T..YWDI.GL.HAI..LLEYT.S.YEE.KY..G.D.PDYDRSQ.LS.KF.L.LDF..LPYLIDG.HR
Retrocopy MAITFSYWDICGLTHAICPLLEYTDSHYEE-KYMKG>DTPDYDRSQ*LSDKFKLVLDFSSLPYLIDGAHR

Parental  LTQSNAILRYIARKHNLCGETEEEKIRVDILENEVMDISNQLARVCYSPDFE
          LTQSNAILRYIA..HNLCGE..EEKI..DILEN.V..I...L.RVCYSPD.E
Retrocopy LTQSNAILRYIAHRHNLCGE-REEKIHTDILENKVLNIQMSLVRVCYSPDSE

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_1047 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000004970	1 retrocopy	retro_amel_1548,
Bos taurus	ENSBTAG00000016472	1 retrocopy	retro_btau_1181,
Equus caballus	ENSECAG00000024971	1 retrocopy	retro_ecab_1058,
Macaca mulatta	ENSMMUG00000019630	2 retrocopies	retro_mmul_1432, retro_mmul_1806,
Mustela putorius furo	ENSMPUG00000003658	1 retrocopy	retro_mputfur_758,
Mus musculus	ENSMUSG00000027890	1 retrocopy	retro_mmus_204,
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 ,
Tarsius syrichta	ENSTSYG00000007276	1 retrocopy	retro_tsyr_793,