RetrogeneDB ID: retro_pvam_1254

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_49194:764..1337(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MPV17L2
• Ensembl ID: ENSPVAG00000002028
• Aliases: None
• Description: MPV17 mitochondrial membrane protein-like 2 [Source:HGNC Symbol;Acc:28177]

Sequence

>retro_pvam_1254
CGCTGCCTGTGGGCGGCGGGGCAGCCCCTGTTCTGAGGCCATGCGCTTCTCCTCACTAACACGCTAGACTGTGGCGCTGT
CATCGCGAACCCGGGCTGCGCGCGCCGGTGGTGGGAGATCCCGGGGCTGCTGAGCCAGAAGTTCAACCCGCTGTGCTCCG
AGAGCATGTTTGCAGTGGGCTGCAGCACCAGCCTTTTCCTGCACTACTGTCACCTCTGGTCAGACCTCCTGCTCCCCGCG
TCCTGCCTCCTAAATATCCCCAGGAGGGTCCCCGTCGACCAGCTGGTGGCATCTCCCATGCTGTATGTCTGGTACTTCTT
GGGTCTTGGCTGCCTAGAAGGCCAGTTTCTAGGCAAGAGCTGCCGGGAGCTGCGAGACAAGTCCTGGAAATTCTACAAGG
CTGACTGGTGCATGTGGCTTGCTGCACAATTGGTGAACTTCTTCTTCGTGCCACCCCAGTTCTGAGTCAGCTACATCAAT
GGCCTGATGCTGAGCTGGGACACATACCTTTCCTACCTGAAGTACCAAGTGCCAGGCCTCCTGATGATTCCAGGCTGAGT
GGCCCTGGGCACT

Alignment

ORF - retro_pvam_1254 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.98 %
• Parental protein coverage: 94.61 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RGLCTAGQPLFQGRALLVTNTLGCGVLMVAGDGARQSWEIRARPGQKFDPRRSASMVAVGCSMGPFLHYW
          R.L..AGQPLF.G.ALL.TNTL.CG........AR..WEI.....QKF.P..S.SM.AVGCS...FLHY.
Retrocopy RCLWAAGQPLF*GHALLLTNTLDCGAVIANPGCARRWWEIPGLLSQKFNPLCSESMFAVGCSTSLFLHYC

Parental  YLWLDHLLPASGLRSLPNILRKVLVDQLVASPLLGVWYFLSLGCLEGQTLDQSCQELRDKFWEFYKADWC
          .LW.D.LLPAS.L...P...R.V.VDQLVASP.L.VWYFL.LGCLEGQ.L..SC.ELRDK.W.FYKADWC
Retrocopy HLWSDLLLPASCLLNIP---RRVPVDQLVASPMLYVWYFLGLGCLEGQFLGKSCRELRDKSWKFYKADWC

Parental  VWPAAQLVNFLFVPPQFRVTYINGLTLGWDTYLSYLKYRIPGPLTPPG-VTLGT
          .W.AAQLVNF.FVPPQF.V.YINGL.L.WDTYLSYLKY..PG.L..PG.V.LGT
Retrocopy MWLAAQLVNFFFVPPQF*VSYINGLMLSWDTYLSYLKYQVPGLLMIPG*VALGT

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_1254 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000027644	1 retrocopy	retro_acar_180,
Bos taurus	ENSBTAG00000025788	1 retrocopy	retro_btau_306,
Callithrix jacchus	ENSCJAG00000014104	1 retrocopy	retro_cjac_4063,
Echinops telfairi	ENSETEG00000013840	1 retrocopy	retro_etel_1446,
Macropus eugenii	ENSMEUG00000016379	2 retrocopies	retro_meug_223, retro_meug_943,
Macaca mulatta	ENSMMUG00000005025	1 retrocopy	retro_mmul_2493,
Nomascus leucogenys	ENSNLEG00000005944	1 retrocopy	retro_nleu_2666,
Pteropus vampyrus	ENSPVAG00000002028	1 retrocopy	retro_pvam_1254 ,