RetrogeneDB ID: retro_pvam_1233

Retrocopy location

• Organism: Megabat (Pteropus vampyrus)
• Coordinates: scaffold_4629:31708..32117(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CD81
• Ensembl ID: ENSPVAG00000014218
• Aliases: None
• Description: CD81 molecule [Source:HGNC Symbol;Acc:1701]

Sequence

>retro_pvam_1233
GGGTGCTCTGATGATGTTCATCCAGCTCCTGGGCTGCTGGGGATGTTCTTCACCTGCCTGGTGATCCTCTGCCGACAAAG
TGGCCGCCGGCATCAAGGGCTTTGTCCACAAGAACCAGATCGCCAAGGATGTGGAGCAATTCTACGACCAGGCCTTGCAG
CAGGTTGTGGTGGACAACGGGGCCACCAACGCCAGGGCCATGGTGAAGACCTCTCACGAGACACGCAACTGCTATGACTC
CCACACGCTGACCTCACTGACCACCTCTGTGCTCAAGAACAGCCTGTGTCCCTCAGACAGCACCATCACCAGCAAGTTGC
TACAGGAAGACTGCCACCAGAAGAATGACGACCTCCTGTCGGGGAAGCTGTACCTCATCGGCATCACGGCCATCATAGTC
GCCATGGTC

Alignment

ORF - retro_pvam_1233 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.04 %
• Parental protein coverage: 64.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GCYGAIQESQCLLGTFFTCLVILF-ACEVAAGIWGFVNKDQIAKDVKQFYDQALQQALVDDEANNAKAVV
          GC.........LLG..F........A..VAAGI.GFV.K.QIAKDV.QFYDQALQQ..VD..A.NA.A.V
Retrocopy GCSDDVHPAPGLLG-MFFTCLVIL>ADKVAAGIKGFVHKNQIAKDVEQFYDQALQQVVVDNGATNARAMV

Parental  KTFHETLNCCGSNTLTSLTTSVLMNNLCPSGSTVIGNLLKEDCHQKIDDLFSGKLYLIGIAAIVVAVI
          KT.HET.NC..S.TLTSLTTSVL.N.LCPS.ST....LL.EDCHQK.DDL.SGKLYLIGI.AI.VA..
Retrocopy KTSHETRNCYDSHTLTSLTTSVLKNSLCPSDSTITSKLLQEDCHQKNDDLLSGKLYLIGITAIIVAMV

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_1233 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Pteropus vampyrus	ENSPVAG00000014218	1 retrocopy	retro_pvam_1233 ,