RetrogeneDB ID: retro_ttru_66

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1103:825340..825796(-)
• Located in intron of: ENSTTRG00000009782

Retrocopy information

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

Parental gene information

• Parental gene symbol: VAMP7
• Ensembl ID: ENSTTRG00000010643
• Aliases: None
• Description: vesicle-associated membrane protein 7 [Source:HGNC Symbol;Acc:11486]

Sequence

>retro_ttru_66
ATGGCCATTCTTTTCGCTGTTGCCAGGGGAACCACTATCCTTGCCAGACAAGCTTGGTGTGGAGGCAACTTCCTGGAGGT
GACAGAGCAGATTCTGGCTAAGATACCTTCTGAAAATAACAAGCTAACGTACTTACATGGCAATTATTTGTTTCATTACA
TCTGCCAAGACAGGATTGTATATCTTTGTATCACTGATGATGATTTTGAGTGTTCCCGAGCCTTTAATTTTCTAAATGAG
ATAAAAAAGAGGTTCCAGACCACGTACGGTTCAAGAGCACAAACAGTGCTTCCGTATGCCGTGAATAGTGAGTTCTCAAG
TGTCTTGGCTGCACAGCCGAAGCATCACTCCGAGAATAAGGGCCTAGATAAAGTGATGGAGACTCAAGCCCAAGTGGATG
AACTTAAAGGAATCATGGTCAGAAACATAGATCTGGTGGTTCAGCAAGGCAAAAGA

Alignment

ORF - retro_ttru_66 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.54 %
• Parental protein coverage: 59.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVYLCITDDDF
          MAILFAV.ARGTTILA..AWCGGNFLEVTEQILAKIPSENNKLTY.HGNYLFHYICQDRIVYLCITDDDF
Retrocopy MAILFAV-ARGTTILARQAWCGGNFLEVTEQILAKIPSENNKLTYLHGNYLFHYICQDRIVYLCITDDDF

Parental  ERSRAFNFLNEIKKRFQTTYGSRAQTALPYAMNSEFSSVLAAQLKHHSENKGLDKVMETQAQVDELKGIM
          E.SRAFNFLNEIKKRFQTTYGSRAQT.LPYA.NSEFSSVLAAQ.KHHSENKGLDKVMETQAQVDELKGIM
Retrocopy ECSRAFNFLNEIKKRFQTTYGSRAQTVLPYAVNSEFSSVLAAQPKHHSENKGLDKVMETQAQVDELKGIM

Parental  VRNIVCHLQNNQQ
          VRNI....Q....
Retrocopy VRNIDLVVQQGKR

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_66 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_66 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000051412	1 retrocopy	retro_mmus_2131,
Oryctolagus cuniculus	ENSOCUG00000001270	1 retrocopy	retro_ocun_842,
Pteropus vampyrus	ENSPVAG00000000829	1 retrocopy	retro_pvam_513,
Ictidomys tridecemlineatus	ENSSTOG00000025036	1 retrocopy	retro_itri_720,
Tursiops truncatus	ENSTTRG00000010643	1 retrocopy	retro_ttru_66 ,