RetrogeneDB ID: retro_ttru_551

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_266:307321..307750(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSPAN13
• Ensembl ID: ENSTTRG00000009870
• Aliases: None
• Description: tetraspanin 13 [Source:HGNC Symbol;Acc:21643]

Sequence

>retro_ttru_551
ATGGTTTGCGGGGGCTTCGCGTGTTCCAAGAACTGCCTGTGCGCGCTCAACCTACTCTACACCTTGGTTAGTCTGCTGCT
CATTGGAATTGCAGCGTGGGGCATCAGCTTCGGGCTGATTTCCAGTCTCCGGGTGGTCGGTGTGGTCATCGCAGTGGGCA
TCTTCTTGTTCCTGATTGCATTAGTGGGGCTGATCGGAGCCGTGAAACACCATCAGGTGTTGCTTTTTTTTTACATGATT
ATTCTCTTACTTGTATTTATTGTCCAGTTTTCCGTATCATGTGCTTGTTTAGCCCTGAACCAGGAGCAACAGGGTCAGCT
TTTGGAAGTTGGTTGGAACAGTACAGCAAGTGCTCGAAATGACATCCAGAGAAATTTAAACTGCTGTGGGTTCCGAAGTT
TTAACCCAAATGACACCTGTCTGGCTAGT

Alignment

ORF - retro_ttru_551 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.41 %
• Parental protein coverage: 70.1 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVCGGFACSKNCLCALNLLYTLVSLLLIGIAAWGIGFGLISSLRVVGVVIAVGIFLFLIALVGLIGAVKH
          MVCGGFACSKNCLCALNLLYTLVSLLLIGIAAWGI.FGLISSLRVVGVVIAVGIFLFLIALVGLIGAVKH
Retrocopy MVCGGFACSKNCLCALNLLYTLVSLLLIGIAAWGISFGLISSLRVVGVVIAVGIFLFLIALVGLIGAVKH

Parental  HQVLLFFYMIILLLVFIVQFSVSCACLALNEEQQGQLLEVGWNNTASARNDIQRNFNCCGFRSFNPNDTC
          HQVL....MIILLLVFIVQFSVSCACLALN.EQQGQLLEVGWN.TASARNDIQRN.NCCGFRSFNPNDTC
Retrocopy HQVLXXXXMIILLLVFIVQFSVSCACLALNQEQQGQLLEVGWNSTASARNDIQRNLNCCGFRSFNPNDTC

Parental  LAS
          LAS
Retrocopy LAS

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_551 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_551 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010524	1 retrocopy	retro_amel_1425,
Loxodonta africana	ENSLAFG00000005956	3 retrocopies	retro_lafr_1088, retro_lafr_195, retro_lafr_556,
Ictidomys tridecemlineatus	ENSSTOG00000008833	1 retrocopy	retro_itri_1367,
Tursiops truncatus	ENSTTRG00000009870	1 retrocopy	retro_ttru_551 ,