RetrogeneDB ID: retro_ttru_771

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3361:582076..582689(+)
• Located in intron of: ENSTTRG00000011895

Retrocopy information

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

Parental gene information

• Parental gene symbol: RRAS
• Ensembl ID: ENSTTRG00000005524
• Aliases: None
• Description: related RAS viral (r-ras) oncogene homolog [Source:HGNC Symbol;Acc:10447]

Sequence

>retro_ttru_771
GGCCGAGGGCGGGCGGCGTCCCCATGGCCACCGCCGGCTGGCGGGACGGCTCCGGCCAAGAGACGTACCGGCTAGTGGTG
GTCGGCAGGGGTGGCGGGGGCAAGTCGGCGCTCACCATCCAGTTCATCCAGTCCTATTTTGTAATGGATTATGATCCAAC
CGTCGAGCATTCCTGCCCAAAGCAGTGTGGGATGGGTGACCGGGCAGCCCGGCTAGATATTCTGGATACAGCGGGACAAG
AGGAGTTTGGAGCTATGAAAGAACAGTATGCGAGAACTGGCGAGGGTTTCCTGTTGGTCTTTTCAGTCACAGAGGCAGTT
TTGACGAAATTTATAAGTTTCAAAGACAGATTCTCAGAGTAAAGGATCGTGATGAGTTTCCAATGATTTTAACTGGTAAT
AAAGCAGATCTGGATCATCAGAGACAGGTAATGCAGGAAGAAGGACAGCAGTTAGCACCGTAGCTTAAGGTAACATACAT
GGAGGCATCAGCAAAGATCAGGATGAATATAGATCAAGCTTTCCATGAACTTGTCCAAATTATAAGGAAATTTCAAGAGC
AGGAATGTCCTCCTTCACCAGAACCAACGAAAGAAAAAGACAAGAAAGGCGGC

Alignment

ORF - retro_ttru_771 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.21 %
• Parental protein coverage: 94.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GTGRGRPRGGGPGPGDPPPS-ETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICMVDGVP
          G.GR.......P..G..P...ET..LVVVG.GG.GKSALTIQFIQSYFV.DYDPT.E.S..K.C......
Retrocopy GRGRAASPWPPPAGGTAPAK<ETYRLVVVGRGGGGKSALTIQFIQSYFVMDYDPTVEHSCPKQCGMGDRA

Parental  ARLDILDTAGQEEFGAMREQYMRAGH-GFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPIVLVGNKAD
          ARLDILDTAGQEEFGAM.EQY.R.G..GF..V.....R.SF.E..K...QILRVKDRD.FP..L.GNKAD
Retrocopy ARLDILDTAGQEEFGAMKEQYARTGE<GFP-VGLFSHRGSFDEIYKFQRQILRVKDRDEFPMILTGNKAD

Parental  LETQRQVPRSEASTFSASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPPCP-PSAPRKKDGG
          L..QRQV...E.........V.Y.EASAK.R.N.D.AF..LV...RK.QEQE.PP.P.P.....K.GG
Retrocopy LDHQRQVMQEEGQQLAP*LKVTYMEASAKIRMNIDQAFHELVQIIRKFQEQECPPSPEPTKEKDKKGG

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_771 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_771 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000010243	1 retrocopy	retro_ogar_1233,
Sus scrofa	ENSSSCG00000003183	2 retrocopies	retro_sscr_201, retro_sscr_570,
Tursiops truncatus	ENSTTRG00000005524	1 retrocopy	retro_ttru_771 ,
Tursiops truncatus	ENSTTRG00000010419	1 retrocopy	retro_ttru_1218,