RetrogeneDB ID: retro_ttru_471

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2397:366438..367646(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000016334
• Aliases: None
• Description: None

Sequence

>retro_ttru_471
ACGGGGTGTACAAAATTAGGATATCCAGGAAATAGGGAAACACAGGGAGTCATAGGGCAAGGGTTCGATATTAAGGAGTC
AGCAGAAGTGGGTGATCGAGTTCAGAGGAGGGTGATGAAAGGTGTGATGACCTAGACTTCTCACTGGTGATGAGGCAACA
GTACAACCTACATATGCAACAAAGCGGCCAGTCCTCCATGGCATCGTTGAAGATTGGGACTTGATGGAAAGGTTTACGGG
GCAAGTGATCTTGCAATATTTAAGGGCGGAGCCTGAAGGCCATTATCTTCTTTTGACTGAACCTCCACTGAGTGCTCCAG
AAAACAGGGAGGATACTGTGAAATACCGTTTGAGTACTTCAATGTTCCAGGCTAGTACATTGCCGTATAGGCTGTTCTTG
CCGTAGCTGCATCCGGGACCTCCAGACAAGTAGGAGAACGGACGTTGACCAGTACGGTGATAGACAGTGGAGACGGTGTC
ACTCATGTCATCCCTGTGGCTGAAGGGTATGTGATTGGCAGCTATATTAAGCACATTCCAATCGCAGGACGAGATCTAGC
CTATTTTATTCAGCAATTGCTGAGAGATCGAGAAGTAGGAATTCCTTCAGAGCAATCCTTGGAAACTGCTAAGGCAGTAG
AGAAGCGCTATAGTTATGTCTGACCAGATTTAGTAAGAGAATTTAAGCATGATACAGATGGATCAAAGTGGATTAAACAG
TATACTGGAATCAAGGCTGTCTCCAAGAGAGAATTTTCCACTGATGTTGGATATGAGAGGTTCTTGGGACCTGAAATTTC
TTTTCGTCCAGAGTTTGCGAATCCAGACTTTACTCAGCCTATCTCAGAAGCTGTAGATGAAGTAATTCAGAATTATCCTA
TTGATGTCAGACGTCCTCTCTACAAGAATATTGTCCTCTCTGGAGGTTCAGCGATGTTCAGGGACTTCGGACGTTGTTTG
CAAAGAGATTTGAAAAGAACTGTAGATGCCAGGCTGAAATTAAGTGAGGAGTTGAGTGGTGGTAGATTGAAGCCAAACCT
ATTGACGTACAAGTCATTACACACCACATGCAGCGATGTGCAGTTTGGTTTGGAGGATCCATGCTGGCTTCCACACCTGA
GTTCTACCAAGTATGCCACACCGAAAAGGATTAGCAAGAAATTAGACCCAGCATTTGTCATCACAGTCCAGTGTTTGGAG
TCATGTCG

Alignment

ORF - retro_ttru_471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.08 %
• Parental protein coverage: 96.89 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  TGYTKLGYAGNTEPQFIIPSCIAIRESAKVVDQAQRRVLRGV-DDLDFFI-GDEAIDKPTYATKWPIRHG
          TG.TKLGY.GN.E.Q..I.....I.ESA.V.D..QRRV..GV.DDLDF...GDEA...PTYATK.P..HG
Retrocopy TGCTKLGYPGNRETQGVIGQGFDIKESAEVGDRVQRRVMKGV<DDLDFSL<GDEATVQPTYATKRPVLHG

Parental  IIEDWDLMERFMEQVIFKYLRAEPEDHYFLMTEPPLNTPENREYLA-EIMFESFNVPGLYIAVQAVLALA
          I.EDWDLMERF..QVI..YLRAEPE.HY.L.TEPPL..PENRE....EI.FE.FNVPG.YIAV.AVLA.A
Retrocopy IVEDWDLMERFTGQVILQYLRAEPEGHYLLLTEPPLSAPENREDTV<EIPFEYFNVPG*YIAV*AVLAVA

Parental  ASWTSRQVGERTLTGIVIDSGDGVTHAIPVAEGYVIGSCIKHIPIAGRDITYFMQQLLREREVGIPPEQS
          AS.TSRQVGERTLT..VIDSGDGVTH.IPVAEGYVIGS.IKHIPIAGRD..YF.QQLLR.REVGIP.EQS
Retrocopy ASGTSRQVGERTLTSTVIDSGDGVTHVIPVAEGYVIGSYIKHIPIAGRDLAYFIQQLLRDREVGIPSEQS

Parental  LETAKAIKEKYCYICPDIVKEFAKYDVDPQKWIKQYTGINAVNQKKFIIDVGYERFLGPEIFFHPEFANP
          LETAKA....Y.Y..PD.V.EF.K.D.D..KWIKQYTGI.AV....F..DVGYERFLGPEI.F.PEFANP
Retrocopy LETAKAVEKRYSYV*PDLVREF-KHDTDGSKWIKQYTGIKAVSKREFSTDVGYERFLGPEISFRPEFANP

Parental  DFMESISDVVDEVIQSCPIDVRRPLYKNVVLSGGSTMFRDFGRRLQRDLKRVVDARLRLSEELSGGRIKP
          DF...IS..VDEVIQ..PIDVRRPLYKN.VLSGGS.MFRDFGR.LQRDLKR.VDARL.LSEELSGGR.KP
Retrocopy DFTQPISEAVDEVIQNYPIDVRRPLYKNIVLSGGSAMFRDFGRCLQRDLKRTVDARLKLSEELSGGRLKP

Parental  -KPVEVQVITHHMQRYAVWFGGSMLASTPEFFQVCHTKKGYEEYGPSICRHNPVFGVMS
          .KP..VQVITHHMQR.AVWFGGSMLASTPEF.QVCHT.K...E..PSIC.H.PVFGVMS
Retrocopy <KPIDVQVITHHMQRCAVWFGGSMLASTPEFYQVCHTEKD*QEIRPSICHHSPVFGVMS

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_471 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_471 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 6 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007730	5 retrocopies	retro_chof_1134, retro_chof_1204, retro_chof_1899, retro_chof_208, retro_chof_2171,
Dasypus novemcinctus	ENSDNOG00000019288	2 retrocopies	retro_dnov_1143, retro_dnov_2539,
Homo sapiens	ENSG00000133627	7 retrocopies	retro_hsap_1676, retro_hsap_2126, retro_hsap_2540, retro_hsap_2966, retro_hsap_4334, retro_hsap_4921, retro_hsap_561,
Macropus eugenii	ENSMEUG00000004885	5 retrocopies	retro_meug_1340, retro_meug_1477, retro_meug_2105, retro_meug_330, retro_meug_899,
Tupaia belangeri	ENSTBEG00000011647	2 retrocopies	retro_tbel_2820, retro_tbel_932,
Tursiops truncatus	ENSTTRG00000016334	2 retrocopies	retro_ttru_471 , retro_ttru_93,