RetrogeneDB ID: retro_ttru_1906

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_98266:89211..89970(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SHE
• Ensembl ID: ENSTTRG00000013992
• Aliases: None
• Description: Src homology 2 domain containing E [Source:HGNC Symbol;Acc:27004]

Sequence

>retro_ttru_1906
GCCACGACGCTCCTGAGCCGCGCCGGCCAGGCTCCCCTCATGGCGGCCAAGTGGTTCAAGGAGTTCCCCTTGAACCTGAA
GACAGTGTCGGAGCGGGCCAAGCCTGGCAGCAGGGGAGGCGGCAAACTGAGCAAGAACTCAGAGGCGGGTGGCACGGGGC
CCGCCCTGGGCAAGGGACGAAAGAACTCGGCGGCTGAGCTGGGGAGCAGACGGGCCGTGGTCGGCCCCCTCAAGGATAGC
CGGCTATCCCGAGACAGCCTGCAGGGTCTGATTCAGGCTGCCGCGGGCAAGGGCCGCAAGAACTTCTGGGCCACCGAGGA
GGAGCCCCACTGGGGTGCGGCCAAGAGCTCAGGCTGCAGCACCTACGTCAACAGGCTCATCAAGGTGGACACTCAGGAGA
AGCATGGGAAGAGCGACTACCCCAGCAGCAGTAGTAGCAGCAGCAGTAGTAACAGCAGCTTTTCCTCCACGTCCTCTTCC
CCTTCCTCCCTGGGACCCGAACTGGACAAGGGCAAGATTATTAAGCAGCAAGACACGGTCATCATTTTAGAAGACTACGT
TGACCCTTATGATGCTAAATGGACGAAAGGCCAAAGGGATGCAGAGAGAGTAGGGGAGAATGATGGATACATGGAACCCT
ATGATGCACAGCCAATGATAACAGAAATCAGACGACGAGGTTCCAAAGACCCCCTGGTGAAGGCTCTTCAGCTGCTCGAC
AGCCCCTGTGAGCCAGGGGAGAACGGCATGAAGCCCGAG

Alignment

ORF - retro_ttru_1906 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.98 %
• Parental protein coverage: 53.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATTLLSRAGRAPLMAAKWFKEFPLNLKTVSERAKPGGGGGGKLRKNSEAGGAGPAPGKGRKNSAAELGSS
          ATTLLSRAG.APLMAAKWFKEFPLNLKTVSERAKPG..GGGKL.KNSEAGG.GPA.GKGRKNSAAELGS.
Retrocopy ATTLLSRAGQAPLMAAKWFKEFPLNLKTVSERAKPGSRGGGKLSKNSEAGGTGPALGKGRKNSAAELGSR

Parental  RAGVGPPKDSRLSRDSLQGLIQAAAGKGRKNSRATEEEPHRGAAKSSGCSTYINRLIKVDTQEKNGKSNY
          RA.VGP.KDSRLSRDSLQGLIQAAAGKGRKN..ATEEEPH.GAAKSSGCSTY.NRLIKVDTQEK.GKS.Y
Retrocopy RAVVGPLKDSRLSRDSLQGLIQAAAGKGRKNFWATEEEPHWGAAKSSGCSTYVNRLIKVDTQEKHGKSDY

Parental  PSSSSSSSSSNSSSSSASSSPSSLGPELDKGKIIKQQDTVIILEDYADPYDAKRTKGQRDAERVGENDGY
          ..............SS.SSSPSSLGPELDKGKIIKQQDTVIILEDY.DPYDAK.TKGQRDAERVGENDGY
Retrocopy XXXXXXXXXXXXXXSSTSSSPSSLGPELDKGKIIKQQDTVIILEDYVDPYDAKWTKGQRDAERVGENDGY

Parental  MEPYDAQQMITEIRRRGSKDPLV-ALQLLDSPCE-SENGTKLE
          MEPYDAQ.MITEIRRRGSKDPLV.ALQLLDSPCE..ENG.K.E
Retrocopy MEPYDAQPMITEIRRRGSKDPLVKALQLLDSPCEPGENGMKPE

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_1906 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1906 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000013992	1 retrocopy	retro_ttru_1906 ,