RetrogeneDB ID: retro_ttru_1821

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_92766:78442..78874(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000007433
• Aliases: None
• Description: None

Sequence

>retro_ttru_1821
ATTGCCATCAAGCCAGAGCGCAGGCAGCTTGGTCAGGTGAGGCGAGATCACCAAGTGCTTCAGGCAGAAGGGATTCTGCC
TTGTGGCCAGAAGTTCCTTCAGGCCTCCGAGGAACATCTAAAGCAGCGCAACATTGACCTGAAAGACCACCCTCTCTTCC
CGGAGCTGGAGAAATGCATGAACTCAGGGCCGGTTGTGGCCACGGTCTGGAGGGGCTGAATGTGGTAAAGATAGGGCGAG
TGATGCTTGGGGAGACCGATCCAGCGGAATCTAAGTCAAGCACAGTACGAAGGGACTGCTGTGTTCAAGTTGGAAGGAAC
ATCATGGATAGCAGTGATTCAGTAAAAAAGTGCTGAAAAAGAAATCGACCTGCGGTTTTAAGCCCGAAGAATTGGTGACT
ACAAGTCTTGTGCTATTGGCTGGATCTGTGAA

Alignment

ORF - retro_ttru_1821 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.33 %
• Parental protein coverage: 53.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  IAIKPDGVQRGLL-GEIIKRFEQKGFRLVV-MKFLKASEELLKQHYIDLKDRPFFPGLVKYMNSGPVVAM
          IAIKP...Q.G...GEI.K.F.QKGF.LV...KFL.ASEE.LKQ..IDLKD.P.FP.L.K.MNSGPVVA.
Retrocopy IAIKPERRQLGQV>GEITKCFRQKGFCLVA<QKFLQASEEHLKQRNIDLKDHPLFPELEKCMNSGPVVAT

Parental  VW-EGLNVVKTGRVMLGETNPADSKPGTIRGDFCIQVGRNIIHGSDSV-KSAEKEISL-WFKPEELV-EY
          VW.EGLNVVK.GRVMLGET.PA.SK..T.R.D.C.QVGRNI...SDSV.KSAEKEI.L..FKPEELV..Y
Retrocopy VW<EGLNVVKIGRVMLGETDPAESKSSTVRRDCCVQVGRNIMDSSDSV>KSAEKEIDL>GFKPEELV<DY

Parental  KSCAFDWIYE
          KSCA..WI.E
Retrocopy KSCAIGWICE

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_1821 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1821 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 16 parental genes, and 41 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008022	3 retrocopies	retro_amel_1573, retro_amel_390, retro_amel_538,
Bos taurus	ENSBTAG00000047186	1 retrocopy	retro_btau_1329,
Equus caballus	ENSECAG00000021658	1 retrocopy	retro_ecab_404,
Erinaceus europaeus	ENSEEUG00000003783	2 retrocopies	retro_eeur_156, retro_eeur_5,
Felis catus	ENSFCAG00000006742	5 retrocopies	retro_fcat_1083, retro_fcat_1117, retro_fcat_1475, retro_fcat_216, retro_fcat_663,
Homo sapiens	ENSG00000011052	1 retrocopy	retro_hsap_1063,
Loxodonta africana	ENSLAFG00000007784	1 retrocopy	retro_lafr_636,
Myotis lucifugus	ENSMLUG00000016929	3 retrocopies	retro_mluc_1422, retro_mluc_1882, retro_mluc_637,
Macaca mulatta	ENSMMUG00000001940	1 retrocopy	retro_mmul_1827,
Mustela putorius furo	ENSMPUG00000015573	4 retrocopies	retro_mputfur_1236, retro_mputfur_1590, retro_mputfur_327, retro_mputfur_912,
Mus musculus	ENSMUSG00000020857	1 retrocopy	retro_mmus_221,
Rattus norvegicus	ENSRNOG00000002671	8 retrocopies	retro_rnor_1129, retro_rnor_1610, retro_rnor_1708, retro_rnor_1784, retro_rnor_1966, retro_rnor_2646, retro_rnor_2951, retro_rnor_628,
Sus scrofa	ENSSSCG00000017591	1 retrocopy	retro_sscr_854,
Tupaia belangeri	ENSTBEG00000013053	6 retrocopies	retro_tbel_1271, retro_tbel_1386, retro_tbel_2497, retro_tbel_294, retro_tbel_4620, retro_tbel_820,
Tursiops truncatus	ENSTTRG00000007433	1 retrocopy	retro_ttru_1821 ,
Tursiops truncatus	ENSTTRG00000009157	2 retrocopies	retro_ttru_393, retro_ttru_688,