RetrogeneDB ID: retro_ttru_1594

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_46486:716..1328(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C9orf64
• Ensembl ID: ENSTTRG00000016691
• Aliases: None
• Description: chromosome 9 open reading frame 64 [Source:HGNC Symbol;Acc:28144]

Sequence

>retro_ttru_1594
GATACAGACGTCCCCATGCCTTGATAGAAGAGAGGCATCGGATTCTCAATGAAACCGGGAAAATCTGCTTGAGAAATTGA
AGGCTCTTTTCTTAATTGTGTCCGAAAAAGTGATAAAAGTGCTCAGAAGTTATTGCACCTGGTAGTTGAAAGCTTTCCTT
CTTATAGAGATGTGACTCAGTTTGAGGGGAAAAGAATTTCTTTTTACAAACGGGCCCAAATCCTTGTGGCAGATACGTGG
AGTGTATTAGAGGGAAAAGGAGACGGCTGCTTTAAGGACATCTCCAGAATCACCATGTTTGCTGACTATAGATTACCTCA
GGTTCTTGTTTACCTGGGAGCCCTGAAATACTCTGACGAACTACTGGAGAAACTTCTCAAAGGAGAAGTGCTTTCGTATG
GGAATAGGCAAGAGGTGGAAATCAGAGGGTGTTCACTTTGGTGTGTTGAGCTGATCCGGGATTGTCTTCTGGAGCTTACT
GAAAAAAAGGATGAAAAAACTAGTGGAGAGATCAATTCCATTCTTCTGGATTATTTCTTATGGGACTATGCCCGTGATCA
CAGGGAAGATATGAAAGGAATTCCATTTCATCGCACACGTTGCATATATTAT

Alignment

ORF - retro_ttru_1594 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.71 %
• Parental protein coverage: 65.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DTDVPMP-LIEERHRILNETGKI-LLEKF-EGSFLNCVRKSDKSAQKLLHLVVESFPSYRDVTQFEGKRI
          DTDVPMP.LIEERHRILNETGKI.LLEK..EGSFLNCVRKSDKSAQKLLHLVVESFPSYRDVTQFEGKRI
Retrocopy DTDVPMP<LIEERHRILNETGKI<LLEKL<EGSFLNCVRKSDKSAQKLLHLVVESFPSYRDVTQFEGKRI

Parental  SFYKRAQILVADTWSVLEGKGDGCFKDISRITMFADYRLPQVLVYLGALKYSDELLEKLLKGEVLSYGNR
          SFYKRAQILVADTWSVLEGKGDGCFKDISRITMFADYRLPQVLVYLGALKYSDELLEKLLKGEVLSYGNR
Retrocopy SFYKRAQILVADTWSVLEGKGDGCFKDISRITMFADYRLPQVLVYLGALKYSDELLEKLLKGEVLSYGNR

Parental  QEVEIRGCSLWCVELIRDCLLELTEKKDEKTSGEINSILLDYFLWDYARDHREDMKGIPFHRTRCIYY
          QEVEIRGCSLWCVELIRDCLLELT.......SGEINSILLDYFLWDYARDHREDMKGIPFHRTRCIYY
Retrocopy QEVEIRGCSLWCVELIRDCLLELTXXXXXXXSGEINSILLDYFLWDYARDHREDMKGIPFHRTRCIYY

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_1594 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1594 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000014481	1 retrocopy	retro_tsyr_711,
Tursiops truncatus	ENSTTRG00000016691	1 retrocopy	retro_ttru_1594 ,