RetrogeneDB ID: retro_ttru_1885

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_97225:11701..12145(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GBAS
• Ensembl ID: ENSTTRG00000015145
• Aliases: None
• Description: glioblastoma amplified sequence [Source:HGNC Symbol;Acc:4179]

Sequence

>retro_ttru_1885
ATGGCGGCGCGAGTACTGCGCGCCGGCGGAGCGGCCTCGGCCGGCAGCTTTCTGCGGCGGGCCGGCCCCTGCAACCTCCA
GCCCGGGCTCTGGAAATTGGCGTCTTCCATTATCAGACCTCGAGAGGACAGCTGGTTAAAATCCTTATTTGTCCGGAAAG
TTGATCCAAGGAAAGATGCTCACTCTAATCTCCTAGCCAAAAGGGAAACAAGCAGTCTGTACAAATTACAGTTTCACAAT
GTTAAACCGGAATGCCTAGAAGCATACAACAAAATTTGTCAAGAGGTGTTGCCAAAGATTCACGAAGATAAACATTACCC
TTGTACTTTGGTGGGGACTTGGAACACGTGGTATGGCGAGCAGGATCAAGCTGTTCACCTCTGGAGGTATGAAGGAGGTT
ATCCAGTCCTCACGGAGGTCATGAATAAACTCAAAGAAAATCAG

Alignment

ORF - retro_ttru_1885 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.97 %
• Parental protein coverage: 51.75 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAERVLRAGGTASAGIFLRRAGPCNLQPGLWKLASSIIRPREDSWLKSLFVRKVDPRKDAHSNLLAKRET
          MA.RVLRAGG.ASAG.FLRRAGPCNLQPGLWKLASSIIRPREDSWLKSLFVRKVDPRKDAHSNLLAKRET
Retrocopy MAARVLRAGGAASAGSFLRRAGPCNLQPGLWKLASSIIRPREDSWLKSLFVRKVDPRKDAHSNLLAKRET

Parental  SSLYKLQFHNVKPECLEAYNKICQEVLPKIHEDKHYPCTLVGTWNTWYGEQDQAVHLWRYEGGYPVLTEV
          SSLYKLQFHNVKPECLEAYNKICQEVLPKIHEDKHYPCTLVGTWNTWYGEQDQAVHLWRYEGGYPVLTEV
Retrocopy SSLYKLQFHNVKPECLEAYNKICQEVLPKIHEDKHYPCTLVGTWNTWYGEQDQAVHLWRYEGGYPVLTEV

Parental  MNKLKENQ
          MNKLKENQ
Retrocopy MNKLKENQ

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_1885 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1885 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000031598	1 retrocopy	retro_btau_361,
Macropus eugenii	ENSMEUG00000005152	2 retrocopies	retro_meug_1273, retro_meug_469,
Myotis lucifugus	ENSMLUG00000015038	1 retrocopy	retro_mluc_762,
Oryctolagus cuniculus	ENSOCUG00000001768	1 retrocopy	retro_ocun_1396,
Sarcophilus harrisii	ENSSHAG00000009627	1 retrocopy	retro_shar_473,
Tursiops truncatus	ENSTTRG00000015145	1 retrocopy	retro_ttru_1885 ,