RetrogeneDB ID: retro_ttru_781

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3399:123829..124365(-)
• Located in intron of: ENSTTRG00000014787

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC115
• Ensembl ID: ENSTTRG00000012598
• Aliases: None
• Description: coiled-coil domain containing 115 [Source:HGNC Symbol;Acc:28178]

Sequence

>retro_ttru_781
ATGGTGGCGCGGTATCTGTGAGCCAAGCTGGACTCGCTTCTACTGCAGCTGATCAGGGACCTGGAGGAACTGGAGGCAAA
GCGGGTGGCACTGAATGCCCGGGTGGAGGGCTGGCTCTCACTCTCCAAAGCTCACTGCACCATGGGTGCCAAGTCGGTAG
GGCCTCTGCAGTATGCCTCCCACATGGAGCCCCAGGTCCATGTCTGCACCAGCGAGGCCCAGGACGGACTCCAGAGGTTC
TGAATGTGAGAGCCGGCACCCAGACTCCAGAGGACGTGGGACCCCACAAGGCAGTTCTGCACAGGCACAAGGGCCTCACG
AGGACCCCAGAGCCAGACCGCTCCCCAGTTCCCCAGGACCCTCTGAACTGGTTTAGAATCCTGGCTCCTCACAGTCTATA
GCAAGCTCAAGCCAGCTTCTGGGAGGGTCTGCAGCTGGCTGCAGACATGGCCAGCCTTCAGATCCGCATCGACTGGGGTC
GAAGCCAGCTCCAGGGGCTGCAGGAGAAACTCAAGCAGTGGAGCCCGGGGCTCCCT

Alignment

ORF - retro_ttru_781 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.77 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAARDPRAELDSLLLQLLGDLEELEAKRAALNARVEEGWLSLSKARYAMGAKSVGPLQYASRMEPQVHVC
          M.AR...A.LDSLLLQL..DLEELEAKR.ALNARVE.GWLSLSKA...MGAKSVGPLQYAS.MEPQVHVC
Retrocopy MVARYL*AKLDSLLLQLIRDLEELEAKRVALNARVE-GWLSLSKAHCTMGAKSVGPLQYASHMEPQVHVC

Parental  TSEAQDGPQKFWM-VRGGTQTPEEVGPREAVLRRRKGLTRTPEPDPSPAPQDPLNWFGILVPHSLRQAQA
          TSEAQDG.Q.F.M.VR.GTQTPE.VGP..AVL.R.KGLTRTPEPD.SP.PQDPLNWF.IL.PHSL.QAQA
Retrocopy TSEAQDGLQRF*M<VRAGTQTPEDVGPHKAVLHRHKGLTRTPEPDRSPVPQDPLNWFRILAPHSL*QAQA

Parental  SFREGLQLAADMANLQIRIDWGRSQLQGLQEKLKQLEPGAP
          SF.EGLQLAADMA.LQIRIDWGRSQLQGLQEKLKQ..PG.P
Retrocopy SFWEGLQLAADMASLQIRIDWGRSQLQGLQEKLKQWSPGLP

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_781 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_781 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000010588	2 retrocopies	retro_mdom_200, retro_mdom_435,
Mus musculus	ENSMUSG00000042111	2 retrocopies	retro_mmus_2696, retro_mmus_380,
Oryctolagus cuniculus	ENSOCUG00000005099	1 retrocopy	retro_ocun_1651,
Otolemur garnettii	ENSOGAG00000000166	2 retrocopies	retro_ogar_2849, retro_ogar_3466,
Tursiops truncatus	ENSTTRG00000012598	1 retrocopy	retro_ttru_781 ,