RetrogeneDB ID: retro_ttru_1017

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_100062:86359..86765(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM55A
• Ensembl ID: ENSTTRG00000003770
• Aliases: None
• Description: transmembrane protein 55A [Source:HGNC Symbol;Acc:25452]

Sequence

>retro_ttru_1017
AGACACGTAATTAACCTTGGCCTAGTAATGCTTATTTCTGCAGAACAGCCAGCTCAACCTGCATTGCCAGTCCAACCAGA
AGGTACAAGGATCACGTGTGGGCACTGTGGAAACATGTTCTTGTGGGTGGAACTGAGGTTCAACACTGGCAAAATGCCCA
CACTGCAAAAAACTTTCCTCAGTGGGTAGTGCACTTCCTCGAAGGCGCTGCTGCGCGTATATCGCCACTGGAATGATATG
TATTTTCACTGGAGCTGGATTAACTGTTGGCACCCAAGACTTTGCAAGGCGATTTCATGCAACCTATGTTTCTTGGGCAG
TTGCTTATCTCTTAGCTTTGATCTGCCTTATCTGGGCTTGTTATTGGGGGGCCATAAGAGTGAGTTATCCAGAACTTGGT
TTTGCA

Alignment

ORF - retro_ttru_1017 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.21 %
• Parental protein coverage: 52.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RRIINLGPVMLISEEQPAQPALPVQPEGTRVVCGHCGNTFLWMELRFNTLAKCP-HCKKISSVGSALPRR
          R..INLG.VMLIS.EQPAQPALPVQPEGTR..CGHCGN.FLW.ELRFNT..K.P.HCKK.SSVGSALPRR
Retrocopy RHVINLGLVMLISAEQPAQPALPVQPEGTRITCGHCGNMFLWVELRFNT-GKMP>HCKKLSSVGSALPRR

Parental  RCCAYITIGMICIFIGVGLTVGTQGFARRFHATYVSWAVAYFLGLICLIRACYWGAIRVSYPEHSFA
          RCCAYI..GMICIF.G.GLTVGTQ.FARRFHATYVSWAVAY.L.LICLI.ACYWGAIRVSYPE..FA
Retrocopy RCCAYIATGMICIFTGAGLTVGTQDFARRFHATYVSWAVAYLLALICLIWACYWGAIRVSYPELGFA

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_1017 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1017 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000000723	2 retrocopies	retro_ocun_1391, retro_ocun_1704,
Tursiops truncatus	ENSTTRG00000003770	1 retrocopy	retro_ttru_1017 ,