RetrogeneDB ID: retro_ttru_189

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1515:186277..186796(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DRAM1
• Ensembl ID: ENSTTRG00000017217
• Aliases: None
• Description: DNA-damage regulated autophagy modulator 1 [Source:HGNC Symbol;Acc:25645]

Sequence

>retro_ttru_189
ATGCTGTGCTTCCTGAGGGGAATGGCCTTCATCCCCATCCTCCTGGTGACCTGGTTGTCCTCCACCTTCATCATCTCCTA
CGTGGTCGCCGTGCTCTCCGGGCACGTCAGCCCCTTCCTCCCCTACATCAGTGATACAGGAACAACACCTCCAGATAGTG
GAATTTTTGGATTTATGATAAACTTCTCTGCATTTCTTGGTGCAGCCACGATGTACACAAGATATAAAATAGTAGAGAAG
CAAAACCAAACCAGCTATTTCAGCACTCTTGTTTTTAACTTGGTGTCGTTAGTTCTAGGACTGGTGGGATGCATCAGAAT
GGGCATTGTAGCCAATTTCCAGGAGTTAGCTGTCCCCATGGTACACGATGGCGGTGCCTTTTTGGCATTTGTCTGCGGTG
TTATGTACACACTCCTGCAATCCATCATCTCTTACAAATCATGTCCCCAGTGGAGCAGCCTTTCCACATGCCACATACGG
ATGGCCACCTCTGCCGTTTCCTCTGCAGCCGTCATCCCC

Alignment

ORF - retro_ttru_189 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.44 %
• Parental protein coverage: 73. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLCFLRGMALIPFLLVTWSSAAFIISYVVAVLSGHVNPFLPYISDTGTTPPESGIFGFMINFSAFLSAAT
          MLCFLRGMA.IP.LLVTW.S..FIISYVVAVLSGHV.PFLPYISDTGTTPP.SGIFGFMINFSAFL.AAT
Retrocopy MLCFLRGMAFIPILLVTWLSSTFIISYVVAVLSGHVSPFLPYISDTGTTPPDSGIFGFMINFSAFLGAAT

Parental  MYTRYKIVEKQNQTSYFSTPVFNLVSLVLGLVGCIGLGIVANFQELTVPVIHDGGALLAFVCGVVYTLLQ
          MYTRYKIVEKQNQTSYFST.VFNLVSLVLGLVGCI..GIVANFQEL.VP..HDGGA.LAFVCGV.YTLLQ
Retrocopy MYTRYKIVEKQNQTSYFSTLVFNLVSLVLGLVGCIRMGIVANFQELAVPMVHDGGAFLAFVCGVMYTLLQ

Parental  SIISYKSCPQWNSLSTCRIRMAISAVSSAAIIP
          SIISYKSCPQW.SLSTC.IRMA.SAVSSAA.IP
Retrocopy SIISYKSCPQWSSLSTCHIRMATSAVSSAAVIP

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_189 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_189 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000027549	1 retrocopy	retro_cpor_1427,
Nomascus leucogenys	ENSNLEG00000006362	2 retrocopies	retro_nleu_143, retro_nleu_2841,
Tursiops truncatus	ENSTTRG00000017217	1 retrocopy	retro_ttru_189 ,