RetrogeneDB ID: retro_ttru_195

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1536:182166..182619(-)
• Located in intron of: ENSTTRG00000010960

Retrocopy information

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

Parental gene information

• Parental gene symbol: GAMT
• Ensembl ID: ENSTTRG00000011817
• Aliases: None
• Description: guanidinoacetate N-methyltransferase [Source:HGNC Symbol;Acc:4136]

Sequence

>retro_ttru_195
GGCCAGGTCCTGGAGGTGGGCTTCGGCGCGGCCATGACAGCTACGAAGGTGCAGGAGGCCCACATCGACGCGCACTGGAT
CGTTGAATGCAACGACGAAGTTTTCCAGCGGCTCCAGGAATGGGCTCAGCGGCCTCCCCGCAAGGTGGTTCCCTTGAAAG
GCCTGTGGGAGAAAGTGGCGCCCCCCCTGACAGACAGTCACTTTGATGGGATCCTGTACGACACGTACCCGCTGTGTGAG
GGGACCTGGCACACACACCAGTTCAACCTCATTAGGGACCATGCCCTTCCGCCTGCTGAAGCCAGGGAGCATCCTTACCT
ACTGCAACCTCACCTCCTGGGGGAGCTGATGAAGTCCAAGTACTACTCAGACATCACCACCGTGTTCCAAGAGACGCAGG
TGTCCGCCCTGCTGAAGGCGGGCTTCAGGCGGAAGAACATCCACACACAGGTC

Alignment

ORF - retro_ttru_195 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.08 %
• Parental protein coverage: 85.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GRVLEVGFGMAIAATKVQEAPIDEHWVIECNEGVFQRLQDWAPRQPHKVVPLKGLWEEVAPTLPDSHFDG
          G.VLEVGFG.A..ATKVQEA.ID.HW..ECN..VFQRLQ.WA.R.P.KVVPLKGLWE.VAP.L.DSHFDG
Retrocopy GQVLEVGFGAAMTATKVQEAHIDAHWIVECNDEVFQRLQEWAQRPPRKVVPLKGLWEKVAPPLTDSHFDG

Parental  ILYDTYPLSEETWHTHQFNFIKDHA-FRLLKPGGILTYCNLTSW-GKLMKSK-YSDITTMFEETQVPALL
          ILYDTYPL.E.TWHTHQFN.I.DHA.FRLLKPG.ILTYCNLTSW.G.LMKSK.YSDITT.F.ETQV.ALL
Retrocopy ILYDTYPLCEGTWHTHQFNLIRDHA>FRLLKPGSILTYCNLTSW<GELMKSKYYSDITTVFQETQVSALL

Parental  EAGFRPENIHTQV
          .AGFR..NIHTQV
Retrocopy KAGFRRKNIHTQV

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_195 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_195 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
Homo sapiens	ENSG00000130005	1 retrocopy	retro_hsap_1251,
Gorilla gorilla	ENSGGOG00000002809	2 retrocopies	retro_ggor_1818, retro_ggor_982,
Macropus eugenii	ENSMEUG00000005126	2 retrocopies	retro_meug_1833, retro_meug_302,
Pongo abelii	ENSPPYG00000009315	2 retrocopies	retro_pabe_1043, retro_pabe_2162,
Tursiops truncatus	ENSTTRG00000011817	1 retrocopy	retro_ttru_195 ,