RetrogeneDB ID: retro_ttru_1348

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_111155:192789..193481(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MNAT1
• Ensembl ID: ENSTTRG00000013838
• Aliases: None
• Description: menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis) [Source:HGNC Symbol;Acc:7181]

Sequence

>retro_ttru_1348
TTTGTGAGAGGAGCTGGAAACTGCCCTGAGTGTGGCACTCCACTTAGAAAGAGCAACTTCAGGGTACAACTCTTTGAAGA
TCCTACTGTTGACAGGAAATTGAGATTCAGAAAAACGTGCTAAAGATATACAATAAAAGGGAAGAAGACTTTCCTAGTCT
AAGAGAATATAATGATTTCCTGGAAGAAGTGGAGGAAATTGTTTTCAACCTGACCAACAACGTGGATTTGGACAACACCA
AAAAGAAAATGGAGATAGACCAAAAGGAAAACAAAGATGTCATTCAGAAAAATAAGTTAAAGCCGACTGGGGAACAGGAG
GAATTGGAAGAAGCTTTAGAGGTAGAACGACAGGAAAATGAACAAAGAAGACTATTTATACAAAAAGAAGAACAACTGCA
GCAGATTCTAAAAAGGAAGAATAAGCAGGCTTTTTTAGATGAACTGGAGAGTTCTGATCTCCCCGTTGCTCTGCTTTTGG
CTCAGCATAAACATAGACCTACCCAGTTGGAAATGCAACTTGAAAAACCTAAACCTATAAAACCAGTGACATTTTCCACA
GACATCAAAATGGGTCAATATATTTCATTAGCACCCACTCAAAAGCCTGAGGAAGCTCTATATGAATACCAACCACTGCA
AATAGAGACTTGTGGACCACAAGTTCCTGAGCTTGAGATGCTAGGAAGACTT

Alignment

ORF - retro_ttru_1348 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.67 %
• Parental protein coverage: 74.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FVRGAGNCPECGTPLRKSNFRVQLFEDPTVDK-EVEIRKKVLKIYNKREEDFPSLREYNDFLEEVEEIVF
          FVRGAGNCPECGTPLRKSNFRVQLFEDPTVD..E.EI.K.VLKIYNKREEDFPSLREYNDFLEEVEEIVF
Retrocopy FVRGAGNCPECGTPLRKSNFRVQLFEDPTVDR<EIEIQKNVLKIYNKREEDFPSLREYNDFLEEVEEIVF

Parental  NLTNNVDLDNTKKKMEIYQKENKDVIQKNKLKLTREQEELEEALEVERQENEQRRLFIQKEEQLQQILKR
          NLTNNVDLDNTKKKMEI.QKENKDVIQKNKLK.T.EQEELEEALEVERQENEQRRLFIQKEEQLQQILKR
Retrocopy NLTNNVDLDNTKKKMEIDQKENKDVIQKNKLKPTGEQEELEEALEVERQENEQRRLFIQKEEQLQQILKR

Parental  KNKQAFLDELESSDLPVALLLAQHKDRSTQLEMQLEKPKPTKPVTFSTGIKMGQHITLPPIQKLEEALYE
          KNKQAFLDELESSDLPVALLLAQHK.R.TQLEMQLEKPKP.KPVTFST.IKMGQ.I.L.P.QK.EEALYE
Retrocopy KNKQAFLDELESSDLPVALLLAQHKHRPTQLEMQLEKPKPIKPVTFSTDIKMGQYISLAPTQKPEEALYE

Parental  YQPLQIETCGPQVPELEMLGRL
          YQPLQIETCGPQVPELEMLGRL
Retrocopy YQPLQIETCGPQVPELEMLGRL

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_1348 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1348 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
Tupaia belangeri	ENSTBEG00000005536	2 retrocopies	retro_tbel_2303, retro_tbel_4103,
Tursiops truncatus	ENSTTRG00000013838	1 retrocopy	retro_ttru_1348 ,