RetrogeneDB ID: retro_ttru_467

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2384:9536..10460(+)
• Located in intron of: ENSTTRG00000012179

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL9
• Ensembl ID: ENSTTRG00000015624
• Aliases: None
• Description: methyltransferase like 9 [Source:HGNC Symbol;Acc:24586]

Sequence

>retro_ttru_467
TGTCTGAGCCCGGCGTCCGTGTGGCTGGCGCGGAGGATGTGGACCCTGCGGAGCCCGCTCACCCGCTCCCTGTACGTGAA
CATGACGAGCGGACCAGGGTGGGCTGGCGGCAGCCGAAGGCAGCAGGAAGAACCACCAGTGGTTTGTGTGCAACAGAGAG
AAACTATGCGAATCACTCCAGGCTGTCTTTGTTCAGAGTTACCTTGATCAAGGAACACAGACCTAAACAACAACACTGAG
AAATCGGGCTGGCTATTTATCCAATTATATCACTCTTTTGTGTCATCTGTTTTTAGCCAGTTTACGTCTAGAACATCTAT
CAATGGGTTGCTAGGAAGAGGCTCAATGTTTGTGTTTTCACCAGATCAGTTTCAGAGACTGCTTAAAATTAATCCACACT
GGAAAACCCACAGATTTCTTGATTTAGTTGCTGGAGATGGAGAAGTCACAAAAATCATGAGCCCTCATTTTGAAGAAATT
TATGCCACTGAGCTGTCTGAAACTATAATATGGCAGCTTCAGAAGAAGAAATACAGAGTGCTTGGTAAAAATGAATGGCA
GAATACAGGGTTCCAGTATGATATCATCAGCTGCTTGAATTTGCTGGACCGCTGTGATCAGCCCCTGACTTTGTTAAAAG
ATATCAGAAGCGTCTTGGAGCCAACTAGAGGCAGGGTCATCCTTGGTCTGGTCTTACCTTTTCATCCTTATGTGGAAAAC
ATAGACGGCAAGTGGGATAAACCATCAGAAATTTTGAAAATCAAGGGATAGAACTGGGAAGAACAAGTGAATAGTCTGCC
TGAAGTTTTCAGAAAAGCTGGTTTTGTTATCGAAGCTTTCACCAGACTGCCATACCTGTGTGAAGGTGATATGTATAAAG
ACTACTACGTTCTGGATGACGCTGTCTTTGTTCTCAAACCAGTA

Alignment

ORF - retro_ttru_467 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.78 %
• Parental protein coverage: 97.49 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  CLSLASVWLAQRMWTLRSPLTRSLYVNMTSGP-GGPAAAAAGGRKENHQWYACNREKLCESLQAVFVQSY
          CLS.ASVWLA.RMWTLRSPLTRSLYVNMTSGP.GG...AAA.G...NHQW..CNREKLCESLQAVFVQSY
Retrocopy CLSPASVWLARRMWTLRSPLTRSLYVNMTSGP>GG--LAAAEGSRKNHQWFVCNREKLCESLQAVFVQSY

Parental  LDQGTQI-FLNNSIEKSGWLFIQLYHSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLKINPDWK
          LDQGTQ....NN..EKSGWLFIQLYHSFVSSVFS.F.SRTSINGLLGRGSMFVFSPDQFQRLLKINP.WK
Retrocopy LDQGTQT<LNNNT-EKSGWLFIQLYHSFVSSVFSQFTSRTSINGLLGRGSMFVFSPDQFQRLLKINPHWK

Parental  THRLLDLGAGDGEVTKIMSPHFEEIYATELSETMIWQLQKKKYRVLGINEWQNTGFQYDVISCLNLLDRC
          THR.LDL.AGDGEVTKIMSPHFEEIYATELSET.IWQLQKKKYRVLG.NEWQNTGFQYD.ISCLNLLDRC
Retrocopy THRFLDLVAGDGEVTKIMSPHFEEIYATELSETIIWQLQKKKYRVLGKNEWQNTGFQYDIISCLNLLDRC

Parental  DQPLTLLKDIRSVLEPTRGRVILALVLPFHPYVENVGGKWDKPSEILEIKGQNWEEQVNSLPEVFRKAGF
          DQPLTLLKDIRSVLEPTRGRVIL.LVLPFHPYVEN..GKWDKPSEIL.IKG.NWEEQVNSLPEVFRKAGF
Retrocopy DQPLTLLKDIRSVLEPTRGRVILGLVLPFHPYVENIDGKWDKPSEILKIKG*NWEEQVNSLPEVFRKAGF

Parental  VIEAFTRLPYLCEGDMYNDYYVLDDAVFVLKPV
          VIEAFTRLPYLCEGDMY.DYYVLDDAVFVLKPV
Retrocopy VIEAFTRLPYLCEGDMYKDYYVLDDAVFVLKPV

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_467 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_467 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 8 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003533	2 retrocopies	retro_amel_402, retro_amel_704,
Canis familiaris	ENSCAFG00000017710	1 retrocopy	retro_cfam_1875,
Callithrix jacchus	ENSCJAG00000020564	1 retrocopy	retro_cjac_4083,
Mustela putorius furo	ENSMPUG00000016801	2 retrocopies	retro_mputfur_1323, retro_mputfur_1610,
Rattus norvegicus	ENSRNOG00000025940	1 retrocopy	retro_rnor_2623,
Sus scrofa	ENSSSCG00000030373	1 retrocopy	retro_sscr_441,
Tupaia belangeri	ENSTBEG00000003816	2 retrocopies	retro_tbel_1726, retro_tbel_2084,
Tursiops truncatus	ENSTTRG00000015624	4 retrocopies	retro_ttru_1100, retro_ttru_1466, retro_ttru_163, retro_ttru_467 ,