RetrogeneDB ID: retro_ttru_1466

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_11410:4..868(+)
• Located in intron of: None

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_1466
CTGTACGTGAACATGACGAGCGGCCCCGGCGGGCCGGCGGCGGCCGCCGCGGGCGGCAGGAAGGAGAACCACCAGTGGTA
TGCGTGCAACAGAGAGAAATTATGTGAATCACTCCAGGCTGTCTTTGTTCAGAGTTACCTTGACCAAGGAACACAGATCT
TCTTAAACAACAGCATTGAGAAATCGGGCTGGCTGTTTATCCAATTATATCACTCTTTTGTGTCATCTGTTTTTAGCCTG
TTTATGTCTAGAACATCTATCAATGGGTTGCTAGGAAGAGGCTCAATGTTTGTCTTTTCACCAGATCAGTTTCAGAGACT
GCTTAAAATTAATCCAGACTGGAAAACGCACAGACTTCTTGATTTAGGTGCTGGAGATGGAGAAGTCACAAAAATCATGA
GCCCTCATTTTGAAGAAATTTACGCCACTGAGCTGTCTGAAACTATGATATGGCAGCTTCAGAAGAAGAAATACAGAGTA
CTTGGTATAAATGAATGGCAGAATACAGGGTTCCAGTATGATGTCATCAGCTGCTTGAATTTGCTGGACCGCTGTGATCA
GCCCCTGACTTTGTTAAAAGATATCAGAAGTGTCTTGGAGCCAACTAGAGGCAGGGTCATCCTTGCTCTCGTCTTACCTT
TTCATCCCTATGTGGAAAACGTAGGTGGCAAGTGGGATAAACCATCAGAAATTTTGGAAATCAAGGGACAGAATTGGGAA
GAACAAGTGAATAGTCTGCCTGAAGTTTTCAGAAAAGCTGGTTTTGTTATCGAAGCTTTCACTAGACTGCCATACCTGTG
TGAAGGTGACATGTATAATGACTACTACGTTCTGGATGACGCTGTCTTTGTTCTCAAACCCGTA

Alignment

ORF - retro_ttru_1466 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.49 %
• Parental protein coverage: 90.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LYVNMTSGPGGPAAAAAGGRKENHQWYACNREKLCESLQAVFVQSYLDQGTQIFLNNSIEKSGWLFIQLY
          LYVNMT.............RKENHQWYACNREKLCESLQAVFVQSYLDQGTQIFLNNSIEKSGWLFIQLY
Retrocopy LYVNMTXXXXXXXXXXXXXRKENHQWYACNREKLCESLQAVFVQSYLDQGTQIFLNNSIEKSGWLFIQLY

Parental  HSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLKINPDWKTHRLLDLGAGDGEVTKIMSPHFEEI
          HSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLKINPDWKTHRLLDLGAGDGEVTKIMSPHFEEI
Retrocopy HSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLKINPDWKTHRLLDLGAGDGEVTKIMSPHFEEI

Parental  YATELSETMIWQLQKKKYRVLGINEWQNTGFQYDVISCLNLLDRCDQPLTLLKDIRSVLEPTRGRVILAL
          YATELSETMIWQLQKKKYRVLGINEWQNTGFQYDVISCLNLLDRCDQPLTLLKDIRSVLEPTRGRVILAL
Retrocopy YATELSETMIWQLQKKKYRVLGINEWQNTGFQYDVISCLNLLDRCDQPLTLLKDIRSVLEPTRGRVILAL

Parental  VLPFHPYVENVGGKWDKPSEILEIKGQNWEEQVNSLPEVFRKAGFVIEAFTRLPYLCEGDMYNDYYVLDD
          VLPFHPYVENVGGKWDKPSEILEIKGQNWEEQVNSLPEVFRKAGFVIEAFTRLPYLCEGDMYNDYYVLDD
Retrocopy VLPFHPYVENVGGKWDKPSEILEIKGQNWEEQVNSLPEVFRKAGFVIEAFTRLPYLCEGDMYNDYYVLDD

Parental  AVFVLKPV
          AVFVLKPV
Retrocopy AVFVLKPV

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_1466 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1466 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,