RetrogeneDB ID: retro_ttru_163

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_144:202643..203597(-)
• Located in intron of: ENSTTRG00000014672

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_163
ATGAGACTGCTCGCGGGCTGGCTGTGTCTGAGCCTGGCGTCCGTGTGGCTGGCGCAGAGGATGTGGACCCTGCGGAGCCC
GCTCACTCGCTCCCTGTACGTGAACATGACGAGCGGCCCCGGCGGGCCGGCGGCGGCCGCCGCGCGCGGCGGGAAGGAGA
ACCACCAGTAGTATGCGTGCAACAGAGAGAAATTATGTGAATCACTCCAGGCTGTCTTTGTTCAGAGTTAGCTTGATCAA
GCAACACAGATCTTCATAAACAACAGCACTGAGAAACCGGGCTGGCCATTTATCCAATTATATCACTCTTTTGTGTCATC
TGTTTTTAGCCTGTTTATGTCTAGAACATCTATCAATGGGTTGCTAGGAAGAGGCTCAATGTTTGTCTTTTCACCAGATC
AGTTTCAGAGACTGCTTAAAATTAATCCAGACTGGAAAACGCATAGACTTCTTGATTGAGGTGGTGGAGATGGAGAAGTC
ACAAAAATTATGAGCCCTCATTTTGAAGAAATTTACGCCACTGAGCTGTCTGAAACTATGATATGGCAGCTTCAGAAGAA
GAAATACAGAGTACTTGGTATAAATGAATGGCAGAGTACAGGGTTCCAGTATAATGTCATCAGCTGCTTGAATTTGCTGG
ACCGCTGTGATCAGCCCCTGACTTTGCTAAAAGATATCAGAAGTGTCTTGGAGCCAACTAGAGGCAGGGTCATCCTTGCT
CTGGTCTTACCTTTTCATCCCTATGTGGAAAACGGTGGCAAGTGAGATAAACCATCAGAAATTTTGGAAATCAAGGGACA
GAACTGGGAAGAACAAGTGAATAGTCTGCCTGAAGTTTTCAGAAAAGCTGGTTTTGTTATCAAAGCTTTCACTAGACTGC
CATACCTGTGTGAAGGTGACATGTATAATGACTACTACGTTCTGGATGATGCTGTCTTTGTTCTCAAACCAGTA

Alignment

ORF - retro_ttru_163 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.22 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRLLAGWLCLSLASVWLAQRMWTLRSPLTRSLYVNMTSGPGGPAAAAAGGRKENHQWYACNREKLCESLQ
          MRLLAGWLCLSLASVWLAQRMWTLRSPLTRSLYVNMT..............KENHQ.YACNREKLCESLQ
Retrocopy MRLLAGWLCLSLASVWLAQRMWTLRSPLTRSLYVNMTXXXXXXXXXXXXXXKENHQ*YACNREKLCESLQ

Parental  AVFVQSYLDQGTQIFLNNSIEKSGWLFIQLYHSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLK
          AVFVQS.LDQ.TQIF.NNS.EK.GW.FIQLYHSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLK
Retrocopy AVFVQS*LDQATQIFINNSTEKPGWPFIQLYHSFVSSVFSLFMSRTSINGLLGRGSMFVFSPDQFQRLLK

Parental  INPDWKTHRLLDLGAGDGEVTKIMSPHFEEIYATELSETMIWQLQKKKYRVLGINEWQNTGFQYDVISCL
          INPDWKTHRLLD.G.GDGEVTKIMSPHFEEIYATELSETMIWQLQKKKYRVLGINEWQ.TGFQY.VISCL
Retrocopy INPDWKTHRLLD*GGGDGEVTKIMSPHFEEIYATELSETMIWQLQKKKYRVLGINEWQSTGFQYNVISCL

Parental  NLLDRCDQPLTLLKDIRSVLEPTRGRVILALVLPFHPYVENVGGKWDKPSEILEIKGQNWEEQVNSLPEV
          NLLDRCDQPLTLLKDIRSVLEPTRGRVILALVLPFHPYVEN.GGK.DKPSEILEIKGQNWEEQVNSLPEV
Retrocopy NLLDRCDQPLTLLKDIRSVLEPTRGRVILALVLPFHPYVEN-GGK*DKPSEILEIKGQNWEEQVNSLPEV

Parental  FRKAGFVIEAFTRLPYLCEGDMYNDYYVLDDAVFVLKPV
          FRKAGFVI.AFTRLPYLCEGDMYNDYYVLDDAVFVLKPV
Retrocopy FRKAGFVIKAFTRLPYLCEGDMYNDYYVLDDAVFVLKPV

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_163 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_163 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,