RetrogeneDB ID: retro_ttru_793

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3463:156083..156989(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GALNT13
• Ensembl ID: ENSTTRG00000002506
• Aliases: None
• Description: UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 13 (GalNAc-T13) [Source:HGNC Symbol;Acc:23242]

Sequence

>retro_ttru_793
ACCTATGGTGGATTCAACTGGAAGCTCAACTTCCGCTGGTATCCTGTTCCCCAAAGAGAAATGGACAGAAGGAAAGGTGA
TCGAACTCTTCCTGTGAGAACACCTACAATGGCAGGAGGCCTTTTTTCAATAGACAGAGATTACTTTCAGGAAATTGGAA
CATATGATGCTGGAATGGATATTTGGGGAGGAGAAAACCTAGAAATTTCCTTTAGGATTTGGCAGTGTGGAGGAACTTTG
GAGATTGTTACTTGCTCACATGTTGGACATGTGTTTCGGAAAGCTACACCCTACACGTTTCCAGGAGGCACAGGGCAGAT
TATCAATAAAAATAACAGACGACTTGCAGAAGGGTGGTTGGATGAATTCAAGAATTTCTTCTATATAATTTCTCAAGGTG
TTACAAAGGTAGATTATGGAGATATATCATCAAGACTTGGTCTAAGACACAAACTCCAATGCAGACCTTTCTCTTGGTAC
CTAGAGAATATTTATCCCGATTCTCAGATTCCACGTCACTATTTCTCTTTGGGAGAGATACGAAATGTGGAAACAAATCA
GTGTCTAGATAACATGGCTAGAAAAGAGAATGAAAAAGTTGGAATTTTTAGCTGTCACGGTATGGGAGGTAATCAGGTTT
TCTCTTACACTGCCAACAAAGAAATTAGAACAGATGACCTTTGCTTGGATGTCTCCAAACTTAATGGCCCAGTCACAATG
CTCACATGCCACCACCTAAAAGGCAACCAACTTTGGGAGTATGATCCGGTGAAACTAACCCTGCAGCATGTGAACAGTAA
TCAGTGCCTGGAGAAAGCCACAGAAGAGGACAGCCAGGTGCCCAGCATTAGAGACTGCAATGGAAGCCGGTCCCAGCAGC
AGTGGCTTCTTTGAAATGTAACCCTT

Alignment

ORF - retro_ttru_793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.77 %
• Parental protein coverage: 54.14 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TYGGFNWKLNFRWYPVPQREMDRRKGDRTLPVRTPTMAGGLFSIDRNYFEEIGTYDAGMDIWGGENLEMS
          TYGGFNWKLNFRWYPVPQREMDRRKGDRTLPVRTPTMAGGLFSIDR.YF.EIGTYDAGMDIWGGENLE.S
Retrocopy TYGGFNWKLNFRWYPVPQREMDRRKGDRTLPVRTPTMAGGLFSIDRDYFQEIGTYDAGMDIWGGENLEIS

Parental  FRIWQCGGSLEIVTCSHVGHVFRKATPYTFPGGTGHVINKNNRRLAEVWMDEFKDFFYIISPGVVKVDYG
          FRIWQCGG.LEIVTCSHVGHVFRKATPYTFPGGTG..INKNNRRLAE.W.DEFK.FFYIIS.GV.KVDYG
Retrocopy FRIWQCGGTLEIVTCSHVGHVFRKATPYTFPGGTGQIINKNNRRLAEGWLDEFKNFFYIISQGVTKVDYG

Parental  DVSVRRTLRENLKCKPFSWYLENIYPDSQIPRRYYSLGEIRNVETNQCLDNMGRKENEKVGIFNCHGMGG
          D.S.R..LR..L.C.PFSWYLENIYPDSQIPR.Y.SLGEIRNVETNQCLDNM.RKENEKVGIF.CHGMGG
Retrocopy DISSRLGLRHKLQCRPFSWYLENIYPDSQIPRHYFSLGEIRNVETNQCLDNMARKENEKVGIFSCHGMGG

Parental  NQVFSYTADKEIRTDDLCLDVSRLNGPVIMLKCHHMRGNQLWEYDAERLTLRHVNSNQCLDEPSEEDKMV
          NQVFSYTA.KEIRTDDLCLDVS.LNGPV.ML.CHH..GNQLWEYD...LTL.HVNSNQCL....EED..V
Retrocopy NQVFSYTANKEIRTDDLCLDVSKLNGPVTMLTCHHLKGNQLWEYDPVKLTLQHVNSNQCLEKATEEDSQV

Parental  PTMQDCSGSRS-QQWLLRNMTL
          P...DC.GSRS.QQWLL.N.TL
Retrocopy PSIRDCNGSRSQQQWLL*NVTL

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_793 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_793 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000013917	1 retrocopy	retro_mmur_228,
Oryctolagus cuniculus	ENSOCUG00000017645	1 retrocopy	retro_ocun_274,
Otolemur garnettii	ENSOGAG00000016208	2 retrocopies	retro_ogar_2525, retro_ogar_3272,
Tupaia belangeri	ENSTBEG00000000869	1 retrocopy	retro_tbel_1671,
Tursiops truncatus	ENSTTRG00000002506	2 retrocopies	retro_ttru_793 , retro_ttru_854,
Tursiops truncatus	ENSTTRG00000010848	1 retrocopy	retro_ttru_212,
Tursiops truncatus	ENSTTRG00000017058	1 retrocopy	retro_ttru_1819,