RetrogeneDB ID: retro_ttru_1330

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_110727:35389..35929(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAGK
• Ensembl ID: ENSTTRG00000012259
• Aliases: None
• Description: N-acetylglucosamine kinase [Source:HGNC Symbol;Acc:17174]

Sequence

>retro_ttru_1330
ATGGCCGCGCTCTACGGGGGTGTAGAGGGGGGAGGCACACGATCCAAGGTCCTTTTACTCTCAGAGGATGTGCAGATCCT
GCCAGAAGTGGAAGGACTCAGCACAAACCACTGGCTGACCGGGACAGACAAGTGTGTGGAGAGGATCAACGAGACGGTGA
ACGGGGCCAAACGGAAAGCAGGGGTGGATCTCTGGTGCCTCTACGAAGCCTGGGCTTATCCCTCCTGAGCGGTGGGGATC
AGGAGGACGTCGTGCGGATCCTGATGGAGGAGCTGAGGGACCGATTTCCCTACCTGAGTGAAAGCTACTTAATCACCACC
GACGCCGCCGGCTCCATCGCCACTGTTAACGCCGGGTGGTGGGATCGTGCTCATCTCTGGGACAAGCTCCAACTGCAGGC
TCATCAACCCCGATGGGTCTGAGAGTGGCCGCGGTGGCTGGGGCCACATGATGCGAGATGAGGGCTCAGCCTACTGGACT
GCACACCAAGCAGTGAAAATAATGTTTGACTCCATCGACAACATAGAGGCGGCTCCTCAT

Alignment

ORF - retro_ttru_1330 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.46 %
• Parental protein coverage: 52.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAALYGGVEGGGTRSKVLLLSEDGQVLAEADGLSTNHWLIGTDKCVERINEMVNRAKRKAGVD-PLVPLR
          MAALYGGVEGGGTRSKVLLLSED.Q.L.E..GLSTNHWL.GTDKCVERINE.VN.AKRKAGVD..LVPLR
Retrocopy MAALYGGVEGGGTRSKVLLLSEDVQILPEVEGLSTNHWLTGTDKCVERINETVNGAKRKAGVD<SLVPLR

Parental  SLGLSL-SGGDQEDAVRILMEELRDRFPYLSESYLITTDAAGSIATA-TPDGGIVLISGTGSNCRLINPD
          SLGLSL.SGGDQED.VRILMEELRDRFPYLSESYLITTDAAGSIAT..TP.GGIVLISGT.SNCRLINPD
Retrocopy SLGLSLLSGGDQEDVVRILMEELRDRFPYLSESYLITTDAAGSIATV>TPGGGIVLISGTSSNCRLINPD

Parental  GSESGCGGWGHMMGDEGSAYWIAHQAVKIVFDSIDNLEAAPH
          GSESG.GGWGHMM.DEGSAYW.AHQAVKI.FDSIDN.EAAPH
Retrocopy GSESGRGGWGHMMRDEGSAYWTAHQAVKIMFDSIDNIEAAPH

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_1330 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1330 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000030475	1 retrocopy	retro_cfam_2187,
Tursiops truncatus	ENSTTRG00000012259	1 retrocopy	retro_ttru_1330 ,