RetrogeneDB ID: retro_ttru_1479

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_114299:47971..48676(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TPST2
• Ensembl ID: ENSTTRG00000009430
• Aliases: None
• Description: tyrosylprotein sulfotransferase 2 [Source:HGNC Symbol;Acc:12021]

Sequence

>retro_ttru_1479
GCCTTCGTCTTGGAGGTGATCGCCAAGCATGGAGAGCCAGCCCGTCCTCTGTAACAAAGACCCCTTCACGCTCAAGTCCT
CCGTCTACCTGTCGCGCCTGTTCCCCAACTCCAAGTTCCTGCTGATGGCCGGGCCTCCATGCACTCCATGATCACCCGCA
AGGTCACCGTCCCTGGCTTCGACCTCAGCAGCTACCGCGACTGCCTCAACAAGGGGAACAAGGCCATTGAGGTGATGTAC
GCCCAGTGCATGGAGGTGGGCAAGGACAAGTGCCTGCCCGTGTACTACAAGCAGCTGGTGCTGCACCCCCAGCACTCCCT
CAAACTCATCCTTGACTTCCTCGGCATCACCTGGAGCGACGCTATCCTGCACCATGAGGACCTCATAGGCAAGCCTGGCA
GTGTCTCCCTGTTCAAGATCGAGGGATCCACAGACCAGGTCATCAAGCCCATGAACCTGGAAGCTCTCTCCAAGTGGACT
GGCCACATCGCTGGGGATGTGTTTAGGGACATGGCTCAGATCGCCCCCATGCTGGCTCAGCCCGTCTATGACTCCTATGC
AAACCCGCCCAACTACGGCAGGCCTGACTCCATCATCATCAACAACACACACCCGGTCTTGAAAGGGGATGATAAAACAC
CAGCCAATCTGAAAGGCTATCTTCAGGCGAACCAGAATAGCACCTCTTCCCGCCTAGGAAGCTCA

Alignment

ORF - retro_ttru_1479 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.05 %
• Parental protein coverage: 63.3 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AFILEVIAKHGEPARVLCNKDPFTIKSSVYRWNVFPNSKFLMKWAVRNSVHSMITRKVTIAGFDLSSYRD
          AF.LEVIAKHGEPAR.L...........V.R..V.P..........R.S.HSMITRKVT..GFDLSSYRD
Retrocopy AFVLEVIAKHGEPARPL*QRP---LHAQVLRLPVAPVPQLQVPADGRASMHSMITRKVTVPGFDLSSYRD

Parental  CLAKWNKAIEVMYAQCMEVGEDKCLPVYYEQLVLHPRRSLKLILDFLGISWSDSVLHHEDLIGKPGGVSL
          CL.K.NKAIEVMYAQCMEVG.DKCLPVYY.QLVLHP..SLKLILDFLGI.WSD..LHHEDLIGKPG.VSL
Retrocopy CLNKGNKAIEVMYAQCMEVGKDKCLPVYYKQLVLHPQHSLKLILDFLGITWSDAILHHEDLIGKPGSVSL

Parental  SKIERSTDQVIKPVNLEALSKWTGHIPGDVLRDMAQIAPMLARLGYDPYANPPNYGNPDPIVINNTHRVL
          .KIE.STDQVIKP.NLEALSKWTGHI.GDV.RDMAQIAPMLA...YD.YANPPNYG.PD.I.INNTH.VL
Retrocopy FKIEGSTDQVIKPMNLEALSKWTGHIAGDVFRDMAQIAPMLAQPVYDSYANPPNYGRPDSIIINNTHPVL

Parental  KGDYKTPANLKGYLQVNQNSTSSHLGSS
          KGD.KTPANLKGYLQ.NQNSTSS.LGSS
Retrocopy KGDDKTPANLKGYLQANQNSTSSRLGSS

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_1479 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1479 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
Sus scrofa	ENSSSCG00000009963	1 retrocopy	retro_sscr_244,
Tursiops truncatus	ENSTTRG00000009430	1 retrocopy	retro_ttru_1479 ,