RetrogeneDB ID: retro_ttru_133

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1333:165622..166264(-)
• Located in intron of: ENSTTRG00000000200

Retrocopy information

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

Parental gene information

• Parental gene symbol: LDB2
• Ensembl ID: ENSTTRG00000013661
• Aliases: None
• Description: LIM domain binding 2 [Source:HGNC Symbol;Acc:6533]

Sequence

>retro_ttru_133
ACTGACCTGTATTACATTCTCAAACACTCAAAAGAATCTTACCACAGCTCATCCATCACGGTGGACTGAGACAGCGTGCG
ATGGTCACCCAGCACGGGAAGCCCATGTTTACGAAGATGTGTACAGAAGGCAGACTGACCTTGGAGTTCACCTTTGATGA
TCTCATGAGAATAAAAACATGGCACTTTACCATTAGACAATACAGAGAGTTAGTCCCAAGAAGCATTCTTGCCATAAATG
CACAAGATCCTCAAGTCCTGGATCAGCTGTCCAAAAACACCAGGATGGGGCTAACAAATTTCACAGTCAACTACCTCAGG
TTGTGTGTAATACTGGAGCCAATGCAGGAACTGATGTCCAGACATAAAACTTACAACCTCAGTCCACAAGACTGCCTGAA
GACCTGCTTGTTTCAGAAGTGGCGGCGGATGGTGGCGCCGCCAGAACCCACAAGGCAACCGACAACGAAACAGACAAAAA
GAAAAAAATTCCACCAGCAGCACCTCCAGCAGCAGCACTGGGAACACTGCCAACAGCACGGGCGGCAAGAAGACGCCAGC
TGCCAACCTGAGTCTGTCCAGTCAGGTACCTGGGCTAGGAGCGATCCCGAACTGCAGCCTCAACCCTGGGAGGAATGGAG
AC

Alignment

ORF - retro_ttru_133 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.11 %
• Parental protein coverage: 58.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TDLYYILKHSKESYHNSSITVDCD-QCAMVTQHGKPMFTKVCTEGRLTLEFTFDDLMRIKTWHFTIRQYR
          TDLYYILKHSKESYH.SSITVD.D.Q.AMVTQHGKPMFTK.CTEGRLTLEFTFDDLMRIKTWHFTIRQYR
Retrocopy TDLYYILKHSKESYHSSSITVD*D<QRAMVTQHGKPMFTKMCTEGRLTLEFTFDDLMRIKTWHFTIRQYR

Parental  ELVPRSILAMHAQDPQVLDQLSKNITRMGLTNFTLNYLRLCVILEPMQELMSRHKTYNLSPRDCLKTCLF
          ELVPRSILA..AQDPQVLDQLSKN.TRMGLTNFT.NYLRLCVILEPMQELMSRHKTYNLSP.DCLKTCLF
Retrocopy ELVPRSILAINAQDPQVLDQLSKN-TRMGLTNFTVNYLRLCVILEPMQELMSRHKTYNLSPQDCLKTCLF

Parental  QKWQRMVAPPAEPTRQPTTK-RRKRKNSTSSTSNSGAGNTANSTGSKKKAPAANLSLSSQVPDVMVVGEP
          QKW.RMVAPP.EPTRQPTTK.R.....STSSTS.S..GNTANSTG..KK.PAANLSLSSQVP........
Retrocopy QKWRRMVAPP-EPTRQPTTK>RXXXXXSTSSTSSSSTGNTANSTGG-KKTPAANLSLSSQVPGLGAIPNC

Parental  TLMGGEFGD
          .L..G..GD
Retrocopy SLNPGRNGD

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_133 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_133 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000013661	1 retrocopy	retro_ttru_133 ,