RetrogeneDB ID: retro_ttru_841

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3616:156341..157456(+)
• Located in intron of: ENSTTRG00000012218

Retrocopy information

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

Parental gene information

• Parental gene symbol: PARD6B
• Ensembl ID: ENSTTRG00000014281
• Aliases: None
• Description: par-6 partitioning defective 6 homolog beta (C. elegans) [Source:HGNC Symbol;Acc:16245]

Sequence

>retro_ttru_841
ATGAACCGCAGACACCGGCAAGGAGCGGGCAGCGGCTGCCTGGCCCCCACCGTGGGGGTGAAGAGCAAGTTTGGAGCTGA
ATTTCGTCGGTTTTCACTGGAAATATCAAAACCTGGAAAGTTTAAGGAGTTTTATGGATTACTGCAACATGTTCATAAGA
TACCCAATGTTGACATTTTAGTAAGCTATGCAGACATCCATGGAGATGTACTGCCTAGAAATAACGATGCTAATTATCAC
AAAGCTGTTTCAGCGGCCAACCCACTGCTTAGGATTTTTATACAAAAAAAGGAAGAAGCAGACTACAGTGCCTTTGGTAC
CGGCACACTAATAAAGAAGAAGAATGTTTTAACCAAATTGTTTCGTCCTGACAAACAGAGAAAAAAGCCACACATAGTCA
TTAGTATGCCCCAGGACTTCAGACCTGTGTCTTCTGTTATAGACGTGGATATTCTCCCAGAAACACATCGTAGGGTCCGT
CTTTACAAATATGGCACTGAGAAACACCTAGGATTCTACATGAGGGACGGCTCCAGTGTCAGGGTGACACCCCACAGCTT
AGAGAAGGTCCCAAGGATCTTTATATCCAGACTTGTGCCAGGAGGTCTGGCTCAAAGCACAGGACTATTAGCCGTTAATG
ATGAAGTTTTAGAAGTTAATGGCACAGAAGTTTCCGGGAAGAGTCTAGATCAAGTAGCTGACATGATTGCAAACAGCCAC
GACCTCACCATCACAGTGAGACCAGCAAACCAGAGGAACAAGATCATTAGGAAGAGTCGGACTTCCGGCAGCTCTGGCTA
GTCTACCGACAACAGCCTTCCTGGCTATCCACAGCAGATCGAACCGAGCTTTGAGCCAGAGGATGAAGACAGCGATGAAG
ATGACATTATTATTGAAGACAACGGTGTGCCACAGCAGAACCCTAAGGCTCTTCGTAACACCGAGAGCCTGGAATCATTA
ACACAAATACGACTCAGTTTTGAATCTGGACAGAACGGTTTTATTCCTTCTAATGAAGTGAGCTTAGCACCCTTAGCAAG
TGGCACAAATACAGAATTTGAAACGCGTGCTCCAATCAAAAACTCTTAGAAGAAGATGGAACAATCATAACACTA

Alignment

ORF - retro_ttru_841 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.3 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MNRSHRHGAGSGCLG-TMEVKSKFGAEFRRFSLERSKPGKFEEFYGLLQHVHKIPNVDVLVGYADIHGDL
          MNR.HR.GAGSGCL..T..VKSKFGAEFRRFSLE.SKPGKF.EFYGLLQHVHKIPNVD.LV.YADIHGD.
Retrocopy MNRRHRQGAGSGCLAPTVGVKSKFGAEFRRFSLEISKPGKFKEFYGLLQHVHKIPNVDILVSYADIHGDV

Parental  LPINNDDNYHKAVSTANPLLRIFIQKKEEADYSAFGTDTLIKKKNVLTNVLRPDNHRKKPHIVISMPQDF
          LP.NND.NYHKAVS.ANPLLRIFIQKKEEADYSAFGT.TLIKKKNVLT...RPD..RKKPHIVISMPQDF
Retrocopy LPRNNDANYHKAVSAANPLLRIFIQKKEEADYSAFGTGTLIKKKNVLTKLFRPDKQRKKPHIVISMPQDF

Parental  RPVSSIIDVDILPETHRRVRLYKYGTEKPLGFYIRDGSSVRVTPHGLEKVPGIFISRLVPGGLAQSTGLL
          RPVSS.IDVDILPETHRRVRLYKYGTEK.LGFY.RDGSSVRVTPH.LEKVP.IFISRLVPGGLAQSTGLL
Retrocopy RPVSSVIDVDILPETHRRVRLYKYGTEKHLGFYMRDGSSVRVTPHSLEKVPRIFISRLVPGGLAQSTGLL

Parental  AVNDEVLEVNGIEVSGKSLDQVTDMMIANSRNLIITVRPANQRNNVIRNSRTSGSSGQSTDNSLPGYPQQ
          AVNDEVLEVNG.EVSGKSLDQV.D.MIANS..L.ITVRPANQRN..IR.SRTSGSSG.STDNSLPGYPQQ
Retrocopy AVNDEVLEVNGTEVSGKSLDQVAD-MIANSHDLTITVRPANQRNKIIRKSRTSGSSG*STDNSLPGYPQQ

Parental  IEPSFEPEDEDSDEDDIIIEDNGVPQQIPKAVRNTESLESLTQIELSFESGQNGFIPSNEVSLAPLASGT
          IEPSFEPEDEDSDEDDIIIEDNGVPQQ.PKA.RNTESLESLTQI.LSFESGQNGFIPSNEVSLAPLASGT
Retrocopy IEPSFEPEDEDSDEDDIIIEDNGVPQQNPKALRNTESLESLTQIRLSFESGQNGFIPSNEVSLAPLASGT

Parental  NTEFETRAP-DQKLLEEDGTIITL
          NTEFETRAP..QKLLEEDGTIITL
Retrocopy NTEFETRAP<NQKLLEEDGTIITL

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_841 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_841 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	ENSTTRG00000014281	1 retrocopy	retro_ttru_841 ,