RetrogeneDB ID: retro_ttru_1042

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_100874:117779..118622(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MKX
• Ensembl ID: ENSTTRG00000016185
• Aliases: None
• Description: mohawk homeobox [Source:HGNC Symbol;Acc:23729]

Sequence

>retro_ttru_1042
ATGAACACCATCATCTTCAACAAGCTCAGCAGCGCCGTGCTTTTTGAGGACCACGGGGCTCCGGAGCGGGAGTGGGGCGG
CAGGCCCTACGGTGGCATTCTGGACAGTACGCATGCTCTCCCCGAGGTGGGCATTACGGACGGCACGCCCCTCAAGGACA
ACCTGGGCCTGAGACACCGGAGGACCGGGGCCCGCCAGAATGGCGGGAAGGTGAGGCACAAGCGGCAGGCCCTGCAGGAC
ATGGTGCGGCCCCTCAAGCTGTGGCTGCACAAGCACCGCGACAATCCGTACCCCACGAAGACGGAGAAGATTCTCCTGGC
GCTCGGCTCGCAGATGACGCTAGTGCAGGTGTCAAATTGGTTTGCTAATGCAAGACGTCAGCTTAAGAATACTGTTCGAC
AGCCAGATTTAAGCTGGGTCTTAAGAATAAAGTTGTACAATAAGTAGGTTCAAGGAAACGCTGAGCGGCTGAGTGTAAGC
AGTGATGACTCATGTTCTGAAGATGGAGAAAATCCTCCACGAAACCCCATGAATGAAGAAGGCTATAATAGTCCAGTCCA
CCATCCTGTGATTAAAAGTGAGAGCTCAGTCATAAAAGCTGGAGTGAGGCCAGAGTCATGGGCCAATGAGGATTACGTAT
CGCCCCCAAAATACAAGAGCAGCTTGTTGAATCGTTACCTTAACGACTCTTTGAGACATGTCATGGTCACAAATGCTGCC
ATGATGGGAAAGACAAGGCAGAGAAACCATTCAGAATCTTTTAGTTCCAATGAATTTGAGGAGGAATTGGTATCACCCTC
ATCGTCAGAAACCAAAGGCAATTTCGTCTATCGCACAGACAGC

Alignment

ORF - retro_ttru_1042 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.68 %
• Parental protein coverage: 79.77 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MIPFFFYKLSGALLFEDRGAPERERGGRPYCGVLDSTHSRPEVGITDGAPLKDNLVQRHRRTGARQNGGK
          M....F.KLS.A.LFED.GAPERE.GGRPY.G.LDSTH..PEVGITDG.PLKDNL..RHRRTGARQNGGK
Retrocopy MNTIIFNKLSSAVLFEDHGAPEREWGGRPYGGILDSTHALPEVGITDGTPLKDNLGLRHRRTGARQNGGK

Parental  VRHKRQALQDMARPLKQWLYKHRDNPYPTKTEK-LLALGSQMTLVQVSNWFANARRRLKNTVRQPDLSWA
          VRHKRQALQDM.RPLK.WL.KHRDNPYPTKTEK.LLALGSQMTLVQVSNWFANARR.LKNTVRQPDLSW.
Retrocopy VRHKRQALQDMVRPLKLWLHKHRDNPYPTKTEKILLALGSQMTLVQVSNWFANARRQLKNTVRQPDLSWV

Parental  LRIKLYNKYVQGNAERLSVSSDDSCSEDGENPPRNHMNEEGYNNPVHHPVIKSESSVIKAGVRPESRANE
          LRIKLYNK.VQGNAERLSVSSDDSCSEDGENPPRN.MNEEGYN.PVHHPVIKSESSVIKAGVRPES.ANE
Retrocopy LRIKLYNK*VQGNAERLSVSSDDSCSEDGENPPRNPMNEEGYNSPVHHPVIKSESSVIKAGVRPESWANE

Parental  DYVSPPKYKSSLLNRYLNDSLRHVMVTNAAMMGKTRQRNHSGSFSSNEFEEELVSPSSSETEGNFVYRTD
          DYVSPPKYKSSLLNRYLNDSLRHVMVTNAAMMGKTRQRNHS.SFSSNEFEEELVSPSSSET.GNFVYRTD
Retrocopy DYVSPPKYKSSLLNRYLNDSLRHVMVTNAAMMGKTRQRNHSESFSSNEFEEELVSPSSSETKGNFVYRTD

Parental  T
          .
Retrocopy S

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_1042 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1042 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	ENSTTRG00000016185	1 retrocopy	retro_ttru_1042 ,