RetrogeneDB ID: retro_ttru_1444

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_113439:3877..4483(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RMDN1
• Ensembl ID: ENSTTRG00000002271
• Aliases: None
• Description: regulator of microtubule dynamics 1 [Source:HGNC Symbol;Acc:24285]

Sequence

>retro_ttru_1444
GAAGATGCAGAGTTACTCTGGCGTTTGGCATGGGCATCATGTGTTATAGCTCAACTCAGTGGAACCTCAGAAAAGGAGAA
AAAGCTCTTGGTCTATGAAGCCCTAGAGTATGCAAAAAGGGCACTAGAAAAAAATGAATCAAGTTTTGCAGCTCATAAGT
GGTATGCAATCTGTATTAGCAATGTTGGAGATTATGAAGGAATCAAGGCTAAAATTGCAAATGCCTACATGATCAAGGAG
CATTTTGAGAAAGCAGTTGAACTCAACCCTAAAGATGCTACCTCAATTCACCTTATGGGTATTTGGTGTTACACATTTGC
TGAAATGCTTTGGTATCAAAGAAGAATTGCTAAAATGCTGTTTGAAACTCCTCCTAGTTCCACCTATGAGGAGGCCTTAG
GCTACTTTCACAGGGCAGAGCAAGTGGATCCAAACTTCTACAGCAAAAACTTGCTGCTTCTAGAAAAGACATATTTGAAG
CTACACAACAAACAGCTTGCTGCTTTCTGGCTAACAAACGCCAAGGACTATCCAGCGCACACAGAGGAGGATAAACAGAT
ACAGACAGAAGCTGCTCAGTTGCTTACAGGTTTCAGTGACAAGAAC

Alignment

ORF - retro_ttru_1444 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.58 %
• Parental protein coverage: 64.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EDAELLWRLARASRDIAQLSGTSEEEKKLLVYEALEYAKRALEKNESSFAAHKWYAICISDVGDYEGIRA
          EDAELLWRLA.AS..IAQLSGTSE.EKKLLVYEALEYAKRALEKNESSFAAHKWYAICIS.VGDYEGI.A
Retrocopy EDAELLWRLAWASCVIAQLSGTSEKEKKLLVYEALEYAKRALEKNESSFAAHKWYAICISNVGDYEGIKA

Parental  KIANAYKIKEHFEKAIELNPKDATAIHLMGIWCYTFAEMPWYQRRIAEMLFATPPSSTYEEALGYFHRAE
          KIANAY.IKEHFEKA.ELNPKDAT.IHLMGIWCYTFAEM.WYQRRIA.MLF.TPPSSTYEEALGYFHRAE
Retrocopy KIANAYMIKEHFEKAVELNPKDATSIHLMGIWCYTFAEMLWYQRRIAKMLFETPPSSTYEEALGYFHRAE

Parental  QVDPNFYSKNLLLLGKTYLKLHNKKLAAFWLSKAKDYAAHTEEDKQIQTEAAQLLTGFSDKN
          QVDPNFYSKNLLLL.KTYLKLHNK.LAAFWL..AKDY.AHTEEDKQIQTEAAQLLTGFSDKN
Retrocopy QVDPNFYSKNLLLLEKTYLKLHNKQLAAFWLTNAKDYPAHTEEDKQIQTEAAQLLTGFSDKN

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_1444 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1444 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ictidomys tridecemlineatus	ENSSTOG00000005267	2 retrocopies	retro_itri_522, retro_itri_525,
Tursiops truncatus	ENSTTRG00000002271	1 retrocopy	retro_ttru_1444 ,