RetrogeneDB ID: retro_ttru_640

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2959:183487..184378(-)
• Located in intron of: ENSTTRG00000006059

Retrocopy information

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

Parental gene information

• Parental gene symbol: RTKN
• Ensembl ID: ENSTTRG00000012716
• Aliases: None
• Description: rhotekin [Source:HGNC Symbol;Acc:10466]

Sequence

>retro_ttru_640
AGCCAGAGCGTGCTGGTGTGCAATAGCCGCACCCCCGGCTACACGGGCGAGCTGCAGCGGCGCGAGGACACGCAGGTGCT
GAGGAAGACAGGCCAGTGGCCTCCTGATAGCGGGCCACCTGCTGAGCACTCCCCCTGCCGCAGCCAGGTCTGCATTTCTG
ACCTCCAGATTCCACTCATGTGGAAGGACACAGAAGATTTCAAGAACGAAGGCGATCTGCACCGTCGGGCTGTGTTCTTG
CTGCTGCAGATCGGGGAATGCACTCAAGACACAGAGATGATCCTGGTGGACAGGACCCTCACAGCCATCCCCTTTCACAA
CAAGGTGCTCTTTGCCGAGGCAGGGCCAGACTCTGAACTGCGGCTGGAGCTATATGGGGCCTGCGTGGAAGAGGAGGGGG
CCCTGGCTGAAGCCCCCAAGAGGCTTGCCACCGAGCTCAGCAGCTCCCTGGGCTGCTCCTCAGGGAGGCGTGTGCGGGTG
TCGCTGGAGACAGCTAGGGGCTCGGGAAGCAGTCCCATCTTGCTCCCCACCCCAGCTGGTGGTGGTCGTTACCACCTCTT
GGCTCATACCACTCTCACCCTGGCAGCAGTGCAAGACGGACTCCACACACATGACCTCACCCTCACCAGTCATGAGGAGA
ACCCCGCCTGGCTGCCCCTTGATGGCAGCGTGTGTTGCCGTCTGGTGGCTCAGCCCTTCCGCATGACTCAGCCTACTGCA
AGTGGCACGCACAGAGCGCAGCAAGCTGGGGAGCTGCAGGACTGGGTGCGAGCGCATGGAGTCCTGAGAGGCACCAACAG
CTTCTGTCACCGTCAACCTGAAGACACAGACACTGGGGAGGAGCTGCTGTTTACTGTTGTGATCAACAAGGAGCCTCAAG
TCGGGGCAGGT

Alignment

ORF - retro_ttru_640 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.55 %
• Parental protein coverage: 56.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TKSLLVCNSRILSYMGELQRRKEAQVLRKTGRRPSDSGPPAERSPCRGQVCISDLRIPLMWKDTEYFKNK
          ..S.LVCNSR...Y.GELQRR...QVLRKTG..P.DSGPPAE.SPCR.QVCISDL.IPLMWKDTE.FKN.
Retrocopy SQSVLVCNSRTPGYTGELQRREDTQVLRKTGQWPPDSGPPAEHSPCRSQVCISDLQIPLMWKDTEDFKNE

Parental  GDLHRWAVFLLLQIGEHIQDTEMILVDRTLTDISFQNNVLFAEAGPDFELRLELYGACVEEEGALAGAPK
          GDLHR.AVFLLLQIGE..QDTEMILVDRTLT.I.F.N.VLFAEAGPD.ELRLELYGACVEEEGALA.APK
Retrocopy GDLHRRAVFLLLQIGECTQDTEMILVDRTLTAIPFHNKVLFAEAGPDSELRLELYGACVEEEGALAEAPK

Parental  RLATKLSSSLGRSSGRRVRASLETAGGSGSSPILLPTPAVGGPRYHLLAHTTLTLAAVQDGFRTHDLTLA
          RLAT.LSSSLG.SSGRRVR.SLETA.GSGSSPILLPTPA.GG.RYHLLAHTTLTLAAVQDG..THDLTL.
Retrocopy RLATELSSSLGCSSGRRVRVSLETARGSGSSPILLPTPA-GGGRYHLLAHTTLTLAAVQDGLHTHDLTLT

Parental  SHEENPAWLPLYGSVCCRLVAQPFCMTQPTASGTLKVQQTGELQDWVRVHGVLKGTNLFCYRQPEDTDTG
          SHEENPAWLPL.GSVCCRLVAQPF.MTQPTASGT...QQ.GELQDWVR.HGVL.GTN.FC.RQPEDTDTG
Retrocopy SHEENPAWLPLDGSVCCRLVAQPFRMTQPTASGTHRAQQAGELQDWVRAHGVLRGTNSFCHRQPEDTDTG

Parental  EEPLFTIAINKETRVWAG
          EE.LFT..INKE..V.AG
Retrocopy EELLFTVVINKEPQVGAG

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_640 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_640 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	ENSTTRG00000012716	1 retrocopy	retro_ttru_640 ,