RetrogeneDB ID: retro_ttru_1400

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_112365:221532..222671(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000009457
• Aliases: None
• Description: None

Sequence

>retro_ttru_1400
AGGAAATGGGAGGGCGGGGACCCAGGTGTGGCCCACCAGAAGATCCCCACCTGCCTGCTGCTGACCCCAGAGGGTGCCTT
TCACAGTTTTGGCTATACAGCCCGTGATTACTACCACGATCTGGACCCTGAGGAGGCTCGTGACTGGCTCTACTTGAGAA
GTTCAAGATGAAGATCCACAGTGCCACTGATCTCACCTTGAAGACCCAGCTAGAAGCGGTAAATGGAAAGAAAATGCCTG
CCCTGGAGGTGTTCGCCCATGCCTTGCGCTTCTTCAAGGAGCATGCCCTTCAGGAGCTGAGGGACCAGTGCCCATCGCTG
CCAGAGAAGGACACTGTGCACTGGGTGTTGACAGTGCCGGCCATCTGGAAACAGCCAGCTAAGCAGTTCATGCGAGAGGC
TGCCTACTTGGCCGGACTGGTGTCAAGAGAGGATGCAGAGCAATTACTCATTGCCCTGGAGCCTGAGGCCGCCTCTGTCT
ACTGCCGCAAGCTGCGTCTGCACCAGCTCGTGGACCTGAGCAGCCGAGCTCCAGGCAGTGGGTGCCTGGGCAAGAGCCAC
TCCATTGATCCCAGCTTCCGTCAGGCCCGAGAGCAGCTTCGAAGGTCCCGCCACAGCCGCACGTTCCTGGTGGAATCGGG
TGTCGGAGAACTGTGGGCTGAGATGCAAGCAGGAGACCGCTACGTGGTGGCAGACTGTGGGGGAGGCACGGTGGACCGTA
CCGTGCATCAGTTGGAGCAGCCCCATGGCACCCTCAAGGAGCTCTACAAGGCATCTGGTGGCCCCTGTGGCGCGGTGGGC
GTGGACCTGGCCTTCGAGCAGCTGCTGGGCCGCATCTTCGGCGAGGACTTCATCAGCACCTTCAAAACGCAACGCCCAGC
AGCCTGGGTGGATCTGACTATAGCCTTCGAGGCCTGCAAACGCACCGCAGGCCCACACCGTGCGGGGGCGCTCAACATCT
CGCTGCCCTTCTCGTTTATTGACTTCTACCGCAAGCAGCGAGGCCACAACGTGGAGACAGCCCTGCGCAGGAGCAGCGTG
AACTTCGTGAAGTGGTCCTCACAGGGGATGCTCAGGATGTCTTGTGAGGCCATGAACGGCCTCTTTCAGCCCACGGTCAG
CGGGATCATCCAGCACATA

Alignment

ORF - retro_ttru_1400 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.18 %
• Parental protein coverage: 57.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RKWEGGDPGVAHQKTPTCLLLTPEGAFHSFGYTARDYYHDLDPEEARDWLYF-EKFKMKIHSATDLTLKT
          RKWEGGDPGVAHQK.PTCLLLTPEGAFHSFGYTARDYYHDLDPEEARDWLY..EKFKMKIHSATDLTLKT
Retrocopy RKWEGGDPGVAHQKIPTCLLLTPEGAFHSFGYTARDYYHDLDPEEARDWLYL<EKFKMKIHSATDLTLKT

Parental  QLEAVNGKKMPALEVFAHALRFFKEHALQELRDQCPSLPEKDTVRWVLTVPAIWKQPAKQFMREAAYLXX
          QLEAVNGKKMPALEVFAHALRFFKEHALQELRDQCPSLPEKDTV.WVLTVPAIWKQPAKQFMREAAYL..
Retrocopy QLEAVNGKKMPALEVFAHALRFFKEHALQELRDQCPSLPEKDTVHWVLTVPAIWKQPAKQFMREAAYLAG

Parental  XXXXXXXXXXLIALEPEAASVYCRKLRLHQLVDLSSRAPGSGRLGERRSIDSSFRQAREQLRRSRHSRTF
          ..........LIALEPEAASVYCRKLRLHQLVDLSSRAPGSG.LG...SID.SFRQAREQLRRSRHSRTF
Retrocopy LVSREDAEQLLIALEPEAASVYCRKLRLHQLVDLSSRAPGSGCLGKSHSIDPSFRQAREQLRRSRHSRTF

Parental  LVESGVGELWAEMQAGDRYVVADCGGGTVDLTVHQLEQPHGTLKELYKASGGPCGAVGVDLAFEQLLGRI
          LVESGVGELWAEMQAGDRYVVADCGGGTVD.TVHQLEQPHGTLKELYKASGGPCGAVGVDLAFEQLLGRI
Retrocopy LVESGVGELWAEMQAGDRYVVADCGGGTVDRTVHQLEQPHGTLKELYKASGGPCGAVGVDLAFEQLLGRI

Parental  FGEDFIATFKRQRPAAWVDLTIAFEARKRTAGPHRAGALNISLPFSFIDFYRKQRGHNVETALRRSSVNF
          FGEDFI.TFK.QRPAAWVDLTIAFEA.KRTAGPHRAGALNISLPFSFIDFYRKQRGHNVETALRRSSVNF
Retrocopy FGEDFISTFKTQRPAAWVDLTIAFEACKRTAGPHRAGALNISLPFSFIDFYRKQRGHNVETALRRSSVNF

Parental  VKWSSQGMLRMSCEAMNDLFQPTVSGIIQHI
          VKWSSQGMLRMSCEAMN.LFQPTVSGIIQHI
Retrocopy VKWSSQGMLRMSCEAMNGLFQPTVSGIIQHI

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_1400 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1400 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	ENSTTRG00000009457	1 retrocopy	retro_ttru_1400 ,