RetrogeneDB ID: retro_ttru_1737

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_89369:74291..75021(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000009225
• Aliases: None
• Description: None

Sequence

>retro_ttru_1737
ACTATGTTCCAGAAAGGGGAGGTGCATAACAAACCATCAGGATTCTGGGGAATGATAAAGAGTGTTACCACTTCAGTACC
AGGAAGTGAAAATCTTACTCTTATTCAACAGGAAGTGGATGCTTTGGAAGAACTAAGCAGGCAGCTTTTTCTGGAAACAG
CTGATCTCTATGCTACCAAGGAGAGAATAGAATACTCCCAAAACTTTCAAGGGGAAATATTTTAATTTTCTGGGTTACTT
GTTCTCTGTTTACTATGTTTGGAAAATTTTCATGGCAACCATTAATATCGTTTTTGGCCGAGTTGGGAAAACTGATCCAG
TCACAAGAGGCATTGAGATCACTGTGAGTTATCTGGGGATCCCATTTGATGTGAAGTTCTGGTCCCAGCACATTTCCTTC
ATTCTGATTGGAATAATCATTGTCACGCCTATTAGAGGGGTGCTGATCGCTCTTACCAGGTTCTTCTATGCCATATCCAA
CAGTAAGTCCTCCAATGTCATTGTCCTGCTATTAGCACAGGTAATGGGCACGTACTTCGTCTCCTCTGTGCTGCTGATCC
GAATGAGCATGCATCTGGAGTACCGCACCGTAGTCACCGAAGTTCTTGGAGAGCTGCAGTTCAACTTCTGTCACCGTTGG
TTTGATGTCATCTTCCTGGTCAGTGCTCTCTCCAGCATACTCTTCCTCTATTTGGCCCATAGACAGGCACCAGAGAAGCA
TATGGCACCT

Alignment

ORF - retro_ttru_1737 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.39 %
• Parental protein coverage: 53.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TMFQKGEVHNKPSGFWGMIKSVTTSAPGSENLTLIQQEVDALEELSRQLFLETADLYATKERIEYS-KTF
          TMFQKGEVHNKPSGFWGMIKSVTTS.PGSENLTLIQQEVDALEELSRQLFLETADLYATKERIEYS.KTF
Retrocopy TMFQKGEVHNKPSGFWGMIKSVTTSVPGSENLTLIQQEVDALEELSRQLFLETADLYATKERIEYS>KTF

Parental  KGKYFNFLGYFFSIYCVWKIFMATINIVFDRVGKTDPVTRGIEITVNYLGIQFDVKFWSQHISFILVGII
          KGKYFNFLGY.FS.Y.VWKIFMATINIVF.RVGKTDPVTRGIEITV.YLGI.FDVKFWSQHISFIL.GII
Retrocopy KGKYFNFLGYLFSVYYVWKIFMATINIVFGRVGKTDPVTRGIEITVSYLGIPFDVKFWSQHISFILIGII

Parental  IVTSIRGLLITLTKFFYAISSSKSSNVIVLLLAQIMGMYFVSSVLLIRMSMPLEYRTIVTEVLGELQFNF
          IVT.IRG.LI.LT.FFYAIS.SKSSNVIVLLLAQ.MG.YFVSSVLLIRMSM.LEYRT.VTEVLGELQFNF
Retrocopy IVTPIRGVLIALTRFFYAISNSKSSNVIVLLLAQVMGTYFVSSVLLIRMSMHLEYRTVVTEVLGELQFNF

Parental  YHRWFDVIFLVSALSSILFLYLAHKQAPEKHMTP
          .HRWFDVIFLVSALSSILFLYLAH.QAPEKHM.P
Retrocopy CHRWFDVIFLVSALSSILFLYLAHRQAPEKHMAP

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_1737 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1737 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011552	1 retrocopy	retro_chof_2405,
Otolemur garnettii	ENSOGAG00000003605	1 retrocopy	retro_ogar_3165,
Tursiops truncatus	ENSTTRG00000009225	1 retrocopy	retro_ttru_1737 ,