RetrogeneDB ID: retro_ttru_1565

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_116421:3423..4483(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZYX
• Ensembl ID: ENSTTRG00000010808
• Aliases: None
• Description: zyxin [Source:HGNC Symbol;Acc:13200]

Sequence

>retro_ttru_1565
TTTTCTTTACCGCCTCCTCCCATGCTTGGGGAGGTCAATGATGCCGAGGGCGCTCTGGGAGGTGGCTTCCCACCTCCCCC
TCCCCCAATCGAGAAACCATTTCCTGCTGCGCCTTTAGAGAGGAGATCTTCCCTTCCCCACTGCCTCTGCTAGTGGAGGA
GGGAGGGCCTGAAGCCCCCATACAGCTCTCACCACAGCCCAGGGAGAACAGTACTAATCTGGAGATCGACTCTTTGTCTT
CATTGCTGGATGACATGACCAACAATGACCCCATCAAAGCCTGGGTGTCATCTGGATATGTATCACCACCAGTCACCACT
CCATTCATTTCCAAATCCAGTTCTAAGCCTGCAACTGGGGGCACAGCACCTCTGCCTCCCTGGAAGTCCCCTACTAGCTC
CCAGGTTCAGCCTCAGAGCCAGACGCATTTCCATGTGCAGCCCCAGGCCAGGCCTCAGGTCCAACTCCATGTCCAGGCCC
AGCCCCAGCCTGTGCCTTTGGTTAACACCCAGCCTCAAGGTCCCCATGCCCCATCTCCAGCCACCAAGTTTTCTCCAGTG
ACTCCCAAGTTTACTTCGGTGGCTTCCAAGTTCAGACCTGGAGCTCCAGGTCACAGCCCAATCAGAAGTTGGGGCCCCCT
GAAGCTCCCTCTTCCACTGGCACAGGCTCCCCTCAGCCCCCCAGCTTCACCTATGCTCAGCAGAAGGAGAAGGCCCAAGT
GCAGGAGGAGCAGCACCCAGTGCCCCCACCAGCTAAAAACCAAAACCAGGTGTGCACCTCTGGGGCCCCAGGACTTTTGA
CTCTGAAAGAGGTGGATGAGCTGGAGCAGCTGACCCAGCAGCTGATGTAGGACATGGAGCATTATCAGAGGCAGAACGTG
GCCATCAACGAGTTCTGTGGCCGGTGTCACCAGCCCCTGGCACGTGCTCAACCTGCAGTGCATGCTCTGGGGCAGCTGTT
CCACATTACCTGCTTTACCTGCCATCAGTGTGAACAGCAGCTGCAGGGACAGCAGTTCTACAGCCTGGAGGGTGCGCTGT
ATTGTGAGGGCTGCTATACT

Alignment

ORF - retro_ttru_1565 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.57 %
• Parental protein coverage: 73.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FPLPPPPVLGEADDAEGALGGAFPPPPPPIEEPFPPAPLE-EEIFPSPPPPLVEEGGPEAPIQLPPQPRE
          F.LPPPP.LGE..DAEGALGG.FPPPPPPIE.PFP.APLE.EEIFPSP.P.LVEEGGPEAPIQL.PQPRE
Retrocopy FSLPPPPMLGEVNDAEGALGGGFPPPPPPIEKPFPAAPLE<EEIFPSPLPLLVEEGGPEAPIQLSPQPRE

Parental  KVSSIDLEIDSLSSLLDDMTKNDPFKARVSSGYVLPPVTTPFVSKSSSKPATGGTAPLPPWKSPASSQPL
          ...S..LEIDSLSSLLDDMT.NDP.KA.VSSGYV.PPVTTPF.SKSSSKPATGGTAPLPPWKSP.SSQ..
Retrocopy --NSTNLEIDSLSSLLDDMTNNDPIKAWVSSGYVSPPVTTPFISKSSSKPATGGTAPLPPWKSPTSSQ--

Parental  SQAQPQSQTHIHVQSQPQPKPQVQMHVQPQPQPVPLANTQPRGPPAPSPTPKFSPVTPKFTPVASKFSAG
          ...QPQSQTH.HV..QPQ..PQVQ.HVQ.QPQPVPL.NTQP.GP.APSP....................G
Retrocopy --VQPQSQTHFHV--QPQARPQVQLHVQAQPQPVPLVNTQPQGPHAPSPAXXXXXXXXXXXXXXXXXRPG

Parental  APGGPGSQPTQKLGP-PEAPSSTGTGSPQPPSFTYAQQKEKPQVQEKQHAVPPPAQNQNQVRSSGAPGAL
          APG.....P....GP.PEAPSSTGTGSPQPPSFTYA................PPA.NQNQV..SGAPG.L
Retrocopy APG---HSPIRSWGP<PEAPSSTGTGSPQPPSFTYAXXXXXXXXXXXXXXXXPPAKNQNQVCTSGAPGLL

Parental  TLKEVEELEQLTQQLMQDMEHPQRQNVAASESCGRCHQPLARAQPAVRALGQLFHIACFTCHQCEQRLQG
          TLKEV.ELEQLTQQLM.DMEH.QRQNVA..E.CGRCHQPLARAQPAV.ALGQLFHI.CFTCHQCEQ.LQG
Retrocopy TLKEVDELEQLTQQLM*DMEHYQRQNVAINEFCGRCHQPLARAQPAVHALGQLFHITCFTCHQCEQQLQG

Parental  QQFYSLEGAPYCEGCYT
          QQFYSLEGA.YCEGCYT
Retrocopy QQFYSLEGALYCEGCYT

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_1565 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1565 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009741	1 retrocopy	retro_cjac_3256,
Tursiops truncatus	ENSTTRG00000010808	1 retrocopy	retro_ttru_1565 ,