RetrogeneDB ID: retro_ttru_1658

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_83581:11164..11977(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PARVB
• Ensembl ID: ENSTTRG00000015336
• Aliases: None
• Description: parvin, beta [Source:HGNC Symbol;Acc:14653]

Sequence

>retro_ttru_1658
CCTGCAGCCCCACAGGATGAAGAAGGACAAGTCGTTCCTGGGAAAGCTGGGCGGCACGTTCGTGAGGAAGAAGAAGGCCA
AGGAGGTGAGTGACCTGCACGAAGGGAAAAATGCCATCAACTCGCCAATGTCCCCTGCCTCAGTGGAGATCTACCCAGAA
GACACCTTGCTCGAGGAGAATTAGGAGCACACGGTGATTGACTGCACTTCCAGGGATGACCCCAGATTCAAGGAGCTGGT
CAAGGTTCTCATCGATTGGATCAATGATGTCCTGATGGAGGAGAGGATCATCGTGAAGCAGCTGGAGGAGGACCTATATG
ATGGGCAGGTGCTGCAGAAGCTCCTGGAAAAACTGGCAGACCACAAGCTGAACATGGCTGAGGTGACCCAGTCTGAAATA
GGGCTGAAGCAGAAGCTGCAGATGGTGCTGGAGGTGGTGCAGGAGCTGCTGTGGCCTCACGGTCGGGTGCTCCAGTGGAC
CGTGGACTCGATTCACGGAAAGAACCTGGTGGCCATCCTTCACCTCCTCATGGCCTTGGCTATGCACTTCCGGGCCTGAT
CTACCTTCCCGCACACTTCTCCTTGCAAGTCGTGGTCGTGCGGAAGTGGGAAGGCCTGCTACACTCCAGCCATGTCATGG
AGGAGCTGACCACGACCACCGAGATGATTATGGGTTGGTTTGAGTGGGATGCCTTCGACACACTCTTCGACCATGCCCCA
GACAAGCACAATGTGCTGAAGAAGTCTCTCATCACGTTTGTGAACAAGCACCTGAACAAGCTGAATTTGGGGGTGATGGA
ACTAGAGACCCAG

Alignment

ORF - retro_ttru_1658 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.17 %
• Parental protein coverage: 70.62 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PVASLAASVMIVPACGPSGGEASEHVQGGG-VSDLQEEGENAMNLPMSPASVEIHPEDTLLEENQERTVI
          P.A........VP..G..G....E...G.G.VSDL.E.G.NA.N.PMSPASVEI.PEDTLLEEN.E.TVI
Retrocopy PAAPQDEEGQVVP--GKAGRHVREEEEGQG>VSDLHE-GKNAINSPMSPASVEIYPEDTLLEEN*EHTVI

Parental  DPTSRDDPRFRELVKVLIDWVNDVLVGERIIVKQLEEDLYDGQVLQKLLEKLADCKLNVAEVTQSEIGQK
          D.TSRDDPRF.ELVKVLIDW.NDVL..ERIIVKQLEEDLYDGQVLQKLLEKLAD.KLN.AEVTQSEIG.K
Retrocopy DCTSRDDPRFKELVKVLIDWINDVLMEERIIVKQLEEDLYDGQVLQKLLEKLADHKLNMAEVTQSEIGLK

Parental  QKLQTVLQAVQELLRPHGRALQWTVDTIHGKNLVAILHLLVALAMHFRA-PIRLPEHVSVQVVVIRKREG
          QKLQ.VL..VQELL.PHGR.LQWTVD.IHGKNLVAILHLL.ALAMHFRA..I.LP.H.S.QVVV.RK.EG
Retrocopy QKLQMVLEVVQELLWPHGRVLQWTVDSIHGKNLVAILHLLMALAMHFRA<LIYLPAHFSLQVVVVRKWEG

Parental  LLHSSHVTEELTTTTELMMGRFERDAFDTLFDHAPDKLSVVKKSLITFVNKHLNKLNLEVTELETQ
          LLHSSHV.EELTTTTE..MG.FE.DAFDTLFDHAPDK..V.KKSLITFVNKHLNKLNL.V.ELETQ
Retrocopy LLHSSHVMEELTTTTEMIMGWFEWDAFDTLFDHAPDKHNVLKKSLITFVNKHLNKLNLGVMELETQ

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_1658 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1658 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	ENSTTRG00000015336	1 retrocopy	retro_ttru_1658 ,