RetrogeneDB ID: retro_ttru_1324

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_110490:89228..89775(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PYCRL
• Ensembl ID: ENSTTRG00000015176
• Aliases: None
• Description: pyrroline-5-carboxylate reductase-like [Source:HGNC Symbol;Acc:25846]

Sequence

>retro_ttru_1324
CTCATCCGAACAGGAAAAGCCGAGGCTCAGCCCACACTGACCAGCACGCAGACAGACAGGAACCTCAGCCACTTCCCAGC
CCCTGGCTGCCAGACCACCCATTCCAGCCGGGAGGTGCTGCAGAGCTGCTCCCATTGCCACCAACCCGACATCCTGCAGA
CCGGCCTGGCGGACACGGCTCCCGTGGTCACCGCGAGCACAGGCTGATGTCCGTGGGCGCCGGGGTCTCTCGCAGCACCT
GGAGGAGCTGCTGCCCCAGACCCCGCGAGTGCTGCCGGTAGGCTCGTCCAACCTGCTCTGAGTAGCCTAGGAGGGGGCCG
TGGTGGGGAAGCAGGGCCGCCACTCCAGGAGCAACAAGCCCCGGCTCCTGCGGACCCTAATGGGGGCCTGCGGGCCGGGG
GAGGAGGTGTCCCAGGCCCCCGTGGACGTCCTCACCCGCCTCAGGAGCAGCGGCGCTCTGTGTGCGCCTCCTGAGGCCTT
GGCCGAAGGTGCCATCGAGCTGAGCATGCCCAGTGGCCTGGCCCACCGCCTTGCTGCTTAGACCCTG

Alignment

ORF - retro_ttru_1324 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60. %
• Parental protein coverage: 73.62 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LIQAGKVEAQHVLASAPTDRNLCRFRALGCQTSHSNREVLQSCSLVFFATKPHILPAVLVEVAPVVTA-E
          LI..GK.EAQ..L.S..TDRNL..F.A.GCQT.HS.REVLQSCS.......P.IL...L...APVVTA.E
Retrocopy LIRTGKAEAQPTLTSTQTDRNLSHFPAPGCQTTHSSREVLQSCS---HCHQPDILQTGLADTAPVVTA<E

Parental  HILVSVAAGVSLST-LEELLPPMARVLRV-SPNLPCVVQEGAMVMARGRHAGSGEAGLLRTLLEACGQCE
          H.L.SV.AGVS.ST.LEELLP...RVL.V.S.NL..V..EGA.V...GRH..S....LLRTL..ACG..E
Retrocopy HRLMSVGAGVSRST<LEELLPQTPRVLPVGSSNLL*VA*EGAVVGKQGRHSRSNKPRLLRTLMGACGPGE

Parental  EVPEAQVDVHTGLSGSGVAFVCAFSEALAEGAIKMGMPSGLAHRIAAQTL
          EV..A.VDV.T.L..SG....CA..EALAEGAI...MPSGLAHR.AA.TL
Retrocopy EVSQAPVDVLTRLRSSGA--LCAPPEALAEGAIELSMPSGLAHRLAA*TL

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_1324 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1324 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	ENSTTRG00000015176	1 retrocopy	retro_ttru_1324 ,