RetrogeneDB ID: retro_trub_11

Retrocopy location

• Organism: Fugu rubripes (Takifugu rubripes)
• Coordinates: scaffold_163:225298..226132(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTRUG00000006789
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: PURG
• Ensembl ID: ENSTRUG00000012152
• Aliases: None
• Description: None

Sequence

>retro_trub_11
ATGGCGGACAGAGACAGTGGCAGTGACCACGGAGGACCCACCGGAGGCCCCGGCTCGCTGCCCGCGGGCGCGATGGGTGC
CATGTCCCGGCTGCAGCACGATACCGAAGAGCTGGCTTCAAAACGCGTCGACATTCAGAACAAACGCTTCTACATAGACG
TGAAGCAGAATGTTAAAGGCCGCTTCCTAAAGATAGCCGAGGTCGGCGCTGGTGGAAATAAGAGCCGCCTCACTCTCTCT
ATGTCGGTTGCCGTGGAGTTCCGCGATTATCTTGGGGATTTTATCGAGCATTACGCTCAGCTGGGCCCGACCAACCCGGA
CATTGTGCAGGATGAGCCCCGGCGGGCACTCAAGAGCGAATTCCTTGTGCGCGAAAATCGGAAATATTACATGGATCTGA
AAGAGAACCAGAGGGGGCGGTTCCTGAGGATCCGGCAGACCGTTAATCGGGGCCCCGGATTGGGAAGCGCGCAAGGCCAG
ACCATCGCTCTGCCGGCCCAGGGTCTCATCGAATTCCGCGACGCTTTGGCCAAACTCATCGACGACTACGGGGTGGACGA
GGAGCCGGCGGAGCTGCCGGAGGGCACCTCGTTCACCGTCGACAACAAGCGCTTCTTCTTTGACGTCGGCTCCAACAAGT
ACGGGGTCTTCATGCGGGTCAGCGAGGTGAAGCCCACGTACCGGAACTCCATCACGGTTCCGTGCAAAGTGTGGTCCAGA
TTCGGCAACACCTTCTGCAAGTACGCAGAGGAGATGAAGAAGATCCATGAGAGGAGTAGAGAGAAGCGGGCCTCTGAACT
GCTACCTGAGGGCTCGCACGGCGAAGAGGACTGA

Alignment

ORF - retro_trub_11 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.89 %
• Parental protein coverage: 77.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KSKLTLSMSMAPALRYCLGDFIDYYARIGPTCSAASDDHSHRVLKSEFIERDNRKYFLDLKENQRGRFLR
          KS.LTLSMS.A...R..LGDFI..YA..GPT......D...R.LKSEF..R.NRKY..DLKENQRGRFLR
Retrocopy KSRLTLSMSVAVEFRDYLGDFIEHYAQLGPTNPDIVQDEPRRALKSEFLVRENRKYYMDLKENQRGRFLR

Parental  IRQTVNKGHGTMGYYGQGIEQTIVLPAQGLIEFRDALSQLIEDYGDDDHPA-LPEAASFRVDNKRFYFDV
          IRQTVN.G.G.....GQ....TI.LPAQGLIEFRDAL..LI.DYG.D..PA.LPE..SF.VDNKRF.FDV
Retrocopy IRQTVNRGPGLGSAQGQ----TIALPAQGLIEFRDALAKLIDDYGVDEEPAELPEGTSFTVDNKRFFFDV

Parental  GSNRYGIFLKISEVRQPYRNTITVPLKAWARFGENFIKYEEEMRRIFSCHKEKR
          GSN.YG.F...SEV...YRN.ITVP.K.W.RFG..F.KY.EEM..I.....EKR
Retrocopy GSNKYGVFMRVSEVKPTYRNSITVPCKVWSRFGNTFCKYAEEMKKIHERSREKR

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Takifugu rubripes was not studied using RNA-Seq expression data.

ChIP-Seq

Takifugu rubripes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_trub_11 retrocopy.

TSS

Takifugu rubripes was not studied using FANTOM5 data.

Lab

retro_trub_11 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_trub_11 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Takifugu rubripes	ENSTRUG00000012152	1 retrocopy	retro_trub_11 ,