RetrogeneDB ID: retro_trub_7

Retrocopy location

• Organism: Fugu rubripes (Takifugu rubripes)
• Coordinates: scaffold_291:100103..100913(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTRUG00000001222
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NXPH1 (1 of 2)
• Ensembl ID: ENSTRUG00000008316
• Aliases: None
• Description: neurexophilin 1 [Source:HGNC Symbol;Acc:20693]

Sequence

>retro_trub_7
TCAGAAGTGCTGTTTGGTTTATTCTGTTTTTTGTTGTTTTTTTCTTTTTACCAGGTTTCAGGTGGTCAGGCCTCAAAGTC
GGATATCATCAAATCAGGAAGCCCCAAAGCGACCGTAAAGCATATATGGACAGAAAGTAGCAAAGAAATGTCGATCAGTA
GGCTGCTGTCACAGACGCTTCAGGGTAAAGAAAACACCACAGCTTTGGACCTTCGCTACGACACTCCGGAGCCATACTCC
GAGAAGGAACTCTGGGACTGGCTGAGGAACTCCACAGAGTTGCAGGAGTCTAGGTCGAGAACCAAACGGCGGCCAATGGT
CAAGACAGGAAAGTTCAAGAAGATGTTTGGCTGGGGGGACTTCCACTCTAACATCAAGACTGTCAAGCTCAACCTGTTGA
TCACAGGCAAGATCGTGGACCACGGCAATGGCACCTTCAGCGTCTACTTCCGCCACAACTCTACAGGTCAGGGGAACGTG
TCTGTCAGCTTGGTCCCTCCTACCAAGATAGTTGAGTTTGATGTTGCAGCTCAGCAGTCGGTCATTGATGTCAAGGACTC
AAAGTCCTTCAACTGTCGCGTAGAGTATGAAAAGGTGGAGAAAGGTGCCAAGAACACGCTTTGCAACTTTGATCCGTCCA
AGACCTGCTACCAGGAGCAGACCCAGAGCCACGTGTCCTGGCTCTGCTCTAAACCCTTCAAAGTTATCTGCATCTTCATT
TCCTTCTACAGCACTGACTACAAACTGGTGCAGAAAGTGTGCCCAGACTATAATTACCATAGTGACACTCCCTACTTCCC
CTCTGGTTGA

Alignment

ORF - retro_trub_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.06 %
• Parental protein coverage: 97.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLYILVNYLCRNVTGAGSGTSNLREPLKPK--LKTYWSESSRAFSISRLLAQTLYDKENFTSLDLNYDDA
          L...L.......V.G.....S.......PK...K..W.ESS...SISRLL.QTL..KEN.T.LDL.YD..
Retrocopy LFCFLLFFSFYQVSGGQASKSDIIKSGSPKATVKHIWTESSKEMSISRLLSQTLQGKENTTALDLRYDTP

Parental  DSYSKWEQWNRHYNVSSPQSPRSRTKRRPIVKTGKFKKMFGWGDFHSNIKTVKLNLLITGKIVDHGNGTF
          ..YS..E.W....N....Q..RSRTKRRP.VKTGKFKKMFGWGDFHSNIKTVKLNLLITGKIVDHGNGTF
Retrocopy EPYSEKELWDWLRNSTELQESRSRTKRRPMVKTGKFKKMFGWGDFHSNIKTVKLNLLITGKIVDHGNGTF

Parental  SVYFRHNSTGQGNVSVGLVPPTKAVEFQ-QQEKTALENKETKLFNCRVEYEKVEKGTRNSLCAHDPSQSC
          SVYFRHNSTGQGNVSV.LVPPTK.VEF...........K..K.FNCRVEYEKVEKG..N.LC..DPS..C
Retrocopy SVYFRHNSTGQGNVSVSLVPPTKIVEFDVAAQQSVIDVKDSKSFNCRVEYEKVEKGAKNTLCNFDPSKTC

Parental  PQEQTQSHISWLCSKPFKVICIFITFYSTDYKLVQKVCPDYNYHSDTPYLPTG
          .QEQTQSH.SWLCSKPFKVICIFI.FYSTDYKLVQKVCPDYNYHSDTPY.P.G
Retrocopy YQEQTQSHVSWLCSKPFKVICIFISFYSTDYKLVQKVCPDYNYHSDTPYFPSG

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_7 retrocopy.

TSS

Takifugu rubripes was not studied using FANTOM5 data.

Lab

retro_trub_7 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_trub_7 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	ENSTRUG00000008316	1 retrocopy	retro_trub_7 ,