RetrogeneDB ID: | retro_trub_27 | ||
Retrocopy location | Organism: | Fugu rubripes (Takifugu rubripes) | |
| Coordinates: | scaffold_18:1398020..1398872(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSTRUG00000011102 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FZD4 | ||
| Ensembl ID: | ENSTRUG00000006345 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_trub_27
CCATCCAAGTTCCATTTTGTGGAGAAAAGTGAATCCTGCGCTCCAAAATGTTACCCCAGAGTGGACGTGTACTGGAGCCA
GGGAGACAAGCAGTTCTCTCTCGTGTGGATAGCCATCTGGTCGATCCTCTGCTTCGTCTCCAGTGCTTTCACTGTGCTCA
CTTTTCTTATTGACCCACAGCGGTTTAAATACCCAGAGCGACCAATCATCTTTCTATCTATGTCCTACTGCGTTTATTCC
GTAGGTTACCTCATTCGACTGTTTGTGGGGGCCGAGGGCATAGCATGCGACAGAGACAATGGGGTACAGTACATTATCCA
GGAGGGCCTGGAAAGCACCGGCTGCACAATTGTGTTCCTCATTTTGTATTATTTTGGCATGGCTAGTTCCCTCTGGTGGG
TTATCCTGACGCTTACATGGTTCCTGGCTGCAGGGAAGAAGTGGGGTCACGAGGCCATAGAAGCCAACAGCAGCTACTTC
CACCTGGCGGCGTGGGCCATCCCAGCCGTGAAAACCATCATGATCTTGGTGATGCGGAAGGTGGCAGGGGATGAGCTGAC
AGGGATCTGCTATGTGGGCAGCATGGACGTCAAAGCTCTGACGGGCTTTGTACTCATCCCCCTCTCTTGTTATTTGATCA
TCGGCACTTCGTTCCTGTTGTCCGGATTTGTGGCTCTCTTTCACATCCGAAAGATCATGAAAACAGAAGGCGAGAACACC
GATAAACTGGAGAAGCTGATGGTCCGCATTGGTGTCTTCTCTGTGCTTTACACTGTTCCCGCCACCTGTGTCATCGCCTG
CTACTTCTACGAGAGGCTCAACATGGACTACTGGCACATCGTTGCGGAAGAG
ORF - retro_trub_27 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.54 % |
| Parental protein coverage: | 55.8 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PDQYIWLKQTESCTLQCGYDSGLY-RRGTKVFTDAWMAVWAVLCFLSTTLTVLTFVLDSQRFSYPERPII |
| P.........ESC...C......Y...G.K.F...W.A.W..LCF.S...TVLTF..D.QRF.YPERPII | |
| Retrocopy | PSKFHFVEKSESCAPKCYPRVDVYWSQGDKQFSLVWIAIWSILCFVSSAFTVLTFLIDPQRFKYPERPII |
| Parental | FLSMCCNLYSVAYLVRWTLGREHVSCDLEATAVPVLVQEGLKSTGCAIVFLLLYFFGMASSLWWVILTLT |
| FLSM....YSV.YL.R...G.E...CD.....V....QEGL.STGC.IVFL.LY.FGMASSLWWVILTLT | |
| Retrocopy | FLSMSYCVYSVGYLIRLFVGAEGIACDRD-NGVQYIIQEGLESTGCTIVFLILYYFGMASSLWWVILTLT |
| Parental | WFLAAGLKWGHEAIEMHSSYFHIAAWAIPAVKTIVILIMRLVDADDLTGLCYVGNQQQEALIGFVVAPLA |
| WFLAAG.KWGHEAIE..SSYFH.AAWAIPAVKTI.IL.MR.V..D.LTG.CYVG.....AL.GFV..PL. | |
| Retrocopy | WFLAAGKKWGHEAIEANSSYFHLAAWAIPAVKTIMILVMRKVAGDELTGICYVGSMDVKALTGFVLIPLS |
| Parental | TYLLLGTLFICAGLVALFRIRSNLQKDGAKTDKLERLMVKIGVFSVLYTVPASTVIGCYIYQLAHWGEFN |
| .YL..GT.F...G.VALF.IR......G..TDKLE.LMV.IGVFSVLYTVPA..VI.CY.Y......... | |
| Retrocopy | CYLIIGTSFLLSGFVALFHIRKIMKTEGENTDKLEKLMVRIGVFSVLYTVPATCVIACYFYERLNMDYWH |
| Parental | TIPQD |
| ..... | |
| Retrocopy | IVAEE |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Takifugu rubripes was not studied using RNA-Seq expression data.
Takifugu rubripes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_trub_27 retrocopy.
Takifugu rubripes was not studied using FANTOM5 data.
retro_trub_27 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_trub_27 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gadus morhua | ENSGMOG00000014266 | 1 retrocopy | |
| Takifugu rubripes | ENSTRUG00000006345 | 2 retrocopies |
retro_trub_27 , retro_trub_45,
|