RetrogeneDB ID: | retro_dmel_58 | ||
Retrocopy location | Organism: | Fruit fly (Drosophila melanogaster) | |
| Coordinates: | 3L:22543420..22544971(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | FBgn0037170 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Trxr-1 | ||
| Ensembl ID: | FBgn0020653 | ||
| Aliases: | None | ||
| Description: | Thioredoxin reductase-1 [Source:FlyBase gene name;Acc:FBgn0020653] |
Retrocopy-Parental alignment summary:
>retro_dmel_58
ATGTCGACGATAAAGTTTCTGCGATCCTCCACACACAACGCACTTCGGTCCAGCCTCGGATGGTGCCGCCTTGCTGCCTC
AAGACCACGCTATGATTACGACCTTGTGGTGCTCGGCGGGGGCTCGGCGGGATTGGCGTGTGCCAAGGAGGCTGCTGGCT
GTGGAGCCCGCGTGCTCTGCTTCGACTACGTCAAGCCCACTCCAGTGGGCACCAAGTGGGGCATCGGCGGCACCTGCGTG
AATGTGGGCTGCATCCCCAAGAAGCTAATGCACCAGGCCTCGCTGCTGGGCGAGGCTGTTCACGAGGCGGTGGCCTACGG
CTGGAATGTAGACGACACGAACATACGGCCCGATTGGCGCAAGTTGGTGCGCTCCGTCCAGAACCACATCAAGTCCGTCA
ACTGGGTGACCCGCGTGGACCTGCGCGACAAAAAGGTGGAGTACGTAAATTCGATGGCCACCTTTCGCGACAGCCACACC
ATCGAGTATGTGGCGATGCCAGGTGCCGAGCACCGTCAAGTGACCTCAGAGTACGTGGTGGTAGCCGTCGGCGGGAGGCC
ACGCTACCCGGACATTCCCGGAGCCGTTGAACTGGGCATCACCAGCGACGATATATTCAGCTACGAGCGAGAGCCGGGTC
GTACCCTTGTGGTGGGCGCCGGATACGTGGGTCTCGAGTGCGCCTGTTTCCTTAAGGGTCTCGGCTACGAGCCCACTGTC
ATGGTGCGCTCCATTGTGCTGCGCGGCTTCGATCGCCAGATGTCCGAGCTGCTGGCCGCCATGATGACTGAGCGCGGCAT
TCCCTTCCTGGGCACCACAATCCCCAAGGCCGTGGAGAGGCAGGCGGACGGACGGCTGCTAGTTCGGTACCGCAACACAA
CCACCCAAATGGACGGCAGCGACGTTTTCGACACCGTGCTGTGGGCCATTGGGCGCAAAGGTCTCATCGAGGACCTCAAC
CTGGACGCCGCCGGAGTGAAGACTCATGACGACAAGATTGTGGTAGACGCCGCGGAGGCCACCAGCGTGCCTCATATATT
TGCAGTTGGGGACATCATATATGGTCGACCAGAGCTAACGCCGGTGGCCATCCTGTCGGGCCGCCTGCTTGCCAGGCGTC
TGTTCGCCGGCTCCACGCAGCTGATGGACTATGCCGACGTGGCAACCACAGTTTTTACTCCGCTAGAATACAGTTGCGTC
GGCATGTCGGAGGAAACGGCCATCGAACTGCGTGGTGCTGACAACATCGAGGTCTTCCACGGCTACTACAAGCCCACAGA
GTTCTTTATTCCCCAGAAGAGCGTGCGTCACTGCTACCTCAAGGCCGTAGCCGAAGTGTCCGGGGACCAGAAGATCCTTG
GCCTGCACTACATCGGCCCAGTCGCCGGCGAGGTCATCCAGGGCTTCGCCGCAGCCCTCAAGACCGGCTTGACCGTAAAG
ACGCTTCTGAACACGGTGGGAATCCACCCCACCACCGCCGAAGAGTTCACCCGGCTGTCAATCACCAAGCGATCTGGTCG
GGATCCTACACCAGCCTCCTGTTGCAGTTAG
ORF - retro_dmel_58 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.91 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAPVQGSYDYDLIVIGGGSAGLACAKEAVLNGARVACLDFVKPTPTLGTKWGVGGTCVNVGCIPKKLMHQ |
| .A.....YDYDL.V.GGGSAGLACAKEA...GARV.C.D.VKPTP..GTKWG.GGTCVNVGCIPKKLMHQ | |
| Retrocopy | LAASRPRYDYDLVVLGGGSAGLACAKEAAGCGARVLCFDYVKPTP-VGTKWGIGGTCVNVGCIPKKLMHQ |
| Parental | ASLLGEAVHEAAAYGWNVDE-KIKPDWHKLVQSVQNHIKSVNWVTRVDLRDKKVEYINGLGSFVDSHTL- |
| ASLLGEAVHEA.AYGWNVD...I.PDW.KLV.SVQNHIKSVNWVTRVDLRDKKVEY.N....F.DSHT.. | |
| Retrocopy | ASLLGEAVHEAVAYGWNVDDTNIRPDWRKLVRSVQNHIKSVNWVTRVDLRDKKVEYVNSMATFRDSHTIE |
| Parental | -LAKLKSGERTITAQTFVIAVGGRPRYPDIPGAVEYGITSDDLFSLDREPGKTLVVGAGYIGLECAGFLK |
| ..A......R..T....V.AVGGRPRYPDIPGAVE.GITSDD.FS..REPG.TLVVGAGY.GLECA.FLK | |
| Retrocopy | YVAMPGAEHRQVTSEYVVVAVGGRPRYPDIPGAVELGITSDDIFSYEREPGRTLVVGAGYVGLECACFLK |
| Parental | GLGYEPTVMVRSIVLRGFDQQMAELVAASMEERGIPFLRKTVPLSVEKQDDGKLLVKYKNVETGEEAEDV |
| GLGYEPTVMVRSIVLRGFD.QM.EL.AA.M.ERGIPFL..T.P..VE.Q.DG.LLV.Y.N..T.....DV | |
| Retrocopy | GLGYEPTVMVRSIVLRGFDRQMSELLAAMMTERGIPFLGTTIPKAVERQADGRLLVRYRNTTTQMDGSDV |
| Parental | YDTVLWAIGRKGLVDDLNLPNAGVTVQKDKIPVDSQEATNVANIYAVGDIIYGKPELTPVAVLAGRLLAR |
| .DTVLWAIGRKGL..DLNL..AGV....DKI.VD..EAT.V..I.AVGDIIYG.PELTPVA.L.GRLLAR | |
| Retrocopy | FDTVLWAIGRKGLIEDLNLDAAGVKTHDDKIVVDAAEATSVPHIFAVGDIIYGRPELTPVAILSGRLLAR |
| Parental | RLYGGSTQRMDYKDVATTVFTPLEYACVGLSEEDAVKQFGADEIEVFHGYYKPTEFFIPQKSVRYCYLKA |
| RL..GSTQ.MDY.DVATTVFTPLEY.CVG.SEE.A....GAD.IEVFHGYYKPTEFFIPQKSVR.CYLKA | |
| Retrocopy | RLFAGSTQLMDYADVATTVFTPLEYSCVGMSEETAIELRGADNIEVFHGYYKPTEFFIPQKSVRHCYLKA |
| Parental | VAERHGDQRVYGLHYIGPVAGEVIQGFAAALKSGLTINTLINTVGIHPTTAEEFTRLAITKRSGLDPTPA |
| VAE..GDQ...GLHYIGPVAGEVIQGFAAALK.GLT..TL.NTVGIHPTTAEEFTRL.ITKRSG.DPTPA | |
| Retrocopy | VAEVSGDQKILGLHYIGPVAGEVIQGFAAALKTGLTVKTLLNTVGIHPTTAEEFTRLSITKRSGRDPTPA |
| Parental | SCCS |
| SCCS | |
| Retrocopy | SCCS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Drosophila melanogaster was not studied using RNA-Seq expression data.
Drosophila melanogaster was not studied using ChIP-Seq data.
10 EST(s) were mapped to retro_dmel_58 retrocopy
| EST ID | Start | End | Identity | Match | Mis-match | Score |
|---|---|---|---|---|---|---|
| BE975157 | 22543366 | 22543921 | 100 | 555 | 0 | 555 |
| BE978309 | 22544174 | 22544326 | 98.1 | 149 | 3 | 146 |
| BF490677 | 22543346 | 22543860 | 99.5 | 511 | 3 | 508 |
| BF491478 | 22543343 | 22543954 | 100 | 611 | 0 | 611 |
| BF491489 | 22543325 | 22544010 | 99.9 | 684 | 1 | 683 |
| BF493128 | 22543348 | 22544041 | 99.9 | 692 | 1 | 691 |
| BF500785 | 22543350 | 22544066 | 99.5 | 712 | 4 | 708 |
| BF503426 | 22543356 | 22544064 | 99.5 | 704 | 4 | 700 |
| BG634118 | 22543362 | 22543814 | 98.7 | 446 | 6 | 440 |
| CK657069 | 22543349 | 22544039 | 100 | 690 | 0 | 690 |
Drosophila melanogaster was not studied using FANTOM5 data.
retro_dmel_58 was not experimentally validated.
Retrocopy orthology:
Drosophila melanogaster 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.Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gorilla gorilla | ENSGGOG00000001980 | 1 retrocopy | |
| Drosophila melanogaster | FBgn0020653 | 1 retrocopy |
retro_dmel_58 ,
|