RetrogeneDB ID: | retro_tnig_23 | ||
Retrocopy location | Organism: | Tetraodon (Tetraodon nigroviridis) | |
| Coordinates: | 1:19188369..19189278(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | si:rp71-39b20.4 | ||
| Ensembl ID: | ENSTNIG00000011060 | ||
| Aliases: | None | ||
| Description: | si:rp71-39b20.4 [Source:ZFIN;Acc:ZDB-GENE-070912-704] |
Retrocopy-Parental alignment summary:
>retro_tnig_23
GACAGAGACCCCGCGGTCTTCCACCACATCTTCCATTTCTACAAAAGCGGCGTTCTATGGATCGTACGGGAGATGTGCCC
CATCCACTTGGAGGAGGAGATCGATTACTGGGGCCTGAGCCTGAAGGACACGCCGTTCTGCTGCTGGACGGTGTTCCAGG
AGAAAGTGGACGAGATTAAAGACAACCTGAAAGTGGATCTGGAGCTGAGGGCTGAGGTGGAGGTAAAGTACGATAACGAG
GGTTTCAAAAACATGCTCTTCGGGAACGTCCGGAACAGCCTGTGGGATATAGTGGAGAATCCATATTCGTCCACTCTAGC
AAAGGCCTTTAGTGTTCTTTCCAGCCTTCTGGTGCTCTTCTCCATTGTTGCAATGGCTCTCAACACTGTGAAGGAGCTTC
AGAAATACAATATTTACGGCAGAACGCACATGGAATGGGTGGAGATAATAACCATTGTTTTTTTCACCTTTGAGTATTTC
ATCCGCTTGGTCACCACTCCGAACATCAAGATGTTTCTTAAAAGTGGACTTAACTTTGTGGACATGGTGGCTGTTGTTCC
CTACTTTGTTCAGATTGTGTTTGAGGCCGTTACTGGAGTCAAGGACTTGAACCAGCAGGAAGAACGGAGGACAATGGTTC
GGATGAGCAGGGTCGGCCACGTTCTCAAAGTCGTCAAGCTGATGCGGATCTTTCGGATTCTGAAGCTGGCGCGACACTCA
ACCGGCATGAGAGCCTTCGGGTTCACCCTGCGGCAATGCTACCACCAGAGCAGCTGCATTCTTCTTTTCATCGCCATGGG
AATCTCCACGTTCTCTGCTCTCCTTTACTCAGCCGAGAGAGAAACGGAAGGATCGCCAATAAGCAGTATCCCGGACGCCT
GGTGGTGGGCTGCAGTGAGTATTAGTACC
ORF - retro_tnig_23 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.83 % |
| Parental protein coverage: | 68.16 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DRDPMFFHYIFHFYCSKVMWVMDNLCPLSFEEEMAFWGLSLKDSPRCCRILFEEKLDDIRDQLKVNRELI |
| DRDP..FH.IFHFY.S.V.W.....CP...EEE...WGLSLKD.P.CC...F.EK.D.I.D.LKV..EL. | |
| Retrocopy | DRDPAVFHHIFHFYKSGVLWIVREMCPIHLEEEIDYWGLSLKDTPFCCWTVFQEKVDEIKDNLKVDLELR |
| Parental | DEIKPHQDEEVYKSMVLGDVRRALWNLMENPYSSLSAKAFAVFSSLFVLISIVAMTMNTVEETRTYSVGG |
| .E.....D.E..K.M..G.VR..LW...ENPYSS..AKAF.V.SSL.VL.SIVAM..NTV.E...Y...G | |
| Retrocopy | AEVEVKYDNEGFKNMLFGNVRNSLWDIVENPYSSTLAKAFSVLSSLLVLFSIVAMALNTVKELQKYNIYG |
| Parental | RTYMEWIEVASILFFTLEYFLRLMTTSNITNFIKSALNFVDMVAVMPYFIQILFEAFVIDSEDVSAQEDL |
| RT.MEW.E...I.FFT.EYF.RL.TT.NI..F.KS.LNFVDMVAV.PYF.QI.FEA.V....D...QE.. | |
| Retrocopy | RTHMEWVEIITIVFFTFEYFIRLVTTPNIKMFLKSGLNFVDMVAVVPYFVQIVFEA-VTGVKDLNQQEER |
| Parental | KTMARVSKVSKVLKVVKLMRIFRILKLARHSTGMRAFGFTIRQCSEQVCCLFLFIAMGIFTFSALMHSVE |
| .TM.R.S.V..VLKVVKLMRIFRILKLARHSTGMRAFGFT.RQC..Q..C..LFIAMGI.TFSAL..S.E | |
| Retrocopy | RTMVRMSRVGHVLKVVKLMRIFRILKLARHSTGMRAFGFTLRQCYHQSSCILLFIAMGISTFSALLYSAE |
| Parental | VDQPGTPFSSIPDAWWWAAVSIST |
| ....G.P.SSIPDAWWWAAVSIST | |
| Retrocopy | RETEGSPISSIPDAWWWAAVSIST |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Tetraodon nigroviridis was not studied using RNA-Seq expression data.
Tetraodon nigroviridis was not studied using ChIP-Seq data.
Tetraodon nigroviridis was not studied using EST data.
Tetraodon nigroviridis was not studied using FANTOM5 data.
retro_tnig_23 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_tnig_23 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Tetraodon nigroviridis | ENSTNIG00000005219 | 1 retrocopy | |
| Tetraodon nigroviridis | ENSTNIG00000011060 | 1 retrocopy |
retro_tnig_23 ,
|