RetrogeneDB ID: | retro_tnig_3 | ||
Retrocopy location | Organism: | Tetraodon (Tetraodon nigroviridis) | |
| Coordinates: | 11:7439485..7440466(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSTNIG00000000015 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | neurod | ||
| Ensembl ID: | ENSTNIG00000003533 | ||
| Aliases: | None | ||
| Description: | neurogenic differentiation [Source:ZFIN;Acc:ZDB-GENE-990415-172] |
Retrocopy-Parental alignment summary:
>retro_tnig_3
ATGATCAAACCGTACGTGAGACAAAGTGAGGAAGAGGAGGTGGCTGGCCCTCAGCAGTGGATGGACGGGGACGTGAGCTC
GCCCGACGGAGGCACGGCCGTCCCGCCGCACCGCTACCGAGCGGGTGGAGGGAGCCAACAGGCCCCGGAGATGGGCAGCG
AGGACGCCGAGGAAGAGGAGGAAGACGAAGAGGCCCAGGGCGACGAGGGCGAGTCCAAACGGCGAGGGCCCAAGAAAAAG
CGCATGACCAAGGCCCGTGTGGAGCGGTTCCGCGCCCGGCGCATCAAGGCCAACGCTCGGGAGCGCTCGCGCATGCACGG
TTTGAACGACGCGCTGGAGAACCTGCGCAGCATCATGCCCTGCCACTCCAAGACACAGAAACTGTCCAAGATCGAGACCT
TACGGCTGGCCCGCAACTACATCTGCGCCCTGTCCGAGGCCCTGGAGGCGGGGCTCTCCACCGAGAGCAGGGCCTTCATG
GAGACGCTGTGCAAGGGCCTCTCGCAGCCCACCACCAACCTGGTGGCCGGCTGCTTGCAGATGGCGCCCGCCCCTGGAGC
AGGCAACAGGCCCGAGGACAGACCCAGAGCCCGGGCTCCTCATGCTCCTCTGGGCGTGGTCAGCTACGCCTCCCCGGGCC
TGCCGAGTCCACCGTACGGCACTTTTGACTCTGCTCACCTGCTGCACCTCAGGGCCATGAAGGGGGGGGTGTATGAGAAC
CCCTCGCCCAGCGACTACAACTCCGGCCTGGGGACGCCTCCGTACGACGGACCCCCGACGCCGCCGCTCAGCATCAGCAC
CAACGCAGTCCCCAAACAGGAGCCGTCCCCACACTACCCACCACCACACCACTACTCGCCCTCCCCCGTGGAGCAGGACA
TGTATCAGACAGGCTACGACGTGCACCTGGAGGCGTCCTACGACACCTATCACCCGCCCTCATTGCCCCCCCGACAGATA
ACCTCCATCTACAGAGACTGA
ORF - retro_tnig_3 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.21 % |
| Parental protein coverage: | 69.51 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EEQQESENKPKRRGPKKKKMTKARLQRFKVRRMKANARERNRMHGLNDALESLRKVVPCYSKTQKLSKIE |
| EE.Q..E...KRRGPKKK.MTKAR..RF..RR.KANARER.RMHGLNDALE.LR...PC.SKTQKLSKIE | |
| Retrocopy | EEAQGDEGESKRRGPKKKRMTKARVERFRARRIKANARERSRMHGLNDALENLRSIMPCHSKTQKLSKIE |
| Parental | TLRLAKNYIWALSEVLRSGKAPDLMSFVQVLCKGLSQPTTNLVAGCLQLNPRTFLPEQTPDLPTHLPPAG |
| TLRLA.NYI.ALSE.L..G.......F...LCKGLSQPTTNLVAGCLQ..P.........D.P....P.. | |
| Retrocopy | TLRLARNYICALSEALEAGLSTESRAFMETLCKGLSQPTTNLVAGCLQMAPAPGAGNRPEDRPRARAPHA |
| Parental | AVAYPAHFPFQSPGLTAGLPSPPYGTMEPSHIFH--QVKGQSYGALEPFFDSVLLSDGPAFDPPLSPPLS |
| ...........SPGL....PSPPYGT....H..H....KG..Y....P......L...P..D.P..PPLS | |
| Retrocopy | PLGVVSY---ASPGL----PSPPYGTFDSAHLLHLRAMKGGVYENPSPSDYNSGLGTPP-YDGPPTPPLS |
| Parental | INGN |
| I..N | |
| Retrocopy | ISTN |
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_3 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_tnig_3 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Tetraodon nigroviridis | ENSTNIG00000003533 | 1 retrocopy |
retro_tnig_3 ,
|