Imaging Intron Evolution
Abstract
:1. Introduction
2. Material and Methods
3. Results
3.1. The TEs
3.2. Human/Mouse Alignments
3.3. Human/Chicken Alignments
3.4. Human/Zebrafish Alignments
3.5. Human/Xenopus Alignments
3.6. Zebrafish/Chicken Alignments
3.7. Zebrafish/Xenopus Alignments
3.8. Chicken/Xenopus Alignments
3.9. Global Analysis of the SLC25A21 and GHR Conservation in Vertebrates
3.10. Differences among Species
3.11. Repeats in Introns of Human SLC25A21 and GHR
3.12. Exon Nucleotide and Amino Acid Conservation in SLC25A21 and GHR (Zebrafish/Human)
4. Discussion
5. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Transcript | Exons | Sequence ID | mRNA | ||
---|---|---|---|---|---|
mRNA | Nucleotides | ||||
SLC25A21 | Human | Variant 1 | 10 | NM_030631.4 | 900 |
SLC25A21 | Mouse | Variant 2 | 10 | NM_001167976.1 | 918 |
SLC25A21 | Chicken | Variant X2 | 11 | XM_025150918.1 | 1002 |
SLC25A21 | Zebrafish | ----------- | 10 | NM_001076632.1 | 897 |
SLC25A21 | Xenopus | ----------- | 10 | NM_001017069.2 | 900 |
GHR | Human | Variant 2 | 9 | NC_000005.10 | 1938 |
GHR | Mouse | Variant 4 | 10 | NM_001286370.1 | 1953 |
GHR | Chicken | ----------- | 8 | NM_001001293.1 | 1827 |
GHR | Zebrafish | ----------- | 8 | NM_001083578.1 | 1713 |
GHR | Xenopus | ----------- | 9 | XM_002933047.4 | 1866 |
Chromosome | Sequence ID | FROM | TO | ||
---|---|---|---|---|---|
Genomic | |||||
SLC25A21 | Human | 14 | NC_000014.9 | 36,680,658 | 37,172,350 |
SLC25A21 | Mouse | 12 | NC_000078.7 | 56,760,598 | 57,206,029 |
SLC25A21 | Chicken | 5 | NC_006092.5 | 36,947,211 | 37,178,401 |
SLC25A21 | Zebrafish | 17 | NC_007128.7 | 38,030,627 | 38,232,040 |
SLC25A21 | Xenopus | 8 | NC_030684.2 | 108,640,883 | 108,828,890 |
GHR | Human | 5 | NC_000005.10 | 42,424,589 | 42,719,424 |
GHR | Mouse | 15 | NC_000081.7 | 3,349,224 | 3,487,481 |
GHR | Chicken | Z | NC_006127.5 | 13,495,919 | 13,558,411 |
GHR | Zebrafish | 8 | NC_007119.7 | 31,465,534 | 31,571,560 |
GHR | Xenopus | 1 | NC_030677.2 | 195,152,927 | 195,320,257 |
Total | Intronic | Transposable | Intronic | ||
---|---|---|---|---|---|
nt | nt | Elements % | Non-TE nt | ||
SLC25A21 | Human | 491,693 | 490,793 | 39.24 | 298,209 |
SLC25A21 | Mouse | 445,432 | 444,514 | 33.33 | 296,350 |
SLC25A21 | Chicken | 231,191 | 230,189 | 12.97 | 200,341 |
SLC25A21 | Zebrafish | 201,414 | 200,517 | 49.02 | 102,233 |
SLC25A21 | Xenopus | 188,008 | 187,108 | 41.23 | 109,972 |
GHR | Human | 294,836 | 292,898 | 44.09 | 163,758 |
GHR | Mouse | 138,258 | 136,305 | 34.14 | 89,777 |
GHR | Chicken | 62,493 | 60,666 | 15.05 | 51,537 |
GHR | Zebrafish | 106,027 | 104,314 | 74.84 | 26,244 |
GHR | Xenopus | 167,331 | 165,465 | 43.06 | 94,223 |
2,312,769 | 1,432,644 |
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Panaro, M.A.; Calvello, R.; Miniero, D.V.; Mitolo, V.; Cianciulli, A. Imaging Intron Evolution. Methods Protoc. 2022, 5, 53. https://doi.org/10.3390/mps5040053
Panaro MA, Calvello R, Miniero DV, Mitolo V, Cianciulli A. Imaging Intron Evolution. Methods and Protocols. 2022; 5(4):53. https://doi.org/10.3390/mps5040053
Chicago/Turabian StylePanaro, Maria Antonietta, Rosa Calvello, Daniela Valeria Miniero, Vincenzo Mitolo, and Antonia Cianciulli. 2022. "Imaging Intron Evolution" Methods and Protocols 5, no. 4: 53. https://doi.org/10.3390/mps5040053