Construct: ORF ccsbBroadEn_10398
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF009843.1_s300c1, BRDN0000397379
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SMG1P5 (595101)
Vector Information:
- Vector Backbone:
- pDONR223
- Pol II Cassette 1:
- n/a
- Pol II Cassette 2:
- n/a
- Selection Marker:
- n/a
- Visible Reporter:
- n/a
- Epitope Tag:
- n/a
Current transcripts matched by this ORF:
| Taxon | Gene | Symbol | Description | Transcript | Nuc. Match %[?]A simple nucleotide-based global alignment percentage, calculated as follows: total nt. matches ---------------------------------- aligned length (incl. gaps) |
Prot. Match %[?]A simple amino acid-based global alignment percentage, calculated as follows: total aa. matches ---------------------------------- aligned length (incl. gaps) |
Match Diffs[?]This field may contain sequence annotations in HGVS format. For more information about HGVS annotations, please refer to the HGVS Quick Reference Guide. | |
|---|---|---|---|---|---|---|---|---|
| 1 | human | 440354 | SMG1P2 | SMG1 pseudogene 2 | NR_135305.1 | 21.3% | 1_126del;205_262del;662_2231del | |
| 2 | human | 595101 | SMG1P5 | SMG1 pseudogene 5 | NR_002453.5 | 19.9% | 1_320del;798_2391del | |
| 3 | human | 440354 | SMG1P2 | SMG1 pseudogene 2 | NR_135317.1 | 11.3% | (many diffs) | |
| 4 | human | 641298 | SMG1P1 | SMG1 pseudogene 1 | NR_027154.1 | 9.3% | (many diffs) | |
| 5 | human | 100271836 | SMG1P3 | SMG1 pseudogene 3 | NR_027155.2 | 9.2% | (many diffs) | |
| 6 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | NM_015092.4 | 4.2% | 4.2% | (many diffs) |
| 7 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_011545769.3 | 4.2% | 4.2% | (many diffs) |
| 8 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_005255182.3 | 4.2% | 4.2% | (many diffs) |
| 9 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_005255183.4 | 3.6% | 3.5% | (many diffs) |
| 10 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_017023066.2 | 3.6% | 3.5% | (many diffs) |
| 11 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_005255184.4 | 2.8% | 2.7% | (many diffs) |
| 12 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_024450198.1 | 2.2% | 2.1% | (many diffs) |
| 13 | human | 23049 | SMG1 | SMG1 nonsense mediated mRNA... | XM_024450199.1 | 2.2% | 2.1% | (many diffs) |
| 14 | mouse | 233789 | Smg1 | SMG1 homolog, phosphatidyli... | XM_006507677.2 | 4.1% | 4.1% | (many diffs) |
| 15 | mouse | 233789 | Smg1 | SMG1 homolog, phosphatidyli... | NM_001031814.1 | 4.1% | 4.1% | (many diffs) |
| 16 | mouse | 233789 | Smg1 | SMG1 homolog, phosphatidyli... | XM_006507678.2 | 3.5% | 3.4% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 543
- ORF length:
- 477
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAG CCGCAGAGCC CCGGGGTCTC GGCTGAGCAG CGGCGGCACC AACTATTCGC 121 GGAGCTGGAA TGACTGGCAA CCCAGAACTG ATAGTGCATC AGCTGACCCA GGTAATTTAA 181 AATATTCTTC ATCCAGAGAT AGAGGTGGTT CTTCCTCTTA CGGACTGCAA CCTTCAAATT 241 CAGCTGTGGT GTCTCGGCAA AGGCACGATG ATACCAGAGT CCACGCTGAC ATACAGAATG 301 ACGAAAAGGG TGGCTACAGT GTCAATGGAG GATCTGGGGA AAATACTTAT GGTCGGAAGT 361 CGTTGGGGCA AGAGCTGAGG GTTAACAATG TGACCAGCCC TGAGTTCACC AGTGTTCAGC 421 ATGGCAGTCG TGCTTTAGCC ACCAAAGACA TGAGGAAATC ACAGGAGAGA TCGATGTCTT 481 ATTGTGATGA GTCTCGACTG TCAAATCTTC TTCGGAGGAT CACCCGGGAA GACGACAGAG 541 ACTGCCCAAC TTTCTTGTAC AAAGTtggca ttataagaaa gcattgctta tcaatttgtt 601 gcaacgaac