Construct: ORF ccsbBroadEn_06689
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF010606.1_s300c1, BRDN0000397687
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PAX3 (5077)
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 | 5077 | PAX3 | paired box 3 | NM_013942.5 | 99.5% | 99.5% | 129T>C;164T>N;171C>T |
| 2 | human | 5077 | PAX3 | paired box 3 | NM_000438.6 | 93.9% | 91.6% | (many diffs) |
| 3 | human | 5077 | PAX3 | paired box 3 | NM_181461.4 | 49.9% | 48.8% | (many diffs) |
| 4 | human | 5077 | PAX3 | paired box 3 | NM_181460.4 | 49.4% | 48.4% | (many diffs) |
| 5 | human | 5077 | PAX3 | paired box 3 | NM_181457.4 | 42% | 41.1% | (many diffs) |
| 6 | human | 5077 | PAX3 | paired box 3 | NM_181458.4 | 41.5% | 40.7% | (many diffs) |
| 7 | human | 5077 | PAX3 | paired box 3 | NM_001127366.3 | 41.3% | 40.4% | (many diffs) |
| 8 | human | 5077 | PAX3 | paired box 3 | NM_181459.4 | 39.8% | 39% | (many diffs) |
| 9 | mouse | 18505 | Pax3 | paired box 3 | NM_008781.4 | 38.6% | 41.1% | (many diffs) |
| 10 | mouse | 18505 | Pax3 | paired box 3 | NM_001159520.1 | 38.2% | 40.7% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 684
- ORF length:
- 618
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAC CACGCTGGCC GGCGCTGTGC CCAGGATGAT GCGGCCGGGC CCGGGGCAGA 121 ACTACCCGCG TAGCGGGTTC CCGCTGGAAG TGTCCACTCC CCTCGGCCAG GGCCGCGTCA 181 ACCAGCTCGG CGGCGTTTTT ATCAACGGCA GGCCGCTGCC CAACCACANC CGCCATAAGA 241 TCGTGGAGAT GGCCCACCAC GGCATCCGGC CCTGCGTCAT CTCGCGCCAG CTGCGCGTGT 301 CCCACGGCTG CGTCTCCAAG ATCCTGTGCA GGTACCAGGA GACTGGCTCC ATACGTCCTG 361 GTGCCATCGG CGGCAGCAAG CCCAAGCAGG TGACAACGCC TGACGTGGAG AAGAAAATTG 421 AGGAATACAA AAGAGAGAAC CCGGGCATGT TCAGCTGGGA AATCCGAGAC AAATTACTCA 481 AGGACGCGGT CTGTGATCGA AACACCGTGC CGTCAGTGAG TTCCATCAGC CGCATCCTGA 541 GAAGTAAATT CGGGAAAGGT GAAGAGGAGG AGGCCGACTT GGAGAGGAAG GAGGCAGAGG 601 AAAGCGAGAA GAAGGCCAAA CACAGCATCG ACGGCATCCT GAGCGAGCGA GGAAAGGCCC 661 TGGTCTCCGG AGTTTCCTCG CATTACCCAA CTTTCTTGTA CAAAGTtggc attataagaa 721 agcattgctt atcaatttgt tgcaacgaac