Construct: ORF ccsbBroadEn_11593
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF013422.1_s300c1, BRDN0000393069
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- NUP42 (11097)
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 | 11097 | NUP42 | nucleoporin 42 | NM_007342.3 | 50.5% | 47.9% | (many diffs) |
| 2 | human | 11097 | NUP42 | nucleoporin 42 | NM_001370444.1 | 50.5% | 47.2% | (many diffs) |
| 3 | human | 11097 | NUP42 | nucleoporin 42 | NM_001370443.1 | 50% | 49.5% | 668_684del;690_1344del |
| 4 | human | 11097 | NUP42 | nucleoporin 42 | XR_001744548.2 | 39.5% | (many diffs) | |
| 5 | human | 11097 | NUP42 | nucleoporin 42 | XR_001744547.2 | 34.1% | (many diffs) | |
| 6 | human | 11097 | NUP42 | nucleoporin 42 | XM_005249593.4 | 22.5% | 22% | 0_1ins369;299_315del;321_975del |
| 7 | human | 11097 | NUP42 | nucleoporin 42 | XM_011515104.3 | 22.5% | 22% | 0_1ins369;299_315del;321_975del |
| 8 | human | 11097 | NUP42 | nucleoporin 42 | NM_001370445.1 | 21.7% | 19.4% | (many diffs) |
| 9 | human | 11097 | NUP42 | nucleoporin 42 | XM_017011714.2 | 21.7% | 19.4% | (many diffs) |
| 10 | human | 11097 | NUP42 | nucleoporin 42 | XM_024446647.1 | 21.7% | 19.4% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 738
- ORF length:
- 672
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGC CATTTGTCAA TTCTTCCTTC AAGGCCGGTG CCGCTTTGGA GATCGGTGCT 121 GGAACGAACA TCCCGGTGCT AGGGGTGCAG GAGGAGGACG GCAGCAACCG CAGCAGCAGC 181 CTTCAGGTAA TAATAGACGT GGATGGAATA CAACTAGCCA GAGATATTCC AATGTCATCC 241 AGCCATCCAG TTTCTCCAAA TCCACACCAT GGGGGGGCAG CAGAGATCAA GAAAAGCCAT 301 ATTTCAGTTC TTTTGATTCT GGAGCTTCAA CTAACAGGAA GGAAGGCTTT GGATTGTCTG 361 AGAACCCATT TGCTTCACTT AGTCCTGATG AGCAGAAAGA TGAAAAGAAA CTTCTGGAAG 421 GAATTGTAAA AGATATGGAG GTTTGGGAAT CATCAGGGCA GTGGATGTTT TCTGTTTATT 481 CACCAGTGAA AAAGAAACCT AATATTTCAG GTTTTACAGA CATTTCACCA GAGGAATTGA 541 GGCTTGAATA CCATAACTTC TTAACCAGCA ATAACTTACA GAGTTATCTA AATTCTGTCC 601 AACGTTTAAT AAATCAATGG AGGAACAGGG TAAATGAACT GAAAAGTCTA AATATATCAA 661 CTAAAGTAGC TTTGAAATGC CTTTGGAAGA TATATACCCA CCTGTCTCCA AAGATCTATG 721 GTCCCGACTG TGCTCTCTGC CCAACTTTCT TGTACAAAGT tggcattata agaaagcatt 781 gcttatcaat ttgttgcaac gaac