Construct: ORF ccsbBroadEn_03431
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF006542.1_s300c1, BRDN0000397248
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- SHLD2 (54537)
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 | 54537 | SHLD2 | shieldin complex subunit 2 | NM_019054.3 | 100% | 100% | |
| 2 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_017016352.2 | 93.7% | 93% | (many diffs) |
| 3 | human | 54537 | SHLD2 | shieldin complex subunit 2 | NM_001330112.2 | 92.3% | 92.3% | 1962_2168del |
| 4 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_006717903.4 | 87.7% | 87.6% | 1526_1669del;2106_2312del |
| 5 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_006717905.3 | 87.7% | 87.6% | 1526_1669del;2106_2312del |
| 6 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_011539877.2 | 87.7% | 87.6% | 1526_1669del;2106_2312del |
| 7 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_011539878.2 | 87.7% | 87.6% | 1526_1669del;2106_2312del |
| 8 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_011539879.2 | 87.7% | 87.6% | 1526_1669del;2106_2312del |
| 9 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_017016350.1 | 87.7% | 87.6% | 1526_1669del;2106_2312del |
| 10 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_017016349.1 | 85.1% | 85% | 1_87del;1613_1756del;2193_2399del |
| 11 | human | 414241 | SHLD2P1 | shieldin complex subunit 2 ... | NR_027632.1 | 74.8% | (many diffs) | |
| 12 | human | 439965 | SHLD2P3 | shieldin complex subunit 2 ... | NR_027634.1 | 74.7% | (many diffs) | |
| 13 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_017016353.2 | 58.2% | 58.2% | 477_478ins1047 |
| 14 | human | 54537 | SHLD2 | shieldin complex subunit 2 | XM_005269920.4 | 53.7% | 53.7% | 477_478ins1047;915_1121del |
| 15 | human | 439965 | SHLD2P3 | shieldin complex subunit 2 ... | NR_160660.1 | 37.4% | (many diffs) | |
| 16 | human | 439965 | SHLD2P3 | shieldin complex subunit 2 ... | NR_160661.1 | 35.3% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2571
- ORF length:
- 2505
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGAG TGGAGGATCT CAAGTCCACA TTTTTTGGGG TGCTCCAATT GCTCCACTGA 121 AAATCACAGT ATCAGAAGAC ACAGCTTCTT TAATGTCTGT TGCTGACCCC TGGAAAAAAA 181 TTCAGCTTTT ATACAGTCAA CATTCTTTAT ATCTGAAGGA TGAAAAACAG CACAAAAATC 241 TTGAAAACTA TAAAGTCCCA GAATCTATTG GTTCTCCAGA TCTTAGTGGT CATTTCTTAG 301 CAAACTGTAT GAATAGACAT GTTCATGTGA AAGATGACTT TGTACGTTCT GTTTCTGAAA 361 CACAGAATAT AGAATCCCAG AAGATTCACT CCTCTAGACT GAGTGATATA ACTAGCTCTA 421 ATATGCAAAT ATGTGGATTT AAAAGCACAG TTCCGCATTT CACCGAAGAA GAAAAGTATC 481 AAAAGCTTCT CAGTGAAAAT AAAATTAGAG ATGAACAGCC TAAACATCAG CCAGATATAT 541 GTGGTAAGAA CTTTAACACA AATTTGTTTC AGTTGGGCCA TAAATGTGCA GCTGTGTTGG 601 ATTTGGTTTG TAGTACTGAA AAAATTAATA TAGGGCCTGA AGTGGTACAA AGAGAGTGTG 661 TGCCAACAGA ATATCATGAA ATACAAAACC AGTGTTTGGG ATTATTTTCC TCGAACGCAG 721 TAGATAAGTC AAGGTCTGAA GCAGCAGTTA GGAAGGTCTC AGACCTTAAA ATATCAACTG 781 ATACAGAATT TCTCAGTATA ATTACCTCCA GCCAGGTTGC TTTTTTAGCT CAAAAGAAAG 841 ATAAAAGGCG GAGTCCTGTA AATAAAGGGA ATGTAAACAT GGAGACTGAA CCAAAGGCAA 901 GTTACGGGGA GATAAGAATA CCTGAAGAGA ATTCGATTCA GCTTGATGGT TTTACAGAAG 961 CATATGAAAG TGGACAAAAC CAAGCATATT CCCTTGAACT TTTTAGTCCT GTTTGTCCTA 1021 AAACAGAAAA TAGCCGCATT CACATAAACT CTGATAAAGG TCTTGAAGAA CATACAGGAT 1081 CTCAAGAACT TTTCAGTTCT GAAGATGAAC TGCCACCAAA TGAGATACGT ATTGAGTTGT 1141 GTAGCTCAGG AATACTGTGT TCCCAACTAA ATACCTTCCA CAAAAGTGCT ATTAAAAGAA 1201 GCTGTACCTC TGAAGATAAA GTGGGCCAGT CTGAAGCTCT ATCTAGAGTC CTTCAAGTAG 1261 CTAAGAAAAT GAAGTTGATT TCTAATGGAG GAGATTCTGC TGTAGAAATG GATCGGAGAA 1321 ATGTGTCTGA ATTTAAGAGT ATTAAAAAAA CATCATTAAT AAAAAACTGT GATTCTAAAA 1381 GCCAGAAGTA TAATTGTTTA GTCATGGTGC TATCTCCATG CCATGTGAAG GAAATAAACA 1441 TAAAATTCGG ACCAAATTCT GGCTCTAAAG TGCCTTTAGC AACAGTTACA GTAATTGATC 1501 AATCAGAAAC TAAGAAGAAG GTTTTTCTGT GGAGGACTGC AGCATTTTGG GCATTTACAG 1561 TGTTTCTTGG AGATATAATT TTACTCACAG ATGTTGTTAT TCATGAGGAC CAATGGATTG 1621 GCGAGACAGT ACTACAATCA ACATTTAGCA GTCAGTTATT AAATCTTGGG AGTTATTCAT 1681 CTATTCAGCC TGAAGAATAT TCCAGTGTAG TTAGTGAAGT TGTACTTCAA GACTTACTGG 1741 CATATGTGTC CTCAAAACAT TCCTACCTCA GAGATCTTCC TCCGAGGCAG CCTCAGAGGG 1801 TGAACAGTAT AGACTTTGTA GAATTGGAGC ACCTTCAACC TGATGTATTA GTCCACGCAG 1861 TACTAAGAGT TGTTGATTTC ACTATACTGA CAGAGGCAGT ATACAGTTAT AGAGGACAGA 1921 AGCAGAAAAA AGTTATGTTA ACAGTGGAAC AGGCCCAAGA TCAACATTAT GCGCTTGTAT 1981 TATGGGGTCC TGGAGCAGCC TGGTACCCTC AACTTCAAAG GAAAAAAGGA GTGGTTCTGA 2041 TTAAAGCCCA GATTTCAGAG CTGGCATTTC CTATTACAGC ATCTCAGAAG ATAGCGCTAA 2101 ATGCTCACAG TTCTCTGAAG AGTATTTTTT CTTCTCTTCC CAACATCGTA TATACTGGTT 2161 GTGCAAAATG TGGATTGGAA CTAGAAACAG ATGAGAACAG GATCTACAAA CAATGTTTTA 2221 GCTGCTTGCC ATTTACTATG AAGAAAATAT ATTATAGGCC AGCGTTAATG ACTGCCATTG 2281 ATGGAAGACA TGATGTTTGT ATCCGTGTAG AATCAAAGCT GATAGAGAAG ATTCTTCTCA 2341 ACATTTCTGC AGACTGCCTC AACAGAGTGA TAGTTCCTTC CTCAGAGATC ACCTATGGGA 2401 TGGTCGTGGC AGACCTGTTC CACTCCTTGT TGGCAGTCAG CGCAGAACCT TGTGTATTAA 2461 AGATTCAGAG CCTTTTTGTG TTAGATGAAA ACAGCTATCC ATTACAACAA GATTTCTCCC 2521 TCCTGGATTT TTATCCTGAC ATTGTAAAGC ATGGAGCCAA TGCCCGTCTC TGCCCAACTT 2581 TCTTGTACAA AGTtggcatt ataagaaagc attgcttatc aatttgttgc aacgaac