Construct: ORF ccsbBroadEn_11068
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF005716.1_s300c1, BRDN0000390633
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- PTCH1 (5727)
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 | 5727 | PTCH1 | patched 1 | NM_001354919.1 | 100% | 100% | |
| 2 | human | 5727 | PTCH1 | patched 1 | NM_001083602.2 | 13.2% | 13.2% | 549_4143delinsG |
| 3 | human | 5727 | PTCH1 | patched 1 | NM_001354918.2 | 13% | 13% | 1_198del;200A>T;747_4185delinsG |
| 4 | human | 5727 | PTCH1 | patched 1 | NM_001083603.2 | 12.6% | 12.5% | 1_195del;197A>T;744_4338delinsG |
| 5 | human | 5727 | PTCH1 | patched 1 | NM_000264.5 | 12.6% | 12.5% | 1_198del;200A>T;747_4341delinsG |
| 6 | human | 5727 | PTCH1 | patched 1 | NM_001083604.2 | 7% | 7% | 0_1ins255;294_3888delinsG |
| 7 | human | 5727 | PTCH1 | patched 1 | NM_001083605.2 | 7% | 7% | 0_1ins255;294_3888delinsG |
| 8 | human | 5727 | PTCH1 | patched 1 | NM_001083606.3 | 7% | 7% | 0_1ins255;294_3888delinsG |
| 9 | human | 5727 | PTCH1 | patched 1 | NM_001083607.2 | 7% | 7% | 0_1ins255;294_3888delinsG |
| 10 | human | 5727 | PTCH1 | patched 1 | NR_149061.2 | 6.4% | 1_1103del;1105A>T;1652_8496delinsG | |
| 11 | mouse | 19206 | Ptch1 | patched 1 | NM_001328514.1 | 12.2% | 13.2% | (many diffs) |
| 12 | mouse | 19206 | Ptch1 | patched 1 | XM_006517160.3 | 12.2% | 13.2% | (many diffs) |
| 13 | mouse | 19206 | Ptch1 | patched 1 | NM_008957.3 | 11.7% | 12.6% | (many diffs) |
| 14 | mouse | 19206 | Ptch1 | patched 1 | XM_006517159.3 | 11.7% | 12.6% | (many diffs) |
| 15 | mouse | 19206 | Ptch1 | patched 1 | XM_006517162.3 | 6.3% | 7% | (many diffs) |
| 16 | mouse | 19206 | Ptch1 | patched 1 | XM_006517163.3 | 6.3% | 7% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 615
- ORF length:
- 549
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGG GAAGGCTACT GGCCGGAAAG CGCCGCTGTG GCTGAGAGCG AAGTTTCAGA 121 GACTCTTATT TAAACTGGGT TGTTACATTC AAAAAAACTG CGGCAAGTTC TTGGTTGTGG 181 GCCTCCTCAT ATTTGGGGCC TTCGCGGTGG GATTAAAAGC AGCGAACCTC GAGACCAACG 241 TGGAGGAGCT GTGGGTGGAA GTTGGAGGAC GAGTAAGTCG TGAATTAAAT TATACTCGCC 301 AGAAGATTGG AGAAGAGGCT ATGTTTAATC CTCAACTCAT GATACAGACC CCTAAAGAAG 361 AAGGTGCTAA TGTCCTGACC ACAGAAGCGC TCCTACAACA CCTGGACTCG GCACTCCAGG 421 CCAGCCGTGT CCATGTATAC ATGTACAACA GGCAGTGGAA ATTGGAACAT TTGTGTTACA 481 AATCAGGAGA GCTTATCACA GAAACAGGTT ACATGGATCA GATAATAGAA TATCTTTACC 541 CTTGTTTGAT TATTACACCT TTGGACTGCT TCTGGGAAGG GGCGAAATTA CAGTCTGGGA 601 CAGCATACCT CCTGTACCCA ACTTTCTTGT ACAAAGTtgg cattataaga aagcattgct 661 tatcaatttg ttgcaacgaa c