Construct: ORF ccsbBroad304_13956
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF016169.1_s304c1, BRDN0000407072
- Derived from:
- ccsbBroadEn_13956
- DNA Barcode:
- None
- Epitope Tag:
- V5 (not translated due to prior stop codon)
- Notes:
- Early stop codon detected
Originally Annotated References:
- Gene:
- SLC6A6 (6533)
Vector Information:
- Vector Backbone:
- pLX_304
- Pol II Cassette 1:
- PGK-BlastR
- Pol II Cassette 2:
- CMV-ccsbBroad304_13956
- Selection Marker:
- BlastR
- Visible Reporter:
- n/a
- Epitope Tag:
- V5
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 | 6533 | SLC6A6 | solute carrier family 6 mem... | NM_001134368.4 | 99.8% | 1.5% | 8delC |
| 2 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | NM_003043.5 | 32.2% | .4% | 8delC;601_1860del |
| 3 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | XM_011534030.2 | 32.2% | .4% | 8delC;601_1860del |
| 4 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | XR_940495.3 | 31.8% | 1_129del;137delC;730_1879del | |
| 5 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | XM_006713307.2 | 30.7% | .4% | 1_87del;95delC;688_1947del |
| 6 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | NM_001134367.3 | 27.6% | .5% | 1_303del;311delC;904_2163del |
| 7 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | XR_427286.2 | 9.6% | 1_129del;137delC;730_6209del | |
| 8 | human | 6533 | SLC6A6 | solute carrier family 6 mem... | NR_103507.3 | 9.3% | 1_295del;303delC;896_6375del | |
| 9 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XM_011241279.2 | 85.3% | 1.4% | (many diffs) |
| 10 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XR_001785116.1 | 32.1% | (many diffs) | |
| 11 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XR_377434.3 | 30% | (many diffs) | |
| 12 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | NM_009320.4 | 28.8% | .4% | (many diffs) |
| 13 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XM_006505870.1 | 28.8% | .4% | (many diffs) |
| 14 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XM_006505871.3 | 28.8% | .4% | (many diffs) |
| 15 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XR_001785117.1 | 8.2% | (many diffs) | |
| 16 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XR_001785115.1 | 8.1% | (many diffs) | |
| 17 | mouse | 21366 | Slc6a6 | solute carrier family 6 (ne... | XR_001785114.1 | 7.9% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 93
- ORF length:
- 27
- Sequence:
-
1 ggtctatata agcagagctc tctggctaac tgtcgggatc aacaagtttg tacaaaaaag 61 ttggcatggc cacaaggaga agctgcagtg tctgaaagat ttccacaagg acatcctgaa 121 gccctcacca gggaagagcc caggcacgcg gcctgaggac gaggctgagg gaaaacctcc 181 gcagagggag aagtggtcta gcaagatcga ctttgtgctc tctgtggctg gcggcttcgt 241 gggcttgggc aacgtctggc gcttcccgta cctctgctac aagaatggtg gaggtgcgtt 301 tctcataccg tattttattt tcctgtttgg gagcggcctg cctgtgtttt tcttggagat 361 catcataggc cagtacacct ctgaaggggg catcacctgc tgggaaaaga tctgcccctt 421 gttctctggt atcggctatg cctccgttgt aattgtgtcc ctcctgaatg tctactacat 481 cgtcatcctg gcctgggcca catactacct gttccagtcc ttccagaagg agctgccctg 541 ggcacactgc aaccacagct ggaacacacc tcactgcatg gaggacacca tgcgcaagaa 601 caagagtgtc tggatcacca tcagctccac caacttcacc tcccctgtca tcgagttctg 661 ggagtaccca actttcttgt acaaagtggt tggtaagcct atccctaacc ctctcctcgg 721 tctcgattct acgtagtaat gagctagcgc taaccggtgg cgcgttaagt cgacaatcaa 781 cctctggatt a