Construct: ORF ccsbBroad304_05963
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF005042.1_s304c1, BRDN0000409266
- Derived from:
- ccsbBroadEn_05963
- DNA Barcode:
- None
- Epitope Tag:
- V5
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- CD44 (960)
Vector Information:
- Vector Backbone:
- pLX_304
- Pol II Cassette 1:
- PGK-BlastR
- Pol II Cassette 2:
- CMV-ccsbBroad304_05963
- 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 | 960 | CD44 | CD44 molecule (Indian blood... | NM_001001389.2 | 99.8% | 99.7% | 255C>T;1121A>G;1307T>C |
| 2 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_005253235.3 | 99.7% | 99.5% | (many diffs) |
| 3 | human | 960 | CD44 | CD44 molecule (Indian blood... | NM_000610.4 | 94% | 93.8% | (many diffs) |
| 4 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_005253231.3 | 93.9% | 93.6% | (many diffs) |
| 5 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_006718388.2 | 93.9% | 93.6% | (many diffs) |
| 6 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520484.2 | 93.8% | 93.7% | (many diffs) |
| 7 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_005253232.3 | 93.8% | 93.5% | (many diffs) |
| 8 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520483.2 | 93.7% | 93.5% | (many diffs) |
| 9 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520485.2 | 93.7% | 93.5% | (many diffs) |
| 10 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_017018583.2 | 88% | 87.7% | (many diffs) |
| 11 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520482.2 | 84.7% | 84.3% | (many diffs) |
| 12 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_005253238.3 | 82.8% | 82.6% | (many diffs) |
| 13 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520486.2 | 76.7% | 76.5% | 255C>T;667_668ins486;821T>C |
| 14 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_005253240.3 | 76.4% | 76.2% | 255C>T;793_794ins492;815T>C |
| 15 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_005253239.3 | 72% | 71.6% | (many diffs) |
| 16 | human | 960 | CD44 | CD44 molecule (Indian blood... | NM_001001390.2 | 70.4% | 70.2% | 255C>T;667_668ins618;689T>C |
| 17 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_017018584.2 | 61.4% | 54% | (many diffs) |
| 18 | human | 960 | CD44 | CD44 molecule (Indian blood... | NM_001202555.2 | 61.3% | 61.3% | 255C>T;665_666ins810 |
| 19 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520488.2 | 60.7% | 60.3% | (many diffs) |
| 20 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_017018585.2 | 57.6% | 57.5% | 255C>T;793_794ins888 |
| 21 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520489.3 | 56.2% | 55.1% | (many diffs) |
| 22 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_011520487.3 | 52.9% | 51.7% | (many diffs) |
| 23 | human | 960 | CD44 | CD44 molecule (Indian blood... | NM_001001391.2 | 51.5% | 51.5% | 255C>T;667_668ins1014 |
| 24 | human | 960 | CD44 | CD44 molecule (Indian blood... | NM_001202556.2 | 48.5% | 48.4% | 255C>T;667_668ins1077 |
| 25 | human | 960 | CD44 | CD44 molecule (Indian blood... | XM_006718390.4 | 42.3% | 35.4% | (many diffs) |
| 26 | human | 960 | CD44 | CD44 molecule (Indian blood... | NM_001202557.2 | 41.9% | 41.7% | 255C>T;667_668ins1014;882_882delTins202 |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 2163
- ORF length:
- 2097
- Sequence:
-
1 ggtctatata agcagagctc tctggctaac tgtcgggatc aacaagtttg tacaaaaaag 61 ttggcatgga caagttttgg tggcacgcag cctggggact ctgcctcgtg ccgctgagcc 121 tggcgcagat cgatttgaat ataacctgcc gctttgcagg tgtattccac gtggagaaaa 181 atggtcgcta cagcatctct cggacggagg ccgctgacct ctgcaaggct ttcaatagca 241 ccttgcccac aatggcccag atggagaaag ctctgagcat cggatttgag acctgcaggt 301 atgggttcat agaagggcat gtggtgattc cccggatcca ccccaactcc atctgtgcag 361 caaacaacac aggggtgtac atcctcacat ccaacacctc ccagtatgac acatattgct 421 tcaatgcttc agctccacct gaagaagatt gtacatcagt cacagacctg cccaatgcct 481 ttgatggacc aattaccata actattgtta accgtgatgg cacccgctat gtccagaaag 541 gagaatacag aacgaatcct gaagacatct accccagcaa ccctactgat gatgacgtga 601 gcagcggctc ctccagtgaa aggagcagca cttcaggagg ttacatcttt tacacctttt 661 ctactgtaca ccccatccca gacgaagaca gtccctggat caccgacagc acagacagaa 721 tccctgctac cagtacgtct tcaaatacca tctcagcagg ctgggagcca aatgaagaaa 781 atgaagatga aagagacaga cacctcagtt tttctggatc aggcattgat gatgatgaag 841 attttatctc cagcaccatt tcaaccacac cacgggcttt tgaccacaca aaacagaacc 901 aggactggac ccagtggaac ccaagccatt caaatccgga agtgctactt cagacaacca 961 caaggatgac tgatgtagac agaaatggca ccactgctta tgaaggaaac tggaacccag 1021 aagcacaccc tcccctcatt caccatgagc atcatgagga agaagagacc ccacattcta 1081 caagcacaat ccaggcaact cctagtagta caacggaaga aacagctacc cagaaggaac 1141 agtggtttgg caacagatgg catgagggat atcgccaaac acccagagaa gactcccatt 1201 cgacaacagg gacagctgca gcctcagctc ataccagcca tccaatgcaa ggaaggacaa 1261 caccaagccc agaggacagt tcctggactg atttcttcaa cccaatctca caccccatgg 1321 gacgaggtca tcaagcagga agaaggatgg atatggactc cagtcatagt acaacgcttc 1381 agcctactgc aaatccaaac acaggtttgg tggaagattt ggacaggaca ggacctcttt 1441 caatgacaac gcagcagagt aattctcaga gcttctctac atcacatgaa ggcttggaag 1501 aagataaaga ccatccaaca acttctactc tgacatcaag caataggaat gatgtcacag 1561 gtggaagaag agacccaaat cattctgaag gctcaactac tttactggaa ggttatacct 1621 ctcattaccc acacacgaag gaaagcagga ccttcatccc agtgacctca gctaagactg 1681 ggtcctttgg agttactgca gttactgttg gagattccaa ctctaatgtc aatcgttcct 1741 tatcaggaga ccaagacaca ttccacccca gtggggggtc ccataccact catggatctg 1801 aatcagatgg acactcacat gggagtcaag aaggtggagc aaacacaacc tctggtccta 1861 taaggacacc ccaaattcca gaatggctga tcatcttggc atccctcttg gccttggctt 1921 tgattcttgc agtttgcatt gcagtcaaca gtcgaagaag gtgtgggcag aagaaaaagc 1981 tagtgatcaa cagtggcaat ggagctgtgg aggacagaaa gccaagtgga ctcaacggag 2041 aggccagcaa gtctcaggaa atggtgcatt tggtgaacaa ggagtcgtca gaaactccag 2101 accagtttat gacagctgat gagacaagga acctgcagaa tgtggacatg aagattgggg 2161 tgtacccaac tttcttgtac aaagtggttg gtaagcctat ccctaaccct ctcctcggtc 2221 tcgattctac gtagtaatga gctagcgcta accggtggcg cgttaagtcg acaatcaacc 2281 tctggatta