Construct: ORF ccsbBroadEn_06378
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF015546.1_s300c1, BRDN0000387227
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- HLA-F (3134)
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 | 3134 | HLA-F | major histocompatibility co... | NM_018950.2 | 99.8% | 99.7% | 63G>A;814C>T |
| 2 | human | 3134 | HLA-F | major histocompatibility co... | XM_011514564.1 | 97.4% | 96.5% | (many diffs) |
| 3 | human | 3134 | HLA-F | major histocompatibility co... | XM_017010813.1 | 89% | 88.6% | (many diffs) |
| 4 | human | 3135 | HLA-G | major histocompatibility co... | NM_002127.5 | 83.5% | 76.2% | (many diffs) |
| 5 | human | 3135 | HLA-G | major histocompatibility co... | XM_024446420.1 | 83.5% | 76.2% | (many diffs) |
| 6 | human | 3105 | HLA-A | major histocompatibility co... | NM_002116.8 | 82.7% | 76.1% | (many diffs) |
| 7 | human | 3135 | HLA-G | major histocompatibility co... | NM_001363567.1 | 82.3% | 75.1% | (many diffs) |
| 8 | human | 3134 | HLA-F | major histocompatibility co... | XM_017010812.1 | 82.2% | 81.9% | (many diffs) |
| 9 | human | 3106 | HLA-B | major histocompatibility co... | NM_005514.8 | 81.8% | 76.2% | (many diffs) |
| 10 | human | 3107 | HLA-C | major histocompatibility co... | NM_001243042.1 | 81.8% | 74% | (many diffs) |
| 11 | human | 3107 | HLA-C | major histocompatibility co... | NM_002117.6 | 81.7% | 74% | (many diffs) |
| 12 | human | 3105 | HLA-A | major histocompatibility co... | NM_001242758.1 | 81.3% | 75.6% | (many diffs) |
| 13 | human | 3134 | HLA-F | major histocompatibility co... | XM_017010811.1 | 79.8% | 76.8% | (many diffs) |
| 14 | human | 3134 | HLA-F | major histocompatibility co... | XM_017010810.1 | 79.3% | 79% | (many diffs) |
| 15 | human | 3134 | HLA-F | major histocompatibility co... | NM_001098479.2 | 78.1% | 77.8% | (many diffs) |
| 16 | human | 3134 | HLA-F | major histocompatibility co... | NM_001098478.2 | 73.3% | 73.4% | 63G>A;609_610ins276 |
| 17 | human | 3133 | HLA-E | major histocompatibility co... | XM_017010807.1 | 71.6% | 58.4% | (many diffs) |
| 18 | human | 3133 | HLA-E | major histocompatibility co... | XM_017010808.1 | 71.6% | 58.4% | (many diffs) |
| 19 | human | 3134 | HLA-F | major histocompatibility co... | XM_017010815.1 | 65.7% | 65.6% | 0_1ins354;460C>T |
| 20 | human | 3135 | HLA-G | major histocompatibility co... | XM_017010817.1 | 62.1% | 56.7% | (many diffs) |
| 21 | human | 3135 | HLA-G | major histocompatibility co... | XM_017010818.1 | 62.1% | 56.7% | (many diffs) |
| 22 | human | 3136 | HLA-H | major histocompatibility co... | NR_001434.4 | 53.1% | (many diffs) | |
| 23 | human | 3134 | HLA-F | major histocompatibility co... | XM_017010814.1 | 51.5% | 51.1% | (many diffs) |
| 24 | human | 3134 | HLA-F | major histocompatibility co... | XR_001743373.1 | 32% | (many diffs) | |
| 25 | human | 3134 | HLA-F | major histocompatibility co... | XR_001743374.1 | 30.7% | (many diffs) | |
| 26 | human | 3134 | HLA-F | major histocompatibility co... | XR_001743376.1 | 30.5% | (many diffs) | |
| 27 | human | 3139 | HLA-L | major histocompatibility co... | NR_027822.1 | 15.4% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 66
- ORF end:
- 1104
- ORF length:
- 1038
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaaCTTTG TACAAAAAAG 61 TTGGCATGGC GCCCCGAAGC CTCCTCCTGC TGCTCTCAGG GGCCCTGGCC CTGACCGATA 121 CTTGGGCAGG CTCCCACTCC TTGAGGTATT TCAGCACCGC TGTGTCGCGG CCCGGCCGCG 181 GGGAGCCCCG CTACATCGCC GTGGAGTACG TAGACGACAC GCAATTCCTG CGGTTCGACA 241 GCGACGCCGC GATTCCGAGG ATGGAGCCGC GGGAGCCGTG GGTGGAGCAA GAGGGGCCGC 301 AGTATTGGGA GTGGACCACA GGGTACGCCA AGGCCAACGC ACAGACTGAC CGAGTGGCCC 361 TGAGGAACCT GCTCCGCCGC TACAACCAGA GCGAGGCTGG GTCTCACACC CTCCAGGGAA 421 TGAATGGCTG CGACATGGGG CCCGACGGAC GCCTCCTCCG CGGGTATCAC CAGCACGCGT 481 ACGACGGCAA GGATTACATC TCCCTGAACG AGGACCTGCG CTCCTGGACC GCGGCGGACA 541 CCGTGGCTCA GATCACCCAG CGCTTCTATG AGGCAGAGGA ATATGCAGAG GAGTTCAGGA 601 CCTACCTGGA GGGCGAGTGC CTGGAGTTGC TCCGCAGATA CTTGGAGAAT GGGAAGGAGA 661 CGCTACAGCG CGCAGATCCT CCAAAGGCAC ACGTTGCCCA CCACCCCATC TCTGACCATG 721 AGGCCACCCT GAGGTGCTGG GCCCTGGGCT TCTACCCTGC GGAGATCACG CTGACCTGGC 781 AGCGGGATGG GGAGGAACAG ACCCAGGACA CAGAGCTTGT GGAGACCAGG CCTGCAGGGG 841 ATGGAACCTT CCAGAAGTGG GCCGCTGTGG TGGTGCCTTC TGGAGAGGAA CAGAGATACA 901 CATGCCATGT GCAGCACGAG GGGCTGCCCC AGCCCCTCAT CCTGAGATGG GAGCAGTCTC 961 CCCAGCCCAC CATCCCCATC GTGGGCATCG TTGCTGGCCT TGTTGTCCTT GGAGCTGTGG 1021 TCACTGGAGC TGTGGTCGCT GCTGTGATGT GGAGGAAGAA GAGCTCAGAT AGAAACAGAG 1081 GGAGCTACTC TCAGGCTGCA GTGTGCCCAA CTTTCTTGTA CAAAGTtggc attataagaa 1141 agcattgctt atcaatttgt tgcaacgaac