Construct: ORF ccsbBroadEn_06753
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF005280.1_s300c1, BRDN0000398602
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- POU5F1 (5460)
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 | 5460 | POU5F1 | POU class 5 homeobox 1 | NM_002701.6 | 99.7% | 100% | 21G>A;27C>T;1047C>T |
| 2 | human | 5462 | POU5F1B | POU class 5 homeobox 1B | NM_001159542.2 | 97.3% | 95.8% | (many diffs) |
| 3 | human | 642559 | POU5F1P3 | POU class 5 homeobox 1 pseu... | NR_036440.1 | 97.1% | (many diffs) | |
| 4 | human | 645682 | POU5F1P4 | POU class 5 homeobox 1 pseu... | NR_034180.1 | 96.5% | (many diffs) | |
| 5 | human | 5460 | POU5F1 | POU class 5 homeobox 1 | NM_001285987.1 | 65.3% | 59% | (many diffs) |
| 6 | human | 5460 | POU5F1 | POU class 5 homeobox 1 | NM_001173531.2 | 52.6% | 52.7% | 0_1ins510;537C>T |
| 7 | human | 5460 | POU5F1 | POU class 5 homeobox 1 | NM_203289.5 | 52.6% | 52.7% | 0_1ins510;537C>T |
| 8 | human | 5460 | POU5F1 | POU class 5 homeobox 1 | NM_001285986.1 | 45.4% | 45.5% | 0_1ins588;459C>T |
| 9 | human | 100009667 | POU5F1P5 | POU class 5 homeobox 1 pseu... | NR_131184.1 | 44.5% | (many diffs) | |
| 10 | mouse | 18999 | Pou5f1 | POU domain, class 5, transc... | NM_013633.3 | 82.2% | 84.1% | (many diffs) |
| 11 | mouse | 18999 | Pou5f1 | POU domain, class 5, transc... | NM_001252452.1 | 52.1% | 54.1% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 1149
- ORF length:
- 1080
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GGCGGGACAC CTGGCTTCAG ATTTTGCCTT CTCGCCCCCT CCAGGTGGTG 121 GAGGTGATGG GCCAGGGGGG CCGGAGCCGG GCTGGGTTGA TCCTCGGACC TGGCTAAGCT 181 TCCAAGGCCC TCCTGGAGGG CCAGGAATCG GGCCGGGGGT TGGGCCAGGC TCTGAGGTGT 241 GGGGGATTCC CCCATGCCCC CCGCCGTATG AGTTCTGTGG GGGGATGGCG TACTGTGGGC 301 CCCAGGTTGG AGTGGGGCTA GTGCCCCAAG GCGGCTTGGA GACCTCTCAG CCTGAGGGCG 361 AAGCAGGAGT CGGGGTGGAG AGCAACTCCG ATGGGGCCTC CCCGGAGCCC TGCACCGTCA 421 CCCCTGGTGC CGTGAAGCTG GAGAAGGAGA AGCTGGAGCA AAACCCGGAG GAGTCCCAGG 481 ACATCAAAGC TCTGCAGAAA GAACTCGAGC AATTTGCCAA GCTCCTGAAG CAGAAGAGGA 541 TCACCCTGGG ATATACACAG GCCGATGTGG GGCTCACCCT GGGGGTTCTA TTTGGGAAGG 601 TATTCAGCCA AACGACCATC TGCCGCTTTG AGGCTCTGCA GCTTAGCTTC AAGAACATGT 661 GTAAGCTGCG GCCCTTGCTG CAGAAGTGGG TGGAGGAAGC TGACAACAAT GAAAATCTTC 721 AGGAGATATG CAAAGCAGAA ACCCTCGTGC AGGCCCGAAA GAGAAAGCGA ACCAGTATCG 781 AGAACCGAGT GAGAGGCAAC CTGGAGAATT TGTTCCTGCA GTGCCCGAAA CCCACACTGC 841 AGCAGATCAG CCACATCGCC CAGCAGCTTG GGCTCGAGAA GGATGTGGTC CGAGTGTGGT 901 TCTGTAACCG GCGCCAGAAG GGCAAGCGAT CAAGCAGCGA CTATGCACAA CGAGAGGATT 961 TTGAGGCTGC TGGGTCTCCT TTCTCAGGGG GACCAGTGTC CTTTCCTCTG GCCCCAGGGC 1021 CCCATTTTGG TACCCCAGGC TATGGGAGCC CTCACTTCAC TGCACTGTAC TCCTCGGTCC 1081 CTTTCCCTGA GGGGGAAGCC TTTCCCCCTG TCTCTGTCAC CACTCTGGGC TCTCCCATGC 1141 ATTCAAACTT GCCAACTTTC TTGTACAAAG Ttggcattat aagaaagcat tgcttatcaa 1201 tttgttgcaa cgaac