Construct: ORF ccsbBroadEn_12027
Construct Description:
- Construct Type:
- ORF
- Other Identifiers:
- ORF012742.1_s300c1, BRDN0000456668
- DNA Barcode:
- None
- Epitope Tag:
- None
- Notes:
- No stop codon in insert
Originally Annotated References:
- Gene:
- CNTN5 (53942)
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 | 53942 | CNTN5 | contactin 5 | NM_001243271.2 | 67.7% | 67.7% | 1_882del |
| 2 | human | 53942 | CNTN5 | contactin 5 | NM_175566.2 | 60.1% | 60.1% | 1_660del;2511_3078delinsA |
| 3 | human | 53942 | CNTN5 | contactin 5 | XM_011542871.1 | 60.1% | 60.1% | 1_660del;2511_3078delinsA |
| 4 | human | 53942 | CNTN5 | contactin 5 | NM_001243270.2 | 56% | 56% | 1_882del;2733_3300delinsA |
| 5 | human | 53942 | CNTN5 | contactin 5 | NM_014361.4 | 56% | 56% | 1_882del;2733_3300delinsA |
| 6 | human | 53942 | CNTN5 | contactin 5 | XM_017017926.1 | 56% | 56% | 1_882del;2733_3300delinsA |
| 7 | human | 53942 | CNTN5 | contactin 5 | XM_017017929.1 | 41.6% | 39.8% | (many diffs) |
| 8 | human | 53942 | CNTN5 | contactin 5 | XM_011542873.1 | 38.2% | 36.6% | (many diffs) |
| 9 | human | 53942 | CNTN5 | contactin 5 | XM_017017927.1 | 38.2% | 36.6% | (many diffs) |
| 10 | human | 53942 | CNTN5 | contactin 5 | XM_017017928.1 | 38.2% | 36.6% | (many diffs) |
| 11 | human | 53942 | CNTN5 | contactin 5 | XR_001747909.1 | 26.7% | 1_1386del;2388_2389ins121;3116_6351delinsA | |
| 12 | mouse | 244682 | Cntn5 | contactin 5 | NM_001033359.2 | 60.2% | 63.9% | (many diffs) |
| 13 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509873.3 | 50.9% | 53.9% | (many diffs) |
| 14 | mouse | 244682 | Cntn5 | contactin 5 | NM_001170787.1 | 49% | 52% | (many diffs) |
| 15 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509872.3 | 49% | 52% | (many diffs) |
| 16 | mouse | 244682 | Cntn5 | contactin 5 | XM_017313363.1 | 48.9% | 51.8% | (many diffs) |
| 17 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509866.3 | 47.8% | 50.6% | (many diffs) |
| 18 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509867.3 | 47.8% | 50.6% | (many diffs) |
| 19 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509868.3 | 47.8% | 50.6% | (many diffs) |
| 20 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509869.3 | 47.8% | 50.6% | (many diffs) |
| 21 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509870.3 | 47.8% | 50.6% | (many diffs) |
| 22 | mouse | 244682 | Cntn5 | contactin 5 | XM_011242366.1 | 47.8% | 50.6% | (many diffs) |
| 23 | mouse | 244682 | Cntn5 | contactin 5 | XM_006509874.3 | 30.9% | 31.7% | (many diffs) |
Sequence Information
Note: uppercase bases indicate empirically verified sequence.
- ORF start:
- 69
- ORF end:
- 1920
- ORF length:
- 1851
- Sequence:
-
1 gttcgttgca acaaattgat gagcaatgct tttttataat gccaacttTG TACAAAAAAG 61 TTGGCACCAT GGGAGAATAT GAGCCGAAAA TTGAGGTCCA TTTTCCTTTC ACGGTTACAG 121 CTGCTAAAGG AACAACTGTT AAGATGGAAT GCTTTGCACT TGGCAACCCC GTTCCAACAA 181 TCACATGGAT GAAGGTTAAT GGTTATATTC CTAGTAAGGC ACGTCTGCGG AAATCTCAGG 241 CGGTGCTGGA AATACCGAAT GTACAGCTGG ATGATGCAGG CATTTATGAG TGCAGAGCTG 301 AAAACTCACG TGGAAAAAAT TCCTTTCGTG GACAATTACA AGTATACACC TACCCACACT 361 GGGTAGAAAA ACTGAATGAT ACTCAGTTAG ACAGTGGGAG CCCTCTCCGA TGGGAATGTA 421 AGGCTACTGG AAAACCCAGA CCCACGTATC GTTGGCTGAA GAATGGAGTA CCCCTCTCAC 481 CTCAGAGTAG GGTTGAGATG GTTAATGGAG TATTGATGAT CCACAATGTG AATCAATCAG 541 ATGCTGGAAT GTATCAGTGT TTGGCTGAAA ATAAGTATGG AGCCATTTAC GCTAGTGCTG 601 AGCTGAAGAT TCTAGCTTCA GCTCCCACTT TTGCACTGAA TCAACTGAAG AAAACAATAA 661 TTGTTACCAA AGACCAAGAA GTTGTCATAG AGTGCAAACC CCAAGGCTCT CCAAAACCAA 721 CCATCTCTTG GAAGAAAGGA GACAGAGCAG TTAGAGAAAA CAAAAGAATA GCTATTCTTC 781 CAGACGGGAG TCTACGGATC CTAAATGCTT CCAAATCAGA CGAGGGAAAG TACGTTTGCC 841 GAGGGGAAAA CGTCTTTGGT TCTGCTGAAA TTATAGCTTC GCTATCTGTA AAAGAACCTA 901 CAAGGATAGA ACTTACTCCT AAAAGAACAG AATTGACAGT GGGAGAAAGC ATTGTCCTTA 961 ATTGCAAAGC AATTCACGAT GCTAGTTTGG ATGTCACTTT CTACTGGACT CTGAAAGGAC 1021 AGCCTATTGA TTTCGAGGAA GAGGGTGGAC ATTTTGAAAG CATCAGGGCC CAAGCATCCT 1081 CTGCAGATTT AATGATCAGG AACATCCTTC TGATGCATGC TGGGAGATAT GGCTGCAGGG 1141 TACAGACCAC AGCAGACAGT GTGTCAGATG AGGCAGAACT TCTTGTTAGG GGACCCCCAG 1201 GCCCACCTGG GATAGTAATT GTTGAGGAAA TAACCGAAAG TACGGCCACA CTGTCCTGGA 1261 GCCCAGCAGC TGACAACCAC AGCCCAATCT CCTCCTACAA CCTTCAAGCT CGCAGCCCAT 1321 TTTCCCTGGG CTGGCAAACA GTAAAGACAG TCCCAGAAAT CATAACAGGG GACATGGAGT 1381 CAGCCATGGC TGTGGACCTA AATCCCTGGG TGGAATATGA ATTTCGAGTG GTAGCCACCA 1441 ACCCTATTGG GACAGGAGAT CCAAGCACCC CATCTCGAAT GATCCGCACA AATGAAGCAG 1501 TTCCGAAGAC AGCACCCACC AATGTAAGCG GAAGAAGTGG AAGAAGGCAT GAGTTAGTCA 1561 TTGCCTGGGA GCCAGTATCT GAAGAGTTTC AGAATGGGGA AGGCTTCGGC TATATTGTGG 1621 CTTTCAGACC CAATGGAACA CGTGGCTGGA AGGAAAAAAT GGTGACATCC TCTGAAGCTT 1681 CCAAATTCAT TTATCGAGAT GAAAGTGTCC CTCCTCTTAC TCCCTTTGAA GTGAAAGTTG 1741 GCGTTTATAA CAATAAAGGA GATGGGCCTT TTAGTCAAAT TGTGGTCATC TGTTCAGCTG 1801 AAGGAGAACC CAGTGCTGCT CCCACAGATG TCAAGGCGAC AAGTGTGTCT GTGTCAGAGA 1861 TTCTTGTTGC ATGGAAACAC ATTAAAGAGA GTCTAGGAAG ACCACAGGGA TTTGAGGTAT 1921 TGCCAACTTT CTTGTACAAA GTTGGcatta taagaaagca ttgcttatca atttgttgca 1981 acgaac