Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene012405.t1 | XP_003610140.2 | 96.8 | 126 | 4 | 0 | 3 | 128 | 44 | 169 | 5.60E-61 | 243.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene012405.t1 | Q39261 | 46.5 | 127 | 44 | 5 | 2 | 128 | 48 | 150 | 2.6e-14 | 79.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene012405.t1 | G7JVH8 | 96.8 | 126 | 4 | 0 | 3 | 128 | 44 | 169 | 4.0e-61 | 243.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene012405.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene012405.t1 | MTR_4g128340 | 96.875 | 128 | 4 | 0 | 1 | 128 | 42 | 169 | 4.53e-90 | 258 |
| MS.gene012405.t1 | MTR_2g104900 | 54.667 | 75 | 23 | 2 | 1 | 64 | 78 | 152 | 2.20e-18 | 78.2 |
| MS.gene012405.t1 | MTR_1g033340 | 45.098 | 102 | 44 | 3 | 4 | 95 | 97 | 196 | 2.21e-18 | 78.2 |
| MS.gene012405.t1 | MTR_5g077370 | 67.273 | 55 | 15 | 1 | 4 | 55 | 87 | 141 | 7.07e-18 | 76.6 |
| MS.gene012405.t1 | MTR_3g065020 | 64.286 | 56 | 19 | 1 | 3 | 58 | 85 | 139 | 4.29e-17 | 74.7 |
| MS.gene012405.t1 | MTR_4g006575 | 67.347 | 49 | 14 | 1 | 1 | 47 | 64 | 112 | 1.31e-16 | 73.2 |
| MS.gene012405.t1 | MTR_4g006600 | 67.347 | 49 | 14 | 1 | 1 | 47 | 64 | 112 | 1.31e-16 | 73.2 |
| MS.gene012405.t1 | MTR_1g013130 | 64.583 | 48 | 17 | 0 | 1 | 48 | 91 | 138 | 2.10e-16 | 73.2 |
| MS.gene012405.t1 | MTR_3g106230 | 73.684 | 38 | 10 | 0 | 2 | 39 | 70 | 107 | 7.91e-15 | 68.6 |
| MS.gene012405.t1 | MTR_7g086860 | 74.286 | 35 | 9 | 0 | 4 | 38 | 30 | 64 | 3.76e-13 | 62.4 |
| MS.gene012405.t1 | MTR_1g107055 | 70.588 | 34 | 10 | 0 | 4 | 37 | 64 | 97 | 4.27e-12 | 60.5 |
| MS.gene012405.t1 | MTR_7g083210 | 75.758 | 33 | 8 | 0 | 4 | 36 | 39 | 71 | 5.57e-12 | 60.1 |
| MS.gene012405.t1 | MTR_7g022250 | 29.936 | 157 | 78 | 5 | 3 | 128 | 84 | 239 | 1.71e-11 | 59.7 |
| MS.gene012405.t1 | MTR_8g466760 | 61.538 | 39 | 15 | 0 | 2 | 40 | 96 | 134 | 3.57e-11 | 59.3 |
| MS.gene012405.t1 | MTR_5g008390 | 57.500 | 40 | 17 | 0 | 1 | 40 | 11 | 50 | 8.33e-11 | 55.1 |
| MS.gene012405.t1 | MTR_3g009410 | 61.538 | 39 | 15 | 0 | 2 | 40 | 96 | 134 | 8.93e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene012405.t1 | AT5G57520 | 47.287 | 129 | 43 | 6 | 1 | 128 | 46 | 150 | 1.99e-22 | 86.7 |
| MS.gene012405.t1 | AT5G10970 | 45.714 | 105 | 46 | 4 | 2 | 106 | 100 | 193 | 1.48e-19 | 81.6 |
| MS.gene012405.t1 | AT5G25160 | 48.598 | 107 | 42 | 5 | 2 | 106 | 57 | 152 | 8.07e-19 | 79.0 |
| MS.gene012405.t1 | AT1G66140 | 75.000 | 44 | 11 | 0 | 1 | 44 | 80 | 123 | 2.02e-17 | 75.9 |
| MS.gene012405.t1 | AT1G80730 | 54.054 | 74 | 30 | 1 | 2 | 71 | 64 | 137 | 4.25e-17 | 74.3 |
| MS.gene012405.t1 | AT1G24625 | 78.947 | 38 | 8 | 0 | 4 | 41 | 57 | 94 | 3.26e-16 | 71.6 |
| MS.gene012405.t1 | AT5G14010 | 31.783 | 129 | 81 | 2 | 4 | 128 | 36 | 161 | 5.26e-13 | 62.4 |
| MS.gene012405.t1 | AT5G01860 | 53.061 | 49 | 19 | 1 | 4 | 52 | 65 | 109 | 2.86e-12 | 61.2 |
Find 31 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAAGGAAGGTGTGACTTCT+TGG | 0.254359 | 8.3:-2911681 | MS.gene012405:CDS |
| TTTCAAGCTTGTGAGCATTT+TGG | 0.263848 | 8.3:+2911899 | None:intergenic |
| GAGAAGTTTGAAGGGTGTTC+TGG | 0.318303 | 8.3:+2911814 | None:intergenic |
| GTTTAGTTATGGAAATTCTA+AGG | 0.345981 | 8.3:-2911698 | MS.gene012405:CDS |
| TTCTCTACTAATTACCATCT+TGG | 0.347245 | 8.3:-2911796 | MS.gene012405:CDS |
| AGAAAAGATCAGTTTAGTTA+TGG | 0.369153 | 8.3:-2911709 | MS.gene012405:CDS |
| TCATCACATGACCTTGTCTA+TGG | 0.389808 | 8.3:+2911743 | None:intergenic |
| GCCAACTTGATTTGTCCTTA+AGG | 0.395324 | 8.3:-2911612 | MS.gene012405:CDS |
| CATTTATAATCAGAGCCTTA+AGG | 0.403759 | 8.3:+2911597 | None:intergenic |
| TAGTACTTCTGAAAATGTTC+AGG | 0.411786 | 8.3:-2911644 | MS.gene012405:CDS |
| TAATTAGTAGAGAAGTTTGA+AGG | 0.473837 | 8.3:+2911805 | None:intergenic |
| AGTTATGGAAATTCTAAGGA+AGG | 0.495820 | 8.3:-2911694 | MS.gene012405:CDS |
| GGACACTTGCAAAGAAGAGT+AGG | 0.507806 | 8.3:-2911876 | MS.gene012405:CDS |
| AAAATGCTCACAAGCTTGAA+AGG | 0.509103 | 8.3:-2911897 | MS.gene012405:CDS |
| AGGTGTGACTTCTTGGTCAA+GGG | 0.515201 | 8.3:-2911674 | MS.gene012405:CDS |
| AATTACCATCTTGGAAGTCA+TGG | 0.516260 | 8.3:-2911787 | MS.gene012405:CDS |
| CATTTCCATGACTTCCAAGA+TGG | 0.523980 | 8.3:+2911782 | None:intergenic |
| AATTAGTAGAGAAGTTTGAA+GGG | 0.551396 | 8.3:+2911806 | None:intergenic |
| AAGGTGTGACTTCTTGGTCA+AGG | 0.556847 | 8.3:-2911675 | MS.gene012405:CDS |
| GCCTTAAGGACAAATCAAGT+TGG | 0.573380 | 8.3:+2911611 | None:intergenic |
| GACACTTGCAAAGAAGAGTA+GGG | 0.576451 | 8.3:-2911875 | MS.gene012405:CDS |
| CATCTTCATCTATGGAGCAA+AGG | 0.583885 | 8.3:-2911981 | None:intergenic |
| TATAGCTCTCAAGCTTTGGG+AGG | 0.587863 | 8.3:-2911925 | MS.gene012405:CDS |
| TACTTCTGAAAATGTTCAGG+AGG | 0.608835 | 8.3:-2911641 | MS.gene012405:CDS |
| GGTGTGACTTCTTGGTCAAG+GGG | 0.612067 | 8.3:-2911673 | MS.gene012405:CDS |
| TTCAGCATAAGAAGATTGCA+TGG | 0.617834 | 8.3:+2911840 | None:intergenic |
| ATAGACAAGGTCATGTGATG+AGG | 0.622400 | 8.3:-2911741 | MS.gene012405:CDS |
| CTTGACAACAACCATAGACA+AGG | 0.646735 | 8.3:-2911754 | MS.gene012405:CDS |
| CAAGGTCATGTGATGAGGCA+TGG | 0.652675 | 8.3:-2911736 | MS.gene012405:CDS |
| GGTCATGTGATGAGGCATGG+TGG | 0.708373 | 8.3:-2911733 | MS.gene012405:CDS |
| AGCATAAGAAGATTGCATGG+CGG | 0.769594 | 8.3:+2911843 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATTAGTAGAGAAGTTTGAA+GGG | + | chr8.3:2911773-2911792 | None:intergenic | 25.0% |
| ! | AGAAAAGATCAGTTTAGTTA+TGG | - | chr8.3:2911867-2911886 | MS.gene012405:CDS | 25.0% |
| ! | GTTTAGTTATGGAAATTCTA+AGG | - | chr8.3:2911878-2911897 | MS.gene012405:CDS | 25.0% |
| ! | TAATTAGTAGAGAAGTTTGA+AGG | + | chr8.3:2911774-2911793 | None:intergenic | 25.0% |
| TTCTCTACTAATTACCATCT+TGG | - | chr8.3:2911780-2911799 | MS.gene012405:CDS | 30.0% | |
| ! | AGTTATGGAAATTCTAAGGA+AGG | - | chr8.3:2911882-2911901 | MS.gene012405:CDS | 30.0% |
| ! | TAGTACTTCTGAAAATGTTC+AGG | - | chr8.3:2911932-2911951 | MS.gene012405:CDS | 30.0% |
| ! | TTTTATAGCTCTCAAGCTTT+GGG | - | chr8.3:2911648-2911667 | MS.gene012405:CDS | 30.0% |
| AAAATGCTCACAAGCTTGAA+AGG | - | chr8.3:2911679-2911698 | MS.gene012405:CDS | 35.0% | |
| AATTACCATCTTGGAAGTCA+TGG | - | chr8.3:2911789-2911808 | MS.gene012405:CDS | 35.0% | |
| TTCAGCATAAGAAGATTGCA+TGG | + | chr8.3:2911739-2911758 | None:intergenic | 35.0% | |
| ! | GTTTTATAGCTCTCAAGCTT+TGG | - | chr8.3:2911647-2911666 | MS.gene012405:CDS | 35.0% |
| ! | TACTTCTGAAAATGTTCAGG+AGG | - | chr8.3:2911935-2911954 | MS.gene012405:CDS | 35.0% |
| ! | TTTCAAGCTTGTGAGCATTT+TGG | + | chr8.3:2911680-2911699 | None:intergenic | 35.0% |
| AGCATAAGAAGATTGCATGG+CGG | + | chr8.3:2911736-2911755 | None:intergenic | 40.0% | |
| ATAGACAAGGTCATGTGATG+AGG | - | chr8.3:2911835-2911854 | MS.gene012405:CDS | 40.0% | |
| CATTTCCATGACTTCCAAGA+TGG | + | chr8.3:2911797-2911816 | None:intergenic | 40.0% | |
| CTTGACAACAACCATAGACA+AGG | - | chr8.3:2911822-2911841 | MS.gene012405:CDS | 40.0% | |
| GACACTTGCAAAGAAGAGTA+GGG | - | chr8.3:2911701-2911720 | MS.gene012405:CDS | 40.0% | |
| GCCTTAAGGACAAATCAAGT+TGG | + | chr8.3:2911968-2911987 | None:intergenic | 40.0% | |
| TCATCACATGACCTTGTCTA+TGG | + | chr8.3:2911836-2911855 | None:intergenic | 40.0% | |
| !! | GCCAACTTGATTTGTCCTTA+AGG | - | chr8.3:2911964-2911983 | MS.gene012405:CDS | 40.0% |
| AAGGTGTGACTTCTTGGTCA+AGG | - | chr8.3:2911901-2911920 | MS.gene012405:CDS | 45.0% | |
| AGGTGTGACTTCTTGGTCAA+GGG | - | chr8.3:2911902-2911921 | MS.gene012405:CDS | 45.0% | |
| GGACACTTGCAAAGAAGAGT+AGG | - | chr8.3:2911700-2911719 | MS.gene012405:CDS | 45.0% | |
| ! | CTAAGGAAGGTGTGACTTCT+TGG | - | chr8.3:2911895-2911914 | MS.gene012405:CDS | 45.0% |
| !! | GAGAAGTTTGAAGGGTGTTC+TGG | + | chr8.3:2911765-2911784 | None:intergenic | 45.0% |
| !! | TATAGCTCTCAAGCTTTGGG+AGG | - | chr8.3:2911651-2911670 | MS.gene012405:CDS | 45.0% |
| CAAGGTCATGTGATGAGGCA+TGG | - | chr8.3:2911840-2911859 | MS.gene012405:CDS | 50.0% | |
| GGTGTGACTTCTTGGTCAAG+GGG | - | chr8.3:2911903-2911922 | MS.gene012405:CDS | 50.0% | |
| GGTCATGTGATGAGGCATGG+TGG | - | chr8.3:2911843-2911862 | MS.gene012405:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.3 | gene | 2911606 | 2911992 | 2911606 | ID=MS.gene012405 |
| chr8.3 | mRNA | 2911606 | 2911992 | 2911606 | ID=MS.gene012405.t1;Parent=MS.gene012405 |
| chr8.3 | exon | 2911606 | 2911992 | 2911606 | ID=MS.gene012405.t1.exon1;Parent=MS.gene012405.t1 |
| chr8.3 | CDS | 2911606 | 2911992 | 2911606 | ID=cds.MS.gene012405.t1;Parent=MS.gene012405.t1 |
| Gene Sequence |
| Protein sequence |
