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.gene35909.t1 | XP_003615824.1 | 95.7 | 140 | 6 | 0 | 1 | 140 | 78 | 217 | 6.80E-68 | 266.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35909.t1 | Q9LU68 | 53.8 | 91 | 40 | 2 | 49 | 139 | 337 | 425 | 1.5e-15 | 84.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35909.t1 | B7FH76 | 95.7 | 140 | 6 | 0 | 1 | 140 | 78 | 217 | 4.9e-68 | 266.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene35909.t1 | TR | Others |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049297 | MS.gene35909 | 0.82475 | 6.82E-54 | -1.69E-46 |
| MS.gene049346 | MS.gene35909 | 0.807113 | 5.92E-50 | -1.69E-46 |
| MS.gene049915 | MS.gene35909 | 0.810677 | 1.02E-50 | -1.69E-46 |
| MS.gene050227 | MS.gene35909 | 0.802716 | 4.92E-49 | -1.69E-46 |
| MS.gene050228 | MS.gene35909 | 0.80349 | 3.40E-49 | -1.69E-46 |
| MS.gene050303 | MS.gene35909 | 0.851061 | 1.13E-60 | -1.69E-46 |
| MS.gene050330 | MS.gene35909 | -0.825965 | 3.51E-54 | -1.69E-46 |
| MS.gene050438 | MS.gene35909 | 0.800432 | 1.45E-48 | -1.69E-46 |
| MS.gene050558 | MS.gene35909 | 0.800695 | 1.28E-48 | -1.69E-46 |
| MS.gene050642 | MS.gene35909 | 0.825008 | 5.92E-54 | -1.69E-46 |
| MS.gene050820 | MS.gene35909 | 0.818546 | 1.85E-52 | -1.69E-46 |
| MS.gene050953 | MS.gene35909 | 0.80361 | 3.21E-49 | -1.69E-46 |
| MS.gene051257 | MS.gene35909 | 0.802262 | 6.10E-49 | -1.69E-46 |
| MS.gene05137 | MS.gene35909 | 0.832135 | 1.12E-55 | -1.69E-46 |
| MS.gene051633 | MS.gene35909 | 0.800025 | 1.75E-48 | -1.69E-46 |
| MS.gene051983 | MS.gene35909 | 0.8164 | 5.64E-52 | -1.69E-46 |
| MS.gene052176 | MS.gene35909 | 0.829372 | 5.34E-55 | -1.69E-46 |
| MS.gene052302 | MS.gene35909 | 0.853814 | 1.86E-61 | -1.69E-46 |
| MS.gene052309 | MS.gene35909 | -0.829864 | 4.06E-55 | -1.69E-46 |
| MS.gene052376 | MS.gene35909 | 0.875107 | 4.00E-68 | -1.69E-46 |
| MS.gene052600 | MS.gene35909 | 0.815513 | 8.90E-52 | -1.69E-46 |
| MS.gene053836 | MS.gene35909 | 0.822312 | 2.53E-53 | -1.69E-46 |
| MS.gene054942 | MS.gene35909 | 0.832345 | 9.97E-56 | -1.69E-46 |
| MS.gene054983 | MS.gene35909 | 0.826199 | 3.09E-54 | -1.69E-46 |
| MS.gene055808 | MS.gene35909 | 0.801281 | 9.70E-49 | -1.69E-46 |
| MS.gene056425 | MS.gene35909 | 0.805042 | 1.62E-49 | -1.69E-46 |
| MS.gene056631 | MS.gene35909 | 0.805793 | 1.12E-49 | -1.69E-46 |
| MS.gene056979 | MS.gene35909 | 0.809208 | 2.12E-50 | -1.69E-46 |
| MS.gene057060 | MS.gene35909 | 0.817145 | 3.84E-52 | -1.69E-46 |
| MS.gene057079 | MS.gene35909 | 0.818037 | 2.42E-52 | -1.69E-46 |
| MS.gene057260 | MS.gene35909 | 0.80171 | 7.92E-49 | -1.69E-46 |
| MS.gene057639 | MS.gene35909 | 0.812568 | 3.97E-51 | -1.69E-46 |
| MS.gene057754 | MS.gene35909 | 0.800213 | 1.60E-48 | -1.69E-46 |
| MS.gene057967 | MS.gene35909 | 0.801359 | 9.35E-49 | -1.69E-46 |
| MS.gene058168 | MS.gene35909 | 0.820525 | 6.55E-53 | -1.69E-46 |
| MS.gene05954 | MS.gene35909 | 0.801508 | 8.71E-49 | -1.69E-46 |
| MS.gene059569 | MS.gene35909 | 0.813042 | 3.13E-51 | -1.69E-46 |
| MS.gene060572 | MS.gene35909 | 0.82058 | 6.36E-53 | -1.69E-46 |
| MS.gene061040 | MS.gene35909 | -0.833013 | 6.80E-56 | -1.69E-46 |
| MS.gene061114 | MS.gene35909 | -0.822231 | 2.65E-53 | -1.69E-46 |
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.gene35909.t1 | MTR_5g072780 | 95.714 | 140 | 6 | 0 | 1 | 140 | 78 | 217 | 1.13e-95 | 275 |
| MS.gene35909.t1 | MTR_7g032240 | 39.098 | 133 | 42 | 2 | 46 | 139 | 219 | 351 | 9.21e-21 | 86.3 |
| MS.gene35909.t1 | MTR_1g110870 | 44.144 | 111 | 42 | 3 | 47 | 139 | 316 | 424 | 6.13e-20 | 84.7 |
| MS.gene35909.t1 | MTR_4g127420 | 53.488 | 86 | 36 | 2 | 52 | 133 | 293 | 378 | 1.23e-19 | 83.6 |
| MS.gene35909.t1 | MTR_8g104190 | 41.727 | 139 | 53 | 4 | 17 | 139 | 274 | 400 | 7.92e-19 | 81.6 |
| MS.gene35909.t1 | MTR_1g013450 | 36.134 | 119 | 63 | 3 | 28 | 139 | 185 | 297 | 2.83e-14 | 68.2 |
| MS.gene35909.t1 | MTR_3g105710 | 67.442 | 43 | 14 | 0 | 97 | 139 | 232 | 274 | 7.87e-12 | 61.2 |
| MS.gene35909.t1 | MTR_4g128930 | 67.442 | 43 | 14 | 0 | 97 | 139 | 298 | 340 | 1.48e-11 | 60.8 |
| MS.gene35909.t1 | MTR_7g018170 | 65.116 | 43 | 15 | 0 | 97 | 139 | 327 | 369 | 5.78e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35909.t1 | AT1G07050 | 66.337 | 101 | 27 | 3 | 41 | 139 | 98 | 193 | 5.96e-38 | 127 |
| MS.gene35909.t1 | AT1G07050 | 64.211 | 95 | 27 | 3 | 41 | 133 | 98 | 187 | 3.93e-33 | 115 |
| MS.gene35909.t1 | AT5G14370 | 53.211 | 109 | 36 | 3 | 46 | 139 | 228 | 336 | 8.02e-29 | 107 |
| MS.gene35909.t1 | AT4G25990 | 53.922 | 102 | 39 | 3 | 42 | 139 | 286 | 383 | 1.06e-23 | 95.1 |
| MS.gene35909.t1 | AT5G57180 | 53.846 | 91 | 40 | 2 | 49 | 139 | 337 | 425 | 3.46e-23 | 94.0 |
| MS.gene35909.t1 | AT1G73870 | 42.553 | 141 | 57 | 5 | 17 | 139 | 253 | 387 | 3.78e-21 | 87.8 |
| MS.gene35909.t1 | AT4G25990 | 47.009 | 117 | 39 | 4 | 42 | 139 | 286 | 398 | 5.74e-20 | 84.7 |
| MS.gene35909.t1 | AT1G49130 | 51.648 | 91 | 35 | 2 | 51 | 139 | 230 | 313 | 6.49e-20 | 84.0 |
| MS.gene35909.t1 | AT1G49130 | 52.747 | 91 | 34 | 3 | 51 | 139 | 237 | 320 | 6.69e-20 | 84.0 |
| MS.gene35909.t1 | AT1G25440 | 39.474 | 152 | 73 | 5 | 7 | 139 | 252 | 403 | 1.18e-19 | 84.0 |
| MS.gene35909.t1 | AT4G25990 | 52.083 | 96 | 38 | 3 | 42 | 133 | 286 | 377 | 1.25e-19 | 83.6 |
| MS.gene35909.t1 | AT5G57180 | 51.765 | 85 | 39 | 2 | 49 | 133 | 337 | 419 | 4.31e-19 | 82.4 |
| MS.gene35909.t1 | AT1G68520 | 40.678 | 118 | 52 | 2 | 40 | 139 | 282 | 399 | 6.35e-19 | 82.0 |
| MS.gene35909.t1 | AT2G24790 | 61.111 | 54 | 21 | 0 | 86 | 139 | 218 | 271 | 9.20e-14 | 66.6 |
| MS.gene35909.t1 | AT5G24930 | 53.226 | 62 | 29 | 0 | 78 | 139 | 276 | 337 | 1.83e-12 | 63.5 |
| MS.gene35909.t1 | AT5G57660 | 69.767 | 43 | 13 | 0 | 97 | 139 | 285 | 327 | 5.18e-12 | 62.0 |
Find 26 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTCTGACCGTGGCTCTCTT+TGG | 0.244079 | 5.1:+55931948 | MS.gene35909:CDS |
| GCTCTCTCTTCTTCCAATAT+TGG | 0.250193 | 5.1:-55932751 | None:intergenic |
| TTTGAATTATCAAGAGGTTT+TGG | 0.259887 | 5.1:+55931919 | MS.gene35909:CDS |
| AAAAGTGTGACCTTGATTCT+TGG | 0.281388 | 5.1:-55932877 | None:intergenic |
| GAAGAGAAGCAAGTGTTCTT+AGG | 0.336563 | 5.1:+55932776 | MS.gene35909:CDS |
| GTCTGACCGTGGCTCTCTTT+GGG | 0.337400 | 5.1:+55931949 | MS.gene35909:CDS |
| GATGGGAGAAGTGCCAATAT+TGG | 0.355037 | 5.1:+55932738 | MS.gene35909:intron |
| CTCATCTTTCCCTTCATCAA+AGG | 0.415253 | 5.1:-55931789 | None:intergenic |
| TCATCTTTCCCTTCATCAAA+GGG | 0.428053 | 5.1:-55931788 | None:intergenic |
| AAGAGAGAAAATTACAATGA+TGG | 0.429279 | 5.1:+55931851 | MS.gene35909:CDS |
| CATAAGCAAATGCAATTATG+AGG | 0.471927 | 5.1:+55931814 | MS.gene35909:CDS |
| GAGGGATTTCCCTTTGATGA+AGG | 0.484035 | 5.1:+55931779 | MS.gene35909:CDS |
| ACTAACATAGGAGCCACTAT+TGG | 0.497136 | 5.1:-55932002 | None:intergenic |
| AGGGATTTCCCTTTGATGAA+GGG | 0.520507 | 5.1:+55931780 | MS.gene35909:CDS |
| TCATTGGGATATCATGGAAT+GGG | 0.534580 | 5.1:+55931757 | None:intergenic |
| TTCATTGGGATATCATGGAA+TGG | 0.539426 | 5.1:+55931756 | None:intergenic |
| TTTGAATTTGAATTATCAAG+AGG | 0.541289 | 5.1:+55931913 | MS.gene35909:CDS |
| AACATAGGAGCCACTATTGG+AGG | 0.541652 | 5.1:-55931999 | None:intergenic |
| CGCTTTGTGAAGAGACATTG+AGG | 0.551371 | 5.1:+55933005 | MS.gene35909:CDS |
| TGATAAAAGACCAAGAATCA+AGG | 0.578251 | 5.1:+55932867 | MS.gene35909:CDS |
| ATAGGAGCCACTATTGGAGG+AGG | 0.606351 | 5.1:-55931996 | None:intergenic |
| TTGGGATATCATGGAATGGG+AGG | 0.609318 | 5.1:+55931760 | None:intergenic |
| TGGGATATCATGGAATGGGA+GGG | 0.659236 | 5.1:+55931761 | None:intergenic |
| CATTAGCCCAAAGAGAGCCA+CGG | 0.677020 | 5.1:-55931955 | None:intergenic |
| TTGGATGCATGGTCTGACCG+TGG | 0.694015 | 5.1:+55931938 | MS.gene35909:CDS |
| AATGGATGATGAAAAGAGTG+TGG | 0.704180 | 5.1:+55931883 | MS.gene35909:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAATAATATAGTTGTTATA+TGG | - | chr5.1:55932156-55932175 | None:intergenic | 10.0% |
| !!! | TAATTTTAAATAGTAACAAA+AGG | - | chr5.1:55932188-55932207 | None:intergenic | 10.0% |
| !! | TAAACAAAAAAGAAATTACT+AGG | - | chr5.1:55932718-55932737 | None:intergenic | 15.0% |
| !!! | AATTTCTTTTTTGTTTAGAT+GGG | + | chr5.1:55932721-55932740 | MS.gene35909:intron | 15.0% |
| !!! | GTTTCTTTTTTTTTTTCATT+GGG | + | chr5.1:55932921-55932940 | MS.gene35909:intron | 15.0% |
| !!! | TAATTTCTTTTTTGTTTAGA+TGG | + | chr5.1:55932720-55932739 | MS.gene35909:intron | 15.0% |
| !!! | TATCAATTCTTATTCTTTTA+AGG | + | chr5.1:55932105-55932124 | MS.gene35909:intron | 15.0% |
| !!! | TGTTTCTTTTTTTTTTTCAT+TGG | + | chr5.1:55932920-55932939 | MS.gene35909:intron | 15.0% |
| !! | ATATAACAACTTATCCAAAA+AGG | + | chr5.1:55932130-55932149 | MS.gene35909:intron | 20.0% |
| !! | TTTGAATTTGAATTATCAAG+AGG | + | chr5.1:55931913-55931932 | MS.gene35909:CDS | 20.0% |
| !!! | AAATTACAATGATGGTTTTT+TGG | + | chr5.1:55931859-55931878 | MS.gene35909:CDS | 20.0% |
| !!! | ATAACTAAATTTTTGGTGAT+AGG | + | chr5.1:55932469-55932488 | MS.gene35909:intron | 20.0% |
| !!! | GTAACATATTTAGTTCATTT+TGG | + | chr5.1:55932565-55932584 | MS.gene35909:intron | 20.0% |
| !!! | TATGTTGATTTTTGTTTAGA+TGG | + | chr5.1:55932350-55932369 | MS.gene35909:intron | 20.0% |
| !!! | TTTGTCGATAACTAAATTTT+TGG | + | chr5.1:55932462-55932481 | MS.gene35909:intron | 20.0% |
| !!! | TTTGTGATATTTTTGATGTA+GGG | + | chr5.1:55932981-55933000 | MS.gene35909:intron | 20.0% |
| !!! | TTTTGTGATATTTTTGATGT+AGG | + | chr5.1:55932980-55932999 | MS.gene35909:intron | 20.0% |
| !!! | TTTTTGGATAAGTTGTTATA+TGG | - | chr5.1:55932131-55932150 | None:intergenic | 20.0% |
| ! | AAGAGAGAAAATTACAATGA+TGG | + | chr5.1:55931851-55931870 | MS.gene35909:CDS | 25.0% |
| ! | ACATATATGAAAGTGAAGAT+TGG | - | chr5.1:55932037-55932056 | None:intergenic | 25.0% |
| ! | TATTACTTAATTGACACCAA+CGG | - | chr5.1:55932332-55932351 | None:intergenic | 25.0% |
| ! | TGGATAATGAATACTAACAT+AGG | - | chr5.1:55932017-55932036 | None:intergenic | 25.0% |
| ! | TTATTCGATCTATTCAATTG+TGG | + | chr5.1:55932433-55932452 | MS.gene35909:intron | 25.0% |
| !! | TTTGAATTATCAAGAGGTTT+TGG | + | chr5.1:55931919-55931938 | MS.gene35909:CDS | 25.0% |
| AAAACCTATTATCCAGAAAG+CGG | - | chr5.1:55932394-55932413 | None:intergenic | 30.0% | |
| ATTACTTAATTGACACCAAC+GGG | - | chr5.1:55932331-55932350 | None:intergenic | 30.0% | |
| CATAAGCAAATGCAATTATG+AGG | + | chr5.1:55931814-55931833 | MS.gene35909:CDS | 30.0% | |
| TGATAAAAGACCAAGAATCA+AGG | + | chr5.1:55932867-55932886 | MS.gene35909:CDS | 30.0% | |
| ! | GCAAGAATAGTCATCAATTT+TGG | - | chr5.1:55932245-55932264 | None:intergenic | 30.0% |
| ! | TAGTTGTTATATGGCCTTTT+TGG | - | chr5.1:55932147-55932166 | None:intergenic | 30.0% |
| !!! | CAATGATGGTTTTTTGGAAA+TGG | + | chr5.1:55931865-55931884 | MS.gene35909:CDS | 30.0% |
| AATGGATGATGAAAAGAGTG+TGG | + | chr5.1:55931883-55931902 | MS.gene35909:CDS | 35.0% | |
| GATAGGTAATCTTTGATGCT+TGG | + | chr5.1:55932486-55932505 | MS.gene35909:intron | 35.0% | |
| TCATCTTTCCCTTCATCAAA+GGG | - | chr5.1:55931791-55931810 | None:intergenic | 35.0% | |
| ! | AAAAGTGTGACCTTGATTCT+TGG | - | chr5.1:55932880-55932899 | None:intergenic | 35.0% |
| ! | CACATAAAGATTTTACCCGT+TGG | + | chr5.1:55932313-55932332 | MS.gene35909:intron | 35.0% |
| !! | CAGCGTTTAATTTTCGAACT+TGG | - | chr5.1:55932849-55932868 | None:intergenic | 35.0% |
| ACTAACATAGGAGCCACTAT+TGG | - | chr5.1:55932005-55932024 | None:intergenic | 40.0% | |
| AGGGATTTCCCTTTGATGAA+GGG | + | chr5.1:55931780-55931799 | MS.gene35909:CDS | 40.0% | |
| CTCATCTTTCCCTTCATCAA+AGG | - | chr5.1:55931792-55931811 | None:intergenic | 40.0% | |
| GAAGAGAAGCAAGTGTTCTT+AGG | + | chr5.1:55932776-55932795 | MS.gene35909:CDS | 40.0% | |
| GCTCTCTCTTCTTCCAATAT+TGG | - | chr5.1:55932754-55932773 | None:intergenic | 40.0% | |
| TTGACCGCTTTCTGGATAAT+AGG | + | chr5.1:55932387-55932406 | MS.gene35909:intron | 40.0% | |
| ! | TCATTTTCCTCCTCCAATAG+TGG | + | chr5.1:55931989-55932008 | MS.gene35909:CDS | 40.0% |
| !!! | ATCAAGAGGTTTTGGATGCA+TGG | + | chr5.1:55931927-55931946 | MS.gene35909:CDS | 40.0% |
| AACATAGGAGCCACTATTGG+AGG | - | chr5.1:55932002-55932021 | None:intergenic | 45.0% | |
| AACTCTTGTTGACCGCTTTC+TGG | + | chr5.1:55932379-55932398 | MS.gene35909:intron | 45.0% | |
| GAGGGATTTCCCTTTGATGA+AGG | + | chr5.1:55931779-55931798 | MS.gene35909:CDS | 45.0% | |
| !! | GATGGGAGAAGTGCCAATAT+TGG | + | chr5.1:55932738-55932757 | MS.gene35909:intron | 45.0% |
| ATAGGAGCCACTATTGGAGG+AGG | - | chr5.1:55931999-55932018 | None:intergenic | 50.0% | |
| CATTAGCCCAAAGAGAGCCA+CGG | - | chr5.1:55931958-55931977 | None:intergenic | 50.0% | |
| GTCTGACCGTGGCTCTCTTT+GGG | + | chr5.1:55931949-55931968 | MS.gene35909:CDS | 55.0% | |
| TTGGATGCATGGTCTGACCG+TGG | + | chr5.1:55931938-55931957 | MS.gene35909:CDS | 55.0% | |
| GGTCTGACCGTGGCTCTCTT+TGG | + | chr5.1:55931948-55931967 | MS.gene35909:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.1 | gene | 55931770 | 55933025 | 55931770 | ID=MS.gene35909 |
| chr5.1 | mRNA | 55931770 | 55933025 | 55931770 | ID=MS.gene35909.t1;Parent=MS.gene35909 |
| chr5.1 | exon | 55931770 | 55932018 | 55931770 | ID=MS.gene35909.t1.exon1;Parent=MS.gene35909.t1 |
| chr5.1 | CDS | 55931770 | 55932018 | 55931770 | ID=cds.MS.gene35909.t1;Parent=MS.gene35909.t1 |
| chr5.1 | exon | 55932739 | 55932888 | 55932739 | ID=MS.gene35909.t1.exon2;Parent=MS.gene35909.t1 |
| chr5.1 | CDS | 55932739 | 55932888 | 55932739 | ID=cds.MS.gene35909.t1;Parent=MS.gene35909.t1 |
| chr5.1 | exon | 55933002 | 55933025 | 55933002 | ID=MS.gene35909.t1.exon3;Parent=MS.gene35909.t1 |
| chr5.1 | CDS | 55933002 | 55933025 | 55933002 | ID=cds.MS.gene35909.t1;Parent=MS.gene35909.t1 |
| Gene Sequence |
| Protein sequence |
