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.gene32941.t1 | XP_003603061.2 | 93.9 | 148 | 9 | 0 | 1 | 148 | 302 | 449 | 8.80E-75 | 289.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32941.t1 | Q9FF86 | 37.8 | 143 | 84 | 2 | 3 | 143 | 309 | 448 | 2.6e-19 | 96.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32941.t1 | G7J6F5 | 93.9 | 148 | 9 | 0 | 1 | 148 | 302 | 449 | 6.3e-75 | 289.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049259 | MS.gene32941 | 0.804838 | 1.78E-49 | -1.69E-46 |
| MS.gene053561 | MS.gene32941 | 0.820322 | 7.29E-53 | -1.69E-46 |
| MS.gene054056 | MS.gene32941 | 0.805757 | 1.14E-49 | -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.gene32941.t1 | MTR_3g101900 | 93.919 | 148 | 9 | 0 | 1 | 148 | 302 | 449 | 1.61e-98 | 291 |
| MS.gene32941.t1 | MTR_3g101930 | 67.123 | 146 | 47 | 1 | 1 | 146 | 310 | 454 | 7.31e-68 | 213 |
| MS.gene32941.t1 | MTR_3g102020 | 60.127 | 158 | 56 | 1 | 1 | 158 | 305 | 455 | 7.77e-62 | 197 |
| MS.gene32941.t1 | MTR_3g101970 | 60.135 | 148 | 59 | 0 | 1 | 148 | 291 | 438 | 5.86e-60 | 192 |
| MS.gene32941.t1 | MTR_3g101960 | 63.380 | 142 | 52 | 0 | 1 | 142 | 304 | 445 | 2.76e-59 | 191 |
| MS.gene32941.t1 | MTR_3g102010 | 58.667 | 150 | 62 | 0 | 1 | 150 | 305 | 454 | 2.96e-55 | 180 |
| MS.gene32941.t1 | MTR_3g102030 | 58.000 | 100 | 42 | 0 | 1 | 100 | 221 | 320 | 1.25e-37 | 131 |
| MS.gene32941.t1 | MTR_3g070170 | 39.860 | 143 | 85 | 1 | 1 | 143 | 325 | 466 | 1.53e-33 | 123 |
| MS.gene32941.t1 | MTR_5g081960 | 40.559 | 143 | 84 | 1 | 1 | 143 | 341 | 482 | 1.91e-33 | 123 |
| MS.gene32941.t1 | MTR_4g015180 | 39.456 | 147 | 88 | 1 | 1 | 147 | 342 | 487 | 3.65e-31 | 117 |
| MS.gene32941.t1 | MTR_3g088420 | 39.726 | 146 | 84 | 3 | 3 | 147 | 291 | 433 | 2.14e-28 | 108 |
| MS.gene32941.t1 | MTR_4g094838 | 37.762 | 143 | 88 | 1 | 1 | 143 | 287 | 428 | 2.46e-26 | 103 |
| MS.gene32941.t1 | MTR_4g022670 | 39.041 | 146 | 85 | 3 | 3 | 147 | 299 | 441 | 2.59e-26 | 103 |
| MS.gene32941.t1 | MTR_4g094835 | 38.462 | 143 | 87 | 1 | 1 | 143 | 301 | 442 | 3.45e-26 | 103 |
| MS.gene32941.t1 | MTR_4g094842 | 39.161 | 143 | 84 | 3 | 3 | 144 | 305 | 445 | 4.53e-26 | 102 |
| MS.gene32941.t1 | MTR_4g022800 | 38.255 | 149 | 87 | 4 | 1 | 147 | 297 | 442 | 1.03e-25 | 101 |
| MS.gene32941.t1 | MTR_4g094832 | 38.462 | 143 | 87 | 1 | 1 | 143 | 285 | 426 | 1.54e-25 | 101 |
| MS.gene32941.t1 | MTR_6g045553 | 37.671 | 146 | 86 | 2 | 3 | 146 | 332 | 474 | 1.69e-25 | 101 |
| MS.gene32941.t1 | MTR_4g022720 | 37.838 | 148 | 88 | 3 | 1 | 147 | 291 | 435 | 1.20e-24 | 99.0 |
| MS.gene32941.t1 | MTR_3g026310 | 41.216 | 148 | 81 | 4 | 3 | 147 | 304 | 448 | 1.92e-24 | 98.2 |
| MS.gene32941.t1 | MTR_8g041770 | 37.838 | 148 | 89 | 3 | 1 | 147 | 296 | 441 | 1.99e-24 | 98.2 |
| MS.gene32941.t1 | MTR_4g022825 | 37.838 | 148 | 88 | 3 | 1 | 147 | 296 | 440 | 2.26e-24 | 98.2 |
| MS.gene32941.t1 | MTR_7g026860 | 38.926 | 149 | 82 | 5 | 1 | 147 | 297 | 438 | 4.61e-23 | 94.4 |
| MS.gene32941.t1 | MTR_0190s0020 | 35.811 | 148 | 92 | 3 | 1 | 147 | 297 | 442 | 5.48e-23 | 94.4 |
| MS.gene32941.t1 | MTR_4g094825 | 35.374 | 147 | 84 | 3 | 1 | 147 | 256 | 391 | 1.81e-22 | 92.4 |
| MS.gene32941.t1 | MTR_8g040780 | 30.719 | 153 | 101 | 4 | 3 | 151 | 86 | 237 | 9.37e-17 | 75.1 |
| MS.gene32941.t1 | MTR_4g022290 | 34.228 | 149 | 91 | 4 | 1 | 145 | 298 | 443 | 2.27e-16 | 75.5 |
| MS.gene32941.t1 | MTR_4g094828 | 34.641 | 153 | 91 | 6 | 1 | 148 | 303 | 451 | 1.31e-14 | 70.5 |
| MS.gene32941.t1 | MTR_8g079710 | 34.752 | 141 | 85 | 7 | 1 | 136 | 296 | 434 | 5.43e-14 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32941.t1 | AT5G42830 | 52.703 | 148 | 70 | 0 | 1 | 148 | 303 | 450 | 1.34e-46 | 157 |
| MS.gene32941.t1 | AT5G07860 | 52.055 | 146 | 68 | 1 | 1 | 146 | 305 | 448 | 3.80e-42 | 146 |
| MS.gene32941.t1 | AT5G07870 | 49.660 | 147 | 74 | 0 | 1 | 147 | 315 | 461 | 4.08e-41 | 143 |
| MS.gene32941.t1 | AT5G07850 | 50.676 | 148 | 72 | 1 | 1 | 147 | 306 | 453 | 4.48e-40 | 140 |
| MS.gene32941.t1 | AT5G01210 | 42.177 | 147 | 84 | 1 | 1 | 147 | 324 | 469 | 1.41e-34 | 126 |
| MS.gene32941.t1 | AT2G39980 | 42.177 | 147 | 84 | 1 | 1 | 147 | 335 | 480 | 5.52e-34 | 124 |
| MS.gene32941.t1 | AT5G67150 | 41.611 | 149 | 84 | 2 | 1 | 149 | 303 | 448 | 1.24e-33 | 123 |
| MS.gene32941.t1 | AT5G23940 | 37.241 | 145 | 86 | 2 | 1 | 143 | 307 | 448 | 9.08e-24 | 96.7 |
| MS.gene32941.t1 | AT3G50280 | 35.172 | 145 | 91 | 2 | 1 | 143 | 166 | 309 | 6.44e-21 | 87.4 |
| MS.gene32941.t1 | AT3G50280 | 35.172 | 145 | 91 | 2 | 1 | 143 | 296 | 439 | 1.68e-20 | 87.4 |
| MS.gene32941.t1 | AT3G50270 | 31.544 | 149 | 100 | 2 | 1 | 148 | 302 | 449 | 3.60e-18 | 80.9 |
| MS.gene32941.t1 | AT5G67160 | 31.788 | 151 | 94 | 4 | 1 | 149 | 291 | 434 | 5.06e-18 | 80.5 |
| MS.gene32941.t1 | AT3G50300 | 32.061 | 131 | 86 | 2 | 1 | 129 | 296 | 425 | 4.69e-17 | 77.8 |
| MS.gene32941.t1 | AT5G38130 | 32.090 | 134 | 88 | 2 | 1 | 132 | 314 | 446 | 7.98e-16 | 74.3 |
Find 47 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGCATCAAAGTGGTGTTTA+AGG | 0.177579 | 3.1:+80921972 | None:intergenic |
| AACATGTATGGAAATGAATT+TGG | 0.200204 | 3.1:-80921917 | MS.gene32941:CDS |
| TGAATTGCTAGAGAATAATT+TGG | 0.236348 | 3.1:-80922095 | MS.gene32941:CDS |
| AAACAGCATTCATGAAATTC+TGG | 0.315247 | 3.1:+80921750 | None:intergenic |
| AGGAGGAGAGAGCATGGATT+TGG | 0.340322 | 3.1:-80921816 | MS.gene32941:CDS |
| TTTGCCATCTTTCGTACCTC+TGG | 0.340501 | 3.1:+80922025 | None:intergenic |
| CTCTTCCACAAGAGTACTTT+GGG | 0.342809 | 3.1:-80922156 | MS.gene32941:CDS |
| TCACCAAGGTTTAACATGTA+TGG | 0.363014 | 3.1:-80921929 | MS.gene32941:CDS |
| TCTAGTGCTCTCATCACATT+TGG | 0.370186 | 3.1:+80921779 | None:intergenic |
| GAATTGCTAGAGAATAATTT+GGG | 0.404796 | 3.1:-80922094 | MS.gene32941:CDS |
| CCTCTTCCACAAGAGTACTT+TGG | 0.419393 | 3.1:-80922157 | MS.gene32941:CDS |
| TGTGATGAGAGCACTAGAAT+TGG | 0.427916 | 3.1:-80921774 | MS.gene32941:CDS |
| TGTACCCCGTCTACTTCAAA+AGG | 0.439151 | 3.1:-80921701 | MS.gene32941:CDS |
| TATGGAAATGAATTTGGAAT+GGG | 0.439212 | 3.1:-80921911 | MS.gene32941:CDS |
| ACAGATATAATTAGAGAGAT+TGG | 0.441305 | 3.1:+80921721 | None:intergenic |
| TTGCCATCTTTCGTACCTCT+GGG | 0.453949 | 3.1:+80922026 | None:intergenic |
| TTCGTACCTCTGGGTCATCA+TGG | 0.471436 | 3.1:+80922035 | None:intergenic |
| TGTTTAAGGCTTAATATCAT+AGG | 0.479366 | 3.1:+80921986 | None:intergenic |
| CTTAAACACCACTTTGATGC+TGG | 0.486430 | 3.1:-80921971 | MS.gene32941:CDS |
| CCAAAGTACTCTTGTGGAAG+AGG | 0.493132 | 3.1:+80922157 | None:intergenic |
| TTTCCATACATGTTAAACCT+TGG | 0.506348 | 3.1:+80921926 | None:intergenic |
| TGCTAGAGAATAATTTGGGA+TGG | 0.511321 | 3.1:-80922090 | MS.gene32941:CDS |
| ACATGAAGGAGGAGAGAGCA+TGG | 0.514005 | 3.1:-80921822 | MS.gene32941:CDS |
| TTTGGGATGGGCAGCATGGA+AGG | 0.526844 | 3.1:-80922077 | MS.gene32941:CDS |
| TGGGAATGTGACAGCATATG+AGG | 0.531079 | 3.1:-80921846 | MS.gene32941:CDS |
| TGGGCAGCATGGAAGGTGCA+TGG | 0.536391 | 3.1:-80922070 | MS.gene32941:CDS |
| TGACCCAGAGGTACGAAAGA+TGG | 0.540305 | 3.1:-80922029 | MS.gene32941:CDS |
| ATTCTCTAGCAATTCACCTA+CGG | 0.541854 | 3.1:+80922102 | None:intergenic |
| TAACCACTCAAAACTGCCAC+TGG | 0.548632 | 3.1:+80921884 | None:intergenic |
| GCTAGAGAATAATTTGGGAT+GGG | 0.555008 | 3.1:-80922089 | MS.gene32941:CDS |
| GGTTATGCAAACAAATGTGA+TGG | 0.557612 | 3.1:-80921866 | MS.gene32941:CDS |
| GTATGGAAATGAATTTGGAA+TGG | 0.561756 | 3.1:-80921912 | MS.gene32941:CDS |
| ACAGCATATGAGGGACATGA+AGG | 0.583593 | 3.1:-80921836 | MS.gene32941:CDS |
| GTACCCCGTCTACTTCAAAA+GGG | 0.601346 | 3.1:-80921700 | MS.gene32941:CDS |
| ATAATTTGGGATGGGCAGCA+TGG | 0.616155 | 3.1:-80922081 | MS.gene32941:CDS |
| TACACTCACTGTGTCAACTG+AGG | 0.621195 | 3.1:+80922132 | None:intergenic |
| GTTATGCAAACAAATGTGAT+GGG | 0.628176 | 3.1:-80921865 | MS.gene32941:CDS |
| CCACACTACCAGCATCAAAG+TGG | 0.631844 | 3.1:+80921963 | None:intergenic |
| AAGTACTCTTGTGGAAGAGG+CGG | 0.635051 | 3.1:+80922160 | None:intergenic |
| CCACTTTGATGCTGGTAGTG+TGG | 0.651666 | 3.1:-80921963 | MS.gene32941:CDS |
| GCATATGAGGGACATGAAGG+AGG | 0.651988 | 3.1:-80921833 | MS.gene32941:CDS |
| GGGAATGTGACAGCATATGA+GGG | 0.668225 | 3.1:-80921845 | MS.gene32941:CDS |
| ATTTGGAATGGGGAAACCAG+TGG | 0.673938 | 3.1:-80921900 | MS.gene32941:CDS |
| ATGGAAATGAATTTGGAATG+GGG | 0.678734 | 3.1:-80921910 | MS.gene32941:CDS |
| GAGGTCCCAAAGTACTCTTG+TGG | 0.680293 | 3.1:+80922151 | None:intergenic |
| TGGCAATGATAAGTTCACCA+AGG | 0.714004 | 3.1:-80921943 | MS.gene32941:CDS |
| AGCAAACCATGATGACCCAG+AGG | 0.741285 | 3.1:-80922041 | MS.gene32941:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AACATGTATGGAAATGAATT+TGG | - | chr3.1:80921943-80921962 | MS.gene32941:CDS | 25.0% |
| ! | ACAGATATAATTAGAGAGAT+TGG | + | chr3.1:80922142-80922161 | None:intergenic | 25.0% |
| ! | GAATTGCTAGAGAATAATTT+GGG | - | chr3.1:80921766-80921785 | MS.gene32941:CDS | 25.0% |
| ! | TGAATTGCTAGAGAATAATT+TGG | - | chr3.1:80921765-80921784 | MS.gene32941:CDS | 25.0% |
| !! | TATGGAAATGAATTTGGAAT+GGG | - | chr3.1:80921949-80921968 | MS.gene32941:CDS | 25.0% |
| !! | TGTTTAAGGCTTAATATCAT+AGG | + | chr3.1:80921877-80921896 | None:intergenic | 25.0% |
| AAACAGCATTCATGAAATTC+TGG | + | chr3.1:80922113-80922132 | None:intergenic | 30.0% | |
| GTATGGAAATGAATTTGGAA+TGG | - | chr3.1:80921948-80921967 | MS.gene32941:CDS | 30.0% | |
| GTTATGCAAACAAATGTGAT+GGG | - | chr3.1:80921995-80922014 | MS.gene32941:CDS | 30.0% | |
| TTTCCATACATGTTAAACCT+TGG | + | chr3.1:80921937-80921956 | None:intergenic | 30.0% | |
| ! | ATGGAAATGAATTTGGAATG+GGG | - | chr3.1:80921950-80921969 | MS.gene32941:CDS | 30.0% |
| !!! | TATAACCCTTTTGAAGTAGA+CGG | + | chr3.1:80922168-80922187 | None:intergenic | 30.0% |
| ATTCTCTAGCAATTCACCTA+CGG | + | chr3.1:80921761-80921780 | None:intergenic | 35.0% | |
| GGTTATGCAAACAAATGTGA+TGG | - | chr3.1:80921994-80922013 | MS.gene32941:CDS | 35.0% | |
| TACGAAAGATGGCAAAAAAG+TGG | - | chr3.1:80921842-80921861 | MS.gene32941:CDS | 35.0% | |
| TCACCAAGGTTTAACATGTA+TGG | - | chr3.1:80921931-80921950 | MS.gene32941:CDS | 35.0% | |
| TGCTAGAGAATAATTTGGGA+TGG | - | chr3.1:80921770-80921789 | MS.gene32941:CDS | 35.0% | |
| ! | GCTAGAGAATAATTTGGGAT+GGG | - | chr3.1:80921771-80921790 | MS.gene32941:CDS | 35.0% |
| !!! | ATAACCCTTTTGAAGTAGAC+GGG | + | chr3.1:80922167-80922186 | None:intergenic | 35.0% |
| CAGCATCAAAGTGGTGTTTA+AGG | + | chr3.1:80921891-80921910 | None:intergenic | 40.0% | |
| CTTAAACACCACTTTGATGC+TGG | - | chr3.1:80921889-80921908 | MS.gene32941:CDS | 40.0% | |
| GTGAGTGTAAAAACAACCGT+AGG | - | chr3.1:80921742-80921761 | MS.gene32941:CDS | 40.0% | |
| TCTAGTGCTCTCATCACATT+TGG | + | chr3.1:80922084-80922103 | None:intergenic | 40.0% | |
| TGGCAATGATAAGTTCACCA+AGG | - | chr3.1:80921917-80921936 | MS.gene32941:CDS | 40.0% | |
| !! | CTCTTCCACAAGAGTACTTT+GGG | - | chr3.1:80921704-80921723 | MS.gene32941:CDS | 40.0% |
| !! | TGTGATGAGAGCACTAGAAT+TGG | - | chr3.1:80922086-80922105 | MS.gene32941:CDS | 40.0% |
| !!! | TAACCCTTTTGAAGTAGACG+GGG | + | chr3.1:80922166-80922185 | None:intergenic | 40.0% |
| AAGTACTCTTGTGGAAGAGG+CGG | + | chr3.1:80921703-80921722 | None:intergenic | 45.0% | |
| ACAGCATATGAGGGACATGA+AGG | - | chr3.1:80922024-80922043 | MS.gene32941:CDS | 45.0% | |
| GGGAATGTGACAGCATATGA+GGG | - | chr3.1:80922015-80922034 | MS.gene32941:CDS | 45.0% | |
| GTACCCCGTCTACTTCAAAA+GGG | - | chr3.1:80922160-80922179 | MS.gene32941:CDS | 45.0% | |
| TAACCACTCAAAACTGCCAC+TGG | + | chr3.1:80921979-80921998 | None:intergenic | 45.0% | |
| TACACTCACTGTGTCAACTG+AGG | + | chr3.1:80921731-80921750 | None:intergenic | 45.0% | |
| TGGGAATGTGACAGCATATG+AGG | - | chr3.1:80922014-80922033 | MS.gene32941:CDS | 45.0% | |
| TGTACCCCGTCTACTTCAAA+AGG | - | chr3.1:80922159-80922178 | MS.gene32941:CDS | 45.0% | |
| TTGCCATCTTTCGTACCTCT+GGG | + | chr3.1:80921837-80921856 | None:intergenic | 45.0% | |
| TTTGCCATCTTTCGTACCTC+TGG | + | chr3.1:80921838-80921857 | None:intergenic | 45.0% | |
| ! | ATAATTTGGGATGGGCAGCA+TGG | - | chr3.1:80921779-80921798 | MS.gene32941:CDS | 45.0% |
| ! | ATTTGGAATGGGGAAACCAG+TGG | - | chr3.1:80921960-80921979 | MS.gene32941:CDS | 45.0% |
| ! | CCAAAGTACTCTTGTGGAAG+AGG | + | chr3.1:80921706-80921725 | None:intergenic | 45.0% |
| !! | CCTCTTCCACAAGAGTACTT+TGG | - | chr3.1:80921703-80921722 | MS.gene32941:CDS | 45.0% |
| !!! | AAACCAGTGGCAGTTTTGAG+TGG | - | chr3.1:80921973-80921992 | MS.gene32941:CDS | 45.0% |
| ACATGAAGGAGGAGAGAGCA+TGG | - | chr3.1:80922038-80922057 | MS.gene32941:CDS | 50.0% | |
| AGCAAACCATGATGACCCAG+AGG | - | chr3.1:80921819-80921838 | MS.gene32941:CDS | 50.0% | |
| CCACACTACCAGCATCAAAG+TGG | + | chr3.1:80921900-80921919 | None:intergenic | 50.0% | |
| GCATATGAGGGACATGAAGG+AGG | - | chr3.1:80922027-80922046 | MS.gene32941:CDS | 50.0% | |
| TTCGTACCTCTGGGTCATCA+TGG | + | chr3.1:80921828-80921847 | None:intergenic | 50.0% | |
| ! | AGGAGGAGAGAGCATGGATT+TGG | - | chr3.1:80922044-80922063 | MS.gene32941:CDS | 50.0% |
| ! | CCACTTTGATGCTGGTAGTG+TGG | - | chr3.1:80921897-80921916 | MS.gene32941:CDS | 50.0% |
| ! | GAGGTCCCAAAGTACTCTTG+TGG | + | chr3.1:80921712-80921731 | None:intergenic | 50.0% |
| ! | TGACCCAGAGGTACGAAAGA+TGG | - | chr3.1:80921831-80921850 | MS.gene32941:CDS | 50.0% |
| ! | TTTGGGATGGGCAGCATGGA+AGG | - | chr3.1:80921783-80921802 | MS.gene32941:CDS | 55.0% |
| ! | TGGGCAGCATGGAAGGTGCA+TGG | - | chr3.1:80921790-80921809 | MS.gene32941:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 80921694 | 80922188 | 80921694 | ID=MS.gene32941 |
| chr3.1 | mRNA | 80921694 | 80922188 | 80921694 | ID=MS.gene32941.t1;Parent=MS.gene32941 |
| chr3.1 | exon | 80921694 | 80922188 | 80921694 | ID=MS.gene32941.t1.exon1;Parent=MS.gene32941.t1 |
| chr3.1 | CDS | 80921694 | 80922188 | 80921694 | ID=cds.MS.gene32941.t1;Parent=MS.gene32941.t1 |
| Gene Sequence |
| Protein sequence |
