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.gene05961.t1 | RHN64327.1 | 97.7 | 175 | 4 | 0 | 3 | 177 | 173 | 347 | 7.70E-93 | 349.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05961.t1 | Q67XL4 | 50.0 | 162 | 79 | 1 | 1 | 160 | 148 | 309 | 4.6e-38 | 159.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05961.t1 | A0A396IN28 | 97.7 | 175 | 4 | 0 | 3 | 177 | 173 | 347 | 5.5e-93 | 349.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05961 | MS.gene063700 | 0.837955 | 3.83E-57 | -1.69E-46 |
| MS.gene05961 | MS.gene51221 | 0.808689 | 2.74E-50 | -1.69E-46 |
| MS.gene05961 | MS.gene61682 | 0.8055 | 1.30E-49 | -1.69E-46 |
| MS.gene05961 | MS.gene73643 | 0.818785 | 1.64E-52 | -1.69E-46 |
| MS.gene05961 | MS.gene90882 | 0.8034 | 3.55E-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.gene05961.t1 | MTR_4g120880 | 96.045 | 177 | 7 | 0 | 1 | 177 | 171 | 347 | 5.10e-123 | 350 |
| MS.gene05961.t1 | MTR_4g120880 | 94.118 | 136 | 8 | 0 | 1 | 136 | 171 | 306 | 1.25e-83 | 249 |
| MS.gene05961.t1 | MTR_4g067300 | 63.905 | 169 | 61 | 0 | 1 | 169 | 144 | 312 | 4.55e-72 | 223 |
| MS.gene05961.t1 | MTR_1g050760 | 45.810 | 179 | 92 | 2 | 1 | 177 | 14 | 189 | 5.93e-45 | 151 |
| MS.gene05961.t1 | MTR_1g050760 | 45.810 | 179 | 92 | 2 | 1 | 177 | 129 | 304 | 9.79e-44 | 150 |
| MS.gene05961.t1 | MTR_6g004480 | 49.686 | 159 | 80 | 0 | 1 | 159 | 123 | 281 | 4.09e-31 | 118 |
| MS.gene05961.t1 | MTR_6g008410 | 39.205 | 176 | 102 | 2 | 2 | 174 | 531 | 704 | 1.97e-27 | 108 |
| MS.gene05961.t1 | MTR_4g126140 | 39.490 | 157 | 82 | 4 | 15 | 161 | 578 | 731 | 8.92e-25 | 100 |
| MS.gene05961.t1 | MTR_1g475240 | 35.714 | 168 | 104 | 2 | 12 | 175 | 611 | 778 | 2.98e-24 | 99.0 |
| MS.gene05961.t1 | MTR_1g075190 | 35.714 | 168 | 104 | 2 | 12 | 175 | 611 | 778 | 2.98e-24 | 99.0 |
| MS.gene05961.t1 | MTR_6g084410 | 38.000 | 150 | 82 | 3 | 25 | 167 | 616 | 761 | 3.72e-23 | 95.9 |
| MS.gene05961.t1 | MTR_2g100660 | 34.965 | 143 | 90 | 1 | 22 | 161 | 589 | 731 | 3.86e-18 | 81.3 |
| MS.gene05961.t1 | MTR_8g104340 | 38.053 | 113 | 67 | 2 | 28 | 137 | 481 | 593 | 1.31e-14 | 71.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05961.t1 | AT4G13070 | 82.840 | 169 | 28 | 1 | 1 | 168 | 153 | 321 | 9.45e-93 | 273 |
| MS.gene05961.t1 | AT2G28480 | 60.355 | 169 | 67 | 0 | 1 | 169 | 135 | 303 | 2.19e-67 | 210 |
| MS.gene05961.t1 | AT3G25440 | 50.000 | 162 | 79 | 1 | 1 | 160 | 84 | 245 | 1.39e-47 | 159 |
| MS.gene05961.t1 | AT3G25440 | 50.000 | 162 | 79 | 1 | 1 | 160 | 148 | 309 | 3.59e-47 | 159 |
| MS.gene05961.t1 | AT3G25440 | 50.000 | 154 | 75 | 1 | 9 | 160 | 1 | 154 | 4.76e-46 | 152 |
| MS.gene05961.t1 | AT3G25440 | 50.000 | 154 | 75 | 1 | 9 | 160 | 1 | 154 | 4.76e-46 | 152 |
| MS.gene05961.t1 | AT3G25440 | 50.000 | 154 | 75 | 1 | 9 | 160 | 1 | 154 | 4.76e-46 | 152 |
| MS.gene05961.t1 | AT3G27550 | 49.686 | 159 | 80 | 0 | 1 | 159 | 63 | 221 | 2.16e-33 | 124 |
| MS.gene05961.t1 | AT3G27550 | 49.686 | 159 | 80 | 0 | 1 | 159 | 63 | 221 | 2.16e-33 | 124 |
| MS.gene05961.t1 | AT3G27550 | 49.686 | 159 | 80 | 0 | 1 | 159 | 119 | 277 | 2.30e-32 | 121 |
| MS.gene05961.t1 | AT3G18390 | 41.104 | 163 | 84 | 6 | 12 | 166 | 634 | 792 | 3.08e-28 | 110 |
| MS.gene05961.t1 | AT3G01370 | 37.241 | 145 | 88 | 1 | 25 | 166 | 574 | 718 | 2.86e-23 | 96.3 |
| MS.gene05961.t1 | AT3G23070 | 41.781 | 146 | 77 | 3 | 12 | 149 | 619 | 764 | 1.22e-22 | 94.4 |
| MS.gene05961.t1 | AT4G14510 | 37.333 | 150 | 90 | 2 | 21 | 166 | 655 | 804 | 9.70e-22 | 91.7 |
| MS.gene05961.t1 | AT4G29750 | 33.333 | 177 | 105 | 4 | 2 | 175 | 622 | 788 | 2.27e-19 | 85.1 |
| MS.gene05961.t1 | AT4G29750 | 33.333 | 177 | 105 | 4 | 2 | 175 | 622 | 788 | 2.76e-19 | 84.7 |
| MS.gene05961.t1 | AT5G16180 | 38.462 | 156 | 89 | 4 | 12 | 161 | 553 | 707 | 1.67e-18 | 82.4 |
Find 32 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTCCTCAGTTAAAATTTC+AGG | 0.179737 | 4.2:-1743889 | None:intergenic |
| TCTGGAGGTGACATTACTTT+TGG | 0.308382 | 4.2:-1744171 | None:intergenic |
| TCTCCAACCTTTCAATGAAC+TGG | 0.383559 | 4.2:-1745186 | None:intergenic |
| AACACTCCTCGTCTCCCAAC+TGG | 0.398535 | 4.2:-1743958 | None:intergenic |
| CAACCATGTTTCCTTTCGCT+TGG | 0.409679 | 4.2:-1743812 | None:intergenic |
| GTTGGGAGACGAGGAGTGTT+TGG | 0.413564 | 4.2:+1743961 | MS.gene05961:CDS |
| TCAGGATCAAATGTTTCTGC+TGG | 0.419530 | 4.2:-1743871 | None:intergenic |
| GGAGACGAGGAGTGTTTGGT+GGG | 0.441377 | 4.2:+1743965 | MS.gene05961:CDS |
| GGGAGACGAGGAGTGTTTGG+TGG | 0.442447 | 4.2:+1743964 | MS.gene05961:CDS |
| TCTAGGCCTTGGAGAAATAT+CGG | 0.442470 | 4.2:+1745137 | MS.gene05961:intron |
| TATATGTAAGCCTTGCAAAC+CGG | 0.468156 | 4.2:+1744038 | MS.gene05961:CDS |
| TAGCCAGTTCATTGAAAGGT+TGG | 0.488858 | 4.2:+1745183 | MS.gene05961:CDS |
| TTCTAAACATGCATCTTCAC+TGG | 0.504602 | 4.2:+1743992 | MS.gene05961:CDS |
| ATATGTAAGCCTTGCAAACC+GGG | 0.505832 | 4.2:+1744039 | MS.gene05961:CDS |
| CAGGATCAAATGTTTCTGCT+GGG | 0.510086 | 4.2:-1743870 | None:intergenic |
| AGGCATTACCTGAAGCGCAC+TGG | 0.522131 | 4.2:+1743913 | MS.gene05961:CDS |
| AGAAACACTATGTTCCAGTT+GGG | 0.525710 | 4.2:+1743944 | MS.gene05961:CDS |
| TGAGCTTGACCCGGTTTGCA+AGG | 0.529862 | 4.2:-1744048 | None:intergenic |
| AAGAAACACTATGTTCCAGT+TGG | 0.532969 | 4.2:+1743943 | MS.gene05961:CDS |
| GAAGAATCATGAGACTGTAA+AGG | 0.568733 | 4.2:+1744014 | MS.gene05961:CDS |
| TGAACTGGCTAGTATGCTCA+AGG | 0.573860 | 4.2:-1745171 | None:intergenic |
| ATACTAGCCAGTTCATTGAA+AGG | 0.587462 | 4.2:+1745179 | MS.gene05961:CDS |
| GCATATTCATGAGCTTGACC+CGG | 0.595729 | 4.2:-1744057 | None:intergenic |
| GAGCTTGCTCGACTGAGCAA+AGG | 0.595899 | 4.2:+1744084 | MS.gene05961:CDS |
| ATATCTTCAGGCCAAGCGAA+AGG | 0.601883 | 4.2:+1743801 | None:intergenic |
| AGGCCAAGCGAAAGGAAACA+TGG | 0.604868 | 4.2:+1743809 | None:intergenic |
| AGATACATTATCAAAAGCAA+AGG | 0.615533 | 4.2:+1744191 | MS.gene05961:CDS |
| GCTGTACATAGTTCTTCCCA+CGG | 0.617010 | 4.2:-1744149 | None:intergenic |
| TATGTTCCAGTTGGGAGACG+AGG | 0.621094 | 4.2:+1743952 | MS.gene05961:CDS |
| CTCATACCGATATTTCTCCA+AGG | 0.640700 | 4.2:-1745143 | None:intergenic |
| GAACTGGCTAGTATGCTCAA+GGG | 0.673772 | 4.2:-1745170 | None:intergenic |
| GAGACGAGGAGTGTTTGGTG+GGG | 0.705824 | 4.2:+1743966 | MS.gene05961:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTAAAAAATGATAATATTAT+TGG | - | chr4.2:1744130-1744149 | None:intergenic | 10.0% |
| !!! | TATGATTTTTTTTCTTTTGA+GGG | + | chr4.2:1744918-1744937 | MS.gene05961:intron | 15.0% |
| !! | ATAATATATATGACACTAAC+AGG | - | chr4.2:1744550-1744569 | None:intergenic | 20.0% |
| !! | ATATATTATTGCAATATCAG+AGG | + | chr4.2:1744561-1744580 | MS.gene05961:intron | 20.0% |
| !! | ATGTTGCAAAGTTTAAAAAA+GGG | + | chr4.2:1745233-1745252 | MS.gene05961:CDS | 20.0% |
| !! | GAAATTATGTAGTTTAAGTA+AGG | + | chr4.2:1744292-1744311 | MS.gene05961:intron | 20.0% |
| !! | TATATTATTGCAATATCAGA+GGG | + | chr4.2:1744562-1744581 | MS.gene05961:intron | 20.0% |
| !!! | AATATTATCATTTTTTACCG+TGG | + | chr4.2:1744132-1744151 | MS.gene05961:CDS | 20.0% |
| !!! | ATATTATCATTTTTTACCGT+GGG | + | chr4.2:1744133-1744152 | MS.gene05961:CDS | 20.0% |
| !!! | CTATGATTTTTTTTCTTTTG+AGG | + | chr4.2:1744917-1744936 | MS.gene05961:intron | 20.0% |
| !!! | TTGAAAGTATTTAACTGAAT+GGG | - | chr4.2:1744610-1744629 | None:intergenic | 20.0% |
| !!! | TTTTAACTTGTTAAATCTCT+AGG | + | chr4.2:1745120-1745139 | MS.gene05961:intron | 20.0% |
| ! | AAAGTTTAAAAAAGGGAAAG+AGG | + | chr4.2:1745240-1745259 | MS.gene05961:CDS | 25.0% |
| ! | AACATATTCCAGATAAACTT+AGG | - | chr4.2:1745057-1745076 | None:intergenic | 25.0% |
| ! | AATACATGTTTATCTTTCTG+AGG | - | chr4.2:1744950-1744969 | None:intergenic | 25.0% |
| ! | AGATACATTATCAAAAGCAA+AGG | + | chr4.2:1744191-1744210 | MS.gene05961:CDS | 25.0% |
| ! | CATGTTGCAAAGTTTAAAAA+AGG | + | chr4.2:1745232-1745251 | MS.gene05961:CDS | 25.0% |
| ! | TTATGTAGTTTAAGTAAGGA+AGG | + | chr4.2:1744296-1744315 | MS.gene05961:intron | 25.0% |
| !! | TTCTATTACTAATTTGCATG+AGG | - | chr4.2:1744896-1744915 | None:intergenic | 25.0% |
| !!! | CTTGAAAGTATTTAACTGAA+TGG | - | chr4.2:1744611-1744630 | None:intergenic | 25.0% |
| !!! | TTTGCTTTTGATAATGTATC+TGG | - | chr4.2:1744192-1744211 | None:intergenic | 25.0% |
| AGTTAACCACATTCATCAAA+CGG | - | chr4.2:1744790-1744809 | None:intergenic | 30.0% | |
| ATGATACAGATCATTCTCAT+CGG | - | chr4.2:1744675-1744694 | None:intergenic | 30.0% | |
| TGATTATGCCTAAGTTTATC+TGG | + | chr4.2:1745046-1745065 | MS.gene05961:intron | 30.0% | |
| ! | GCAGATAATTCTACACTTTT+CGG | - | chr4.2:1744498-1744517 | None:intergenic | 30.0% |
| !!! | TGATCCTGAAATTTTAACTG+AGG | + | chr4.2:1743885-1743904 | MS.gene05961:CDS | 30.0% |
| AAGAAACACTATGTTCCAGT+TGG | + | chr4.2:1743943-1743962 | MS.gene05961:CDS | 35.0% | |
| AGAAACACTATGTTCCAGTT+GGG | + | chr4.2:1743944-1743963 | MS.gene05961:CDS | 35.0% | |
| AGTGTAGAATTATCTGCTTG+AGG | + | chr4.2:1744501-1744520 | MS.gene05961:intron | 35.0% | |
| ATACTAGCCAGTTCATTGAA+AGG | + | chr4.2:1745179-1745198 | MS.gene05961:CDS | 35.0% | |
| CATGGTTGATCGAAAAACTT+AGG | + | chr4.2:1743827-1743846 | MS.gene05961:CDS | 35.0% | |
| CGATTAATTGCAATACACAG+AGG | - | chr4.2:1744843-1744862 | None:intergenic | 35.0% | |
| GAAGAATCATGAGACTGTAA+AGG | + | chr4.2:1744014-1744033 | MS.gene05961:CDS | 35.0% | |
| TAGAATTATCTGCTTGAGGT+TGG | + | chr4.2:1744505-1744524 | MS.gene05961:intron | 35.0% | |
| TATATGTAAGCCTTGCAAAC+CGG | + | chr4.2:1744038-1744057 | MS.gene05961:CDS | 35.0% | |
| TCCTCCTCAGTTAAAATTTC+AGG | - | chr4.2:1743892-1743911 | None:intergenic | 35.0% | |
| TGCAATTAATCGCAGTGTTA+GGG | + | chr4.2:1744851-1744870 | MS.gene05961:intron | 35.0% | |
| TTCTAAACATGCATCTTCAC+TGG | + | chr4.2:1743992-1744011 | MS.gene05961:CDS | 35.0% | |
| TTGCAATTAATCGCAGTGTT+AGG | + | chr4.2:1744850-1744869 | MS.gene05961:intron | 35.0% | |
| !!! | AAATTTTAACTGAGGAGGAG+AGG | + | chr4.2:1743893-1743912 | MS.gene05961:CDS | 35.0% |
| !!! | GCTTTTGATAATGTATCTGG+AGG | - | chr4.2:1744189-1744208 | None:intergenic | 35.0% |
| !!! | TCCTGAAATTTTAACTGAGG+AGG | + | chr4.2:1743888-1743907 | MS.gene05961:CDS | 35.0% |
| AAGTAAGGAAGGAGAAGAGT+AGG | + | chr4.2:1744307-1744326 | MS.gene05961:intron | 40.0% | |
| ATATGTAAGCCTTGCAAACC+GGG | + | chr4.2:1744039-1744058 | MS.gene05961:CDS | 40.0% | |
| CTCATACCGATATTTCTCCA+AGG | - | chr4.2:1745146-1745165 | None:intergenic | 40.0% | |
| CTTGTTAAATCTCTAGGCCT+TGG | + | chr4.2:1745126-1745145 | MS.gene05961:intron | 40.0% | |
| TAGCCAGTTCATTGAAAGGT+TGG | + | chr4.2:1745183-1745202 | MS.gene05961:CDS | 40.0% | |
| TCTAGGCCTTGGAGAAATAT+CGG | + | chr4.2:1745137-1745156 | MS.gene05961:intron | 40.0% | |
| TCTCCAACCTTTCAATGAAC+TGG | - | chr4.2:1745189-1745208 | None:intergenic | 40.0% | |
| TCTTCACCGTTTGATGAATG+TGG | + | chr4.2:1744781-1744800 | MS.gene05961:intron | 40.0% | |
| ! | CAGGATCAAATGTTTCTGCT+GGG | - | chr4.2:1743873-1743892 | None:intergenic | 40.0% |
| ! | TCAGGATCAAATGTTTCTGC+TGG | - | chr4.2:1743874-1743893 | None:intergenic | 40.0% |
| ! | TCTGGAGGTGACATTACTTT+TGG | - | chr4.2:1744174-1744193 | None:intergenic | 40.0% |
| CAACCATGTTTCCTTTCGCT+TGG | - | chr4.2:1743815-1743834 | None:intergenic | 45.0% | |
| GAACTGGCTAGTATGCTCAA+GGG | - | chr4.2:1745173-1745192 | None:intergenic | 45.0% | |
| GCATATTCATGAGCTTGACC+CGG | - | chr4.2:1744060-1744079 | None:intergenic | 45.0% | |
| GCTGTACATAGTTCTTCCCA+CGG | - | chr4.2:1744152-1744171 | None:intergenic | 45.0% | |
| TGAACTGGCTAGTATGCTCA+AGG | - | chr4.2:1745174-1745193 | None:intergenic | 45.0% | |
| ! | GCACTAGTGCTTTTGTAGAG+TGG | + | chr4.2:1745003-1745022 | MS.gene05961:intron | 45.0% |
| !! | TAAAAAATGATAATATTATT+GGG | - | chr4.2:1744129-1744148 | None:intergenic | 5.0% |
| ATTTGCATGAGGCCTGTGAG+AGG | - | chr4.2:1744885-1744904 | None:intergenic | 50.0% | |
| TATGTTCCAGTTGGGAGACG+AGG | + | chr4.2:1743952-1743971 | MS.gene05961:CDS | 50.0% | |
| TTTGCATGAGGCCTGTGAGA+GGG | - | chr4.2:1744884-1744903 | None:intergenic | 50.0% | |
| ! | TTTTCTCTCCAGTGCGCTTC+AGG | - | chr4.2:1743924-1743943 | None:intergenic | 50.0% |
| AACACTCCTCGTCTCCCAAC+TGG | - | chr4.2:1743961-1743980 | None:intergenic | 55.0% | |
| AGGCATTACCTGAAGCGCAC+TGG | + | chr4.2:1743913-1743932 | MS.gene05961:CDS | 55.0% | |
| ! | GAGCTTGCTCGACTGAGCAA+AGG | + | chr4.2:1744084-1744103 | MS.gene05961:CDS | 55.0% |
| ! | TGAGCTTGACCCGGTTTGCA+AGG | - | chr4.2:1744051-1744070 | None:intergenic | 55.0% |
| !! | GAGACGAGGAGTGTTTGGTG+GGG | + | chr4.2:1743966-1743985 | MS.gene05961:CDS | 55.0% |
| !! | GGAGACGAGGAGTGTTTGGT+GGG | + | chr4.2:1743965-1743984 | MS.gene05961:CDS | 55.0% |
| !! | GTTGGGAGACGAGGAGTGTT+TGG | + | chr4.2:1743961-1743980 | MS.gene05961:CDS | 55.0% |
| AGGGACTGCTACCCTCTCAC+AGG | + | chr4.2:1744870-1744889 | MS.gene05961:intron | 60.0% | |
| !! | GGGAGACGAGGAGTGTTTGG+TGG | + | chr4.2:1743964-1743983 | MS.gene05961:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 1743811 | 1745273 | 1743811 | ID=MS.gene05961 |
| chr4.2 | mRNA | 1743811 | 1745273 | 1743811 | ID=MS.gene05961.t1;Parent=MS.gene05961 |
| chr4.2 | exon | 1743811 | 1744212 | 1743811 | ID=MS.gene05961.t1.exon1;Parent=MS.gene05961.t1 |
| chr4.2 | CDS | 1743811 | 1744212 | 1743811 | ID=cds.MS.gene05961.t1;Parent=MS.gene05961.t1 |
| chr4.2 | exon | 1745142 | 1745273 | 1745142 | ID=MS.gene05961.t1.exon2;Parent=MS.gene05961.t1 |
| chr4.2 | CDS | 1745142 | 1745273 | 1745142 | ID=cds.MS.gene05961.t1;Parent=MS.gene05961.t1 |
| Gene Sequence |
| Protein sequence |
