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.gene28110.t1 | XP_003630068.1 | 98 | 100 | 2 | 0 | 1 | 100 | 97 | 196 | 2.30E-54 | 221.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28110.t1 | Q40588 | 55.4 | 101 | 43 | 1 | 1 | 99 | 94 | 194 | 6.3e-32 | 137.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28110.t1 | G7LAE5 | 98.0 | 100 | 2 | 0 | 1 | 100 | 97 | 196 | 1.7e-54 | 221.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05015 | MS.gene28110 | 0.81124 | 7.73E-51 | -1.69E-46 |
| MS.gene050381 | MS.gene28110 | 0.827944 | 1.18E-54 | -1.69E-46 |
| MS.gene051044 | MS.gene28110 | 0.82742 | 1.58E-54 | -1.69E-46 |
| MS.gene051138 | MS.gene28110 | 0.806458 | 8.15E-50 | -1.69E-46 |
| MS.gene052802 | MS.gene28110 | 0.809995 | 1.44E-50 | -1.69E-46 |
| MS.gene053561 | MS.gene28110 | 0.846416 | 2.20E-59 | -1.69E-46 |
| MS.gene054056 | MS.gene28110 | 0.812052 | 5.15E-51 | -1.69E-46 |
| MS.gene055124 | MS.gene28110 | 0.814333 | 1.62E-51 | -1.69E-46 |
| MS.gene055154 | MS.gene28110 | 0.802623 | 5.14E-49 | -1.69E-46 |
| MS.gene055942 | MS.gene28110 | 0.805445 | 1.33E-49 | -1.69E-46 |
| MS.gene056313 | MS.gene28110 | 0.809873 | 1.53E-50 | -1.69E-46 |
| MS.gene059690 | MS.gene28110 | 0.888835 | 4.15E-73 | -1.69E-46 |
| MS.gene059691 | MS.gene28110 | 0.904295 | 1.43E-79 | -1.69E-46 |
| MS.gene059694 | MS.gene28110 | 0.907987 | 2.80E-81 | -1.69E-46 |
| MS.gene059697 | MS.gene28110 | 0.914472 | 1.84E-84 | -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.gene28110.t1 | MTR_8g091390 | 98.000 | 100 | 2 | 0 | 1 | 100 | 97 | 196 | 2.44e-67 | 211 |
| MS.gene28110.t1 | MTR_3g078740 | 53.000 | 100 | 45 | 1 | 2 | 99 | 90 | 189 | 3.80e-34 | 123 |
| MS.gene28110.t1 | MTR_3g078730 | 49.000 | 100 | 26 | 1 | 1 | 100 | 88 | 162 | 2.06e-26 | 101 |
| MS.gene28110.t1 | MTR_3g078700 | 47.475 | 99 | 27 | 1 | 2 | 100 | 90 | 163 | 8.32e-25 | 97.1 |
| MS.gene28110.t1 | MTR_2g009230 | 45.763 | 59 | 30 | 1 | 43 | 99 | 1 | 59 | 3.22e-13 | 60.1 |
| MS.gene28110.t1 | MTR_3g071890 | 41.772 | 79 | 41 | 3 | 3 | 77 | 97 | 174 | 4.44e-12 | 60.8 |
| MS.gene28110.t1 | MTR_7g065970 | 38.462 | 78 | 44 | 4 | 3 | 77 | 89 | 165 | 7.85e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28110.t1 | AT4G39830 | 68.627 | 102 | 30 | 1 | 1 | 100 | 2 | 103 | 1.20e-50 | 166 |
| MS.gene28110.t1 | AT4G39830 | 68.627 | 102 | 30 | 1 | 1 | 100 | 4 | 105 | 1.38e-50 | 166 |
| MS.gene28110.t1 | AT4G39830 | 68.627 | 102 | 30 | 1 | 1 | 100 | 99 | 200 | 4.12e-50 | 166 |
| MS.gene28110.t1 | AT4G39830 | 58.416 | 101 | 27 | 2 | 1 | 99 | 4 | 91 | 4.55e-37 | 130 |
| MS.gene28110.t1 | AT5G21100 | 50.505 | 99 | 48 | 1 | 2 | 100 | 88 | 185 | 1.20e-32 | 119 |
| MS.gene28110.t1 | AT5G21105 | 49.495 | 99 | 48 | 1 | 2 | 98 | 102 | 200 | 1.66e-30 | 112 |
| MS.gene28110.t1 | AT5G21105 | 49.495 | 99 | 48 | 1 | 2 | 98 | 102 | 200 | 1.72e-30 | 113 |
| MS.gene28110.t1 | AT1G18140 | 43.750 | 80 | 40 | 3 | 3 | 78 | 93 | 171 | 1.21e-11 | 59.7 |
| MS.gene28110.t1 | AT2G46570 | 39.759 | 83 | 45 | 4 | 5 | 83 | 98 | 179 | 2.27e-11 | 58.9 |
| MS.gene28110.t1 | AT2G30210 | 41.667 | 84 | 44 | 4 | 1 | 80 | 90 | 172 | 2.68e-11 | 58.5 |
| MS.gene28110.t1 | AT1G55570 | 38.000 | 100 | 55 | 4 | 5 | 100 | 95 | 191 | 6.07e-11 | 57.8 |
| MS.gene28110.t1 | AT5G05390 | 37.805 | 82 | 46 | 3 | 1 | 78 | 89 | 169 | 8.06e-11 | 57.4 |
Find 23 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGGGAAGCAGGAGTATA+TGG | 0.305522 | 4.4:-10078549 | MS.gene28110:CDS |
| CTATCAAAGTCATAAGAAAA+AGG | 0.331498 | 4.4:+10078495 | None:intergenic |
| ATTGGAACTCCTTGGTTTGA+TGG | 0.340104 | 4.4:-10078944 | MS.gene28110:CDS |
| TTTATCGATTTGTTGTTGAT+AGG | 0.375099 | 4.4:-10078874 | MS.gene28110:CDS |
| TACCTTTATCATGCTCACTA+TGG | 0.386828 | 4.4:-10078576 | MS.gene28110:CDS |
| TTCCATAGTGAGCATGATAA+AGG | 0.395211 | 4.4:+10078574 | None:intergenic |
| ATTGTTCATAAGTACTCTTA+TGG | 0.412906 | 4.4:+10078448 | None:intergenic |
| TTATCGATTTGTTGTTGATA+GGG | 0.462550 | 4.4:-10078873 | MS.gene28110:intron |
| TATGGAATGCAAAGGGAAGC+AGG | 0.500152 | 4.4:-10078558 | MS.gene28110:CDS |
| AGTACTTATGAACAATCTGC+TGG | 0.505703 | 4.4:-10078441 | MS.gene28110:CDS |
| CGATAAACAAAGGTGTCTCC+AGG | 0.528939 | 4.4:+10078890 | None:intergenic |
| TGCTCACTATGGAATGCAAA+GGG | 0.536716 | 4.4:-10078565 | MS.gene28110:CDS |
| CCTTGGTTTGATGGAACAGA+AGG | 0.537286 | 4.4:-10078935 | MS.gene28110:CDS |
| TATGACAGATTGGAACTCCT+TGG | 0.549024 | 4.4:-10078952 | None:intergenic |
| ATGCTCACTATGGAATGCAA+AGG | 0.577390 | 4.4:-10078566 | MS.gene28110:CDS |
| TCTCAATGTCCTATACTACC+TGG | 0.584728 | 4.4:-10078908 | MS.gene28110:CDS |
| AAGGTGTCTCCAGGTAGTAT+AGG | 0.588687 | 4.4:+10078899 | None:intergenic |
| CTTGGTTTGATGGAACAGAA+GGG | 0.602438 | 4.4:-10078934 | MS.gene28110:CDS |
| TTGGTTTGATGGAACAGAAG+GGG | 0.617644 | 4.4:-10078933 | MS.gene28110:CDS |
| GCATGATAAAGGTATGTACC+AGG | 0.623377 | 4.4:+10078585 | None:intergenic |
| AACAACAAATCGATAAACAA+AGG | 0.630677 | 4.4:+10078880 | None:intergenic |
| CCTTCTGTTCCATCAAACCA+AGG | 0.691723 | 4.4:+10078935 | None:intergenic |
| AGTATATGGAATGATTCGTG+TGG | 0.709085 | 4.4:-10078535 | MS.gene28110:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CATAAAAATTATATCTAATT+TGG | - | chr4.4:10078717-10078736 | MS.gene28110:intron | 10.0% |
| !! | TTAAAGCTTCAATAAAATCA+TGG | + | chr4.4:10078561-10078580 | None:intergenic | 20.0% |
| ! | AACAACAAATCGATAAACAA+AGG | + | chr4.4:10078468-10078487 | None:intergenic | 25.0% |
| ! | ATTGTTCATAAGTACTCTTA+TGG | + | chr4.4:10078900-10078919 | None:intergenic | 25.0% |
| ! | CTATCAAAGTCATAAGAAAA+AGG | + | chr4.4:10078853-10078872 | None:intergenic | 25.0% |
| !!! | GAAGCATTATTTTGAATGAT+TGG | - | chr4.4:10078872-10078891 | MS.gene28110:intron | 25.0% |
| !!! | TTATCGATTTGTTGTTGATA+GGG | - | chr4.4:10078472-10078491 | MS.gene28110:CDS | 25.0% |
| !!! | TTTATCGATTTGTTGTTGAT+AGG | - | chr4.4:10078471-10078490 | MS.gene28110:CDS | 25.0% |
| AAGTCATAAGAAAAAGGTTC+AGG | + | chr4.4:10078847-10078866 | None:intergenic | 30.0% | |
| ACATATTTAATGTTACAGCC+TGG | - | chr4.4:10078742-10078761 | MS.gene28110:intron | 30.0% | |
| AGTCATAAGAAAAAGGTTCA+GGG | + | chr4.4:10078846-10078865 | None:intergenic | 30.0% | |
| GTGTTGAAATTGAAAAGCAA+TGG | + | chr4.4:10078666-10078685 | None:intergenic | 30.0% | |
| TGTTTGATCAACAGTGAATT+TGG | + | chr4.4:10078627-10078646 | None:intergenic | 30.0% | |
| AGTACTTATGAACAATCTGC+TGG | - | chr4.4:10078904-10078923 | MS.gene28110:CDS | 35.0% | |
| AGTATATGGAATGATTCGTG+TGG | - | chr4.4:10078810-10078829 | MS.gene28110:intron | 35.0% | |
| CAGTGAATTTGGCAAAATCA+TGG | + | chr4.4:10078616-10078635 | None:intergenic | 35.0% | |
| TACCTTTATCATGCTCACTA+TGG | - | chr4.4:10078769-10078788 | MS.gene28110:intron | 35.0% | |
| TTCCATAGTGAGCATGATAA+AGG | + | chr4.4:10078774-10078793 | None:intergenic | 35.0% | |
| ! | GTCTGCAATTCCTTTTCAAT+GGG | - | chr4.4:10078930-10078949 | MS.gene28110:CDS | 35.0% |
| ! | TGTCTGCAATTCCTTTTCAA+TGG | - | chr4.4:10078929-10078948 | MS.gene28110:CDS | 35.0% |
| ATGCTCACTATGGAATGCAA+AGG | - | chr4.4:10078779-10078798 | MS.gene28110:intron | 40.0% | |
| GAAAAAGGTTCAGGGTCATT+AGG | + | chr4.4:10078838-10078857 | None:intergenic | 40.0% | |
| TCTCAATGTCCTATACTACC+TGG | - | chr4.4:10078437-10078456 | MS.gene28110:CDS | 40.0% | |
| TGCTCACTATGGAATGCAAA+GGG | - | chr4.4:10078780-10078799 | MS.gene28110:intron | 40.0% | |
| ! | AATTCCTTTTCAATGGGTGG+GGG | - | chr4.4:10078936-10078955 | MS.gene28110:CDS | 40.0% |
| ! | ATTGGAACTCCTTGGTTTGA+TGG | - | chr4.4:10078401-10078420 | MS.gene28110:CDS | 40.0% |
| ! | CAATTCCTTTTCAATGGGTG+GGG | - | chr4.4:10078935-10078954 | MS.gene28110:CDS | 40.0% |
| ! | CTTGGTTTGATGGAACAGAA+GGG | - | chr4.4:10078411-10078430 | MS.gene28110:CDS | 40.0% |
| ! | GCAATTCCTTTTCAATGGGT+GGG | - | chr4.4:10078934-10078953 | MS.gene28110:CDS | 40.0% |
| ! | GCATGATAAAGGTATGTACC+AGG | + | chr4.4:10078763-10078782 | None:intergenic | 40.0% |
| ! | TGCAATTCCTTTTCAATGGG+TGG | - | chr4.4:10078933-10078952 | MS.gene28110:CDS | 40.0% |
| ! | TTGGTTTGATGGAACAGAAG+GGG | - | chr4.4:10078412-10078431 | MS.gene28110:CDS | 40.0% |
| CCTTCTGTTCCATCAAACCA+AGG | + | chr4.4:10078413-10078432 | None:intergenic | 45.0% | |
| TATGGAATGCAAAGGGAAGC+AGG | - | chr4.4:10078787-10078806 | MS.gene28110:intron | 45.0% | |
| ! | AAGGTGTCTCCAGGTAGTAT+AGG | + | chr4.4:10078449-10078468 | None:intergenic | 45.0% |
| ! | CAAAGGGAAGCAGGAGTATA+TGG | - | chr4.4:10078796-10078815 | MS.gene28110:intron | 45.0% |
| ! | CCTTGGTTTGATGGAACAGA+AGG | - | chr4.4:10078410-10078429 | MS.gene28110:CDS | 45.0% |
| !! | CGATAAACAAAGGTGTCTCC+AGG | + | chr4.4:10078458-10078477 | None:intergenic | 45.0% |
| GGTTCCCCCACCCATTGAAA+AGG | + | chr4.4:10078943-10078962 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 10078401 | 10078966 | 10078401 | ID=MS.gene28110 |
| chr4.4 | mRNA | 10078401 | 10078966 | 10078401 | ID=MS.gene28110.t1;Parent=MS.gene28110 |
| chr4.4 | exon | 10078874 | 10078966 | 10078874 | ID=MS.gene28110.t1.exon1;Parent=MS.gene28110.t1 |
| chr4.4 | CDS | 10078874 | 10078966 | 10078874 | ID=cds.MS.gene28110.t1;Parent=MS.gene28110.t1 |
| chr4.4 | exon | 10078401 | 10078607 | 10078401 | ID=MS.gene28110.t1.exon2;Parent=MS.gene28110.t1 |
| chr4.4 | CDS | 10078401 | 10078607 | 10078401 | ID=cds.MS.gene28110.t1;Parent=MS.gene28110.t1 |
| Gene Sequence |
| Protein sequence |
