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.gene74380.t1 | XP_003624883.1 | 95.5 | 110 | 5 | 0 | 7 | 116 | 94 | 203 | 3.20E-47 | 197.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene74380.t1 | Q9M612 | 77.3 | 110 | 24 | 1 | 7 | 115 | 95 | 204 | 4.4e-37 | 155.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene74380.t1 | G7L4T7 | 95.5 | 110 | 5 | 0 | 7 | 116 | 94 | 203 | 2.3e-47 | 197.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051198 | MS.gene74380 | 0.801883 | 7.30E-49 | -1.69E-46 |
| MS.gene051247 | MS.gene74380 | 0.802536 | 5.36E-49 | -1.69E-46 |
| MS.gene051710 | MS.gene74380 | 0.832124 | 1.13E-55 | -1.69E-46 |
| MS.gene051720 | MS.gene74380 | 0.81311 | 3.02E-51 | -1.69E-46 |
| MS.gene051744 | MS.gene74380 | 0.813731 | 2.21E-51 | -1.69E-46 |
| MS.gene052519 | MS.gene74380 | 0.800237 | 1.58E-48 | -1.69E-46 |
| MS.gene052582 | MS.gene74380 | 0.802191 | 6.31E-49 | -1.69E-46 |
| MS.gene052584 | MS.gene74380 | 0.803371 | 3.60E-49 | -1.69E-46 |
| MS.gene053226 | MS.gene74380 | 0.803108 | 4.08E-49 | -1.69E-46 |
| MS.gene053296 | MS.gene74380 | 0.809258 | 2.07E-50 | -1.69E-46 |
| MS.gene053621 | MS.gene74380 | 0.807909 | 4.01E-50 | -1.69E-46 |
| MS.gene054236 | MS.gene74380 | 0.825621 | 4.24E-54 | -1.69E-46 |
| MS.gene054651 | MS.gene74380 | 0.806687 | 7.29E-50 | -1.69E-46 |
| MS.gene054775 | MS.gene74380 | 0.844133 | 9.13E-59 | -1.69E-46 |
| MS.gene054801 | MS.gene74380 | 0.855303 | 6.91E-62 | -1.69E-46 |
| MS.gene055357 | MS.gene74380 | 0.806892 | 6.60E-50 | -1.69E-46 |
| MS.gene055466 | MS.gene74380 | 0.814047 | 1.88E-51 | -1.69E-46 |
| MS.gene056050 | MS.gene74380 | 0.810909 | 9.12E-51 | -1.69E-46 |
| MS.gene056366 | MS.gene74380 | 0.804661 | 1.94E-49 | -1.69E-46 |
| MS.gene056595 | MS.gene74380 | 0.806803 | 6.89E-50 | -1.69E-46 |
| MS.gene057915 | MS.gene74380 | 0.802046 | 6.76E-49 | -1.69E-46 |
| MS.gene058010 | MS.gene74380 | 0.803716 | 3.05E-49 | -1.69E-46 |
| MS.gene058515 | MS.gene74380 | 0.80221 | 6.25E-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.gene74380.t1 | MTR_7g088680 | 95.455 | 110 | 5 | 0 | 7 | 116 | 94 | 203 | 1.12e-71 | 213 |
| MS.gene74380.t1 | MTR_3g092970 | 65.517 | 116 | 34 | 2 | 7 | 116 | 112 | 227 | 6.84e-42 | 137 |
| MS.gene74380.t1 | MTR_3g092980 | 54.472 | 123 | 35 | 2 | 7 | 116 | 104 | 218 | 2.80e-35 | 120 |
| MS.gene74380.t1 | MTR_3g092980 | 54.472 | 123 | 35 | 2 | 7 | 116 | 106 | 220 | 2.94e-35 | 120 |
| MS.gene74380.t1 | MTR_3g093750 | 54.867 | 113 | 38 | 4 | 7 | 116 | 425 | 527 | 5.59e-25 | 98.2 |
| MS.gene74380.t1 | MTR_3g093720 | 76.744 | 43 | 10 | 0 | 74 | 116 | 215 | 257 | 4.36e-15 | 69.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene74380.t1 | AT3G12390 | 72.321 | 112 | 29 | 1 | 7 | 116 | 92 | 203 | 8.82e-42 | 137 |
| MS.gene74380.t1 | AT5G13850 | 68.966 | 116 | 29 | 1 | 7 | 115 | 88 | 203 | 6.66e-40 | 132 |
| MS.gene74380.t1 | AT3G49470 | 59.483 | 116 | 41 | 1 | 7 | 116 | 102 | 217 | 2.90e-38 | 128 |
| MS.gene74380.t1 | AT1G33040 | 58.261 | 115 | 42 | 2 | 7 | 115 | 94 | 208 | 5.14e-36 | 122 |
| MS.gene74380.t1 | AT4G10480 | 61.538 | 117 | 35 | 2 | 7 | 115 | 96 | 210 | 2.01e-35 | 120 |
| MS.gene74380.t1 | AT4G10480 | 61.538 | 117 | 35 | 2 | 7 | 115 | 97 | 211 | 2.40e-35 | 120 |
| MS.gene74380.t1 | AT3G49470 | 57.944 | 107 | 39 | 1 | 7 | 107 | 102 | 208 | 7.92e-33 | 114 |
Find 26 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGACACATACATTATATT+TGG | 0.105916 | 4.2:+65176055 | MS.gene74380:CDS |
| CTGACACATACATTATATTT+GGG | 0.318774 | 4.2:+65176056 | MS.gene74380:CDS |
| GGAGCAATACCAGAGGATTC+TGG | 0.324111 | 4.2:-65176169 | None:intergenic |
| TCGTCTACATCCTCATCTTC+TGG | 0.324398 | 4.2:-65176190 | None:intergenic |
| GCACCCGCATTGGTCAAATT+AGG | 0.333932 | 4.2:-65176142 | None:intergenic |
| GCTTTAACAGCTCTTGATCT+TGG | 0.356165 | 4.2:-65176265 | None:intergenic |
| AGACATTGTTGCTGCCATTA+TGG | 0.359211 | 4.2:+65176306 | MS.gene74380:CDS |
| GTTGGACTCTTGAAAAGATC+TGG | 0.381279 | 4.2:-65176031 | None:intergenic |
| TTAATTTGTTAGCTCCATAA+TGG | 0.425574 | 4.2:-65176320 | None:intergenic |
| CACCACCAACTCAATATCCT+TGG | 0.437037 | 4.2:-65176227 | None:intergenic |
| ATAATGTATGTGTCAGAAGT+TGG | 0.465047 | 4.2:-65176049 | None:intergenic |
| TTCTGGCTTCGCACCCGCAT+TGG | 0.469966 | 4.2:-65176152 | None:intergenic |
| TCAGGCTGCAGAGCAGTTCA+AGG | 0.493163 | 4.2:+65176117 | MS.gene74380:CDS |
| AAAGCTCTCAAAGCTGTCAA+TGG | 0.508744 | 4.2:+65176283 | MS.gene74380:CDS |
| TCCCAAGGATATTGAGTTGG+TGG | 0.515624 | 4.2:+65176225 | MS.gene74380:CDS |
| GATCCTAATTTGACCAATGC+GGG | 0.519700 | 4.2:+65176139 | MS.gene74380:CDS |
| ACCACCAACTCAATATCCTT+GGG | 0.531886 | 4.2:-65176226 | None:intergenic |
| GGTGCGAAGCCAGAATCCTC+TGG | 0.535151 | 4.2:+65176160 | MS.gene74380:CDS |
| GATGAGGATGTAGACGAGAC+TGG | 0.538671 | 4.2:+65176196 | MS.gene74380:CDS |
| GAGTTGGTGGTGACTCAAGC+TGG | 0.556994 | 4.2:+65176238 | MS.gene74380:CDS |
| GAGCTCACAGCTACAAACTC+AGG | 0.597975 | 4.2:+65176099 | MS.gene74380:CDS |
| CGAGACTGGTGTAGATCCCA+AGG | 0.607645 | 4.2:+65176210 | MS.gene74380:CDS |
| TGGTATTGCTCCAGAAGATG+AGG | 0.607813 | 4.2:+65176180 | MS.gene74380:CDS |
| AGATCCCAAGGATATTGAGT+TGG | 0.629225 | 4.2:+65176222 | MS.gene74380:CDS |
| ATCTTCTGGAGCAATACCAG+AGG | 0.670950 | 4.2:-65176176 | None:intergenic |
| GGATCCTAATTTGACCAATG+CGG | 0.677685 | 4.2:+65176138 | MS.gene74380:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTTTTCTTCTTCTTT+TGG | + | chr4.2:65175945-65175964 | MS.gene74380:intron | 15.0% |
| ! | CTGACACATACATTATATTT+GGG | + | chr4.2:65176056-65176075 | MS.gene74380:CDS | 25.0% |
| ! | TCTGACACATACATTATATT+TGG | + | chr4.2:65176055-65176074 | MS.gene74380:CDS | 25.0% |
| !!! | TTAATTTGTTAGCTCCATAA+TGG | - | chr4.2:65176323-65176342 | None:intergenic | 25.0% |
| !!! | TTTATTTTTTGCATGAACTG+AGG | + | chr4.2:65175905-65175924 | MS.gene74380:intron | 25.0% |
| ATAATGTATGTGTCAGAAGT+TGG | - | chr4.2:65176052-65176071 | None:intergenic | 30.0% | |
| AAAGCTCTCAAAGCTGTCAA+TGG | + | chr4.2:65176283-65176302 | MS.gene74380:CDS | 40.0% | |
| ACCACCAACTCAATATCCTT+GGG | - | chr4.2:65176229-65176248 | None:intergenic | 40.0% | |
| AGACATTGTTGCTGCCATTA+TGG | + | chr4.2:65176306-65176325 | MS.gene74380:CDS | 40.0% | |
| AGATCCCAAGGATATTGAGT+TGG | + | chr4.2:65176222-65176241 | MS.gene74380:CDS | 40.0% | |
| ATGAACTGAGGCTACAATGA+TGG | + | chr4.2:65175917-65175936 | MS.gene74380:intron | 40.0% | |
| GATCCTAATTTGACCAATGC+GGG | + | chr4.2:65176139-65176158 | MS.gene74380:CDS | 40.0% | |
| GCTTTAACAGCTCTTGATCT+TGG | - | chr4.2:65176268-65176287 | None:intergenic | 40.0% | |
| GGATCCTAATTTGACCAATG+CGG | + | chr4.2:65176138-65176157 | MS.gene74380:CDS | 40.0% | |
| GTTGGACTCTTGAAAAGATC+TGG | - | chr4.2:65176034-65176053 | None:intergenic | 40.0% | |
| CACCACCAACTCAATATCCT+TGG | - | chr4.2:65176230-65176249 | None:intergenic | 45.0% | |
| TCGTCTACATCCTCATCTTC+TGG | - | chr4.2:65176193-65176212 | None:intergenic | 45.0% | |
| TGGTATTGCTCCAGAAGATG+AGG | + | chr4.2:65176180-65176199 | MS.gene74380:CDS | 45.0% | |
| !! | ATCTTCTGGAGCAATACCAG+AGG | - | chr4.2:65176179-65176198 | None:intergenic | 45.0% |
| !! | TCCCAAGGATATTGAGTTGG+TGG | + | chr4.2:65176225-65176244 | MS.gene74380:CDS | 45.0% |
| GAGCTCACAGCTACAAACTC+AGG | + | chr4.2:65176099-65176118 | MS.gene74380:CDS | 50.0% | |
| GATGAGGATGTAGACGAGAC+TGG | + | chr4.2:65176196-65176215 | MS.gene74380:CDS | 50.0% | |
| GGAGCAATACCAGAGGATTC+TGG | - | chr4.2:65176172-65176191 | None:intergenic | 50.0% | |
| ! | GCACCCGCATTGGTCAAATT+AGG | - | chr4.2:65176145-65176164 | None:intergenic | 50.0% |
| CGAGACTGGTGTAGATCCCA+AGG | + | chr4.2:65176210-65176229 | MS.gene74380:CDS | 55.0% | |
| TCAGGCTGCAGAGCAGTTCA+AGG | + | chr4.2:65176117-65176136 | MS.gene74380:CDS | 55.0% | |
| !! | GAGTTGGTGGTGACTCAAGC+TGG | + | chr4.2:65176238-65176257 | MS.gene74380:CDS | 55.0% |
| GGTGCGAAGCCAGAATCCTC+TGG | + | chr4.2:65176160-65176179 | MS.gene74380:CDS | 60.0% | |
| !! | TTCTGGCTTCGCACCCGCAT+TGG | - | chr4.2:65176155-65176174 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 65175881 | 65176342 | 65175881 | ID=MS.gene74380 |
| chr4.2 | mRNA | 65175881 | 65176342 | 65175881 | ID=MS.gene74380.t1;Parent=MS.gene74380 |
| chr4.2 | exon | 65175881 | 65175898 | 65175881 | ID=MS.gene74380.t1.exon1;Parent=MS.gene74380.t1 |
| chr4.2 | CDS | 65175881 | 65175898 | 65175881 | ID=cds.MS.gene74380.t1;Parent=MS.gene74380.t1 |
| chr4.2 | exon | 65176010 | 65176342 | 65176010 | ID=MS.gene74380.t1.exon2;Parent=MS.gene74380.t1 |
| chr4.2 | CDS | 65176010 | 65176342 | 65176010 | ID=cds.MS.gene74380.t1;Parent=MS.gene74380.t1 |
| Gene Sequence |
| Protein sequence |
