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.gene58841.t1 | XP_003624937.2 | 100 | 92 | 0 | 0 | 1 | 92 | 1 | 92 | 3.40E-44 | 187.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene58841.t1 | Q58FS3 | 68.1 | 91 | 27 | 1 | 3 | 91 | 2 | 92 | 1.0e-28 | 127.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene58841.t1 | A2Q4K0 | 100.0 | 92 | 0 | 0 | 1 | 92 | 1 | 92 | 2.5e-44 | 187.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene58841.t1 | TF | MYB-related |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene58841.t1 | MTR_7g089210 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 2.32e-59 | 176 |
| MS.gene58841.t1 | MTR_3g013440 | 72.222 | 90 | 24 | 1 | 4 | 92 | 2 | 91 | 1.60e-44 | 139 |
| MS.gene58841.t1 | MTR_1g022290 | 56.989 | 93 | 34 | 1 | 6 | 92 | 1 | 93 | 4.27e-35 | 115 |
| MS.gene58841.t1 | MTR_6g004250 | 72.059 | 68 | 19 | 0 | 7 | 74 | 5 | 72 | 7.92e-35 | 114 |
| MS.gene58841.t1 | MTR_3g116720 | 68.354 | 79 | 21 | 1 | 1 | 75 | 1 | 79 | 6.74e-34 | 112 |
| MS.gene58841.t1 | MTR_3g111880 | 57.143 | 91 | 35 | 2 | 6 | 92 | 1 | 91 | 3.98e-32 | 107 |
| MS.gene58841.t1 | MTR_5g020170 | 63.014 | 73 | 27 | 0 | 4 | 76 | 11 | 83 | 1.57e-30 | 103 |
| MS.gene58841.t1 | MTR_8g077360 | 56.716 | 67 | 28 | 1 | 9 | 75 | 2 | 67 | 9.90e-25 | 88.6 |
| MS.gene58841.t1 | MTR_8g077380 | 56.716 | 67 | 28 | 1 | 9 | 75 | 2 | 67 | 1.04e-24 | 88.6 |
| MS.gene58841.t1 | MTR_8g077390 | 56.716 | 67 | 28 | 1 | 9 | 75 | 2 | 67 | 1.04e-24 | 88.6 |
| MS.gene58841.t1 | MTR_5g020540 | 60.317 | 63 | 24 | 1 | 10 | 72 | 2 | 63 | 1.18e-23 | 85.5 |
| MS.gene58841.t1 | MTR_8g077420 | 56.452 | 62 | 26 | 1 | 11 | 72 | 4 | 64 | 8.59e-23 | 83.6 |
| MS.gene58841.t1 | MTR_1g033600 | 50.000 | 78 | 39 | 0 | 1 | 78 | 1 | 78 | 2.03e-21 | 82.0 |
| MS.gene58841.t1 | MTR_3g111920 | 52.308 | 65 | 31 | 0 | 11 | 75 | 2 | 66 | 1.25e-20 | 78.6 |
| MS.gene58841.t1 | MTR_5g081860 | 54.930 | 71 | 32 | 0 | 12 | 82 | 27 | 97 | 1.65e-20 | 82.8 |
| MS.gene58841.t1 | MTR_8g063870 | 54.167 | 72 | 33 | 0 | 9 | 80 | 5 | 76 | 3.48e-19 | 79.3 |
| MS.gene58841.t1 | MTR_8g063600 | 50.667 | 75 | 37 | 0 | 6 | 80 | 4 | 78 | 6.03e-19 | 79.0 |
| MS.gene58841.t1 | MTR_3g462790 | 50.685 | 73 | 36 | 0 | 2 | 74 | 33 | 105 | 1.22e-18 | 78.2 |
| MS.gene58841.t1 | MTR_5g069710 | 47.826 | 69 | 36 | 0 | 11 | 79 | 28 | 96 | 6.37e-18 | 76.3 |
| MS.gene58841.t1 | MTR_7g067080 | 52.174 | 69 | 33 | 0 | 12 | 80 | 35 | 103 | 6.58e-18 | 76.3 |
| MS.gene58841.t1 | MTR_1g086180 | 57.627 | 59 | 24 | 1 | 11 | 68 | 10 | 68 | 8.57e-16 | 66.6 |
| MS.gene58841.t1 | MTR_1g111830 | 47.619 | 63 | 33 | 0 | 12 | 74 | 24 | 86 | 9.93e-15 | 67.0 |
| MS.gene58841.t1 | MTR_7g110580 | 55.000 | 60 | 26 | 1 | 11 | 69 | 7 | 66 | 3.97e-14 | 62.0 |
| MS.gene58841.t1 | MTR_4g111975 | 45.205 | 73 | 36 | 2 | 6 | 74 | 1 | 73 | 5.79e-14 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene58841.t1 | AT2G21650 | 64.773 | 88 | 24 | 1 | 12 | 92 | 14 | 101 | 3.99e-38 | 123 |
| MS.gene58841.t1 | AT4G39250 | 64.368 | 87 | 25 | 1 | 12 | 92 | 14 | 100 | 1.27e-37 | 122 |
| MS.gene58841.t1 | AT1G75250 | 55.670 | 97 | 37 | 1 | 1 | 91 | 1 | 97 | 5.38e-36 | 117 |
| MS.gene58841.t1 | AT1G75250 | 69.333 | 75 | 23 | 0 | 1 | 75 | 1 | 75 | 1.41e-35 | 117 |
| MS.gene58841.t1 | AT1G19510 | 59.783 | 92 | 37 | 0 | 1 | 92 | 1 | 92 | 2.54e-29 | 100 |
| MS.gene58841.t1 | AT2G18328 | 62.295 | 61 | 23 | 0 | 15 | 75 | 14 | 74 | 1.77e-24 | 88.2 |
| MS.gene58841.t1 | AT5G05790 | 52.857 | 70 | 33 | 0 | 9 | 78 | 28 | 97 | 3.41e-20 | 82.0 |
| MS.gene58841.t1 | AT5G05790 | 52.857 | 70 | 33 | 0 | 9 | 78 | 28 | 97 | 3.41e-20 | 82.0 |
| MS.gene58841.t1 | AT4G36570 | 75.000 | 44 | 11 | 0 | 12 | 55 | 12 | 55 | 4.74e-20 | 76.3 |
| MS.gene58841.t1 | AT3G11280 | 52.239 | 67 | 32 | 0 | 12 | 78 | 33 | 99 | 9.87e-19 | 77.8 |
| MS.gene58841.t1 | AT3G11280 | 52.239 | 67 | 32 | 0 | 12 | 78 | 33 | 99 | 9.87e-19 | 77.8 |
| MS.gene58841.t1 | AT2G38090 | 52.174 | 69 | 33 | 0 | 12 | 80 | 29 | 97 | 2.19e-18 | 77.4 |
| MS.gene58841.t1 | AT5G58900 | 50.000 | 74 | 34 | 1 | 4 | 74 | 23 | 96 | 2.91e-17 | 74.3 |
| MS.gene58841.t1 | AT5G08520 | 52.381 | 63 | 30 | 0 | 12 | 74 | 12 | 74 | 5.24e-16 | 70.9 |
| MS.gene58841.t1 | AT1G49010 | 46.479 | 71 | 35 | 1 | 7 | 74 | 3 | 73 | 1.38e-14 | 67.4 |
| MS.gene58841.t1 | AT5G23650 | 46.377 | 69 | 37 | 0 | 6 | 74 | 7 | 75 | 1.93e-14 | 67.0 |
| MS.gene58841.t1 | AT5G04760 | 41.791 | 67 | 38 | 1 | 8 | 74 | 2 | 67 | 4.39e-13 | 62.4 |
| MS.gene58841.t1 | AT5G01200 | 42.424 | 66 | 37 | 1 | 10 | 74 | 28 | 93 | 1.98e-11 | 58.2 |
Find 16 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTAGCTCAATGTCAGCTTC+TGG | 0.383535 | 7.3:+20285999 | MS.gene58841:CDS |
| GATATTAAACATATTGAGTC+AGG | 0.394581 | 7.3:+20286170 | MS.gene58841:CDS |
| TAATGTTTCTTAACTTCCTC+AGG | 0.405406 | 7.3:-20286131 | None:intergenic |
| CAATGTCAGCTTCTGGCTCA+TGG | 0.458214 | 7.3:+20286006 | MS.gene58841:CDS |
| CAGTGTCTCATGAGGAGAAA+AGG | 0.467404 | 7.3:+20286225 | MS.gene58841:CDS |
| TTCTGGCTCATGGAGTGTTA+AGG | 0.488975 | 7.3:+20286016 | MS.gene58841:CDS |
| TTGCACTTGTTGGTCAATGA+AGG | 0.513934 | 7.3:-20286451 | None:intergenic |
| GCTACATTGTACCAACGATC+TGG | 0.520197 | 7.3:-20286086 | None:intergenic |
| AACAGCTAAAGCTCTTTCAA+AGG | 0.549456 | 7.3:-20286048 | None:intergenic |
| ACATTATGAACTTCTTGTTG+AGG | 0.570098 | 7.3:+20286148 | MS.gene58841:CDS |
| GAAAATTTCAGTGTCTCATG+AGG | 0.590467 | 7.3:+20286217 | MS.gene58841:CDS |
| TACAATGTAGCTCATGCTGT+TGG | 0.593737 | 7.3:+20286098 | MS.gene58841:CDS |
| AATGTAGCTCATGCTGTTGG+TGG | 0.602491 | 7.3:+20286101 | MS.gene58841:CDS |
| ACAAAGACACTCCAGATCGT+TGG | 0.612332 | 7.3:+20286075 | MS.gene58841:CDS |
| ATATTAAACATATTGAGTCA+GGG | 0.667795 | 7.3:+20286171 | MS.gene58841:CDS |
| TGTTGGTGGCAAAACTCCTG+AGG | 0.702099 | 7.3:+20286115 | MS.gene58841:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATTAAACATATTGAGTCA+GGG | + | chr7.3:20286171-20286190 | MS.gene58841:CDS | 20.0% |
| !!! | ACTGAAATTTTCTTGTAATT+TGG | - | chr7.3:20286209-20286228 | None:intergenic | 20.0% |
| !!! | ATTTTCTTGTAATTTGGAAA+TGG | - | chr7.3:20286203-20286222 | None:intergenic | 20.0% |
| !!! | TACTCTTTACTTTCTTTTAT+AGG | + | chr7.3:20286414-20286433 | MS.gene58841:intron | 20.0% |
| ! | GATATTAAACATATTGAGTC+AGG | + | chr7.3:20286170-20286189 | MS.gene58841:CDS | 25.0% |
| ! | TTATTTAACAAGCAACATGT+AGG | - | chr7.3:20286296-20286315 | None:intergenic | 25.0% |
| !! | TTACTTTCTTTTATAGGATG+AGG | + | chr7.3:20286420-20286439 | MS.gene58841:intron | 25.0% |
| ACATTATGAACTTCTTGTTG+AGG | + | chr7.3:20286148-20286167 | MS.gene58841:CDS | 30.0% | |
| TAATGTTTCTTAACTTCCTC+AGG | - | chr7.3:20286134-20286153 | None:intergenic | 30.0% | |
| AACAGCTAAAGCTCTTTCAA+AGG | - | chr7.3:20286051-20286070 | None:intergenic | 35.0% | |
| GAAAATTTCAGTGTCTCATG+AGG | + | chr7.3:20286217-20286236 | MS.gene58841:CDS | 35.0% | |
| TACAATGTAGCTCATGCTGT+TGG | + | chr7.3:20286098-20286117 | MS.gene58841:CDS | 40.0% | |
| AATGTAGCTCATGCTGTTGG+TGG | + | chr7.3:20286101-20286120 | MS.gene58841:CDS | 45.0% | |
| ACAAAGACACTCCAGATCGT+TGG | + | chr7.3:20286075-20286094 | MS.gene58841:CDS | 45.0% | |
| CAGTGTCTCATGAGGAGAAA+AGG | + | chr7.3:20286225-20286244 | MS.gene58841:CDS | 45.0% | |
| GCTACATTGTACCAACGATC+TGG | - | chr7.3:20286089-20286108 | None:intergenic | 45.0% | |
| ! | TCTAGCTCAATGTCAGCTTC+TGG | + | chr7.3:20285999-20286018 | MS.gene58841:CDS | 45.0% |
| !! | TTCTGGCTCATGGAGTGTTA+AGG | + | chr7.3:20286016-20286035 | MS.gene58841:CDS | 45.0% |
| !! | CAATGTCAGCTTCTGGCTCA+TGG | + | chr7.3:20286006-20286025 | MS.gene58841:CDS | 50.0% |
| !! | TGTTGGTGGCAAAACTCCTG+AGG | + | chr7.3:20286115-20286134 | MS.gene58841:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.3 | gene | 20285993 | 20286460 | 20285993 | ID=MS.gene58841 |
| chr7.3 | mRNA | 20285993 | 20286460 | 20285993 | ID=MS.gene58841.t1;Parent=MS.gene58841 |
| chr7.3 | exon | 20285993 | 20286246 | 20285993 | ID=MS.gene58841.t1.exon1;Parent=MS.gene58841.t1 |
| chr7.3 | CDS | 20285993 | 20286246 | 20285993 | ID=cds.MS.gene58841.t1;Parent=MS.gene58841.t1 |
| chr7.3 | exon | 20286436 | 20286460 | 20286436 | ID=MS.gene58841.t1.exon2;Parent=MS.gene58841.t1 |
| chr7.3 | CDS | 20286436 | 20286460 | 20286436 | ID=cds.MS.gene58841.t1;Parent=MS.gene58841.t1 |
| Gene Sequence |
| Protein sequence |
