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.gene22133.t1 | RHN66880.1 | 93.8 | 112 | 7 | 0 | 1 | 112 | 132 | 243 | 1.90E-55 | 224.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22133.t1 | Q9SHJ5 | 43.7 | 119 | 59 | 4 | 1 | 111 | 178 | 296 | 4.2e-19 | 95.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22133.t1 | A0A396INJ8 | 93.8 | 112 | 7 | 0 | 1 | 112 | 132 | 243 | 1.4e-55 | 224.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049150 | MS.gene22133 | 0.802682 | 5.00E-49 | -1.69E-46 |
| MS.gene049915 | MS.gene22133 | 0.806776 | 6.98E-50 | -1.69E-46 |
| MS.gene050226 | MS.gene22133 | 0.805246 | 1.46E-49 | -1.69E-46 |
| MS.gene053074 | MS.gene22133 | 0.804041 | 2.61E-49 | -1.69E-46 |
| MS.gene053184 | MS.gene22133 | 0.808841 | 2.54E-50 | -1.69E-46 |
| MS.gene057750 | MS.gene22133 | 0.831298 | 1.81E-55 | -1.69E-46 |
| MS.gene057754 | MS.gene22133 | 0.821809 | 3.31E-53 | -1.69E-46 |
| MS.gene058168 | MS.gene22133 | 0.809566 | 1.78E-50 | -1.69E-46 |
| MS.gene059124 | MS.gene22133 | 0.858929 | 5.88E-63 | -1.69E-46 |
| MS.gene059421 | MS.gene22133 | 0.80606 | 9.88E-50 | -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.gene22133.t1 | MTR_3g448430 | 93.694 | 111 | 7 | 0 | 1 | 111 | 116 | 226 | 1.04e-70 | 219 |
| MS.gene22133.t1 | MTR_5g091660 | 60.360 | 111 | 44 | 0 | 1 | 111 | 133 | 243 | 8.37e-42 | 144 |
| MS.gene22133.t1 | MTR_1g040500 | 41.228 | 114 | 63 | 2 | 1 | 111 | 92 | 204 | 1.48e-20 | 85.9 |
| MS.gene22133.t1 | MTR_7g067380 | 39.130 | 115 | 65 | 3 | 1 | 111 | 96 | 209 | 1.75e-17 | 77.0 |
| MS.gene22133.t1 | MTR_4g415290 | 37.931 | 116 | 66 | 4 | 1 | 111 | 93 | 207 | 7.10e-16 | 72.4 |
| MS.gene22133.t1 | MTR_8g030620 | 34.483 | 116 | 70 | 3 | 1 | 111 | 99 | 213 | 1.32e-14 | 68.9 |
| MS.gene22133.t1 | MTR_5g080360 | 31.034 | 116 | 74 | 3 | 1 | 111 | 74 | 188 | 7.90e-14 | 66.6 |
| MS.gene22133.t1 | MTR_1g086650 | 35.965 | 114 | 61 | 3 | 4 | 111 | 134 | 241 | 2.33e-12 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22133.t1 | AT1G06520 | 43.697 | 119 | 59 | 4 | 1 | 111 | 178 | 296 | 2.88e-24 | 96.3 |
| MS.gene22133.t1 | AT3G11430 | 41.379 | 116 | 61 | 5 | 1 | 111 | 83 | 196 | 5.81e-18 | 78.6 |
| MS.gene22133.t1 | AT5G06090 | 38.793 | 116 | 64 | 5 | 1 | 111 | 81 | 194 | 3.42e-17 | 76.3 |
| MS.gene22133.t1 | AT4G00400 | 36.207 | 116 | 68 | 3 | 1 | 111 | 94 | 208 | 1.65e-16 | 74.3 |
| MS.gene22133.t1 | AT2G38110 | 33.898 | 118 | 70 | 4 | 1 | 111 | 96 | 212 | 9.51e-15 | 69.3 |
| MS.gene22133.t1 | AT1G01610 | 35.897 | 117 | 68 | 4 | 1 | 111 | 94 | 209 | 1.64e-13 | 65.9 |
Find 24 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTCACTGGTTTGATTTCT+AGG | 0.170723 | 3.4:-42737541 | MS.gene22133:CDS |
| AGTGCTCTCATGGATTATTT+TGG | 0.183297 | 3.4:-42737497 | MS.gene22133:CDS |
| GGATATAGAAGGCCTGATTT+AGG | 0.310254 | 3.4:-42737476 | MS.gene22133:CDS |
| AGAAGGCCTGATTTAGGAAT+TGG | 0.322699 | 3.4:-42737470 | MS.gene22133:CDS |
| CATGGAGAATCTTAACCTTA+AGG | 0.353285 | 3.4:-42737699 | MS.gene22133:CDS |
| TAGGCATGGTTTGGTTGATA+AGG | 0.411704 | 3.4:-42737522 | MS.gene22133:CDS |
| TATAGTGGAAGGGTTTCTTA+AGG | 0.415468 | 3.4:-42737618 | MS.gene22133:CDS |
| GTGCTTCCAATTCCTAAATC+AGG | 0.432690 | 3.4:+42737464 | None:intergenic |
| TTTGATTTCTAGGCATGGTT+TGG | 0.440519 | 3.4:-42737531 | MS.gene22133:CDS |
| TTTCTTAAGGAATATTTGAA+TGG | 0.451191 | 3.4:-42737605 | MS.gene22133:CDS |
| AGATTCTCCATGTAAAACTT+AGG | 0.464967 | 3.4:+42737710 | None:intergenic |
| TTGTGTGCCTAGAGTTATAG+TGG | 0.476561 | 3.4:-42737633 | MS.gene22133:CDS |
| ACAAAACCTCACAAGCCTTA+AGG | 0.479431 | 3.4:+42737684 | None:intergenic |
| ACTGTTGGATGCTACTTCAC+TGG | 0.486698 | 3.4:-42737554 | MS.gene22133:CDS |
| ACTGGTTTGATTTCTAGGCA+TGG | 0.499174 | 3.4:-42737536 | MS.gene22133:CDS |
| TTAAAGGTGTCTTTGGATGG+AGG | 0.513357 | 3.4:-42737309 | MS.gene22133:intron |
| TGATAAGGATAGTGCTCTCA+TGG | 0.519997 | 3.4:-42737507 | MS.gene22133:CDS |
| TCTTAACCTTAAGGCTTGTG+AGG | 0.549494 | 3.4:-42737690 | MS.gene22133:CDS |
| GTGCCTAGAGTTATAGTGGA+AGG | 0.556791 | 3.4:-42737629 | MS.gene22133:CDS |
| GCTACAGAGTTACACACTGT+TGG | 0.560729 | 3.4:-42737569 | MS.gene22133:CDS |
| AGGACATGGAAATGATTGCA+AGG | 0.571708 | 3.4:-42737742 | None:intergenic |
| TGCCTAGAGTTATAGTGGAA+GGG | 0.573670 | 3.4:-42737628 | MS.gene22133:CDS |
| AACCCTTCCACTATAACTCT+AGG | 0.586206 | 3.4:+42737626 | None:intergenic |
| GGACATGGAAATGATTGCAA+GGG | 0.595734 | 3.4:-42737741 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTAACTATAAGTTTTTTT+TGG | - | chr3.4:42737684-42737703 | MS.gene22133:CDS | 10.0% |
| !!! | GTTAACCATAATTTTTTTAA+AGG | - | chr3.4:42737714-42737733 | MS.gene22133:CDS | 15.0% |
| !!! | TTTTTGCTATATTATATTCT+TGG | - | chr3.4:42737657-42737676 | MS.gene22133:CDS | 15.0% |
| !! | TTTCTTAAGGAATATTTGAA+TGG | - | chr3.4:42737434-42737453 | MS.gene22133:CDS | 20.0% |
| !!! | AATTTTTTTAAAGGTGTCTT+TGG | - | chr3.4:42737723-42737742 | MS.gene22133:CDS | 20.0% |
| !!! | AGACACCTTTAAAAAAATTA+TGG | + | chr3.4:42737722-42737741 | None:intergenic | 20.0% |
| !!! | TCATTTTATCTCTTATTGTA+AGG | - | chr3.4:42737613-42737632 | MS.gene22133:CDS | 20.0% |
| !! | AGTTTTACCTAAGTTTTACA+TGG | - | chr3.4:42737322-42737341 | MS.gene22133:intron | 25.0% |
| !!! | TGGATTATTTTGGATATAGA+AGG | - | chr3.4:42737552-42737571 | MS.gene22133:CDS | 25.0% |
| AGATTCTCCATGTAAAACTT+AGG | + | chr3.4:42737332-42737351 | None:intergenic | 30.0% | |
| !!! | TTTTTAAAGGTGTCTTTGGA+TGG | - | chr3.4:42737727-42737746 | MS.gene22133:CDS | 30.0% |
| CATGGAGAATCTTAACCTTA+AGG | - | chr3.4:42737340-42737359 | MS.gene22133:intron | 35.0% | |
| ! | TATAGTGGAAGGGTTTCTTA+AGG | - | chr3.4:42737421-42737440 | MS.gene22133:intron | 35.0% |
| ! | TTTGATTTCTAGGCATGGTT+TGG | - | chr3.4:42737508-42737527 | MS.gene22133:CDS | 35.0% |
| !! | ACTTCACTGGTTTGATTTCT+AGG | - | chr3.4:42737498-42737517 | MS.gene22133:CDS | 35.0% |
| !! | AGTGCTCTCATGGATTATTT+TGG | - | chr3.4:42737542-42737561 | MS.gene22133:CDS | 35.0% |
| AACCCTTCCACTATAACTCT+AGG | + | chr3.4:42737416-42737435 | None:intergenic | 40.0% | |
| ACAAAACCTCACAAGCCTTA+AGG | + | chr3.4:42737358-42737377 | None:intergenic | 40.0% | |
| AGAAGGCCTGATTTAGGAAT+TGG | - | chr3.4:42737569-42737588 | MS.gene22133:CDS | 40.0% | |
| GGATATAGAAGGCCTGATTT+AGG | - | chr3.4:42737563-42737582 | MS.gene22133:CDS | 40.0% | |
| GTGCTTCCAATTCCTAAATC+AGG | + | chr3.4:42737578-42737597 | None:intergenic | 40.0% | |
| TCTTAACCTTAAGGCTTGTG+AGG | - | chr3.4:42737349-42737368 | MS.gene22133:intron | 40.0% | |
| TGATAAGGATAGTGCTCTCA+TGG | - | chr3.4:42737532-42737551 | MS.gene22133:CDS | 40.0% | |
| TTGTGTGCCTAGAGTTATAG+TGG | - | chr3.4:42737406-42737425 | MS.gene22133:intron | 40.0% | |
| ! | TGCCTAGAGTTATAGTGGAA+GGG | - | chr3.4:42737411-42737430 | MS.gene22133:intron | 40.0% |
| !! | ACTGGTTTGATTTCTAGGCA+TGG | - | chr3.4:42737503-42737522 | MS.gene22133:CDS | 40.0% |
| !! | GTGAGGTTTTGTCTTCAGTA+GGG | - | chr3.4:42737366-42737385 | MS.gene22133:intron | 40.0% |
| !! | TAGGCATGGTTTGGTTGATA+AGG | - | chr3.4:42737517-42737536 | MS.gene22133:CDS | 40.0% |
| !! | TGTGAGGTTTTGTCTTCAGT+AGG | - | chr3.4:42737365-42737384 | MS.gene22133:intron | 40.0% |
| !! | TTAAAGGTGTCTTTGGATGG+AGG | - | chr3.4:42737730-42737749 | MS.gene22133:CDS | 40.0% |
| GCTACAGAGTTACACACTGT+TGG | - | chr3.4:42737470-42737489 | MS.gene22133:CDS | 45.0% | |
| ! | ACTGTTGGATGCTACTTCAC+TGG | - | chr3.4:42737485-42737504 | MS.gene22133:CDS | 45.0% |
| ! | GTGCCTAGAGTTATAGTGGA+AGG | - | chr3.4:42737410-42737429 | MS.gene22133:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 42737302 | 42737759 | 42737302 | ID=MS.gene22133 |
| chr3.4 | mRNA | 42737302 | 42737759 | 42737302 | ID=MS.gene22133.t1;Parent=MS.gene22133 |
| chr3.4 | exon | 42737427 | 42737759 | 42737427 | ID=MS.gene22133.t1.exon1;Parent=MS.gene22133.t1 |
| chr3.4 | CDS | 42737427 | 42737759 | 42737427 | ID=cds.MS.gene22133.t1;Parent=MS.gene22133.t1 |
| chr3.4 | exon | 42737302 | 42737325 | 42737302 | ID=MS.gene22133.t1.exon2;Parent=MS.gene22133.t1 |
| chr3.4 | CDS | 42737302 | 42737325 | 42737302 | ID=cds.MS.gene22133.t1;Parent=MS.gene22133.t1 |
| Gene Sequence |
| Protein sequence |
