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.gene29870.t1 | RHN66880.1 | 93.8 | 112 | 7 | 0 | 1 | 112 | 132 | 243 | 6.20E-56 | 226.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29870.t1 | Q9SHJ5 | 42.9 | 119 | 60 | 4 | 1 | 111 | 178 | 296 | 5.2e-19 | 95.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29870.t1 | A0A396INJ8 | 93.8 | 112 | 7 | 0 | 1 | 112 | 132 | 243 | 4.5e-56 | 226.5 |
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.gene29870 | 0.812492 | 4.13E-51 | -1.69E-46 |
| MS.gene049153 | MS.gene29870 | 0.809978 | 1.45E-50 | -1.69E-46 |
| MS.gene049346 | MS.gene29870 | 0.805652 | 1.20E-49 | -1.69E-46 |
| MS.gene049910 | MS.gene29870 | 0.821835 | 3.27E-53 | -1.69E-46 |
| MS.gene050226 | MS.gene29870 | 0.805615 | 1.23E-49 | -1.69E-46 |
| MS.gene050228 | MS.gene29870 | 0.801041 | 1.09E-48 | -1.69E-46 |
| MS.gene050820 | MS.gene29870 | 0.830913 | 2.25E-55 | -1.69E-46 |
| MS.gene051860 | MS.gene29870 | 0.801612 | 8.29E-49 | -1.69E-46 |
| MS.gene052253 | MS.gene29870 | 0.810784 | 9.70E-51 | -1.69E-46 |
| MS.gene052255 | MS.gene29870 | 0.854194 | 1.45E-61 | -1.69E-46 |
| MS.gene053836 | MS.gene29870 | 0.831924 | 1.27E-55 | -1.69E-46 |
| MS.gene05417 | MS.gene29870 | 0.81352 | 2.45E-51 | -1.69E-46 |
| MS.gene054183 | MS.gene29870 | 0.801666 | 8.08E-49 | -1.69E-46 |
| MS.gene054473 | MS.gene29870 | 0.818762 | 1.66E-52 | -1.69E-46 |
| MS.gene054930 | MS.gene29870 | 0.827781 | 1.29E-54 | -1.69E-46 |
| MS.gene057121 | MS.gene29870 | 0.807324 | 5.34E-50 | -1.69E-46 |
| MS.gene057469 | MS.gene29870 | 0.812445 | 4.23E-51 | -1.69E-46 |
| MS.gene057750 | MS.gene29870 | 0.859372 | 4.33E-63 | -1.69E-46 |
| MS.gene057754 | MS.gene29870 | 0.821234 | 4.50E-53 | -1.69E-46 |
| MS.gene058002 | MS.gene29870 | 0.808625 | 2.83E-50 | -1.69E-46 |
| MS.gene059124 | MS.gene29870 | 0.833877 | 4.14E-56 | -1.69E-46 |
| MS.gene059128 | MS.gene29870 | 0.821452 | 4.01E-53 | -1.69E-46 |
| MS.gene059285 | MS.gene29870 | 0.808713 | 2.71E-50 | -1.69E-46 |
| MS.gene059420 | MS.gene29870 | 0.800235 | 1.59E-48 | -1.69E-46 |
| MS.gene061049 | MS.gene29870 | 0.812143 | 4.92E-51 | -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.gene29870.t1 | MTR_3g448430 | 93.694 | 111 | 7 | 0 | 1 | 111 | 116 | 226 | 3.68e-71 | 220 |
| MS.gene29870.t1 | MTR_5g091660 | 60.360 | 111 | 44 | 0 | 1 | 111 | 133 | 243 | 1.97e-42 | 145 |
| MS.gene29870.t1 | MTR_1g040500 | 42.105 | 114 | 62 | 2 | 1 | 111 | 92 | 204 | 3.22e-21 | 87.4 |
| MS.gene29870.t1 | MTR_7g067380 | 40.000 | 115 | 64 | 3 | 1 | 111 | 96 | 209 | 4.30e-18 | 78.6 |
| MS.gene29870.t1 | MTR_4g415290 | 38.793 | 116 | 65 | 4 | 1 | 111 | 93 | 207 | 8.98e-17 | 74.7 |
| MS.gene29870.t1 | MTR_8g030620 | 34.483 | 116 | 70 | 3 | 1 | 111 | 99 | 213 | 1.91e-15 | 70.9 |
| MS.gene29870.t1 | MTR_5g080360 | 31.034 | 116 | 74 | 3 | 1 | 111 | 74 | 188 | 3.17e-14 | 67.4 |
| MS.gene29870.t1 | MTR_1g086650 | 35.965 | 114 | 61 | 3 | 4 | 111 | 134 | 241 | 1.00e-12 | 63.2 |
| MS.gene29870.t1 | MTR_5g061520 | 36.620 | 71 | 45 | 0 | 4 | 74 | 87 | 157 | 3.81e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29870.t1 | AT1G06520 | 42.857 | 119 | 60 | 4 | 1 | 111 | 178 | 296 | 4.42e-24 | 95.5 |
| MS.gene29870.t1 | AT3G11430 | 41.379 | 116 | 61 | 5 | 1 | 111 | 83 | 196 | 1.82e-18 | 79.7 |
| MS.gene29870.t1 | AT5G06090 | 38.793 | 116 | 64 | 5 | 1 | 111 | 81 | 194 | 1.42e-17 | 77.0 |
| MS.gene29870.t1 | AT4G00400 | 36.207 | 116 | 68 | 3 | 1 | 111 | 94 | 208 | 2.56e-17 | 76.3 |
| MS.gene29870.t1 | AT2G38110 | 34.746 | 118 | 69 | 4 | 1 | 111 | 96 | 212 | 2.16e-15 | 70.9 |
| MS.gene29870.t1 | AT1G01610 | 35.897 | 117 | 68 | 4 | 1 | 111 | 94 | 209 | 2.58e-14 | 67.8 |
| MS.gene29870.t1 | AT4G01950 | 34.513 | 113 | 67 | 4 | 5 | 111 | 116 | 227 | 1.22e-11 | 60.1 |
| MS.gene29870.t1 | AT4G01950 | 34.513 | 113 | 67 | 4 | 5 | 111 | 144 | 255 | 1.24e-11 | 60.1 |
Find 24 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTCACTGGTTTGATTTCT+AGG | 0.170723 | 3.3:-38500068 | MS.gene29870:CDS |
| AGTGCTCTCATGGATTATTT+TGG | 0.183297 | 3.3:-38500024 | MS.gene29870:CDS |
| GGATATAGAAGGCCTGATTT+AGG | 0.310254 | 3.3:-38500003 | MS.gene29870:CDS |
| AGAAGGCCTGATTTAGGAAT+TGG | 0.322699 | 3.3:-38499997 | MS.gene29870:CDS |
| CACTTGTGTGCCTAGAGTTA+TGG | 0.347773 | 3.3:-38500163 | MS.gene29870:CDS |
| CATGGAGAATCTTAACCTTA+AGG | 0.353285 | 3.3:-38500226 | MS.gene29870:CDS |
| TAGGCATGGTTTGGTTGATA+AGG | 0.411704 | 3.3:-38500049 | MS.gene29870:CDS |
| TATGGTGGAAGGGTTTCTTA+AGG | 0.415468 | 3.3:-38500145 | MS.gene29870:CDS |
| AGATTCTCCATGTAAAACTT+TGG | 0.427361 | 3.3:+38500237 | None:intergenic |
| GTGCTTCCAATTCCTAAATC+AGG | 0.432690 | 3.3:+38499991 | None:intergenic |
| TTTGATTTCTAGGCATGGTT+TGG | 0.440519 | 3.3:-38500058 | MS.gene29870:CDS |
| TTTCTTAAGGAATATTTGAA+TGG | 0.451191 | 3.3:-38500132 | MS.gene29870:CDS |
| ACAAAACCTCACAAGCCTTA+AGG | 0.479431 | 3.3:+38500211 | None:intergenic |
| ACTGTTGGATGCTACTTCAC+TGG | 0.486698 | 3.3:-38500081 | MS.gene29870:CDS |
| ACTGGTTTGATTTCTAGGCA+TGG | 0.499174 | 3.3:-38500063 | MS.gene29870:CDS |
| TGATAAGGATAGTGCTCTCA+TGG | 0.519997 | 3.3:-38500034 | MS.gene29870:CDS |
| GTGCCTAGAGTTATGGTGGA+AGG | 0.542356 | 3.3:-38500156 | MS.gene29870:CDS |
| TCTTAACCTTAAGGCTTGTG+AGG | 0.549494 | 3.3:-38500217 | MS.gene29870:CDS |
| GCTACAGAGTTACACACTGT+TGG | 0.560729 | 3.3:-38500096 | MS.gene29870:CDS |
| TGCCTAGAGTTATGGTGGAA+GGG | 0.568356 | 3.3:-38500155 | MS.gene29870:CDS |
| AGGACATGGAAATGATTGCA+AGG | 0.571708 | 3.3:-38500269 | None:intergenic |
| GGACATGGAAATGATTGCAA+GGG | 0.595734 | 3.3:-38500268 | None:intergenic |
| AACCCTTCCACCATAACTCT+AGG | 0.605896 | 3.3:+38500153 | None:intergenic |
| TTGTGTGCCTAGAGTTATGG+TGG | 0.640186 | 3.3:-38500160 | MS.gene29870:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTTTTTAAAAGTATCTT+TGG | - | chr3.3:38500183-38500202 | MS.gene29870:CDS | 10.0% |
| !!! | AGATACTTTTAAAAAATTTA+TGG | + | chr3.3:38500182-38500201 | None:intergenic | 10.0% |
| !! | ATTAATTGTATACATTCTAT+AGG | - | chr3.3:38500232-38500251 | MS.gene29870:CDS | 15.0% |
| !!! | AAGTTTTTATTTTTCTTGAT+AGG | - | chr3.3:38500259-38500278 | MS.gene29870:CDS | 15.0% |
| !!! | TTTTAGCTATATTATATTCT+TGG | - | chr3.3:38500152-38500171 | MS.gene29870:CDS | 15.0% |
| !! | TTTCTTAAGGAATATTTGAA+TGG | - | chr3.3:38499929-38499948 | MS.gene29870:intron | 20.0% |
| !!! | TCATTTTATCTCTTATTGTA+AGG | - | chr3.3:38500108-38500127 | MS.gene29870:CDS | 20.0% |
| !! | AGTTTTACCAAAGTTTTACA+TGG | - | chr3.3:38499817-38499836 | MS.gene29870:intron | 25.0% |
| !!! | TGGATTATTTTGGATATAGA+AGG | - | chr3.3:38500047-38500066 | MS.gene29870:CDS | 25.0% |
| !!! | TTAAAAGTATCTTTGGATAG+AGG | - | chr3.3:38500190-38500209 | MS.gene29870:CDS | 25.0% |
| AGATTCTCCATGTAAAACTT+TGG | + | chr3.3:38499827-38499846 | None:intergenic | 30.0% | |
| TTTGGATAGAGGAAAATGAA+AGG | - | chr3.3:38500201-38500220 | MS.gene29870:CDS | 30.0% | |
| CATGGAGAATCTTAACCTTA+AGG | - | chr3.3:38499835-38499854 | MS.gene29870:intron | 35.0% | |
| GAGGAAAATGAAAGGAAGTT+AGG | - | chr3.3:38500209-38500228 | MS.gene29870:CDS | 35.0% | |
| ! | TTTGATTTCTAGGCATGGTT+TGG | - | chr3.3:38500003-38500022 | MS.gene29870:CDS | 35.0% |
| !! | ACTTCACTGGTTTGATTTCT+AGG | - | chr3.3:38499993-38500012 | MS.gene29870:CDS | 35.0% |
| !! | AGTGCTCTCATGGATTATTT+TGG | - | chr3.3:38500037-38500056 | MS.gene29870:CDS | 35.0% |
| ACAAAACCTCACAAGCCTTA+AGG | + | chr3.3:38499853-38499872 | None:intergenic | 40.0% | |
| AGAAGGCCTGATTTAGGAAT+TGG | - | chr3.3:38500064-38500083 | MS.gene29870:CDS | 40.0% | |
| GGATATAGAAGGCCTGATTT+AGG | - | chr3.3:38500058-38500077 | MS.gene29870:CDS | 40.0% | |
| GTGCTTCCAATTCCTAAATC+AGG | + | chr3.3:38500073-38500092 | None:intergenic | 40.0% | |
| TCTTAACCTTAAGGCTTGTG+AGG | - | chr3.3:38499844-38499863 | MS.gene29870:intron | 40.0% | |
| TGATAAGGATAGTGCTCTCA+TGG | - | chr3.3:38500027-38500046 | MS.gene29870:CDS | 40.0% | |
| ! | TATGGTGGAAGGGTTTCTTA+AGG | - | chr3.3:38499916-38499935 | MS.gene29870:intron | 40.0% |
| !! | ACTGGTTTGATTTCTAGGCA+TGG | - | chr3.3:38499998-38500017 | MS.gene29870:CDS | 40.0% |
| !! | GTGAGGTTTTGTCTTCAGTA+GGG | - | chr3.3:38499861-38499880 | MS.gene29870:intron | 40.0% |
| !! | TAGGCATGGTTTGGTTGATA+AGG | - | chr3.3:38500012-38500031 | MS.gene29870:CDS | 40.0% |
| !! | TGTGAGGTTTTGTCTTCAGT+AGG | - | chr3.3:38499860-38499879 | MS.gene29870:intron | 40.0% |
| AACCCTTCCACCATAACTCT+AGG | + | chr3.3:38499911-38499930 | None:intergenic | 45.0% | |
| CACTTGTGTGCCTAGAGTTA+TGG | - | chr3.3:38499898-38499917 | MS.gene29870:intron | 45.0% | |
| GCTACAGAGTTACACACTGT+TGG | - | chr3.3:38499965-38499984 | MS.gene29870:CDS | 45.0% | |
| TTGTGTGCCTAGAGTTATGG+TGG | - | chr3.3:38499901-38499920 | MS.gene29870:intron | 45.0% | |
| ! | ACTGTTGGATGCTACTTCAC+TGG | - | chr3.3:38499980-38499999 | MS.gene29870:CDS | 45.0% |
| ! | TGCCTAGAGTTATGGTGGAA+GGG | - | chr3.3:38499906-38499925 | MS.gene29870:intron | 45.0% |
| ! | GTGCCTAGAGTTATGGTGGA+AGG | - | chr3.3:38499905-38499924 | MS.gene29870:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 38499797 | 38500286 | 38499797 | ID=MS.gene29870 |
| chr3.3 | mRNA | 38499797 | 38500286 | 38499797 | ID=MS.gene29870.t1;Parent=MS.gene29870 |
| chr3.3 | exon | 38499954 | 38500286 | 38499954 | ID=MS.gene29870.t1.exon1;Parent=MS.gene29870.t1 |
| chr3.3 | CDS | 38499954 | 38500286 | 38499954 | ID=cds.MS.gene29870.t1;Parent=MS.gene29870.t1 |
| chr3.3 | exon | 38499797 | 38499802 | 38499797 | ID=MS.gene29870.t1.exon2;Parent=MS.gene29870.t1 |
| chr3.3 | CDS | 38499797 | 38499802 | 38499797 | ID=cds.MS.gene29870.t1;Parent=MS.gene29870.t1 |
| Gene Sequence |
| Protein sequence |
