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.gene066534.t1 | XP_003626337.1 | 94.7 | 151 | 4 | 1 | 1 | 151 | 1 | 147 | 4.10E-71 | 277.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066534.t1 | Q9ZNV9 | 58.5 | 147 | 60 | 1 | 4 | 150 | 3 | 148 | 6.3e-44 | 178.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066534.t1 | A2Q3H8 | 94.7 | 151 | 4 | 1 | 1 | 151 | 1 | 147 | 3.0e-71 | 277.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050170 | MS.gene066534 | -0.815586 | 8.57E-52 | -1.69E-46 |
| MS.gene050577 | MS.gene066534 | -0.800341 | 1.51E-48 | -1.69E-46 |
| MS.gene050904 | MS.gene066534 | -0.802847 | 4.62E-49 | -1.69E-46 |
| MS.gene052494 | MS.gene066534 | 0.835609 | 1.52E-56 | -1.69E-46 |
| MS.gene053421 | MS.gene066534 | 0.802358 | 5.83E-49 | -1.69E-46 |
| MS.gene054851 | MS.gene066534 | 0.811341 | 7.35E-51 | -1.69E-46 |
| MS.gene055616 | MS.gene066534 | 0.823225 | 1.55E-53 | -1.69E-46 |
| MS.gene055858 | MS.gene066534 | 0.802332 | 5.90E-49 | -1.69E-46 |
| MS.gene05589 | MS.gene066534 | -0.809814 | 1.57E-50 | -1.69E-46 |
| MS.gene056387 | MS.gene066534 | -0.800128 | 1.67E-48 | -1.69E-46 |
| MS.gene056618 | MS.gene066534 | 0.836365 | 9.76E-57 | -1.69E-46 |
| MS.gene057367 | MS.gene066534 | 0.82148 | 3.95E-53 | -1.69E-46 |
| MS.gene058334 | MS.gene066534 | 0.803482 | 3.41E-49 | -1.69E-46 |
| MS.gene058382 | MS.gene066534 | 0.832517 | 9.04E-56 | -1.69E-46 |
| MS.gene05926 | MS.gene066534 | 0.802662 | 5.05E-49 | -1.69E-46 |
| MS.gene05960 | MS.gene066534 | 0.834353 | 3.15E-56 | -1.69E-46 |
| MS.gene05995 | MS.gene066534 | -0.813868 | 2.06E-51 | -1.69E-46 |
| MS.gene05996 | MS.gene066534 | -0.819649 | 1.04E-52 | -1.69E-46 |
| MS.gene06042 | MS.gene066534 | 0.871226 | 8.03E-67 | -1.69E-46 |
| MS.gene060982 | MS.gene066534 | -0.803888 | 2.81E-49 | -1.69E-46 |
| MS.gene061044 | MS.gene066534 | 0.832021 | 1.20E-55 | -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.gene066534.t1 | MTR_7g114020 | 94.702 | 151 | 4 | 1 | 1 | 151 | 1 | 147 | 4.91e-101 | 286 |
| MS.gene066534.t1 | MTR_1g082290 | 65.517 | 145 | 49 | 1 | 1 | 145 | 1 | 144 | 6.22e-67 | 200 |
| MS.gene066534.t1 | MTR_2g020770 | 61.224 | 147 | 56 | 1 | 4 | 150 | 3 | 148 | 1.34e-56 | 174 |
| MS.gene066534.t1 | MTR_1g089130 | 50.350 | 143 | 70 | 1 | 6 | 148 | 3 | 144 | 6.44e-52 | 162 |
| MS.gene066534.t1 | MTR_2g020770 | 59.124 | 137 | 55 | 1 | 4 | 140 | 3 | 138 | 6.15e-49 | 154 |
| MS.gene066534.t1 | MTR_2g100900 | 44.030 | 134 | 74 | 1 | 8 | 141 | 7 | 139 | 9.20e-39 | 129 |
| MS.gene066534.t1 | MTR_2g100880 | 44.030 | 134 | 74 | 1 | 8 | 141 | 7 | 139 | 1.24e-38 | 128 |
| MS.gene066534.t1 | MTR_2g103870 | 44.776 | 134 | 73 | 1 | 18 | 150 | 20 | 153 | 3.88e-30 | 107 |
| MS.gene066534.t1 | MTR_4g010160 | 46.324 | 136 | 72 | 1 | 16 | 150 | 6 | 141 | 1.74e-27 | 100 |
| MS.gene066534.t1 | MTR_2g086010 | 27.465 | 142 | 101 | 2 | 3 | 143 | 2 | 142 | 8.27e-12 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene066534.t1 | AT1G03430 | 54.730 | 148 | 67 | 0 | 4 | 151 | 6 | 153 | 5.01e-57 | 175 |
| MS.gene066534.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 5 | 152 | 8.68e-55 | 169 |
| MS.gene066534.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 38 | 185 | 3.16e-54 | 169 |
| MS.gene066534.t1 | AT3G29350 | 51.351 | 148 | 72 | 0 | 4 | 151 | 5 | 152 | 4.72e-54 | 167 |
| MS.gene066534.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 54 | 201 | 7.55e-54 | 169 |
| MS.gene066534.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 54 | 201 | 7.55e-54 | 169 |
| MS.gene066534.t1 | AT3G21510 | 58.503 | 147 | 60 | 1 | 4 | 150 | 3 | 148 | 2.52e-53 | 166 |
| MS.gene066534.t1 | AT1G03430 | 54.676 | 139 | 63 | 0 | 4 | 142 | 6 | 144 | 6.91e-51 | 160 |
| MS.gene066534.t1 | AT3G29350 | 55.455 | 110 | 49 | 0 | 4 | 113 | 5 | 114 | 9.64e-42 | 135 |
| MS.gene066534.t1 | AT3G16360 | 41.481 | 135 | 78 | 1 | 7 | 141 | 1 | 134 | 9.90e-39 | 129 |
| MS.gene066534.t1 | AT3G16360 | 41.667 | 120 | 69 | 1 | 21 | 140 | 9 | 127 | 1.33e-34 | 117 |
| MS.gene066534.t1 | AT1G80100 | 42.282 | 149 | 85 | 1 | 3 | 150 | 5 | 153 | 4.42e-24 | 91.7 |
| MS.gene066534.t1 | AT1G80100 | 41.176 | 136 | 80 | 0 | 3 | 138 | 5 | 140 | 5.55e-20 | 81.3 |
| MS.gene066534.t1 | AT4G04402 | 31.915 | 141 | 82 | 4 | 22 | 150 | 24 | 162 | 1.99e-18 | 77.4 |
| MS.gene066534.t1 | AT1G80100 | 38.255 | 149 | 69 | 3 | 3 | 150 | 5 | 131 | 1.47e-17 | 74.3 |
Find 20 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAGAAGCTTCTTAATCAAT+TGG | 0.405079 | 7.1:-2501399 | MS.gene066534:CDS |
| CTTGAAGAGTGTCTCAAACT+TGG | 0.419955 | 7.1:+2500714 | None:intergenic |
| AGTGGTCACTCTCTTCTTTG+AGG | 0.421547 | 7.1:-2501426 | MS.gene066534:CDS |
| ACCACTTCAACAACAAAGTC+AGG | 0.424359 | 7.1:+2501443 | None:intergenic |
| CAAGTTTGAGACACTCTTCA+AGG | 0.437960 | 7.1:-2500713 | MS.gene066534:intron |
| GCTGGTTAAATTGATCATCT+AGG | 0.442108 | 7.1:+2501492 | None:intergenic |
| TCCCTTATCATTCACTATCT+AGG | 0.448382 | 7.1:+2500554 | None:intergenic |
| CATCTTGAAGTAGTTGAAGC+TGG | 0.469279 | 7.1:+2501474 | None:intergenic |
| TGGAGCTGCTGCCTTTCAGC+TGG | 0.470844 | 7.1:+2501211 | None:intergenic |
| AGCTGAAAGGCAGCAGCTCC+AGG | 0.471527 | 7.1:-2501209 | MS.gene066534:intron |
| CCCTGACTTTGTTGTTGAAG+TGG | 0.477305 | 7.1:-2501444 | MS.gene066534:CDS |
| TAAATGTTACCTCTTGAAAG+AGG | 0.497593 | 7.1:+2501594 | None:intergenic |
| ATTAATCCCAAGCAGAGGCC+AGG | 0.527313 | 7.1:-2501274 | MS.gene066534:intron |
| CAATTCTTCCCTCTTTCAAG+AGG | 0.543757 | 7.1:-2501603 | MS.gene066534:intron |
| GGCTCAGTTGCAAAGACAGT+TGG | 0.573415 | 7.1:-2501633 | MS.gene066534:CDS |
| GCTCTTGTTCACCAGCTGAA+AGG | 0.590228 | 7.1:-2501222 | MS.gene066534:CDS |
| AAATGTTACCTCTTGAAAGA+GGG | 0.594954 | 7.1:+2501595 | None:intergenic |
| AAGCTTGCAAGACATAAAGC+AGG | 0.597078 | 7.1:-2500755 | MS.gene066534:CDS |
| GAGAACAACAATGTATAGTG+TGG | 0.639598 | 7.1:-2501654 | None:intergenic |
| CCACTTCAACAACAAAGTCA+GGG | 0.677112 | 7.1:+2501444 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATTTAATACATATATGAA+GGG | + | chr7.1:2501540-2501559 | None:intergenic | 10.0% |
| !! | TTAATTTAATACATATATGA+AGG | + | chr7.1:2501541-2501560 | None:intergenic | 10.0% |
| !!! | AAAATAACATTGATTTTAAA+AGG | - | chr7.1:2500961-2500980 | MS.gene066534:intron | 10.0% |
| !!! | AAATAACATTGATTTTAAAA+GGG | - | chr7.1:2500962-2500981 | MS.gene066534:intron | 10.0% |
| !!! | TTTTCTTTATTTTATGTATA+GGG | - | chr7.1:2500873-2500892 | MS.gene066534:intron | 10.0% |
| !! | TATAGAATTATACATTACTT+TGG | + | chr7.1:2500900-2500919 | None:intergenic | 15.0% |
| !!! | AGAAAAAATATACATGTTTT+TGG | - | chr7.1:2501418-2501437 | MS.gene066534:CDS | 15.0% |
| !!! | CTTTTCTTTATTTTATGTAT+AGG | - | chr7.1:2500872-2500891 | MS.gene066534:intron | 15.0% |
| !! | AAGAAAAGATAGAAAGAAAA+TGG | + | chr7.1:2500669-2500688 | None:intergenic | 20.0% |
| !!! | CAACTTGTATAATTTTGATA+AGG | - | chr7.1:2501222-2501241 | MS.gene066534:CDS | 20.0% |
| !!! | TAAAATCAATGTTATTTTCC+TGG | + | chr7.1:2500959-2500978 | None:intergenic | 20.0% |
| !!! | TACTTTCTTATCTTGTTTTA+AGG | + | chr7.1:2501184-2501203 | None:intergenic | 20.0% |
| ! | CAAAAGTTCAATATATTACC+TGG | + | chr7.1:2501024-2501043 | None:intergenic | 25.0% |
| ! | CAATTGGAAAAAGAAATGTA+AGG | - | chr7.1:2500829-2500848 | MS.gene066534:intron | 25.0% |
| !! | CTTATCTTATTTCAAGAACA+AGG | + | chr7.1:2501126-2501145 | None:intergenic | 25.0% |
| !! | TCTATCTTTTCTTTCATTTG+TGG | - | chr7.1:2500676-2500695 | MS.gene066534:intron | 25.0% |
| !!! | TAACATTGATTTTAAAAGGG+TGG | - | chr7.1:2500965-2500984 | MS.gene066534:intron | 25.0% |
| AAATGTTACCTCTTGAAAGA+GGG | + | chr7.1:2500620-2500639 | None:intergenic | 30.0% | |
| AGAGAAGCTTCTTAATCAAT+TGG | - | chr7.1:2500813-2500832 | MS.gene066534:intron | 30.0% | |
| CTTATTTCAAGAACAAGGAA+AGG | + | chr7.1:2501121-2501140 | None:intergenic | 30.0% | |
| GTTATTGGAAAATACAGCAT+TGG | - | chr7.1:2501252-2501271 | MS.gene066534:CDS | 30.0% | |
| TAAATGTTACCTCTTGAAAG+AGG | + | chr7.1:2500621-2500640 | None:intergenic | 30.0% | |
| ! | TGTGGTGATATCTTTGAAAA+GGG | - | chr7.1:2500694-2500713 | MS.gene066534:intron | 30.0% |
| ! | TTGTGGTGATATCTTTGAAA+AGG | - | chr7.1:2500693-2500712 | MS.gene066534:intron | 30.0% |
| !!! | TATACATGTTTTTGGCATTC+AGG | - | chr7.1:2501426-2501445 | MS.gene066534:CDS | 30.0% |
| GCTGGTTAAATTGATCATCT+AGG | + | chr7.1:2500723-2500742 | None:intergenic | 35.0% | |
| GTGAGGAGAAAAACATAGAA+GGG | - | chr7.1:2501319-2501338 | MS.gene066534:intron | 35.0% | |
| TGATAAGGTCGTTGAGTTAT+TGG | - | chr7.1:2501237-2501256 | MS.gene066534:CDS | 35.0% | |
| TGTGAGGAGAAAAACATAGA+AGG | - | chr7.1:2501318-2501337 | MS.gene066534:intron | 35.0% | |
| TTCTAATTAATCCCAAGCAG+AGG | - | chr7.1:2500933-2500952 | MS.gene066534:CDS | 35.0% | |
| TTGATGTGATTAAGTCAACG+AGG | + | chr7.1:2501062-2501081 | None:intergenic | 35.0% | |
| TTTGCTTCTGTGATTGTAGA+TGG | - | chr7.1:2501603-2501622 | MS.gene066534:intron | 35.0% | |
| !! | CTCAAACTTGGTTTTCACTA+AGG | + | chr7.1:2501489-2501508 | None:intergenic | 35.0% |
| AAGCTTGCAAGACATAAAGC+AGG | - | chr7.1:2501457-2501476 | MS.gene066534:CDS | 40.0% | |
| ACCACTTCAACAACAAAGTC+AGG | + | chr7.1:2500772-2500791 | None:intergenic | 40.0% | |
| CAATTCTTCCCTCTTTCAAG+AGG | - | chr7.1:2500609-2500628 | MS.gene066534:intron | 40.0% | |
| CATCTTGAAGTAGTTGAAGC+TGG | + | chr7.1:2500741-2500760 | None:intergenic | 40.0% | |
| CCACTTCAACAACAAAGTCA+GGG | + | chr7.1:2500771-2500790 | None:intergenic | 40.0% | |
| TGCCTTCAAAAACTACTGTG+AGG | - | chr7.1:2501302-2501321 | MS.gene066534:intron | 40.0% | |
| TGTGATTAAGTCAACGAGGT+CGG | + | chr7.1:2501058-2501077 | None:intergenic | 40.0% | |
| TTGAGACACTCTTCAAGGTA+AGG | - | chr7.1:2501504-2501523 | MS.gene066534:intron | 40.0% | |
| ! | CAAGTTTGAGACACTCTTCA+AGG | - | chr7.1:2501499-2501518 | MS.gene066534:CDS | 40.0% |
| ! | CTCCTCACAGTAGTTTTTGA+AGG | + | chr7.1:2501307-2501326 | None:intergenic | 40.0% |
| !! | CTTGAAGAGTGTCTCAAACT+TGG | + | chr7.1:2501501-2501520 | None:intergenic | 40.0% |
| AGTGGTCACTCTCTTCTTTG+AGG | - | chr7.1:2500786-2500805 | MS.gene066534:intron | 45.0% | |
| ! | AGCAGCAACTTTTTGCTGCA+GGG | - | chr7.1:2501626-2501645 | MS.gene066534:CDS | 45.0% |
| ! | TATTTTCCTGGCCTCTGCTT+GGG | + | chr7.1:2500947-2500966 | None:intergenic | 45.0% |
| ! | TTATTTTCCTGGCCTCTGCT+TGG | + | chr7.1:2500948-2500967 | None:intergenic | 45.0% |
| !! | CCCTGACTTTGTTGTTGAAG+TGG | - | chr7.1:2500768-2500787 | MS.gene066534:intron | 45.0% |
| ATTAATCCCAAGCAGAGGCC+AGG | - | chr7.1:2500938-2500957 | MS.gene066534:CDS | 50.0% | |
| GCTCTTGTTCACCAGCTGAA+AGG | - | chr7.1:2500990-2501009 | MS.gene066534:intron | 50.0% | |
| GGCTCAGTTGCAAAGACAGT+TGG | - | chr7.1:2500579-2500598 | MS.gene066534:CDS | 50.0% | |
| ! | ACTTTTTGCTGCAGGGGGTT+CGG | - | chr7.1:2501633-2501652 | MS.gene066534:CDS | 50.0% |
| ! | CAGCAACTTTTTGCTGCAGG+GGG | - | chr7.1:2501628-2501647 | MS.gene066534:CDS | 50.0% |
| ! | GAGCAGCAACTTTTTGCTGC+AGG | - | chr7.1:2501625-2501644 | MS.gene066534:CDS | 50.0% |
| ! | GCAGCAACTTTTTGCTGCAG+GGG | - | chr7.1:2501627-2501646 | MS.gene066534:CDS | 50.0% |
| AGCTGAAAGGCAGCAGCTCC+AGG | - | chr7.1:2501003-2501022 | MS.gene066534:intron | 60.0% | |
| TGGAGCTGCTGCCTTTCAGC+TGG | + | chr7.1:2501004-2501023 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.1 | gene | 2500568 | 2501666 | 2500568 | ID=MS.gene066534 |
| chr7.1 | mRNA | 2500568 | 2501666 | 2500568 | ID=MS.gene066534.t1;Parent=MS.gene066534 |
| chr7.1 | exon | 2501604 | 2501666 | 2501604 | ID=MS.gene066534.t1.exon1;Parent=MS.gene066534.t1 |
| chr7.1 | CDS | 2501604 | 2501666 | 2501604 | ID=cds.MS.gene066534.t1;Parent=MS.gene066534.t1 |
| chr7.1 | exon | 2501389 | 2501519 | 2501389 | ID=MS.gene066534.t1.exon2;Parent=MS.gene066534.t1 |
| chr7.1 | CDS | 2501389 | 2501519 | 2501389 | ID=cds.MS.gene066534.t1;Parent=MS.gene066534.t1 |
| chr7.1 | exon | 2501210 | 2501281 | 2501210 | ID=MS.gene066534.t1.exon3;Parent=MS.gene066534.t1 |
| chr7.1 | CDS | 2501210 | 2501281 | 2501210 | ID=cds.MS.gene066534.t1;Parent=MS.gene066534.t1 |
| chr7.1 | exon | 2500894 | 2500965 | 2500894 | ID=MS.gene066534.t1.exon4;Parent=MS.gene066534.t1 |
| chr7.1 | CDS | 2500894 | 2500965 | 2500894 | ID=cds.MS.gene066534.t1;Parent=MS.gene066534.t1 |
| chr7.1 | exon | 2500714 | 2500786 | 2500714 | ID=MS.gene066534.t1.exon5;Parent=MS.gene066534.t1 |
| chr7.1 | CDS | 2500714 | 2500786 | 2500714 | ID=cds.MS.gene066534.t1;Parent=MS.gene066534.t1 |
| chr7.1 | exon | 2500568 | 2500612 | 2500568 | ID=MS.gene066534.t1.exon6;Parent=MS.gene066534.t1 |
| chr7.1 | CDS | 2500568 | 2500612 | 2500568 | ID=cds.MS.gene066534.t1;Parent=MS.gene066534.t1 |
| Gene Sequence |
| Protein sequence |
