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.gene064410.t1 | XP_003600904.1 | 93.8 | 80 | 5 | 0 | 7 | 86 | 438 | 517 | 5.00E-37 | 163.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064410.t1 | Q39033 | 73.8 | 80 | 21 | 0 | 7 | 86 | 426 | 505 | 3.5e-31 | 135.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064410.t1 | Q93YX8 | 93.8 | 80 | 5 | 0 | 7 | 86 | 438 | 517 | 3.6e-37 | 163.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene058081 | MS.gene064410 | 0.802795 | 4.74E-49 | -1.69E-46 |
| MS.gene058429 | MS.gene064410 | 0.802704 | 4.94E-49 | -1.69E-46 |
| MS.gene060850 | MS.gene064410 | 0.816269 | 6.03E-52 | -1.69E-46 |
| MS.gene060851 | MS.gene064410 | 0.814524 | 1.47E-51 | -1.69E-46 |
| MS.gene060852 | MS.gene064410 | 0.813592 | 2.37E-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.gene064410.t1 | MTR_3g070720 | 93.750 | 80 | 5 | 0 | 7 | 86 | 438 | 517 | 1.81e-47 | 159 |
| MS.gene064410.t1 | MTR_3g069280 | 88.750 | 80 | 9 | 0 | 7 | 86 | 417 | 496 | 3.99e-45 | 152 |
| MS.gene064410.t1 | MTR_5g082620 | 81.250 | 80 | 15 | 0 | 7 | 86 | 434 | 513 | 6.27e-42 | 144 |
| MS.gene064410.t1 | MTR_3g070720 | 95.000 | 60 | 3 | 0 | 7 | 66 | 438 | 497 | 6.91e-36 | 126 |
| MS.gene064410.t1 | MTR_5g071010 | 66.250 | 80 | 27 | 0 | 7 | 86 | 439 | 518 | 6.15e-32 | 116 |
| MS.gene064410.t1 | MTR_5g082590 | 60.000 | 80 | 32 | 0 | 7 | 86 | 427 | 506 | 2.44e-25 | 97.8 |
| MS.gene064410.t1 | MTR_3g070710 | 59.459 | 74 | 30 | 0 | 7 | 80 | 433 | 506 | 3.92e-23 | 91.7 |
| MS.gene064410.t1 | MTR_3g070560 | 58.108 | 74 | 31 | 0 | 7 | 80 | 261 | 334 | 9.56e-22 | 87.4 |
| MS.gene064410.t1 | MTR_3g070560 | 58.108 | 74 | 31 | 0 | 7 | 80 | 434 | 507 | 1.16e-21 | 87.4 |
| MS.gene064410.t1 | MTR_5g082580 | 50.000 | 80 | 40 | 0 | 7 | 86 | 452 | 531 | 1.63e-21 | 87.0 |
| MS.gene064410.t1 | MTR_5g071040 | 53.165 | 79 | 33 | 2 | 7 | 85 | 422 | 496 | 4.56e-19 | 80.1 |
| MS.gene064410.t1 | MTR_3g070720 | 90.323 | 31 | 3 | 0 | 7 | 37 | 438 | 468 | 4.31e-12 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064410.t1 | AT3G08510 | 73.750 | 80 | 21 | 0 | 7 | 86 | 426 | 505 | 1.89e-37 | 131 |
| MS.gene064410.t1 | AT3G08510 | 73.750 | 80 | 21 | 0 | 7 | 86 | 426 | 505 | 1.89e-37 | 131 |
| MS.gene064410.t1 | AT3G55940 | 71.250 | 80 | 20 | 1 | 7 | 86 | 432 | 508 | 4.17e-34 | 122 |
| MS.gene064410.t1 | AT2G40116 | 58.750 | 80 | 33 | 0 | 7 | 86 | 458 | 537 | 3.99e-26 | 100 |
| MS.gene064410.t1 | AT5G58700 | 58.667 | 75 | 31 | 0 | 7 | 81 | 334 | 408 | 8.82e-24 | 93.2 |
| MS.gene064410.t1 | AT5G58700 | 58.667 | 75 | 31 | 0 | 7 | 81 | 442 | 516 | 1.03e-23 | 93.2 |
| MS.gene064410.t1 | AT5G58700 | 58.667 | 75 | 31 | 0 | 7 | 81 | 442 | 516 | 1.03e-23 | 93.2 |
| MS.gene064410.t1 | AT5G58670 | 57.500 | 80 | 33 | 1 | 7 | 85 | 403 | 482 | 1.14e-23 | 93.2 |
| MS.gene064410.t1 | AT4G38530 | 52.500 | 80 | 35 | 1 | 7 | 86 | 405 | 481 | 9.11e-21 | 85.1 |
| MS.gene064410.t1 | AT5G58690 | 54.667 | 75 | 34 | 0 | 7 | 81 | 423 | 497 | 1.29e-20 | 84.7 |
| MS.gene064410.t1 | AT5G58690 | 54.667 | 75 | 34 | 0 | 7 | 81 | 423 | 497 | 1.29e-20 | 84.7 |
| MS.gene064410.t1 | AT5G58690 | 54.667 | 75 | 34 | 0 | 7 | 81 | 404 | 478 | 1.36e-20 | 84.3 |
| MS.gene064410.t1 | AT3G47290 | 44.595 | 74 | 39 | 2 | 7 | 80 | 378 | 449 | 5.73e-12 | 60.1 |
| MS.gene064410.t1 | AT3G47290 | 44.595 | 74 | 39 | 2 | 7 | 80 | 378 | 449 | 5.99e-12 | 60.1 |
Find 13 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATTAGGTGACTGTATATA+TGG | 0.249724 | 3.4:+70239328 | MS.gene064410:intron |
| AGGATCGAAAGCCTCATTAT+TGG | 0.276917 | 3.4:-70239156 | None:intergenic |
| GGATCGAAAGCCTCATTATT+GGG | 0.313928 | 3.4:-70239155 | None:intergenic |
| TTCGATGGCAAATGAGCTTT+AGG | 0.326162 | 3.4:-70239176 | None:intergenic |
| CATACCCTTGCATAGAAGTC+TGG | 0.362046 | 3.4:-70239404 | None:intergenic |
| GCCATCGAAAACTACTTTGA+AGG | 0.398900 | 3.4:+70239190 | MS.gene064410:CDS |
| ATACCCTTGCATAGAAGTCT+GGG | 0.508949 | 3.4:-70239403 | None:intergenic |
| CATTAGGTGACTGTATATAT+GGG | 0.517857 | 3.4:+70239329 | MS.gene064410:intron |
| GTTAAAGACAATGGAGGATG+CGG | 0.573936 | 3.4:+70239094 | None:intergenic |
| GTGACTGTATATATGGGAGA+AGG | 0.593969 | 3.4:+70239335 | MS.gene064410:CDS |
| CTGTATATATGGGAGAAGGA+TGG | 0.596370 | 3.4:+70239339 | MS.gene064410:CDS |
| TACCCTTGCATAGAAGTCTG+GGG | 0.650219 | 3.4:-70239402 | None:intergenic |
| ACCCTTGCATAGAAGTCTGG+GGG | 0.657890 | 3.4:-70239401 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAGACTTAAGATAATTTAC+AGG | + | chr3.4:70239428-70239447 | MS.gene064410:intron | 20.0% |
| !! | TCAAATAAACTAATTCATAC+AGG | - | chr3.4:70239454-70239473 | None:intergenic | 20.0% |
| !!! | TTTTCATAACAGTATCAAAA+GGG | - | chr3.4:70239861-70239880 | None:intergenic | 20.0% |
| !!! | TTTTTCATAACAGTATCAAA+AGG | - | chr3.4:70239862-70239881 | None:intergenic | 20.0% |
| ! | ATAACTGGAACATAAATGTT+TGG | - | chr3.4:70239704-70239723 | None:intergenic | 25.0% |
| ! | GAAAAAAACAAAGTCAATAG+AGG | + | chr3.4:70239876-70239895 | MS.gene064410:CDS | 25.0% |
| ! | TATTTGATAAACTCTTATGC+AGG | + | chr3.4:70239819-70239838 | MS.gene064410:intron | 25.0% |
| ! | TTCATATCTAATAGACTACA+AGG | - | chr3.4:70239753-70239772 | None:intergenic | 25.0% |
| ! | TTTAGACTTGATTCTAACAA+AGG | + | chr3.4:70239288-70239307 | MS.gene064410:intron | 25.0% |
| !! | CCAGTTTTTAATAGAAAATC+CGG | - | chr3.4:70239134-70239153 | None:intergenic | 25.0% |
| AAACATATGGATGCTATAAC+TGG | - | chr3.4:70239719-70239738 | None:intergenic | 30.0% | |
| AGCTTAATTCCATAAGTTCT+AGG | + | chr3.4:70239557-70239576 | MS.gene064410:intron | 30.0% | |
| ATTAAGCTGAAAACAGCTTA+TGG | - | chr3.4:70239545-70239564 | None:intergenic | 30.0% | |
| CATTAGGTGACTGTATATAT+GGG | + | chr3.4:70239329-70239348 | MS.gene064410:intron | 30.0% | |
| TCATTAGGTGACTGTATATA+TGG | + | chr3.4:70239328-70239347 | MS.gene064410:intron | 30.0% | |
| ! | CCGGATTTTCTATTAAAAAC+TGG | + | chr3.4:70239131-70239150 | MS.gene064410:CDS | 30.0% |
| ! | TGCTTTTCTTACTCTTCATT+AGG | + | chr3.4:70239313-70239332 | MS.gene064410:intron | 30.0% |
| ! | TTTTCGTAACCTAGAACTTA+TGG | - | chr3.4:70239569-70239588 | None:intergenic | 30.0% |
| !! | GGAAGCATTAGAAAAACATA+TGG | - | chr3.4:70239732-70239751 | None:intergenic | 30.0% |
| !!! | TGCGGTTTTGTTAAAAAAAC+CGG | + | chr3.4:70239112-70239131 | MS.gene064410:CDS | 30.0% |
| AAAAACTGGTCCCAATAATG+AGG | + | chr3.4:70239145-70239164 | MS.gene064410:CDS | 35.0% | |
| GTCTAAAGACACTTGAATGA+TGG | - | chr3.4:70239275-70239294 | None:intergenic | 35.0% | |
| TGATAAACTCTTATGCAGGT+TGG | + | chr3.4:70239823-70239842 | MS.gene064410:intron | 35.0% | |
| ! | ACCTTCAAAGTAGTTTTCGA+TGG | - | chr3.4:70239194-70239213 | None:intergenic | 35.0% |
| ! | TTCAGCAGTGACTTTTACAA+GGG | + | chr3.4:70239236-70239255 | MS.gene064410:intron | 35.0% |
| ! | TTTCAGCAGTGACTTTTACA+AGG | + | chr3.4:70239235-70239254 | MS.gene064410:intron | 35.0% |
| !! | AGAAATGATAGAAGCACTGA+AGG | - | chr3.4:70239795-70239814 | None:intergenic | 35.0% |
| !! | GAAATGATAGAAGCACTGAA+GGG | - | chr3.4:70239794-70239813 | None:intergenic | 35.0% |
| AGGATCGAAAGCCTCATTAT+TGG | - | chr3.4:70239159-70239178 | None:intergenic | 40.0% | |
| ATACCCTTGCATAGAAGTCT+GGG | - | chr3.4:70239406-70239425 | None:intergenic | 40.0% | |
| CTGAAATCTCAAAGCCGTAA+AGG | - | chr3.4:70239221-70239240 | None:intergenic | 40.0% | |
| CTGTATATATGGGAGAAGGA+TGG | + | chr3.4:70239339-70239358 | MS.gene064410:CDS | 40.0% | |
| GCCATCGAAAACTACTTTGA+AGG | + | chr3.4:70239190-70239209 | MS.gene064410:CDS | 40.0% | |
| GGATCGAAAGCCTCATTATT+GGG | - | chr3.4:70239158-70239177 | None:intergenic | 40.0% | |
| GTGACTGTATATATGGGAGA+AGG | + | chr3.4:70239335-70239354 | MS.gene064410:CDS | 40.0% | |
| TTCGATGGCAAATGAGCTTT+AGG | - | chr3.4:70239179-70239198 | None:intergenic | 40.0% | |
| ! | CGAAAACTACTTTGAAGGTG+AGG | + | chr3.4:70239195-70239214 | MS.gene064410:intron | 40.0% |
| CATACCCTTGCATAGAAGTC+TGG | - | chr3.4:70239407-70239426 | None:intergenic | 45.0% | |
| TACCCTTGCATAGAAGTCTG+GGG | - | chr3.4:70239405-70239424 | None:intergenic | 45.0% | |
| ! | CTTTGAAGGTGAGGCCTTTA+CGG | + | chr3.4:70239204-70239223 | MS.gene064410:intron | 45.0% |
| ACCCCCAGACTTCTATGCAA+GGG | + | chr3.4:70239400-70239419 | MS.gene064410:CDS | 50.0% | |
| ACCCTTGCATAGAAGTCTGG+GGG | - | chr3.4:70239404-70239423 | None:intergenic | 50.0% | |
| CACCCCCAGACTTCTATGCA+AGG | + | chr3.4:70239399-70239418 | MS.gene064410:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 70239104 | 70239906 | 70239104 | ID=MS.gene064410 |
| chr3.4 | mRNA | 70239104 | 70239906 | 70239104 | ID=MS.gene064410.t1;Parent=MS.gene064410 |
| chr3.4 | exon | 70239104 | 70239211 | 70239104 | ID=MS.gene064410.t1.exon1;Parent=MS.gene064410.t1 |
| chr3.4 | CDS | 70239104 | 70239211 | 70239104 | ID=cds.MS.gene064410.t1;Parent=MS.gene064410.t1 |
| chr3.4 | exon | 70239335 | 70239421 | 70239335 | ID=MS.gene064410.t1.exon2;Parent=MS.gene064410.t1 |
| chr3.4 | CDS | 70239335 | 70239421 | 70239335 | ID=cds.MS.gene064410.t1;Parent=MS.gene064410.t1 |
| chr3.4 | exon | 70239841 | 70239906 | 70239841 | ID=MS.gene064410.t1.exon3;Parent=MS.gene064410.t1 |
| chr3.4 | CDS | 70239841 | 70239906 | 70239841 | ID=cds.MS.gene064410.t1;Parent=MS.gene064410.t1 |
| Gene Sequence |
| Protein sequence |
