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.gene90018.t1 | RHN51483.1 | 92.9 | 98 | 7 | 0 | 1 | 98 | 521 | 618 | 1.60E-47 | 198.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90018.t1 | A0A396HFX6 | 92.9 | 98 | 7 | 0 | 1 | 98 | 521 | 618 | 1.1e-47 | 198.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051594 | MS.gene90018 | 0.801034 | 1.09E-48 | -1.69E-46 |
| MS.gene053998 | MS.gene90018 | 0.80622 | 9.14E-50 | -1.69E-46 |
| MS.gene054775 | MS.gene90018 | 0.800765 | 1.24E-48 | -1.69E-46 |
| MS.gene056174 | MS.gene90018 | 0.824382 | 8.32E-54 | -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.gene90018.t1 | MTR_5g077900 | 93.750 | 96 | 6 | 0 | 1 | 96 | 129 | 224 | 2.46e-64 | 194 |
| MS.gene90018.t1 | MTR_0002s1270 | 93.750 | 96 | 6 | 0 | 1 | 96 | 303 | 398 | 4.04e-63 | 196 |
| MS.gene90018.t1 | MTR_7g046380 | 93.103 | 87 | 6 | 0 | 1 | 87 | 311 | 397 | 1.52e-55 | 176 |
| MS.gene90018.t1 | MTR_0057s0200 | 94.915 | 59 | 3 | 0 | 40 | 98 | 1 | 59 | 5.62e-38 | 122 |
| MS.gene90018.t1 | MTR_4g066320 | 61.702 | 94 | 35 | 1 | 6 | 98 | 28 | 121 | 5.13e-35 | 116 |
| MS.gene90018.t1 | MTR_3g028430 | 74.074 | 54 | 5 | 1 | 45 | 98 | 15 | 59 | 2.01e-21 | 80.1 |
| MS.gene90018.t1 | MTR_8g017000 | 42.697 | 89 | 49 | 1 | 12 | 98 | 601 | 689 | 4.61e-17 | 75.1 |
| MS.gene90018.t1 | MTR_0462s0020 | 37.363 | 91 | 55 | 1 | 6 | 94 | 201 | 291 | 1.07e-16 | 73.2 |
| MS.gene90018.t1 | MTR_2g037270 | 41.573 | 89 | 50 | 1 | 12 | 98 | 601 | 689 | 2.00e-16 | 73.2 |
| MS.gene90018.t1 | MTR_4g066300 | 88.235 | 34 | 4 | 0 | 36 | 69 | 5 | 38 | 1.59e-15 | 65.1 |
| MS.gene90018.t1 | MTR_2g092960 | 35.106 | 94 | 60 | 1 | 6 | 98 | 1126 | 1219 | 2.83e-15 | 70.1 |
| MS.gene90018.t1 | MTR_2g086200 | 60.000 | 50 | 20 | 0 | 49 | 98 | 185 | 234 | 8.01e-15 | 67.4 |
| MS.gene90018.t1 | MTR_3g011560 | 34.483 | 87 | 46 | 1 | 12 | 98 | 601 | 676 | 5.99e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGCCATTAGGTTGCTTTCT+TGG | 0.248489 | 1.4:+40658482 | None:intergenic |
| GAAATAGAAAGAAGGTTAAA+TGG | 0.272854 | 1.4:-40658935 | MS.gene90018:CDS |
| GTTAACATATAGAGCTTTAG+AGG | 0.328169 | 1.4:-40658976 | MS.gene90018:intron |
| TCATTGCTTCATTAAGATCT+TGG | 0.330442 | 1.4:+40659097 | None:intergenic |
| TATAAGTCATCATCAGTTAA+TGG | 0.351177 | 1.4:+40658268 | None:intergenic |
| TCTTGACTTGTATAAGGCTT+AGG | 0.381448 | 1.4:-40658215 | None:intergenic |
| AGAGGTTCATCAACTTGCTC+AGG | 0.395867 | 1.4:-40658958 | MS.gene90018:CDS |
| TATCCACAATCATTGCCATT+AGG | 0.411955 | 1.4:+40658470 | None:intergenic |
| CTGCTAATATTACTAAGTCT+TGG | 0.472781 | 1.4:-40658415 | MS.gene90018:CDS |
| ATATGATTTGCGAAACCAAT+GGG | 0.486055 | 1.4:-40658248 | MS.gene90018:CDS |
| TAGCCAAGAAAGCAACCTAA+TGG | 0.495668 | 1.4:-40658485 | MS.gene90018:CDS |
| CAACCTAATGGCAATGATTG+TGG | 0.497368 | 1.4:-40658473 | MS.gene90018:CDS |
| TCATCATCAGTTAATGGCGT+TGG | 0.497730 | 1.4:+40658274 | None:intergenic |
| CAAGAAAACAAGTTGCCCAT+TGG | 0.504204 | 1.4:+40658233 | None:intergenic |
| GAGGTTCATCAACTTGCTCA+GGG | 0.546410 | 1.4:-40658957 | MS.gene90018:CDS |
| TGCTCAGGGAAATAGAAAGA+AGG | 0.574040 | 1.4:-40658943 | MS.gene90018:CDS |
| TATATGATTTGCGAAACCAA+TGG | 0.577102 | 1.4:-40658249 | MS.gene90018:CDS |
| TAATATTACTAAGTCTTGGA+TGG | 0.604101 | 1.4:-40658411 | MS.gene90018:CDS |
| TATTACTAAGTCTTGGATGG+AGG | 0.643493 | 1.4:-40658408 | MS.gene90018:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAACTCAAATTATTTAGAAA+GGG | - | chr1.4:40658514-40658533 | MS.gene90018:intron | 15.0% |
| !! | AACTAATCACTTTATAAAAA+TGG | - | chr1.4:40658799-40658818 | MS.gene90018:intron | 15.0% |
| !! | GTATTATACAAAAGAATTAT+TGG | + | chr1.4:40658707-40658726 | None:intergenic | 15.0% |
| !! | TAAACTCAAATTATTTAGAA+AGG | - | chr1.4:40658513-40658532 | MS.gene90018:intron | 15.0% |
| !!! | CTTTGATGATTTTTTTAATT+TGG | - | chr1.4:40658320-40658339 | MS.gene90018:intron | 15.0% |
| !! | TAAAGTAAAAAAATTCACTG+AGG | - | chr1.4:40658545-40658564 | MS.gene90018:intron | 20.0% |
| !! | TAATACAAGAAACAATCATA+CGG | + | chr1.4:40658466-40658485 | None:intergenic | 20.0% |
| !!! | ATTGTTTCTTGTATTAAAAG+TGG | - | chr1.4:40658470-40658489 | MS.gene90018:CDS | 20.0% |
| ! | AAATATACAGGGAACAATTA+AGG | + | chr1.4:40658442-40658461 | None:intergenic | 25.0% |
| ! | AATCATACGGAAAATATACA+GGG | + | chr1.4:40658453-40658472 | None:intergenic | 25.0% |
| ! | GAAATAGAAAGAAGGTTAAA+TGG | - | chr1.4:40658383-40658402 | MS.gene90018:intron | 25.0% |
| ! | TAATATTACTAAGTCTTGGA+TGG | - | chr1.4:40658907-40658926 | MS.gene90018:intron | 25.0% |
| ! | TATAAGTCATCATCAGTTAA+TGG | + | chr1.4:40659053-40659072 | None:intergenic | 25.0% |
| ! | TATATTAACCTACACATTGT+AGG | - | chr1.4:40659010-40659029 | MS.gene90018:intron | 25.0% |
| ! | TTGGTTAAGTAGTGTAAAAA+AGG | + | chr1.4:40658688-40658707 | None:intergenic | 25.0% |
| !!! | GTTATACATTTTAGTGTTGT+AGG | + | chr1.4:40658301-40658320 | None:intergenic | 25.0% |
| !!! | TTGTTTTCTTGACTTGTATA+AGG | - | chr1.4:40659097-40659116 | MS.gene90018:CDS | 25.0% |
| AACAAGAACCATACTTACTT+TGG | + | chr1.4:40658416-40658435 | None:intergenic | 30.0% | |
| ACAACAGTATCTATTCATGA+AGG | + | chr1.4:40658729-40658748 | None:intergenic | 30.0% | |
| ACAAGAACCATACTTACTTT+GGG | + | chr1.4:40658415-40658434 | None:intergenic | 30.0% | |
| ATTATTTAGAAAGGGTAGTC+TGG | - | chr1.4:40658522-40658541 | MS.gene90018:intron | 30.0% | |
| CAATCATACGGAAAATATAC+AGG | + | chr1.4:40658454-40658473 | None:intergenic | 30.0% | |
| CTGCTAATATTACTAAGTCT+TGG | - | chr1.4:40658903-40658922 | MS.gene90018:intron | 30.0% | |
| TCATTGCTTCATTAAGATCT+TGG | + | chr1.4:40658224-40658243 | None:intergenic | 30.0% | |
| ! | ATATGATTTGCGAAACCAAT+GGG | - | chr1.4:40659070-40659089 | MS.gene90018:intron | 30.0% |
| ! | GTTAACATATAGAGCTTTAG+AGG | - | chr1.4:40658342-40658361 | MS.gene90018:intron | 30.0% |
| ! | TAGACTTAGCTTGATTACAT+TGG | - | chr1.4:40658572-40658591 | MS.gene90018:intron | 30.0% |
| ! | TATATGATTTGCGAAACCAA+TGG | - | chr1.4:40659069-40659088 | MS.gene90018:intron | 30.0% |
| AGATCTAACTCTGTTCTGTA+TGG | + | chr1.4:40658608-40658627 | None:intergenic | 35.0% | |
| ATTGAAGACCTACAATGTGT+AGG | + | chr1.4:40659021-40659040 | None:intergenic | 35.0% | |
| GATCTAACTCTGTTCTGTAT+GGG | + | chr1.4:40658607-40658626 | None:intergenic | 35.0% | |
| TACAGAACAGAGTTAGATCT+AGG | - | chr1.4:40658608-40658627 | MS.gene90018:intron | 35.0% | |
| TATCCACAATCATTGCCATT+AGG | + | chr1.4:40658851-40658870 | None:intergenic | 35.0% | |
| TATTACTAAGTCTTGGATGG+AGG | - | chr1.4:40658910-40658929 | MS.gene90018:intron | 35.0% | |
| TGCTTCTGCTTATAAAAAGC+TGG | - | chr1.4:40658652-40658671 | MS.gene90018:intron | 35.0% | |
| ! | AGATCTAGGATTCCATTACA+TGG | - | chr1.4:40658622-40658641 | MS.gene90018:intron | 35.0% |
| AAGCATGTGAGTCCATGTAA+TGG | + | chr1.4:40658637-40658656 | None:intergenic | 40.0% | |
| CAACCTAATGGCAATGATTG+TGG | - | chr1.4:40658845-40658864 | MS.gene90018:intron | 40.0% | |
| CAAGAAAACAAGTTGCCCAT+TGG | + | chr1.4:40659088-40659107 | None:intergenic | 40.0% | |
| GTTTCGTCCCAAAGTAAGTA+TGG | - | chr1.4:40658405-40658424 | MS.gene90018:intron | 40.0% | |
| TAGCCAAGAAAGCAACCTAA+TGG | - | chr1.4:40658833-40658852 | MS.gene90018:intron | 40.0% | |
| TCATCATCAGTTAATGGCGT+TGG | + | chr1.4:40659047-40659066 | None:intergenic | 40.0% | |
| TGCTCAGGGAAATAGAAAGA+AGG | - | chr1.4:40658375-40658394 | MS.gene90018:intron | 40.0% | |
| ! | TTGCCATTAGGTTGCTTTCT+TGG | + | chr1.4:40658839-40658858 | None:intergenic | 40.0% |
| ! | AGAGGTTCATCAACTTGCTC+AGG | - | chr1.4:40658360-40658379 | MS.gene90018:intron | 45.0% |
| ! | GAGGTTCATCAACTTGCTCA+GGG | - | chr1.4:40658361-40658380 | MS.gene90018:intron | 45.0% |
| !! | ATAAGTAATTAATATTAATA+AGG | + | chr1.4:40658993-40659012 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 40658216 | 40659124 | 40658216 | ID=MS.gene90018 |
| chr1.4 | mRNA | 40658216 | 40659124 | 40658216 | ID=MS.gene90018.t1;Parent=MS.gene90018 |
| chr1.4 | exon | 40659081 | 40659124 | 40659081 | ID=MS.gene90018.t1.exon1;Parent=MS.gene90018.t1 |
| chr1.4 | CDS | 40659081 | 40659124 | 40659081 | ID=cds.MS.gene90018.t1;Parent=MS.gene90018.t1 |
| chr1.4 | exon | 40658923 | 40658986 | 40658923 | ID=MS.gene90018.t1.exon2;Parent=MS.gene90018.t1 |
| chr1.4 | CDS | 40658923 | 40658986 | 40658923 | ID=cds.MS.gene90018.t1;Parent=MS.gene90018.t1 |
| chr1.4 | exon | 40658409 | 40658504 | 40658409 | ID=MS.gene90018.t1.exon3;Parent=MS.gene90018.t1 |
| chr1.4 | CDS | 40658409 | 40658504 | 40658409 | ID=cds.MS.gene90018.t1;Parent=MS.gene90018.t1 |
| chr1.4 | exon | 40658216 | 40658308 | 40658216 | ID=MS.gene90018.t1.exon4;Parent=MS.gene90018.t1 |
| chr1.4 | CDS | 40658216 | 40658308 | 40658216 | ID=cds.MS.gene90018.t1;Parent=MS.gene90018.t1 |
| Gene Sequence |
| Protein sequence |
