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.gene87127.t1 | XP_024627300.1 | 82.6 | 69 | 12 | 0 | 11 | 79 | 208 | 276 | 5.60E-23 | 116.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene87127.t1 | A7MB47 | 38.4 | 73 | 45 | 0 | 11 | 83 | 199 | 271 | 3.1e-06 | 52.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene87127.t1 | A0A396GV60 | 82.6 | 69 | 12 | 0 | 11 | 79 | 208 | 276 | 4.0e-23 | 116.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene87127.t1 | TR | Rcd1-like |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene87127.t1 | MTR_5g093460 | 55.882 | 68 | 30 | 0 | 11 | 78 | 342 | 409 | 2.21e-17 | 75.5 |
| MS.gene87127.t1 | MTR_3g018640 | 54.286 | 70 | 32 | 0 | 10 | 79 | 213 | 282 | 1.77e-15 | 69.3 |
| MS.gene87127.t1 | MTR_3g053170 | 49.275 | 69 | 35 | 0 | 11 | 79 | 202 | 270 | 1.79e-15 | 69.7 |
| MS.gene87127.t1 | MTR_8g106940 | 48.485 | 66 | 34 | 0 | 14 | 79 | 217 | 282 | 4.76e-14 | 65.9 |
| MS.gene87127.t1 | MTR_6g065170 | 45.455 | 66 | 36 | 0 | 14 | 79 | 217 | 282 | 9.61e-12 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene87127.t1 | AT3G20800 | 50.725 | 69 | 34 | 0 | 11 | 79 | 215 | 283 | 4.28e-14 | 65.9 |
| MS.gene87127.t1 | AT5G12980 | 44.615 | 65 | 36 | 0 | 14 | 78 | 214 | 278 | 3.93e-12 | 60.5 |
Find 10 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATAGAGAAACTAACAGTTT+TGG | 0.311116 | 7.4:-63290989 | None:intergenic |
| GGGCTTGCAATGCATTAAAA+AGG | 0.353362 | 7.4:+63291433 | MS.gene87127:intron |
| TGCCTACGCAGCATGGAAAT+CGG | 0.460606 | 7.4:+63290955 | MS.gene87127:CDS |
| AGTTTGATCAATTGATATGA+AGG | 0.487233 | 7.4:-63291276 | None:intergenic |
| TTATAACCTTAGGATACTAT+CGG | 0.507030 | 7.4:+63292259 | MS.gene87127:intron |
| AACATGGTATTGGAAAGTCT+TGG | 0.527753 | 7.4:+63291246 | MS.gene87127:CDS |
| TCCACTATGCCTACGCAGCA+TGG | 0.546502 | 7.4:+63290948 | None:intergenic |
| TGCCGATTTCCATGCTGCGT+AGG | 0.604124 | 7.4:-63290957 | None:intergenic |
| CACAAGAAGTACTTACGCGA+AGG | 0.618083 | 7.4:-63291497 | None:intergenic |
| TGAGACAAAAGAGAATAACA+TGG | 0.703854 | 7.4:-63291306 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTATAAATTTTAATATTTC+TGG | + | chr7.4:63292005-63292024 | MS.gene87127:intron | 10.0% |
| !! | ATCTTATATCTCATAATAAT+AGG | - | chr7.4:63292141-63292160 | None:intergenic | 15.0% |
| !! | TATTATTATGAGATATAAGA+TGG | + | chr7.4:63292140-63292159 | MS.gene87127:intron | 15.0% |
| !!! | ATATTGTATTTTATAACCTT+AGG | + | chr7.4:63292249-63292268 | MS.gene87127:intron | 15.0% |
| !!! | TTATTGATGATGTAATTTTT+TGG | - | chr7.4:63291785-63291804 | None:intergenic | 15.0% |
| !! | AAAATCTTTCATATTAACAC+AGG | + | chr7.4:63291412-63291431 | MS.gene87127:intron | 20.0% |
| !! | AAATCTTTCATATTAACACA+GGG | + | chr7.4:63291413-63291432 | MS.gene87127:intron | 20.0% |
| !! | ACAAATGTGAAAATAACTAT+TGG | + | chr7.4:63291614-63291633 | MS.gene87127:intron | 20.0% |
| !! | ATATTAGTAACATAAGTGAA+TGG | - | chr7.4:63291099-63291118 | None:intergenic | 20.0% |
| !! | GTATGATAAACAAATTCAAT+AGG | - | chr7.4:63291594-63291613 | None:intergenic | 20.0% |
| !!! | AGTCTTTTGTTTATATGAAT+TGG | + | chr7.4:63291041-63291060 | MS.gene87127:intron | 20.0% |
| !!! | TTTGTTACTCAACATTTTAA+TGG | + | chr7.4:63291637-63291656 | MS.gene87127:intron | 20.0% |
| ! | AAAATTATGTCAGATGATGA+TGG | + | chr7.4:63291168-63291187 | MS.gene87127:intron | 25.0% |
| ! | AAGACTCTGTCAAAATAAAT+TGG | - | chr7.4:63291027-63291046 | None:intergenic | 25.0% |
| ! | AGTTTGATCAATTGATATGA+AGG | - | chr7.4:63291279-63291298 | None:intergenic | 25.0% |
| ! | TTATAACCTTAGGATACTAT+CGG | + | chr7.4:63292259-63292278 | MS.gene87127:intron | 25.0% |
| ! | TTGTTTATATGAATTGGACT+TGG | + | chr7.4:63291047-63291066 | MS.gene87127:intron | 25.0% |
| !! | AATAGAGAAACTAACAGTTT+TGG | - | chr7.4:63290992-63291011 | None:intergenic | 25.0% |
| !!! | TTATACAATTTTTTGCTAGC+AGG | - | chr7.4:63291992-63292011 | None:intergenic | 25.0% |
| AAAGTGAGTGTCTAACAAAA+AGG | + | chr7.4:63291719-63291738 | MS.gene87127:intron | 30.0% | |
| GAATGGCAAAAAAAATCAGA+AGG | - | chr7.4:63291082-63291101 | None:intergenic | 30.0% | |
| TAATTTCCGATAGTATCCTA+AGG | - | chr7.4:63292268-63292287 | None:intergenic | 30.0% | |
| TGAGACAAAAGAGAATAACA+TGG | - | chr7.4:63291309-63291328 | None:intergenic | 30.0% | |
| !!! | AGTAGTTCAAGTTTTGAACA+TGG | + | chr7.4:63291230-63291249 | MS.gene87127:CDS | 30.0% |
| !!! | TCAAGTTTTGAACATGGTAT+TGG | + | chr7.4:63291236-63291255 | MS.gene87127:CDS | 30.0% |
| AGCTACCTCTTTAACAAGTT+TGG | + | chr7.4:63291675-63291694 | MS.gene87127:intron | 35.0% | |
| ATCAAAGTTATCATCTCTGC+AGG | + | chr7.4:63291125-63291144 | MS.gene87127:intron | 35.0% | |
| GATGGTTTGATGTATGTTTG+TGG | + | chr7.4:63291186-63291205 | MS.gene87127:intron | 35.0% | |
| TGAAACTTCTTAACCAACCT+AGG | - | chr7.4:63291336-63291355 | None:intergenic | 35.0% | |
| ! | AACATGGTATTGGAAAGTCT+TGG | + | chr7.4:63291246-63291265 | MS.gene87127:CDS | 35.0% |
| ! | TTGACAGTTTTCAGCATGTT+TGG | - | chr7.4:63291465-63291484 | None:intergenic | 35.0% |
| !! | TGACACCAAACTTGTTAAAG+AGG | - | chr7.4:63291683-63291702 | None:intergenic | 35.0% |
| GGGCTTGCAATGCATTAAAA+AGG | + | chr7.4:63291433-63291452 | MS.gene87127:intron | 40.0% | |
| TTTGTCTCAACATCCTAGGT+TGG | + | chr7.4:63291320-63291339 | MS.gene87127:intron | 40.0% | |
| ! | CTCTTTTGTCTCAACATCCT+AGG | + | chr7.4:63291316-63291335 | MS.gene87127:CDS | 40.0% |
| !! | CACAAGAAGTACTTACGCGA+AGG | - | chr7.4:63291500-63291519 | None:intergenic | 45.0% |
| !! | ACATTAATATAAATAAAATA+TGG | - | chr7.4:63292033-63292052 | None:intergenic | 5.0% |
| TGCCTACGCAGCATGGAAAT+CGG | + | chr7.4:63290955-63290974 | MS.gene87127:CDS | 50.0% | |
| !! | TGCCGATTTCCATGCTGCGT+AGG | - | chr7.4:63290960-63290979 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 63290954 | 63292288 | 63290954 | ID=MS.gene87127 |
| chr7.4 | mRNA | 63290954 | 63292288 | 63290954 | ID=MS.gene87127.t1;Parent=MS.gene87127 |
| chr7.4 | exon | 63290954 | 63290996 | 63290954 | ID=MS.gene87127.t1.exon1;Parent=MS.gene87127.t1 |
| chr7.4 | CDS | 63290954 | 63290996 | 63290954 | ID=cds.MS.gene87127.t1;Parent=MS.gene87127.t1 |
| chr7.4 | exon | 63291214 | 63291337 | 63291214 | ID=MS.gene87127.t1.exon2;Parent=MS.gene87127.t1 |
| chr7.4 | CDS | 63291214 | 63291337 | 63291214 | ID=cds.MS.gene87127.t1;Parent=MS.gene87127.t1 |
| chr7.4 | exon | 63291434 | 63291521 | 63291434 | ID=MS.gene87127.t1.exon3;Parent=MS.gene87127.t1 |
| chr7.4 | CDS | 63291434 | 63291521 | 63291434 | ID=cds.MS.gene87127.t1;Parent=MS.gene87127.t1 |
| chr7.4 | exon | 63292271 | 63292288 | 63292271 | ID=MS.gene87127.t1.exon4;Parent=MS.gene87127.t1 |
| chr7.4 | CDS | 63292271 | 63292288 | 63292271 | ID=cds.MS.gene87127.t1;Parent=MS.gene87127.t1 |
| Gene Sequence |
| Protein sequence |
