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.gene31828.t1 | XP_013466382.1 | 80.6 | 62 | 12 | 0 | 1 | 62 | 1 | 62 | 9.20E-09 | 68.9 |
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.gene31828.t1 | A0A072VG86 | 80.6 | 62 | 12 | 0 | 1 | 62 | 1 | 62 | 6.6e-09 | 68.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051996 | MS.gene31828 | 0.800884 | 1.17E-48 | -1.69E-46 |
| MS.gene052011 | MS.gene31828 | 0.803689 | 3.09E-49 | -1.69E-46 |
| MS.gene052223 | MS.gene31828 | 0.817223 | 3.69E-52 | -1.69E-46 |
| MS.gene054742 | MS.gene31828 | 0.801517 | 8.67E-49 | -1.69E-46 |
| MS.gene056330 | MS.gene31828 | 0.806949 | 6.42E-50 | -1.69E-46 |
| MS.gene056924 | MS.gene31828 | 0.807816 | 4.20E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene31828 | MS.gene048906 | PPI |
| MS.gene31828 | MS.gene55776 | PPI |
| MS.gene06050 | MS.gene31828 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31828.t1 | MTR_1g028610 | 91.935 | 62 | 5 | 0 | 1 | 62 | 1 | 62 | 2.24e-27 | 93.6 |
| MS.gene31828.t1 | MTR_3g090830 | 76.271 | 59 | 12 | 1 | 4 | 62 | 7 | 63 | 5.35e-24 | 85.1 |
| MS.gene31828.t1 | MTR_6g086390 | 41.667 | 60 | 35 | 0 | 3 | 62 | 5 | 64 | 1.15e-11 | 53.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31828.t1 | AT5G53250 | 79.487 | 39 | 8 | 0 | 24 | 62 | 25 | 63 | 8.26e-16 | 64.3 |
| MS.gene31828.t1 | AT2G46330 | 74.419 | 43 | 9 | 1 | 20 | 62 | 22 | 62 | 3.98e-15 | 63.2 |
| MS.gene31828.t1 | AT3G61640 | 55.357 | 56 | 23 | 1 | 7 | 62 | 9 | 62 | 1.26e-14 | 61.6 |
Find 13 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCACTTACATCATTCATTA+AGG | 0.232380 | 1.1:-14424471 | None:intergenic |
| TTCTTCACAATCTGTTGCTT+CGG | 0.357853 | 1.1:-14425273 | MS.gene31828:CDS |
| TCACTTGTGGGAGCGGGAGC+AGG | 0.433526 | 1.1:+14425248 | None:intergenic |
| GAAGCAAAGCCACCAGCATT+AGG | 0.444107 | 1.1:+14424493 | None:intergenic |
| TTAGGACATATGCTATTGCT+TGG | 0.507960 | 1.1:+14424511 | None:intergenic |
| CATACCATCACTTGTGGGAG+CGG | 0.554416 | 1.1:+14425241 | None:intergenic |
| ATACCATCACTTGTGGGAGC+GGG | 0.556858 | 1.1:+14425242 | None:intergenic |
| GAAAACATACCATCACTTGT+GGG | 0.559175 | 1.1:+14425236 | None:intergenic |
| TGAAAACATACCATCACTTG+TGG | 0.566489 | 1.1:+14425235 | None:intergenic |
| GCTCCCGCTCCCACAAGTGA+TGG | 0.569380 | 1.1:-14425245 | MS.gene31828:intron |
| AATAGCATATGTCCTAATGC+TGG | 0.576700 | 1.1:-14424505 | MS.gene31828:CDS |
| AGCATATGTCCTAATGCTGG+TGG | 0.610729 | 1.1:-14424502 | MS.gene31828:CDS |
| AAGACACATAAATAAGACCA+AGG | 0.667740 | 1.1:+14425309 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCAAGAAAAATAACATAATT+AGG | + | chr1.1:14424698-14424717 | None:intergenic | 15.0% |
| !! | TCAATCAAAAACTTTAAATA+AGG | - | chr1.1:14424847-14424866 | MS.gene31828:intron | 15.0% |
| !! | AATTGTTCTTAAAAATTTGC+AGG | - | chr1.1:14425265-14425284 | MS.gene31828:CDS | 20.0% |
| ! | AAATAGATCTAGACTATCTT+GGG | - | chr1.1:14425050-14425069 | MS.gene31828:intron | 25.0% |
| ! | AATAACAGTCTCATTCTTAT+CGG | + | chr1.1:14425104-14425123 | None:intergenic | 25.0% |
| ! | TGTCACAATTTGATATGTTT+GGG | - | chr1.1:14425168-14425187 | MS.gene31828:intron | 25.0% |
| !!! | TTCTTATCGGTTCAATTTAA+CGG | + | chr1.1:14425091-14425110 | None:intergenic | 25.0% |
| AACAACAACATTGGATAGAA+CGG | + | chr1.1:14425216-14425235 | None:intergenic | 30.0% | |
| AAGACACATAAATAAGACCA+AGG | + | chr1.1:14424505-14424524 | None:intergenic | 30.0% | |
| CAAAAAAGTTTCTCAACATG+AGG | + | chr1.1:14424808-14424827 | None:intergenic | 30.0% | |
| CAAATAGATCTAGACTATCT+TGG | - | chr1.1:14425049-14425068 | MS.gene31828:intron | 30.0% | |
| CAAGATAGTCTAGATCTATT+TGG | + | chr1.1:14425051-14425070 | None:intergenic | 30.0% | |
| CATCCATGAATCATATAAGA+TGG | + | chr1.1:14424670-14424689 | None:intergenic | 30.0% | |
| CTGTCACAATTTGATATGTT+TGG | - | chr1.1:14425167-14425186 | MS.gene31828:intron | 30.0% | |
| TCACCATCTTATATGATTCA+TGG | - | chr1.1:14424664-14424683 | MS.gene31828:intron | 30.0% | |
| ! | ATATGTTTGGGTTTAGTCTT+TGG | - | chr1.1:14425180-14425199 | MS.gene31828:intron | 30.0% |
| ! | TTCTATCCAATGTTGTTGTT+TGG | - | chr1.1:14425216-14425235 | MS.gene31828:intron | 30.0% |
| AATAGCATATGTCCTAATGC+TGG | - | chr1.1:14425306-14425325 | MS.gene31828:CDS | 35.0% | |
| GAAAACATACCATCACTTGT+GGG | + | chr1.1:14424578-14424597 | None:intergenic | 35.0% | |
| GCAATTTAGACTACAACATC+TGG | - | chr1.1:14424879-14424898 | MS.gene31828:intron | 35.0% | |
| TGAAAACATACCATCACTTG+TGG | + | chr1.1:14424579-14424598 | None:intergenic | 35.0% | |
| TTAGGACATATGCTATTGCT+TGG | + | chr1.1:14425303-14425322 | None:intergenic | 35.0% | |
| TTGCAACCAAACAACAACAT+TGG | + | chr1.1:14425225-14425244 | None:intergenic | 35.0% | |
| ! | TTATGTGTCTTTTGCGTCAA+CGG | - | chr1.1:14424514-14424533 | MS.gene31828:CDS | 35.0% |
| ! | TTCTTCACAATCTGTTGCTT+CGG | - | chr1.1:14424538-14424557 | MS.gene31828:intron | 35.0% |
| CAATGACCACAATGTGATTC+TGG | - | chr1.1:14424914-14424933 | MS.gene31828:intron | 40.0% | |
| CTTCAACCAGAATCACATTG+TGG | + | chr1.1:14424923-14424942 | None:intergenic | 40.0% | |
| GAAGTCACACCAATCATGTA+TGG | - | chr1.1:14424939-14424958 | MS.gene31828:intron | 40.0% | |
| GAATCGCAACCATACATGAT+TGG | + | chr1.1:14424951-14424970 | None:intergenic | 40.0% | |
| TGGCAAAGAAACACACTCAA+AGG | + | chr1.1:14425031-14425050 | None:intergenic | 40.0% | |
| TTGTTTGGTTGCAAAACGCA+TGG | - | chr1.1:14425231-14425250 | MS.gene31828:intron | 40.0% | |
| AGCATATGTCCTAATGCTGG+TGG | - | chr1.1:14425309-14425328 | MS.gene31828:CDS | 45.0% | |
| ATACCATCACTTGTGGGAGC+GGG | + | chr1.1:14424572-14424591 | None:intergenic | 50.0% | |
| CATACCATCACTTGTGGGAG+CGG | + | chr1.1:14424573-14424592 | None:intergenic | 50.0% | |
| GAAGCAAAGCCACCAGCATT+AGG | + | chr1.1:14425321-14425340 | None:intergenic | 50.0% | |
| !! | TTTTGGGTGGTCGTGTTCCT+TGG | - | chr1.1:14424485-14424504 | MS.gene31828:CDS | 50.0% |
| GCTCCCGCTCCCACAAGTGA+TGG | - | chr1.1:14424566-14424585 | MS.gene31828:intron | 65.0% | |
| TCACTTGTGGGAGCGGGAGC+AGG | + | chr1.1:14424566-14424585 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.1 | gene | 14424473 | 14425360 | 14424473 | ID=MS.gene31828 |
| chr1.1 | mRNA | 14424473 | 14425360 | 14424473 | ID=MS.gene31828.t1;Parent=MS.gene31828 |
| chr1.1 | exon | 14425246 | 14425360 | 14425246 | ID=MS.gene31828.t1.exon1;Parent=MS.gene31828.t1 |
| chr1.1 | CDS | 14425246 | 14425360 | 14425246 | ID=cds.MS.gene31828.t1;Parent=MS.gene31828.t1 |
| chr1.1 | exon | 14424473 | 14424546 | 14424473 | ID=MS.gene31828.t1.exon2;Parent=MS.gene31828.t1 |
| chr1.1 | CDS | 14424473 | 14424546 | 14424473 | ID=cds.MS.gene31828.t1;Parent=MS.gene31828.t1 |
| Gene Sequence |
| Protein sequence |
