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.gene50366.t1 | XP_003617548.1 | 99.1 | 110 | 1 | 0 | 1 | 110 | 1 | 110 | 1.80E-55 | 224.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50366.t1 | P56330 | 73.2 | 112 | 27 | 1 | 2 | 110 | 4 | 115 | 3.3e-42 | 172.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50366.t1 | G7K3H5 | 99.1 | 110 | 1 | 0 | 1 | 110 | 1 | 110 | 1.3e-55 | 224.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052011 | MS.gene50366 | -0.800305 | 1.53E-48 | -1.69E-46 |
| MS.gene052253 | MS.gene50366 | 0.801722 | 7.87E-49 | -1.69E-46 |
| MS.gene054183 | MS.gene50366 | 0.804851 | 1.77E-49 | -1.69E-46 |
| MS.gene054556 | MS.gene50366 | 0.804409 | 2.19E-49 | -1.69E-46 |
| MS.gene059420 | MS.gene50366 | 0.814485 | 1.50E-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.gene50366.t1 | MTR_5g092820 | 99.091 | 110 | 1 | 0 | 1 | 110 | 1 | 110 | 4.58e-78 | 225 |
| MS.gene50366.t1 | MTR_3g051950 | 84.404 | 109 | 17 | 0 | 2 | 110 | 4 | 112 | 3.88e-65 | 192 |
| MS.gene50366.t1 | MTR_4g046733 | 71.560 | 109 | 30 | 1 | 3 | 110 | 5 | 113 | 1.17e-55 | 168 |
| MS.gene50366.t1 | MTR_2g083180 | 72.072 | 111 | 29 | 1 | 2 | 110 | 4 | 114 | 8.44e-55 | 166 |
| MS.gene50366.t1 | MTR_2g083180 | 71.028 | 107 | 29 | 1 | 6 | 110 | 10 | 116 | 1.09e-50 | 156 |
| MS.gene50366.t1 | MTR_2g083180 | 73.196 | 97 | 24 | 1 | 2 | 96 | 4 | 100 | 2.72e-47 | 147 |
| MS.gene50366.t1 | MTR_2g083180 | 73.196 | 97 | 24 | 1 | 2 | 96 | 4 | 100 | 5.25e-47 | 147 |
| MS.gene50366.t1 | MTR_2g083180 | 71.250 | 80 | 21 | 1 | 2 | 79 | 4 | 83 | 2.16e-35 | 117 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50366.t1 | AT5G54940 | 81.651 | 109 | 20 | 0 | 2 | 110 | 4 | 112 | 6.52e-64 | 189 |
| MS.gene50366.t1 | AT5G54940 | 81.651 | 109 | 20 | 0 | 2 | 110 | 4 | 112 | 6.52e-64 | 189 |
| MS.gene50366.t1 | AT5G54940 | 81.651 | 109 | 20 | 0 | 2 | 110 | 4 | 112 | 6.52e-64 | 189 |
| MS.gene50366.t1 | AT1G54290 | 72.727 | 110 | 29 | 1 | 2 | 110 | 4 | 113 | 8.09e-58 | 174 |
| MS.gene50366.t1 | AT4G27130 | 73.636 | 110 | 28 | 1 | 2 | 110 | 4 | 113 | 1.09e-57 | 174 |
| MS.gene50366.t1 | AT5G54760 | 73.636 | 110 | 28 | 1 | 2 | 110 | 4 | 113 | 1.86e-57 | 173 |
| MS.gene50366.t1 | AT5G54760 | 73.636 | 110 | 28 | 1 | 2 | 110 | 4 | 113 | 1.86e-57 | 173 |
| MS.gene50366.t1 | AT5G54760 | 73.636 | 110 | 28 | 1 | 2 | 110 | 4 | 113 | 1.86e-57 | 173 |
| MS.gene50366.t1 | AT5G54760 | 73.636 | 110 | 28 | 1 | 2 | 110 | 4 | 113 | 1.86e-57 | 173 |
Find 21 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTCTTTCTTGAGATCTTTA+AGG | 0.098306 | 4.4:-78710061 | None:intergenic |
| ACCTGGTGCATCTGATTCTT+TGG | 0.208720 | 4.4:-78709940 | None:intergenic |
| CAAAAGAGTATGTGCATATT+AGG | 0.278072 | 4.4:+78709964 | MS.gene50366:CDS |
| TCAGTCCTTGCACTGTTGTT+AGG | 0.278405 | 4.4:-78710013 | None:intergenic |
| AAGGACAACATCAAGATTCA+TGG | 0.385779 | 4.4:+78710197 | MS.gene50366:CDS |
| GATTCTTTGGCCTCAGCAAA+TGG | 0.405574 | 4.4:-78709927 | None:intergenic |
| GTTGTGAATTGCAAGGATCT+TGG | 0.420337 | 4.4:+78710101 | MS.gene50366:CDS |
| TCATGCTGGTCTTGCTAGAA+AGG | 0.426864 | 4.4:+78710178 | MS.gene50366:CDS |
| TGCGTTGATCACCTTGGAGT+TGG | 0.445951 | 4.4:-78710133 | None:intergenic |
| TCTCACTTCCTCATTCATGC+TGG | 0.461083 | 4.4:+78710164 | MS.gene50366:CDS |
| GCAAATGGATCAAATGTGCT+TGG | 0.480564 | 4.4:-78709912 | None:intergenic |
| CATTCTTGCGTTGATCACCT+TGG | 0.510216 | 4.4:-78710139 | None:intergenic |
| CAAATGGATCAAATGTGCTT+GGG | 0.511747 | 4.4:-78709911 | None:intergenic |
| CACATTTGATCCATTTGCTG+AGG | 0.534407 | 4.4:+78709917 | MS.gene50366:CDS |
| ATTAGGATACAACAAAGGAA+TGG | 0.567289 | 4.4:+78709981 | MS.gene50366:CDS |
| TAGCAAGACCAGCATGAATG+AGG | 0.588886 | 4.4:-78710172 | None:intergenic |
| GGAAAGATTATCCAACTCCA+AGG | 0.612457 | 4.4:+78710122 | MS.gene50366:CDS |
| GCCAAAGAATCAGATGCACC+AGG | 0.626824 | 4.4:+78709939 | MS.gene50366:CDS |
| AAGAGCCTAACAACAGTGCA+AGG | 0.631107 | 4.4:+78710008 | MS.gene50366:CDS |
| TGGAAATGTTGTGAATTGCA+AGG | 0.663364 | 4.4:+78710094 | MS.gene50366:CDS |
| TGCATATTAGGATACAACAA+AGG | 0.686189 | 4.4:+78709976 | MS.gene50366:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACTCTTTCTTGAGATCTTTA+AGG | - | chr4.4:78710064-78710083 | None:intergenic | 30.0% | |
| ATTAGGATACAACAAAGGAA+TGG | + | chr4.4:78709981-78710000 | MS.gene50366:CDS | 30.0% | |
| TGCATATTAGGATACAACAA+AGG | + | chr4.4:78709976-78709995 | MS.gene50366:CDS | 30.0% | |
| ! | CAAAAGAGTATGTGCATATT+AGG | + | chr4.4:78709964-78709983 | MS.gene50366:CDS | 30.0% |
| !!! | AAGAAAGAGTTTTGTTGCAA+TGG | + | chr4.4:78710074-78710093 | MS.gene50366:CDS | 30.0% |
| AAGGACAACATCAAGATTCA+TGG | + | chr4.4:78710197-78710216 | MS.gene50366:CDS | 35.0% | |
| CAAATGGATCAAATGTGCTT+GGG | - | chr4.4:78709914-78709933 | None:intergenic | 35.0% | |
| TGGAAATGTTGTGAATTGCA+AGG | + | chr4.4:78710094-78710113 | MS.gene50366:CDS | 35.0% | |
| GCAAATGGATCAAATGTGCT+TGG | - | chr4.4:78709915-78709934 | None:intergenic | 40.0% | |
| GGAAAGATTATCCAACTCCA+AGG | + | chr4.4:78710122-78710141 | MS.gene50366:CDS | 40.0% | |
| GTTGTGAATTGCAAGGATCT+TGG | + | chr4.4:78710101-78710120 | MS.gene50366:CDS | 40.0% | |
| ! | CACATTTGATCCATTTGCTG+AGG | + | chr4.4:78709917-78709936 | MS.gene50366:CDS | 40.0% |
| AAGAGCCTAACAACAGTGCA+AGG | + | chr4.4:78710008-78710027 | MS.gene50366:CDS | 45.0% | |
| ACCTGGTGCATCTGATTCTT+TGG | - | chr4.4:78709943-78709962 | None:intergenic | 45.0% | |
| GATTCTTTGGCCTCAGCAAA+TGG | - | chr4.4:78709930-78709949 | None:intergenic | 45.0% | |
| TAGCAAGACCAGCATGAATG+AGG | - | chr4.4:78710175-78710194 | None:intergenic | 45.0% | |
| TCAGTCCTTGCACTGTTGTT+AGG | - | chr4.4:78710016-78710035 | None:intergenic | 45.0% | |
| TCTCACTTCCTCATTCATGC+TGG | + | chr4.4:78710164-78710183 | MS.gene50366:CDS | 45.0% | |
| ! | CATTCTTGCGTTGATCACCT+TGG | - | chr4.4:78710142-78710161 | None:intergenic | 45.0% |
| ! | TGCACATACTCTTTTGCACC+TGG | - | chr4.4:78709960-78709979 | None:intergenic | 45.0% |
| !! | TCATGCTGGTCTTGCTAGAA+AGG | + | chr4.4:78710178-78710197 | MS.gene50366:CDS | 45.0% |
| GCCAAAGAATCAGATGCACC+AGG | + | chr4.4:78709939-78709958 | MS.gene50366:CDS | 50.0% | |
| ! | TGCGTTGATCACCTTGGAGT+TGG | - | chr4.4:78710136-78710155 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 78709894 | 78710226 | 78709894 | ID=MS.gene50366 |
| chr4.4 | mRNA | 78709894 | 78710226 | 78709894 | ID=MS.gene50366.t1;Parent=MS.gene50366 |
| chr4.4 | exon | 78709894 | 78710226 | 78709894 | ID=MS.gene50366.t1.exon1;Parent=MS.gene50366.t1 |
| chr4.4 | CDS | 78709894 | 78710226 | 78709894 | ID=cds.MS.gene50366.t1;Parent=MS.gene50366.t1 |
| Gene Sequence |
| Protein sequence |
