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.gene52219.t1 | XP_003612938.1 | 64.3 | 185 | 11 | 3 | 1 | 130 | 1 | 185 | 3.30E-46 | 194.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene52219.t1 | Q9LSL1 | 75.5 | 53 | 11 | 1 | 80 | 130 | 155 | 207 | 2.1e-12 | 73.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene52219.t1 | A9YWR2 | 64.3 | 185 | 11 | 3 | 1 | 130 | 1 | 185 | 2.4e-46 | 194.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene52219.t1 | TF | bHLH |
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.gene52219.t1 | MTR_5g030770 | 64.324 | 185 | 11 | 3 | 1 | 130 | 1 | 185 | 1.02e-60 | 189 |
| MS.gene52219.t1 | MTR_5g030770 | 64.324 | 185 | 11 | 3 | 1 | 130 | 1 | 185 | 1.18e-60 | 189 |
| MS.gene52219.t1 | MTR_7g076840 | 63.473 | 167 | 12 | 5 | 5 | 132 | 2 | 158 | 2.59e-47 | 153 |
| MS.gene52219.t1 | MTR_3g111290 | 53.191 | 94 | 35 | 3 | 46 | 130 | 109 | 202 | 3.96e-15 | 70.9 |
| MS.gene52219.t1 | MTR_3g498695 | 64.000 | 50 | 14 | 1 | 81 | 130 | 282 | 327 | 5.35e-12 | 62.4 |
| MS.gene52219.t1 | MTR_3g498695 | 64.000 | 50 | 14 | 1 | 81 | 130 | 282 | 327 | 5.61e-12 | 62.4 |
| MS.gene52219.t1 | MTR_7g065690 | 53.226 | 62 | 17 | 2 | 63 | 124 | 84 | 133 | 1.00e-11 | 58.9 |
| MS.gene52219.t1 | MTR_7g083900 | 84.375 | 32 | 5 | 0 | 99 | 130 | 284 | 315 | 5.56e-11 | 59.3 |
| MS.gene52219.t1 | MTR_7g083900 | 84.375 | 32 | 5 | 0 | 99 | 130 | 284 | 315 | 5.66e-11 | 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.gene52219.t1 | AT5G65640 | 75.472 | 53 | 11 | 1 | 80 | 130 | 155 | 207 | 6.67e-14 | 67.0 |
| MS.gene52219.t1 | AT5G65640 | 75.472 | 53 | 11 | 1 | 80 | 130 | 155 | 207 | 1.21e-13 | 67.0 |
| MS.gene52219.t1 | AT1G12860 | 78.947 | 38 | 8 | 0 | 99 | 136 | 265 | 302 | 4.33e-12 | 62.4 |
| MS.gene52219.t1 | AT3G26744 | 84.848 | 33 | 5 | 0 | 99 | 131 | 305 | 337 | 1.33e-11 | 61.2 |
| MS.gene52219.t1 | AT3G26744 | 84.375 | 32 | 5 | 0 | 99 | 130 | 305 | 336 | 5.22e-11 | 59.7 |
| MS.gene52219.t1 | AT3G26744 | 84.375 | 32 | 5 | 0 | 99 | 130 | 305 | 336 | 5.22e-11 | 59.7 |
| MS.gene52219.t1 | AT3G26744 | 84.375 | 32 | 5 | 0 | 99 | 130 | 305 | 336 | 5.22e-11 | 59.7 |
| MS.gene52219.t1 | AT3G26744 | 84.375 | 32 | 5 | 0 | 99 | 130 | 305 | 336 | 5.60e-11 | 59.3 |
| MS.gene52219.t1 | AT1G12860 | 84.375 | 32 | 5 | 0 | 99 | 130 | 265 | 296 | 6.03e-11 | 59.3 |
| MS.gene52219.t1 | AT1G12860 | 84.375 | 32 | 5 | 0 | 99 | 130 | 265 | 296 | 6.74e-11 | 59.3 |
| MS.gene52219.t1 | AT5G10570 | 79.070 | 43 | 9 | 0 | 88 | 130 | 138 | 180 | 8.76e-11 | 58.5 |
Find 30 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGCCGTCCTTCAACCCTTT+TGG | 0.271608 | 7.4:+28867648 | None:intergenic |
| AGTATAGAGTTTGGATTTGT+TGG | 0.301074 | 7.4:-28867781 | MS.gene52219:CDS |
| AGTGACACCTTGCTGATCTT+AGG | 0.318974 | 7.4:+28867550 | None:intergenic |
| TGGAAGTGAGAACAAGAGTT+TGG | 0.348911 | 7.4:-28867761 | MS.gene52219:CDS |
| CTTTCTTGCTGTGGTAAAAC+TGG | 0.352353 | 7.4:+28867802 | None:intergenic |
| CAGCAAGAAAGTATAGAGTT+TGG | 0.356994 | 7.4:-28867790 | MS.gene52219:CDS |
| AATGAGTTAATACTCCCTAA+TGG | 0.401034 | 7.4:-28867996 | MS.gene52219:intron |
| ACGGCCTTCAAAGAATCTTA+TGG | 0.423564 | 7.4:-28867632 | MS.gene52219:CDS |
| GAAGAAAGCGTTTGAATGAC+AGG | 0.430541 | 7.4:-28867597 | MS.gene52219:CDS |
| AGTCAAAGGTCCAACCATTA+GGG | 0.456761 | 7.4:+28867982 | None:intergenic |
| TCAGCCATAAGATTCTTTGA+AGG | 0.463412 | 7.4:+28867628 | None:intergenic |
| GTGACACCTTGCTGATCTTA+GGG | 0.466467 | 7.4:+28867551 | None:intergenic |
| AAAATGGAACTTTCTCAACT+TGG | 0.469304 | 7.4:-28868074 | MS.gene52219:CDS |
| TATTAACTCATTCAAACCAT+TGG | 0.473123 | 7.4:+28868007 | None:intergenic |
| AGTTTGGAACAAAGTAAAAT+CGG | 0.479256 | 7.4:-28867745 | MS.gene52219:CDS |
| ATGACAGGCTTTCCATGCTT+AGG | 0.479470 | 7.4:-28867582 | MS.gene52219:CDS |
| GCCAAATCCAAAAGGGTTGA+AGG | 0.489270 | 7.4:-28867655 | MS.gene52219:CDS |
| CACAAACCCATGTTAAAGAC+TGG | 0.505791 | 7.4:+28867691 | None:intergenic |
| CAAAGAATCTTATGGCTGAA+AGG | 0.515993 | 7.4:-28867624 | MS.gene52219:CDS |
| AAAGACACATGTTTATCCAA+TGG | 0.524145 | 7.4:-28868023 | MS.gene52219:CDS |
| GAGACTCCAGTCTTTAACAT+GGG | 0.538936 | 7.4:-28867697 | MS.gene52219:CDS |
| AACTCTATACTTTCTTGCTG+TGG | 0.547442 | 7.4:+28867793 | None:intergenic |
| TTGATGATTCTCAGTTCCTG+AGG | 0.556181 | 7.4:-28867839 | MS.gene52219:intron |
| AAGATCAGCAAGGTGTCACT+AGG | 0.558295 | 7.4:-28867547 | MS.gene52219:CDS |
| GGTGCTGAATCATCAACCTC+AGG | 0.571254 | 7.4:+28867823 | None:intergenic |
| TAAAATCGGCTGCAAAGTTG+AGG | 0.590576 | 7.4:-28867731 | MS.gene52219:CDS |
| TGAGACTCCAGTCTTTAACA+TGG | 0.608396 | 7.4:-28867698 | MS.gene52219:CDS |
| AATCCAAAAGGGTTGAAGGA+CGG | 0.613450 | 7.4:-28867651 | MS.gene52219:CDS |
| AGGGACAATTGACCTAAGCA+TGG | 0.627542 | 7.4:+28867570 | None:intergenic |
| AATTGTCCCTAAGATCAGCA+AGG | 0.709185 | 7.4:-28867557 | MS.gene52219:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAAACTATATATATTTTATT+TGG | + | chr7.4:28868073-28868092 | None:intergenic | 10.0% |
| !!! | TATATATTTTATTTGGCAAT+TGG | + | chr7.4:28868066-28868085 | None:intergenic | 15.0% |
| ! | TATTAACTCATTCAAACCAT+TGG | + | chr7.4:28867583-28867602 | None:intergenic | 25.0% |
| !! | AGTTTGGAACAAAGTAAAAT+CGG | - | chr7.4:28867842-28867861 | MS.gene52219:intron | 25.0% |
| !! | ATTTTCATCAAATGAGTCAA+AGG | + | chr7.4:28867622-28867641 | None:intergenic | 25.0% |
| AAAGACACATGTTTATCCAA+TGG | - | chr7.4:28867564-28867583 | MS.gene52219:CDS | 30.0% | |
| AACTGAGAATCATCAAGATA+AGG | + | chr7.4:28867744-28867763 | None:intergenic | 30.0% | |
| AATGAGTTAATACTCCCTAA+TGG | - | chr7.4:28867591-28867610 | MS.gene52219:CDS | 30.0% | |
| ACTGAGAATCATCAAGATAA+GGG | + | chr7.4:28867743-28867762 | None:intergenic | 30.0% | |
| AGAAAAAAGCCAAATCCAAA+AGG | - | chr7.4:28867924-28867943 | MS.gene52219:intron | 30.0% | |
| AGTATAGAGTTTGGATTTGT+TGG | - | chr7.4:28867806-28867825 | MS.gene52219:CDS | 30.0% | |
| CATAAGGACATTCAAATCTA+TGG | + | chr7.4:28867701-28867720 | None:intergenic | 30.0% | |
| CATAGATTTGAATGTCCTTA+TGG | - | chr7.4:28867699-28867718 | MS.gene52219:CDS | 30.0% | |
| CATTCAAATCTATGGTCTAA+TGG | + | chr7.4:28867693-28867712 | None:intergenic | 30.0% | |
| GAAAAAAGCCAAATCCAAAA+GGG | - | chr7.4:28867925-28867944 | MS.gene52219:intron | 30.0% | |
| TTGAGAATGAAGCAAATGAA+GGG | + | chr7.4:28867668-28867687 | None:intergenic | 30.0% | |
| ! | GATAAACATGTGTCTTTTCT+TGG | + | chr7.4:28867561-28867580 | None:intergenic | 30.0% |
| AACTCTATACTTTCTTGCTG+TGG | + | chr7.4:28867797-28867816 | None:intergenic | 35.0% | |
| AGTTAATACTCCCTAATGGT+TGG | - | chr7.4:28867595-28867614 | MS.gene52219:CDS | 35.0% | |
| CAAAGAATCTTATGGCTGAA+AGG | - | chr7.4:28867963-28867982 | MS.gene52219:intron | 35.0% | |
| GTTGAGAATGAAGCAAATGA+AGG | + | chr7.4:28867669-28867688 | None:intergenic | 35.0% | |
| TCAGCCATAAGATTCTTTGA+AGG | + | chr7.4:28867962-28867981 | None:intergenic | 35.0% | |
| ! | CAGCAAGAAAGTATAGAGTT+TGG | - | chr7.4:28867797-28867816 | MS.gene52219:CDS | 35.0% |
| !! | TTCTCAACTTGGTTTTCTTG+AGG | - | chr7.4:28867524-28867543 | MS.gene52219:CDS | 35.0% |
| AATCCAAAAGGGTTGAAGGA+CGG | - | chr7.4:28867936-28867955 | MS.gene52219:intron | 40.0% | |
| AATTGTCCCTAAGATCAGCA+AGG | - | chr7.4:28868030-28868049 | MS.gene52219:CDS | 40.0% | |
| ACGGCCTTCAAAGAATCTTA+TGG | - | chr7.4:28867955-28867974 | MS.gene52219:intron | 40.0% | |
| AGTCAAAGGTCCAACCATTA+GGG | + | chr7.4:28867608-28867627 | None:intergenic | 40.0% | |
| CACAAACCCATGTTAAAGAC+TGG | + | chr7.4:28867899-28867918 | None:intergenic | 40.0% | |
| GAGACTCCAGTCTTTAACAT+GGG | - | chr7.4:28867890-28867909 | MS.gene52219:intron | 40.0% | |
| GATGATGCATCAGTTCCATA+AGG | + | chr7.4:28867717-28867736 | None:intergenic | 40.0% | |
| GCAAATGAAGGGCTTAAAGA+TGG | + | chr7.4:28867657-28867676 | None:intergenic | 40.0% | |
| TAAAATCGGCTGCAAAGTTG+AGG | - | chr7.4:28867856-28867875 | MS.gene52219:intron | 40.0% | |
| TGAGACTCCAGTCTTTAACA+TGG | - | chr7.4:28867889-28867908 | MS.gene52219:intron | 40.0% | |
| TGGAAGTGAGAACAAGAGTT+TGG | - | chr7.4:28867826-28867845 | MS.gene52219:CDS | 40.0% | |
| ! | CTTTCTTGCTGTGGTAAAAC+TGG | + | chr7.4:28867788-28867807 | None:intergenic | 40.0% |
| ! | TCCTTCAACCCTTTTGGATT+TGG | + | chr7.4:28867936-28867955 | None:intergenic | 40.0% |
| ! | TTGATGATTCTCAGTTCCTG+AGG | - | chr7.4:28867748-28867767 | MS.gene52219:CDS | 40.0% |
| !! | GAAGAAAGCGTTTGAATGAC+AGG | - | chr7.4:28867990-28868009 | MS.gene52219:intron | 40.0% |
| AGGGACAATTGACCTAAGCA+TGG | + | chr7.4:28868020-28868039 | None:intergenic | 45.0% | |
| AGTGACACCTTGCTGATCTT+AGG | + | chr7.4:28868040-28868059 | None:intergenic | 45.0% | |
| ATGACAGGCTTTCCATGCTT+AGG | - | chr7.4:28868005-28868024 | MS.gene52219:CDS | 45.0% | |
| GAGTCAAAGGTCCAACCATT+AGG | + | chr7.4:28867609-28867628 | None:intergenic | 45.0% | |
| GCCAAATCCAAAAGGGTTGA+AGG | - | chr7.4:28867932-28867951 | MS.gene52219:intron | 45.0% | |
| GTGACACCTTGCTGATCTTA+GGG | + | chr7.4:28868039-28868058 | None:intergenic | 45.0% | |
| !! | AAGATCAGCAAGGTGTCACT+AGG | - | chr7.4:28868040-28868059 | MS.gene52219:CDS | 45.0% |
| ! | GGTGCTGAATCATCAACCTC+AGG | + | chr7.4:28867767-28867786 | None:intergenic | 50.0% |
| ! | AGGCCGTCCTTCAACCCTTT+TGG | + | chr7.4:28867942-28867961 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 28867516 | 28868093 | 28867516 | ID=MS.gene52219 |
| chr7.4 | mRNA | 28867516 | 28868093 | 28867516 | ID=MS.gene52219.t1;Parent=MS.gene52219 |
| chr7.4 | exon | 28867997 | 28868093 | 28867997 | ID=MS.gene52219.t1.exon1;Parent=MS.gene52219.t1 |
| chr7.4 | CDS | 28867997 | 28868093 | 28867997 | ID=cds.MS.gene52219.t1;Parent=MS.gene52219.t1 |
| chr7.4 | exon | 28867516 | 28867847 | 28867516 | ID=MS.gene52219.t1.exon2;Parent=MS.gene52219.t1 |
| chr7.4 | CDS | 28867516 | 28867847 | 28867516 | ID=cds.MS.gene52219.t1;Parent=MS.gene52219.t1 |
| Gene Sequence |
| Protein sequence |
