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.gene53374.t1 | RHN51852.1 | 48.9 | 92 | 47 | 0 | 10 | 101 | 225 | 316 | 5.20E-19 | 104 |
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.gene53374.t1 | A0A396HET7 | 48.9 | 92 | 47 | 0 | 10 | 101 | 225 | 316 | 3.7e-19 | 104.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049580 | MS.gene53374 | 0.815176 | 1.06E-51 | -1.69E-46 |
| MS.gene051902 | MS.gene53374 | 0.806449 | 8.18E-50 | -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.gene53374.t1 | MTR_0091s0080 | 47.826 | 92 | 48 | 0 | 10 | 101 | 256 | 347 | 4.54e-27 | 104 |
| MS.gene53374.t1 | MTR_1g052720 | 34.454 | 119 | 76 | 1 | 2 | 120 | 46 | 162 | 4.77e-22 | 88.6 |
| MS.gene53374.t1 | MTR_6g465600 | 34.000 | 100 | 66 | 0 | 2 | 101 | 49 | 148 | 3.71e-18 | 78.2 |
| MS.gene53374.t1 | MTR_0246s0040 | 38.043 | 92 | 57 | 0 | 10 | 101 | 83 | 174 | 1.25e-16 | 74.3 |
| MS.gene53374.t1 | MTR_8g064930 | 55.102 | 49 | 22 | 0 | 4 | 52 | 2 | 50 | 2.87e-15 | 65.5 |
| MS.gene53374.t1 | MTR_1g105780 | 27.350 | 117 | 77 | 1 | 1 | 109 | 43 | 159 | 8.39e-14 | 66.2 |
| MS.gene53374.t1 | MTR_7g110090 | 29.703 | 101 | 71 | 0 | 1 | 101 | 42 | 142 | 1.50e-13 | 65.5 |
| MS.gene53374.t1 | MTR_0091s0090 | 45.902 | 61 | 33 | 0 | 41 | 101 | 4 | 64 | 1.90e-13 | 65.1 |
| MS.gene53374.t1 | MTR_3g085990 | 30.693 | 101 | 70 | 0 | 1 | 101 | 43 | 143 | 2.16e-13 | 64.7 |
| MS.gene53374.t1 | MTR_1g105765 | 26.496 | 117 | 78 | 1 | 1 | 109 | 43 | 159 | 2.98e-13 | 64.7 |
| MS.gene53374.t1 | MTR_3g070250 | 30.693 | 101 | 70 | 0 | 1 | 101 | 47 | 147 | 5.78e-13 | 63.9 |
| MS.gene53374.t1 | MTR_3g048970 | 30.693 | 101 | 70 | 0 | 1 | 101 | 42 | 142 | 9.72e-13 | 63.2 |
| MS.gene53374.t1 | MTR_1g084880 | 29.703 | 101 | 71 | 0 | 1 | 101 | 42 | 142 | 9.61e-12 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 28 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTGAATGACATTGATATTC+TGG | 0.189504 | 4.3:-12461634 | None:intergenic |
| CCAACGTTCATTGATTATAA+TGG | 0.304555 | 4.3:+12461839 | MS.gene53374:CDS |
| CCAGAATATCAATGTCATTC+AGG | 0.310628 | 4.3:+12461634 | MS.gene53374:CDS |
| TCAATGAACGTTGGTGTAGC+TGG | 0.388479 | 4.3:-12461830 | None:intergenic |
| GTATCTGAATCTACTCCTTA+TGG | 0.395535 | 4.3:+12461757 | MS.gene53374:CDS |
| TCCTGTTTGTTATAGCCATA+AGG | 0.397282 | 4.3:-12461772 | None:intergenic |
| ACAAAATAGAGCTGGGTGCC+TGG | 0.399485 | 4.3:+12461717 | MS.gene53374:CDS |
| ATGACATTGATATTCTGGTT+TGG | 0.423705 | 4.3:-12461629 | None:intergenic |
| TGGCTATAACAAACAGGAAA+GGG | 0.435466 | 4.3:+12461777 | MS.gene53374:CDS |
| CGCATATGTCAGGCAAATCC+AGG | 0.467174 | 4.3:-12461735 | None:intergenic |
| TTCACAGAACAAGGCTAGAA+TGG | 0.468394 | 4.3:+12461547 | MS.gene53374:intron |
| TCCTTATGGCTATAACAAAC+AGG | 0.471089 | 4.3:+12461771 | MS.gene53374:CDS |
| GTGTCAGCATGCATTTCCCT+TGG | 0.489277 | 4.3:+12461878 | MS.gene53374:CDS |
| AGAGTTCTACAAAATAGAGC+TGG | 0.500119 | 4.3:+12461709 | MS.gene53374:CDS |
| GATTCAGATACGCATATGTC+AGG | 0.506496 | 4.3:-12461745 | None:intergenic |
| ACATTCTTTGACAAAACAGT+TGG | 0.514565 | 4.3:-12461570 | None:intergenic |
| TGGAATGGAATTTGTTGGGT+AGG | 0.516364 | 4.3:-12461810 | None:intergenic |
| TAGCTGGAATGGAATTTGTT+GGG | 0.523834 | 4.3:-12461814 | None:intergenic |
| GTAGCTGGAATGGAATTTGT+TGG | 0.537737 | 4.3:-12461815 | None:intergenic |
| GAACGTTGGTGTAGCTGGAA+TGG | 0.542196 | 4.3:-12461825 | None:intergenic |
| AGTTAGCATACTATCTTCCA+AGG | 0.544019 | 4.3:-12461895 | None:intergenic |
| ATGGCTATAACAAACAGGAA+AGG | 0.562348 | 4.3:+12461776 | MS.gene53374:CDS |
| TTATAATGGTGAAACTAGCT+TGG | 0.578050 | 4.3:+12461853 | MS.gene53374:CDS |
| CCATTATAATCAATGAACGT+TGG | 0.604275 | 4.3:-12461839 | None:intergenic |
| GAGTTCTACAAAATAGAGCT+GGG | 0.606882 | 4.3:+12461710 | MS.gene53374:CDS |
| GGCTATAACAAACAGGAAAG+GGG | 0.627042 | 4.3:+12461778 | MS.gene53374:CDS |
| TAATGGTGAAACTAGCTTGG+TGG | 0.627473 | 4.3:+12461856 | MS.gene53374:CDS |
| GTTAGCATACTATCTTCCAA+GGG | 0.673648 | 4.3:-12461894 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTATTTGTTATTACTATAT+AGG | + | chr4.3:12461495-12461514 | MS.gene53374:intron | 10.0% |
| !!! | AAATTACATTGATTACTTGA+TGG | - | chr4.3:12461400-12461419 | None:intergenic | 20.0% |
| !!! | AATTACATTGATTACTTGAT+GGG | - | chr4.3:12461399-12461418 | None:intergenic | 20.0% |
| !!! | TGTAATTTGCTTATATGTTT+TGG | + | chr4.3:12461412-12461431 | MS.gene53374:intron | 20.0% |
| ! | AGATACACATGAAAAAATGA+GGG | - | chr4.3:12461450-12461469 | None:intergenic | 25.0% |
| ! | TAGATACACATGAAAAAATG+AGG | - | chr4.3:12461451-12461470 | None:intergenic | 25.0% |
| ! | TCATGTGTATCTATTTAACT+TGG | + | chr4.3:12461458-12461477 | MS.gene53374:intron | 25.0% |
| !! | GAAGTCTTCTAAATTAGTTT+AGG | + | chr4.3:12461265-12461284 | MS.gene53374:intron | 25.0% |
| !!! | GTATCTATTTAACTTGGTTT+TGG | + | chr4.3:12461464-12461483 | MS.gene53374:intron | 25.0% |
| ACATTCTTTGACAAAACAGT+TGG | - | chr4.3:12461573-12461592 | None:intergenic | 30.0% | |
| ACCTTAATATAAACCAAGAG+TGG | - | chr4.3:12461364-12461383 | None:intergenic | 30.0% | |
| CCATTATAATCAATGAACGT+TGG | - | chr4.3:12461842-12461861 | None:intergenic | 30.0% | |
| GTATATCATTTCACAGAACA+AGG | + | chr4.3:12461538-12461557 | MS.gene53374:intron | 30.0% | |
| GTGATGAATTATCTTTCAGT+TGG | + | chr4.3:12461304-12461323 | MS.gene53374:intron | 30.0% | |
| TATAAACCAAGAGTGGAATT+TGG | - | chr4.3:12461357-12461376 | None:intergenic | 30.0% | |
| TCCACTCTTGGTTTATATTA+AGG | + | chr4.3:12461360-12461379 | MS.gene53374:intron | 30.0% | |
| TTATAATGGTGAAACTAGCT+TGG | + | chr4.3:12461853-12461872 | MS.gene53374:CDS | 30.0% | |
| ! | AAAACGAGAAGGTCTATTTT+CGG | + | chr4.3:12461666-12461685 | MS.gene53374:CDS | 30.0% |
| ! | AACTGTTTTGTCAAAGAATG+TGG | + | chr4.3:12461572-12461591 | MS.gene53374:CDS | 30.0% |
| ! | ATGACATTGATATTCTGGTT+TGG | - | chr4.3:12461632-12461651 | None:intergenic | 30.0% |
| ! | CCAACGTTCATTGATTATAA+TGG | + | chr4.3:12461839-12461858 | MS.gene53374:CDS | 30.0% |
| AGAGTTCTACAAAATAGAGC+TGG | + | chr4.3:12461709-12461728 | MS.gene53374:CDS | 35.0% | |
| ATGGCTATAACAAACAGGAA+AGG | + | chr4.3:12461776-12461795 | MS.gene53374:CDS | 35.0% | |
| CCAGAATATCAATGTCATTC+AGG | + | chr4.3:12461634-12461653 | MS.gene53374:CDS | 35.0% | |
| CCTGAATGACATTGATATTC+TGG | - | chr4.3:12461637-12461656 | None:intergenic | 35.0% | |
| GAGTTCTACAAAATAGAGCT+GGG | + | chr4.3:12461710-12461729 | MS.gene53374:CDS | 35.0% | |
| GTATCTGAATCTACTCCTTA+TGG | + | chr4.3:12461757-12461776 | MS.gene53374:CDS | 35.0% | |
| TCCTTATGGCTATAACAAAC+AGG | + | chr4.3:12461771-12461790 | MS.gene53374:CDS | 35.0% | |
| TGGCTATAACAAACAGGAAA+GGG | + | chr4.3:12461777-12461796 | MS.gene53374:CDS | 35.0% | |
| ! | TAGCTGGAATGGAATTTGTT+GGG | - | chr4.3:12461817-12461836 | None:intergenic | 35.0% |
| !! | GGTTGATAAGAAAAACGAGA+AGG | + | chr4.3:12461655-12461674 | MS.gene53374:CDS | 35.0% |
| !! | TCCTGTTTGTTATAGCCATA+AGG | - | chr4.3:12461775-12461794 | None:intergenic | 35.0% |
| !!! | ATAGGCTAGCTTTTTTGACA+TGG | + | chr4.3:12461513-12461532 | MS.gene53374:intron | 35.0% |
| ACATGAAAAAATGAGGGTCG+AGG | - | chr4.3:12461444-12461463 | None:intergenic | 40.0% | |
| CATGAAAAAATGAGGGTCGA+GGG | - | chr4.3:12461443-12461462 | None:intergenic | 40.0% | |
| GACTATCCAAATTCCACTCT+TGG | + | chr4.3:12461348-12461367 | MS.gene53374:intron | 40.0% | |
| GATTCAGATACGCATATGTC+AGG | - | chr4.3:12461748-12461767 | None:intergenic | 40.0% | |
| GGCTATAACAAACAGGAAAG+GGG | + | chr4.3:12461778-12461797 | MS.gene53374:CDS | 40.0% | |
| GTAGCTGGAATGGAATTTGT+TGG | - | chr4.3:12461818-12461837 | None:intergenic | 40.0% | |
| TTCACAGAACAAGGCTAGAA+TGG | + | chr4.3:12461547-12461566 | MS.gene53374:intron | 40.0% | |
| ! | TAATGGTGAAACTAGCTTGG+TGG | + | chr4.3:12461856-12461875 | MS.gene53374:CDS | 40.0% |
| !! | TGGAATGGAATTTGTTGGGT+AGG | - | chr4.3:12461813-12461832 | None:intergenic | 40.0% |
| TCAATGAACGTTGGTGTAGC+TGG | - | chr4.3:12461833-12461852 | None:intergenic | 45.0% | |
| ! | GAGAAGGTCTATTTTCGGCA+GGG | + | chr4.3:12461671-12461690 | MS.gene53374:CDS | 45.0% |
| ACAAAATAGAGCTGGGTGCC+TGG | + | chr4.3:12461717-12461736 | MS.gene53374:CDS | 50.0% | |
| CGCATATGTCAGGCAAATCC+AGG | - | chr4.3:12461738-12461757 | None:intergenic | 50.0% | |
| GAACGTTGGTGTAGCTGGAA+TGG | - | chr4.3:12461828-12461847 | None:intergenic | 50.0% | |
| GTGTCAGCATGCATTTCCCT+TGG | + | chr4.3:12461878-12461897 | MS.gene53374:CDS | 50.0% | |
| ! | AGGTCTATTTTCGGCAGGGT+TGG | + | chr4.3:12461675-12461694 | MS.gene53374:CDS | 50.0% |
| ! | CGAGAAGGTCTATTTTCGGC+AGG | + | chr4.3:12461670-12461689 | MS.gene53374:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 12461183 | 12461907 | 12461183 | ID=MS.gene53374 |
| chr4.3 | mRNA | 12461183 | 12461907 | 12461183 | ID=MS.gene53374.t1;Parent=MS.gene53374 |
| chr4.3 | exon | 12461183 | 12461206 | 12461183 | ID=MS.gene53374.t1.exon1;Parent=MS.gene53374.t1 |
| chr4.3 | CDS | 12461183 | 12461206 | 12461183 | ID=cds.MS.gene53374.t1;Parent=MS.gene53374.t1 |
| chr4.3 | exon | 12461554 | 12461907 | 12461554 | ID=MS.gene53374.t1.exon2;Parent=MS.gene53374.t1 |
| chr4.3 | CDS | 12461554 | 12461907 | 12461554 | ID=cds.MS.gene53374.t1;Parent=MS.gene53374.t1 |
| Gene Sequence |
| Protein sequence |
