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.gene040116.t1 | XP_003631116.2 | 84.5 | 129 | 8 | 2 | 1 | 128 | 1 | 118 | 2.60E-50 | 208 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene040116.t1 | Q8LBM2 | 41.2 | 131 | 68 | 5 | 1 | 127 | 3 | 128 | 4.0e-15 | 82.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene040116.t1 | G7LE60 | 84.5 | 129 | 8 | 2 | 1 | 128 | 1 | 118 | 1.9e-50 | 208.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene040116.t1 | TF | Tify |
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.gene040116.t1 | MTR_8g107300 | 84.496 | 129 | 8 | 2 | 1 | 128 | 1 | 118 | 1.19e-73 | 215 |
| MS.gene040116.t1 | MTR_2g019190 | 74.627 | 134 | 28 | 2 | 1 | 128 | 1 | 134 | 1.22e-66 | 197 |
| MS.gene040116.t1 | MTR_8g107300 | 80.851 | 94 | 7 | 1 | 35 | 128 | 1 | 83 | 2.09e-47 | 147 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene040116.t1 | AT1G30135 | 40.441 | 136 | 62 | 6 | 1 | 127 | 3 | 128 | 2.98e-22 | 85.5 |
| MS.gene040116.t1 | AT2G34600 | 39.535 | 129 | 73 | 5 | 1 | 127 | 20 | 145 | 8.50e-17 | 72.0 |
Find 26 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TACTGATGTCACAGAGTTTC+AGG | 0.175518 | 4.4:+291858 | MS.gene040116:CDS |
| TGCCAGCATTAAGATGGATT+TGG | 0.344981 | 4.4:-291993 | None:intergenic |
| GGAAAGCCCAATGCAAAATC+AGG | 0.374177 | 4.4:+291795 | MS.gene040116:CDS |
| CAGAATCATAGAGAGGAAAA+AGG | 0.376693 | 4.4:-291610 | None:intergenic |
| CATCTTCCCATCATAGAATA+TGG | 0.389620 | 4.4:-291830 | None:intergenic |
| CCTCATCAATTGTATAGCCC+TGG | 0.405940 | 4.4:+292091 | MS.gene040116:CDS |
| TTTATTTGCCAGCATTAAGA+TGG | 0.422633 | 4.4:-291999 | None:intergenic |
| TTCTCTTATCTTACATGTGG+TGG | 0.433401 | 4.4:-291652 | None:intergenic |
| TGAGGAGGCTGCACTATTGT+TGG | 0.468113 | 4.4:-292073 | None:intergenic |
| CTCATCAATTGTATAGCCCT+GGG | 0.470700 | 4.4:+292092 | MS.gene040116:CDS |
| CCACTGACCATATTCTATGA+TGG | 0.477895 | 4.4:+291823 | MS.gene040116:CDS |
| TCTACGGAAGAGAAAGAATA+GGG | 0.480305 | 4.4:+292150 | MS.gene040116:CDS |
| CAATTGTATAGCCCTGGGTC+TGG | 0.482257 | 4.4:+292097 | MS.gene040116:CDS |
| GATCTTTGCAACGGTTTCTA+CGG | 0.498780 | 4.4:+292134 | MS.gene040116:CDS |
| TTCTACGGAAGAGAAAGAAT+AGG | 0.504999 | 4.4:+292149 | MS.gene040116:CDS |
| GGCCAAATCCATCTTAATGC+TGG | 0.519970 | 4.4:+291991 | MS.gene040116:intron |
| GCAAAGATCTCTTCATTGAA+AGG | 0.520559 | 4.4:-292120 | None:intergenic |
| GCTGTTCGCTCTGATCCTCT+TGG | 0.521479 | 4.4:-292049 | None:intergenic |
| TTCATTGAAAGGCCAGACCC+AGG | 0.532257 | 4.4:-292109 | None:intergenic |
| CACTGACCATATTCTATGAT+GGG | 0.541169 | 4.4:+291824 | MS.gene040116:CDS |
| CAATGAAGAGATCTTTGCAA+CGG | 0.550495 | 4.4:+292125 | MS.gene040116:CDS |
| GGGCTATACAATTGATGAGG+AGG | 0.602793 | 4.4:-292088 | None:intergenic |
| TCATTGAAAGGCCAGACCCA+GGG | 0.615225 | 4.4:-292108 | None:intergenic |
| CCATCATAGAATATGGTCAG+TGG | 0.647153 | 4.4:-291823 | None:intergenic |
| CCAGGGCTATACAATTGATG+AGG | 0.668057 | 4.4:-292091 | None:intergenic |
| TGATTGCCAGAATCATAGAG+AGG | 0.688733 | 4.4:-291617 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCTTCAAAAAAATAAATAAA+TGG | + | chr4.4:291948-291967 | MS.gene040116:intron | 10.0% |
| !! | AGTATAACAAATTGAAAAAA+TGG | - | chr4.4:291700-291719 | None:intergenic | 15.0% |
| !!! | ATGGTTTTCTTTTTATATTT+GGG | + | chr4.4:291720-291739 | MS.gene040116:intron | 15.0% |
| !!! | TATGGTTTTCTTTTTATATT+TGG | + | chr4.4:291719-291738 | MS.gene040116:intron | 15.0% |
| !!! | TCATTTTTTCATTTAGTTAT+TGG | - | chr4.4:291918-291937 | None:intergenic | 15.0% |
| !!! | TTTTTCAATTTGTTATACTA+TGG | + | chr4.4:291701-291720 | MS.gene040116:intron | 15.0% |
| !! | ACAAATTGAAAAAATGGAAA+TGG | - | chr4.4:291694-291713 | None:intergenic | 20.0% |
| ! | TAATTTCTATCTCCATTGAA+GGG | + | chr4.4:291762-291781 | MS.gene040116:intron | 25.0% |
| ! | TTAATTTCTATCTCCATTGA+AGG | + | chr4.4:291761-291780 | MS.gene040116:intron | 25.0% |
| AATTTCTATCTCCATTGAAG+GGG | + | chr4.4:291763-291782 | MS.gene040116:intron | 30.0% | |
| TTTATTTGCCAGCATTAAGA+TGG | - | chr4.4:292002-292021 | None:intergenic | 30.0% | |
| ATTTCTATCTCCATTGAAGG+GGG | + | chr4.4:291764-291783 | MS.gene040116:intron | 35.0% | |
| CAATGAAGAGATCTTTGCAA+CGG | + | chr4.4:292125-292144 | MS.gene040116:CDS | 35.0% | |
| CACTGACCATATTCTATGAT+GGG | + | chr4.4:291824-291843 | MS.gene040116:CDS | 35.0% | |
| CAGAATCATAGAGAGGAAAA+AGG | - | chr4.4:291613-291632 | None:intergenic | 35.0% | |
| CATCTTCCCATCATAGAATA+TGG | - | chr4.4:291833-291852 | None:intergenic | 35.0% | |
| GATTAATGTGAATGTTGTGC+AGG | + | chr4.4:291970-291989 | MS.gene040116:intron | 35.0% | |
| GCAAAGATCTCTTCATTGAA+AGG | - | chr4.4:292123-292142 | None:intergenic | 35.0% | |
| GCATTCTCTTATCTTACATG+TGG | - | chr4.4:291658-291677 | None:intergenic | 35.0% | |
| TCTACGGAAGAGAAAGAATA+GGG | + | chr4.4:292150-292169 | MS.gene040116:CDS | 35.0% | |
| TTCTACGGAAGAGAAAGAAT+AGG | + | chr4.4:292149-292168 | MS.gene040116:CDS | 35.0% | |
| TTCTCTTATCTTACATGTGG+TGG | - | chr4.4:291655-291674 | None:intergenic | 35.0% | |
| ! | CTTTTTCCTCTCTATGATTC+TGG | + | chr4.4:291611-291630 | MS.gene040116:CDS | 35.0% |
| CCACTGACCATATTCTATGA+TGG | + | chr4.4:291823-291842 | MS.gene040116:CDS | 40.0% | |
| CCATCATAGAATATGGTCAG+TGG | - | chr4.4:291826-291845 | None:intergenic | 40.0% | |
| CTCATCAATTGTATAGCCCT+GGG | + | chr4.4:292092-292111 | MS.gene040116:CDS | 40.0% | |
| GAAAAAGTGAAGACACCAAG+AGG | + | chr4.4:292034-292053 | MS.gene040116:CDS | 40.0% | |
| GATCTTTGCAACGGTTTCTA+CGG | + | chr4.4:292134-292153 | MS.gene040116:CDS | 40.0% | |
| TACTGATGTCACAGAGTTTC+AGG | + | chr4.4:291858-291877 | MS.gene040116:CDS | 40.0% | |
| TGATTGCCAGAATCATAGAG+AGG | - | chr4.4:291620-291639 | None:intergenic | 40.0% | |
| TTTCTATCTCCATTGAAGGG+GGG | + | chr4.4:291765-291784 | MS.gene040116:intron | 40.0% | |
| ! | GCTGTTCCTGATTTTGCATT+GGG | - | chr4.4:291804-291823 | None:intergenic | 40.0% |
| ! | TGCCAGCATTAAGATGGATT+TGG | - | chr4.4:291996-292015 | None:intergenic | 40.0% |
| CCAGGGCTATACAATTGATG+AGG | - | chr4.4:292094-292113 | None:intergenic | 45.0% | |
| CCTCATCAATTGTATAGCCC+TGG | + | chr4.4:292091-292110 | MS.gene040116:CDS | 45.0% | |
| GGAAAGCCCAATGCAAAATC+AGG | + | chr4.4:291795-291814 | MS.gene040116:CDS | 45.0% | |
| GGCCAAATCCATCTTAATGC+TGG | + | chr4.4:291991-292010 | MS.gene040116:intron | 45.0% | |
| GGGCTATACAATTGATGAGG+AGG | - | chr4.4:292091-292110 | None:intergenic | 45.0% | |
| TTGGCCTAGTCAAGATCAGA+GGG | - | chr4.4:291899-291918 | None:intergenic | 45.0% | |
| ! | ATTGGCCTAGTCAAGATCAG+AGG | - | chr4.4:291900-291919 | None:intergenic | 45.0% |
| ! | GGCTGTTCCTGATTTTGCAT+TGG | - | chr4.4:291805-291824 | None:intergenic | 45.0% |
| CAATTGTATAGCCCTGGGTC+TGG | + | chr4.4:292097-292116 | MS.gene040116:CDS | 50.0% | |
| TCAAGATCAGAGGGCGGTAA+TGG | - | chr4.4:291890-291909 | None:intergenic | 50.0% | |
| TCATTGAAAGGCCAGACCCA+GGG | - | chr4.4:292111-292130 | None:intergenic | 50.0% | |
| TGAGGAGGCTGCACTATTGT+TGG | - | chr4.4:292076-292095 | None:intergenic | 50.0% | |
| TTCATTGAAAGGCCAGACCC+AGG | - | chr4.4:292112-292131 | None:intergenic | 50.0% | |
| ACCGCCCTCTGATCTTGACT+AGG | + | chr4.4:291892-291911 | MS.gene040116:intron | 55.0% | |
| CCATTGAAGGGGGGTAGAAG+AGG | + | chr4.4:291774-291793 | MS.gene040116:intron | 55.0% | |
| CCTCTTCTACCCCCCTTCAA+TGG | - | chr4.4:291777-291796 | None:intergenic | 55.0% | |
| GCCTAGTCAAGATCAGAGGG+CGG | - | chr4.4:291896-291915 | None:intergenic | 55.0% | |
| GCTGTTCGCTCTGATCCTCT+TGG | - | chr4.4:292052-292071 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 291581 | 292201 | 291581 | ID=MS.gene040116 |
| chr4.4 | mRNA | 291581 | 292201 | 291581 | ID=MS.gene040116.t1;Parent=MS.gene040116 |
| chr4.4 | exon | 291581 | 291660 | 291581 | ID=MS.gene040116.t1.exon1;Parent=MS.gene040116.t1 |
| chr4.4 | CDS | 291581 | 291660 | 291581 | ID=cds.MS.gene040116.t1;Parent=MS.gene040116.t1 |
| chr4.4 | exon | 291783 | 291879 | 291783 | ID=MS.gene040116.t1.exon2;Parent=MS.gene040116.t1 |
| chr4.4 | CDS | 291783 | 291879 | 291783 | ID=cds.MS.gene040116.t1;Parent=MS.gene040116.t1 |
| chr4.4 | exon | 291992 | 292201 | 291992 | ID=MS.gene040116.t1.exon3;Parent=MS.gene040116.t1 |
| chr4.4 | CDS | 291992 | 292201 | 291992 | ID=cds.MS.gene040116.t1;Parent=MS.gene040116.t1 |
| Gene Sequence |
| Protein sequence |
