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.gene09548.t1 | XP_003611661.1 | 86.3 | 182 | 19 | 3 | 1 | 181 | 1 | 177 | 4.60E-77 | 297.4 |
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.gene09548.t1 | G7K582 | 86.3 | 182 | 19 | 3 | 1 | 181 | 1 | 177 | 3.3e-77 | 297.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene055206 | MS.gene09548 | -0.806265 | 8.95E-50 | -1.69E-46 |
| MS.gene057926 | MS.gene09548 | -0.817077 | 3.98E-52 | -1.69E-46 |
| MS.gene05934 | MS.gene09548 | -0.803745 | 3.01E-49 | -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.gene09548.t1 | MTR_5g016450 | 86.264 | 182 | 19 | 3 | 1 | 181 | 1 | 177 | 2.84e-109 | 309 |
| MS.gene09548.t1 | MTR_5g016450 | 85.792 | 183 | 19 | 4 | 1 | 181 | 1 | 178 | 1.35e-107 | 305 |
| MS.gene09548.t1 | MTR_5g016450 | 85.207 | 169 | 19 | 3 | 1 | 168 | 1 | 164 | 1.82e-99 | 284 |
| MS.gene09548.t1 | MTR_3g462220 | 40.805 | 174 | 88 | 7 | 9 | 180 | 6 | 166 | 3.86e-28 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene09548.t1 | AT4G37300 | 46.961 | 181 | 84 | 4 | 5 | 181 | 1 | 173 | 3.99e-45 | 147 |
Find 36 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCGCTTCTGTTGGGTTTGA+TGG | 0.233826 | 5.2:+8065028 | None:intergenic |
| TTTGATTTGGTTAGTGATCT+TGG | 0.257781 | 5.2:+8065082 | None:intergenic |
| CATCGAATTGAGCTTTGATT+TGG | 0.326561 | 5.2:+8065069 | None:intergenic |
| CCAACATCAACATGGCTTGC+AGG | 0.374328 | 5.2:+8064656 | None:intergenic |
| GTTGGTGAAAACAAATTTAG+AGG | 0.379408 | 5.2:-8064638 | MS.gene09548:CDS |
| TGTTTCAGGTTCGCTTCTGT+TGG | 0.393664 | 5.2:+8065019 | None:intergenic |
| GCAACCCTGCCACAAATGAT+TGG | 0.403822 | 5.2:-8064607 | MS.gene09548:CDS |
| TCAACACAACATACCAGAAC+TGG | 0.405279 | 5.2:-8064967 | MS.gene09548:CDS |
| AGTGATCTTGGTTTGTTCCT+CGG | 0.406528 | 5.2:+8065094 | None:intergenic |
| TTGGGTTTGATGGGTCGTTT+TGG | 0.407967 | 5.2:+8065038 | None:intergenic |
| TAGGTGCTCTCGCTCCTATT+CGG | 0.413466 | 5.2:+8064370 | None:intergenic |
| TACATCTACTAATCCCTTTG+AGG | 0.431901 | 5.2:+8064902 | None:intergenic |
| TAACCTTGATCATGAACATC+TGG | 0.442683 | 5.2:-8064579 | MS.gene09548:intron |
| TCGCTTCTGTTGGGTTTGAT+GGG | 0.451444 | 5.2:+8065029 | None:intergenic |
| TATCAATTGAAAACAACTCT+TGG | 0.451803 | 5.2:+8064844 | None:intergenic |
| CTGTGAAAATAGACAGGAAG+TGG | 0.460529 | 5.2:-8064731 | MS.gene09548:intron |
| GGAACCCAATCATTTGTGGC+AGG | 0.462082 | 5.2:+8064602 | None:intergenic |
| ATGTCTCGTCTAAGCCGAAT+AGG | 0.462907 | 5.2:-8064384 | MS.gene09548:CDS |
| CAGACTATACTTTCCTCAAA+GGG | 0.469094 | 5.2:-8064915 | MS.gene09548:CDS |
| GTTTCAGGTTCGCTTCTGTT+GGG | 0.489259 | 5.2:+8065020 | None:intergenic |
| GTTAGAGAAGGAGATGAAAG+TGG | 0.492647 | 5.2:-8064695 | MS.gene09548:CDS |
| CAACCCTGCCACAAATGATT+GGG | 0.493231 | 5.2:-8064606 | MS.gene09548:CDS |
| AGATGTTCATGATCAAGGTT+AGG | 0.495165 | 5.2:+8064581 | None:intergenic |
| TTTATAAAAGCGGTTAGAGA+AGG | 0.500477 | 5.2:-8064707 | MS.gene09548:CDS |
| AATTGATAAACAACATCATA+CGG | 0.500785 | 5.2:-8064829 | MS.gene09548:intron |
| GTTAGGAACCCAATCATTTG+TGG | 0.507173 | 5.2:+8064598 | None:intergenic |
| ATACCAGATGTTCATGATCA+AGG | 0.509861 | 5.2:+8064576 | None:intergenic |
| AGATACACAAGATGAGTTTG+TGG | 0.519607 | 5.2:-8064880 | MS.gene09548:CDS |
| AAAACCTCGTCACTACGACT+TGG | 0.560143 | 5.2:+8065122 | None:intergenic |
| TCAGACTATACTTTCCTCAA+AGG | 0.574625 | 5.2:-8064916 | MS.gene09548:CDS |
| CCTGCAAGCCATGTTGATGT+TGG | 0.587170 | 5.2:-8064656 | MS.gene09548:CDS |
| GAACCCAATCATTTGTGGCA+GGG | 0.594079 | 5.2:+8064603 | None:intergenic |
| AGGAAGTGGGTTTATAAAAG+CGG | 0.597067 | 5.2:-8064717 | MS.gene09548:CDS |
| CCAAACAACAACATCATGGT+AGG | 0.619313 | 5.2:-8065164 | None:intergenic |
| TGTGAAAATAGACAGGAAGT+GGG | 0.658962 | 5.2:-8064730 | MS.gene09548:intron |
| AAAACCAAGTCGTAGTGACG+AGG | 0.696472 | 5.2:-8065126 | MS.gene09548:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTGTGATTATGTTTTTT+TGG | - | chr5.2:8064757-8064776 | MS.gene09548:intron | 15.0% |
| !! | AATTGATAAACAACATCATA+CGG | - | chr5.2:8064689-8064708 | MS.gene09548:CDS | 20.0% |
| ! | TATCAATTGAAAACAACTCT+TGG | + | chr5.2:8064677-8064696 | None:intergenic | 25.0% |
| !!! | ATAGATTGTGATTTGTTAAC+AGG | - | chr5.2:8065108-8065127 | MS.gene09548:CDS | 25.0% |
| ATTGAACTGTGAAAATAGAC+AGG | - | chr5.2:8064781-8064800 | MS.gene09548:intron | 30.0% | |
| TATGTTGTGTTGAGAAAAAG+TGG | + | chr5.2:8064544-8064563 | None:intergenic | 30.0% | |
| TTTATAAAAGCGGTTAGAGA+AGG | - | chr5.2:8064811-8064830 | MS.gene09548:intron | 30.0% | |
| ! | GTTGGTGAAAACAAATTTAG+AGG | - | chr5.2:8064880-8064899 | MS.gene09548:CDS | 30.0% |
| !! | TTTGATTTGGTTAGTGATCT+TGG | + | chr5.2:8064439-8064458 | None:intergenic | 30.0% |
| AGATACACAAGATGAGTTTG+TGG | - | chr5.2:8064638-8064657 | MS.gene09548:CDS | 35.0% | |
| AGATGTTCATGATCAAGGTT+AGG | + | chr5.2:8064940-8064959 | None:intergenic | 35.0% | |
| ATACCAGATGTTCATGATCA+AGG | + | chr5.2:8064945-8064964 | None:intergenic | 35.0% | |
| CAGACTATACTTTCCTCAAA+GGG | - | chr5.2:8064603-8064622 | MS.gene09548:CDS | 35.0% | |
| GTCAAAGTTCTTTACACGAT+CGG | - | chr5.2:8065051-8065070 | MS.gene09548:CDS | 35.0% | |
| TAACCTTGATCATGAACATC+TGG | - | chr5.2:8064939-8064958 | MS.gene09548:CDS | 35.0% | |
| TACATCTACTAATCCCTTTG+AGG | + | chr5.2:8064619-8064638 | None:intergenic | 35.0% | |
| TCAGACTATACTTTCCTCAA+AGG | - | chr5.2:8064602-8064621 | MS.gene09548:CDS | 35.0% | |
| TGTGAAAATAGACAGGAAGT+GGG | - | chr5.2:8064788-8064807 | MS.gene09548:intron | 35.0% | |
| TTGAGAAAAAGTGGAGTCAA+CGG | + | chr5.2:8064535-8064554 | None:intergenic | 35.0% | |
| ! | AGGAAGTGGGTTTATAAAAG+CGG | - | chr5.2:8064801-8064820 | MS.gene09548:intron | 35.0% |
| ! | CATCGAATTGAGCTTTGATT+TGG | + | chr5.2:8064452-8064471 | None:intergenic | 35.0% |
| ! | TGTTTTCACCAACATCAACA+TGG | + | chr5.2:8064873-8064892 | None:intergenic | 35.0% |
| !! | GTTTGAAGTTTTTCCAGTTC+TGG | + | chr5.2:8064567-8064586 | None:intergenic | 35.0% |
| AAAGTTCTTTACACGATCGG+TGG | - | chr5.2:8065054-8065073 | MS.gene09548:CDS | 40.0% | |
| CTGTGAAAATAGACAGGAAG+TGG | - | chr5.2:8064787-8064806 | MS.gene09548:intron | 40.0% | |
| GTTAGAGAAGGAGATGAAAG+TGG | - | chr5.2:8064823-8064842 | MS.gene09548:intron | 40.0% | |
| GTTAGGAACCCAATCATTTG+TGG | + | chr5.2:8064923-8064942 | None:intergenic | 40.0% | |
| TCAACACAACATACCAGAAC+TGG | - | chr5.2:8064551-8064570 | MS.gene09548:intron | 40.0% | |
| TGAGAAAAAGTGGAGTCAAC+GGG | + | chr5.2:8064534-8064553 | None:intergenic | 40.0% | |
| !! | AGTGATCTTGGTTTGTTCCT+CGG | + | chr5.2:8064427-8064446 | None:intergenic | 40.0% |
| AAAACCAAGTCGTAGTGACG+AGG | - | chr5.2:8064392-8064411 | MS.gene09548:intron | 45.0% | |
| AAAACCTCGTCACTACGACT+TGG | + | chr5.2:8064399-8064418 | None:intergenic | 45.0% | |
| ATGTCTCGTCTAAGCCGAAT+AGG | - | chr5.2:8065134-8065153 | MS.gene09548:CDS | 45.0% | |
| CAACCCTGCCACAAATGATT+GGG | - | chr5.2:8064912-8064931 | MS.gene09548:CDS | 45.0% | |
| GAACCCAATCATTTGTGGCA+GGG | + | chr5.2:8064918-8064937 | None:intergenic | 45.0% | |
| GAGAAAAAGTGGAGTCAACG+GGG | + | chr5.2:8064533-8064552 | None:intergenic | 45.0% | |
| TCGCTTCTGTTGGGTTTGAT+GGG | + | chr5.2:8064492-8064511 | None:intergenic | 45.0% | |
| TTCGCTTCTGTTGGGTTTGA+TGG | + | chr5.2:8064493-8064512 | None:intergenic | 45.0% | |
| !! | GTTTCAGGTTCGCTTCTGTT+GGG | + | chr5.2:8064501-8064520 | None:intergenic | 45.0% |
| !! | TGTTTCAGGTTCGCTTCTGT+TGG | + | chr5.2:8064502-8064521 | None:intergenic | 45.0% |
| !! | TTGGGTTTGATGGGTCGTTT+TGG | + | chr5.2:8064483-8064502 | None:intergenic | 45.0% |
| !!! | ACGGGGTTTTGTTGTGTTTC+AGG | + | chr5.2:8064516-8064535 | None:intergenic | 45.0% |
| CCTGCAAGCCATGTTGATGT+TGG | - | chr5.2:8064862-8064881 | MS.gene09548:CDS | 50.0% | |
| GCAACCCTGCCACAAATGAT+TGG | - | chr5.2:8064911-8064930 | MS.gene09548:CDS | 50.0% | |
| GGAACCCAATCATTTGTGGC+AGG | + | chr5.2:8064919-8064938 | None:intergenic | 50.0% | |
| TAGGTGCTCTCGCTCCTATT+CGG | + | chr5.2:8065151-8065170 | None:intergenic | 50.0% | |
| ! | CCAACATCAACATGGCTTGC+AGG | + | chr5.2:8064865-8064884 | None:intergenic | 50.0% |
| !!! | TGACGAGGTTTTGAACACCG+AGG | - | chr5.2:8064407-8064426 | MS.gene09548:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.2 | gene | 8064369 | 8065171 | 8064369 | ID=MS.gene09548 |
| chr5.2 | mRNA | 8064369 | 8065171 | 8064369 | ID=MS.gene09548.t1;Parent=MS.gene09548 |
| chr5.2 | exon | 8064830 | 8065171 | 8064830 | ID=MS.gene09548.t1.exon1;Parent=MS.gene09548.t1 |
| chr5.2 | CDS | 8064830 | 8065171 | 8064830 | ID=cds.MS.gene09548.t1;Parent=MS.gene09548.t1 |
| chr5.2 | exon | 8064580 | 8064741 | 8064580 | ID=MS.gene09548.t1.exon2;Parent=MS.gene09548.t1 |
| chr5.2 | CDS | 8064580 | 8064741 | 8064580 | ID=cds.MS.gene09548.t1;Parent=MS.gene09548.t1 |
| chr5.2 | exon | 8064369 | 8064410 | 8064369 | ID=MS.gene09548.t1.exon3;Parent=MS.gene09548.t1 |
| chr5.2 | CDS | 8064369 | 8064410 | 8064369 | ID=cds.MS.gene09548.t1;Parent=MS.gene09548.t1 |
| Gene Sequence |
| Protein sequence |
