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.gene50252.t1 | XP_003606958.1 | 100 | 69 | 0 | 0 | 1 | 69 | 39 | 107 | 3.40E-28 | 133.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50252.t1 | Q9SIK2 | 92.8 | 69 | 5 | 0 | 1 | 69 | 40 | 108 | 2.6e-29 | 128.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50252.t1 | B7FH10 | 100.0 | 69 | 0 | 0 | 1 | 69 | 39 | 107 | 2.4e-28 | 133.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050290 | MS.gene50252 | 0.892286 | 1.83E-74 | -1.69E-46 |
| MS.gene050916 | MS.gene50252 | 0.834812 | 2.41E-56 | -1.69E-46 |
| MS.gene052947 | MS.gene50252 | 0.813316 | 2.72E-51 | -1.69E-46 |
| MS.gene054937 | MS.gene50252 | 0.869873 | 2.23E-66 | -1.69E-46 |
| MS.gene056075 | MS.gene50252 | 0.821917 | 3.13E-53 | -1.69E-46 |
| MS.gene056257 | MS.gene50252 | 0.831357 | 1.75E-55 | -1.69E-46 |
| MS.gene056917 | MS.gene50252 | 0.839665 | 1.38E-57 | -1.69E-46 |
| MS.gene057206 | MS.gene50252 | 0.821711 | 3.49E-53 | -1.69E-46 |
| MS.gene058354 | MS.gene50252 | 0.82068 | 6.04E-53 | -1.69E-46 |
| MS.gene06001 | MS.gene50252 | 0.817997 | 2.47E-52 | -1.69E-46 |
| MS.gene060853 | MS.gene50252 | 0.810935 | 9.00E-51 | -1.69E-46 |
| MS.gene060856 | MS.gene50252 | 0.821862 | 3.22E-53 | -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.gene50252.t1 | MTR_4g070600 | 100.000 | 69 | 0 | 0 | 1 | 69 | 39 | 107 | 3.58e-46 | 142 |
| MS.gene50252.t1 | MTR_4g070600 | 100.000 | 69 | 0 | 0 | 1 | 69 | 38 | 106 | 4.72e-46 | 142 |
| MS.gene50252.t1 | MTR_2g086610 | 98.551 | 69 | 1 | 0 | 1 | 69 | 39 | 107 | 1.49e-45 | 141 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene50252.t1 | AT2G21580 | 92.754 | 69 | 5 | 0 | 1 | 69 | 39 | 107 | 6.30e-44 | 137 |
| MS.gene50252.t1 | AT2G21580 | 92.754 | 69 | 5 | 0 | 1 | 69 | 40 | 108 | 6.49e-44 | 137 |
| MS.gene50252.t1 | AT4G39200 | 88.406 | 69 | 8 | 0 | 1 | 69 | 39 | 107 | 2.74e-42 | 132 |
| MS.gene50252.t1 | AT4G39200 | 88.406 | 69 | 8 | 0 | 1 | 69 | 40 | 108 | 2.83e-42 | 132 |
| MS.gene50252.t1 | AT4G34555 | 88.235 | 68 | 8 | 0 | 1 | 68 | 40 | 107 | 2.71e-40 | 127 |
| MS.gene50252.t1 | AT2G16360 | 83.582 | 67 | 11 | 0 | 1 | 67 | 40 | 106 | 1.40e-37 | 121 |
Find 21 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTGGTCTATGCAGATTAA+TGG | 0.196241 | 4.3:+34617060 | MS.gene50252:intron |
| AGGAGTGATGAGCTTGTATT+TGG | 0.258319 | 4.3:-34615809 | None:intergenic |
| TGATGGCTAAAGGTTTAATC+AGG | 0.382324 | 4.3:+34617112 | MS.gene50252:CDS |
| CTGTCCTCTCTGATCGTTTG+AGG | 0.389732 | 4.3:+34615833 | MS.gene50252:CDS |
| GAGGGCTATAAGAGACTTGA+TGG | 0.404889 | 4.3:+34617095 | MS.gene50252:CDS |
| CACCTAGGTGTTTGTAGCCC+TGG | 0.406263 | 4.3:-34617169 | None:intergenic |
| CAACATGGTGCTGTTTGATC+AGG | 0.424061 | 4.3:+34615756 | None:intergenic |
| TGTCCTCTCTGATCGTTTGA+GGG | 0.452861 | 4.3:+34615834 | MS.gene50252:CDS |
| ATAAGAGACTTGATGGCTAA+AGG | 0.477465 | 4.3:+34617102 | MS.gene50252:CDS |
| TTCAGTTAAGAGCTTGTCAT+AGG | 0.503535 | 4.3:-34615782 | None:intergenic |
| GGCTAAAGGTTTAATCAGGT+TGG | 0.524410 | 4.3:+34617116 | MS.gene50252:CDS |
| TAATGGATCACTTGCAAGGA+GGG | 0.537201 | 4.3:+34617077 | MS.gene50252:CDS |
| CAAGTCAGCAGATTTACACC+AGG | 0.557612 | 4.3:+34617151 | MS.gene50252:CDS |
| GGAGTGATGAGCTTGTATTT+GGG | 0.571965 | 4.3:-34615808 | None:intergenic |
| AAACGATCAGAGAGGACAGA+AGG | 0.576753 | 4.3:-34615829 | None:intergenic |
| AACATGGTGCTGTTTGATCA+GGG | 0.617310 | 4.3:+34615757 | None:intergenic |
| AGATTAATGGATCACTTGCA+AGG | 0.633639 | 4.3:+34617073 | MS.gene50252:intron |
| AAGTCAGCAGATTTACACCA+GGG | 0.688410 | 4.3:+34617152 | MS.gene50252:CDS |
| TTAATGGATCACTTGCAAGG+AGG | 0.700095 | 4.3:+34617076 | MS.gene50252:CDS |
| CACCAGGGCTACAAACACCT+AGG | 0.701247 | 4.3:+34617167 | MS.gene50252:CDS |
| TTACCCTCAAACGATCAGAG+AGG | 0.790654 | 4.3:-34615837 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTATTGATGAATTAAATTT+TGG | - | chr4.3:34617029-34617048 | None:intergenic | 10.0% |
| !! | AAACTAGTAATGAAAATCAT+AGG | - | chr4.3:34616181-34616200 | None:intergenic | 20.0% |
| !! | ACTAAATATTTGTGACTAAA+AGG | + | chr4.3:34616990-34617009 | MS.gene50252:intron | 20.0% |
| !! | CTAAATATTTGTGACTAAAA+GGG | + | chr4.3:34616991-34617010 | MS.gene50252:intron | 20.0% |
| !!! | AAGATAATAACTGCAATTTT+CGG | - | chr4.3:34616608-34616627 | None:intergenic | 20.0% |
| !!! | AATAATGAATATGTCTTTTG+TGG | + | chr4.3:34617043-34617062 | MS.gene50252:intron | 20.0% |
| !!! | ACACAAATTTAAGTTGATAA+TGG | + | chr4.3:34616663-34616682 | MS.gene50252:intron | 20.0% |
| ! | AAATGAACTTAAAATGCACA+AGG | - | chr4.3:34616777-34616796 | None:intergenic | 25.0% |
| ! | AATGACAACGATGAAATTTA+AGG | - | chr4.3:34616714-34616733 | None:intergenic | 25.0% |
| ! | AATGTCATCATAAAGTAAAG+AGG | + | chr4.3:34616688-34616707 | MS.gene50252:intron | 25.0% |
| ! | AGAAGATGAAATGTTAACTA+GGG | + | chr4.3:34616529-34616548 | MS.gene50252:intron | 25.0% |
| ! | CTAAATCACAGAACATATAT+TGG | + | chr4.3:34616296-34616315 | MS.gene50252:intron | 25.0% |
| ! | CTTACACCAAATAATACATT+AGG | - | chr4.3:34616852-34616871 | None:intergenic | 25.0% |
| ! | CTTTAGTTGTAAAAATGTTG+TGG | + | chr4.3:34616879-34616898 | MS.gene50252:intron | 25.0% |
| ! | TCTTGAAGATTCTATTGTTT+AGG | + | chr4.3:34616624-34616643 | MS.gene50252:intron | 25.0% |
| !! | TTTACTAATGCCTTTTCTTA+TGG | + | chr4.3:34615864-34615883 | MS.gene50252:intron | 25.0% |
| !!! | AAATTTTTCAGTCCTAGTAT+TGG | + | chr4.3:34616072-34616091 | MS.gene50252:intron | 25.0% |
| !!! | GTTCATTTTTTTGCAATCTT+AGG | + | chr4.3:34616789-34616808 | MS.gene50252:intron | 25.0% |
| AAACTAATTCCACCAATACT+AGG | - | chr4.3:34616087-34616106 | None:intergenic | 30.0% | |
| AAATCATAGGTTCAATACAG+TGG | - | chr4.3:34616168-34616187 | None:intergenic | 30.0% | |
| AGAACATTAAGGCTAAAAAG+TGG | - | chr4.3:34616210-34616229 | None:intergenic | 30.0% | |
| ATATTAAACAGACCAAAACG+CGG | - | chr4.3:34616235-34616254 | None:intergenic | 30.0% | |
| CTAGGACTGAAAAATTTAGA+TGG | - | chr4.3:34616069-34616088 | None:intergenic | 30.0% | |
| GAGAAGATGAAATGTTAACT+AGG | + | chr4.3:34616528-34616547 | MS.gene50252:intron | 30.0% | |
| GTTTGGCCTAATGTATTATT+TGG | + | chr4.3:34616843-34616862 | MS.gene50252:intron | 30.0% | |
| TTAAGAGATGCTCATTTCTA+GGG | + | chr4.3:34616360-34616379 | MS.gene50252:intron | 30.0% | |
| TTATACCACACCATAAGAAA+AGG | - | chr4.3:34615877-34615896 | None:intergenic | 30.0% | |
| TTTAAGAGATGCTCATTTCT+AGG | + | chr4.3:34616359-34616378 | MS.gene50252:intron | 30.0% | |
| ! | ATGTTTTCACAAAGTAACTG+AGG | - | chr4.3:34616421-34616440 | None:intergenic | 30.0% |
| ! | TCTGGACTTGTTTATAAGTT+TGG | + | chr4.3:34616826-34616845 | MS.gene50252:intron | 30.0% |
| !! | TTTCTAGGGCAATATGTATT+TGG | + | chr4.3:34616374-34616393 | MS.gene50252:intron | 30.0% |
| AAAACGCGGATAGAACATTA+AGG | - | chr4.3:34616221-34616240 | None:intergenic | 35.0% | |
| AAAATGATGAGCATCAGGAT+AGG | - | chr4.3:34616021-34616040 | None:intergenic | 35.0% | |
| AAACATCACTGTAAATGCAG+AGG | - | chr4.3:34616741-34616760 | None:intergenic | 35.0% | |
| GCCATTTAGCACAAAAATTC+TGG | - | chr4.3:34616277-34616296 | None:intergenic | 35.0% | |
| GTATGCGTGCATTATTATGT+TGG | + | chr4.3:34615920-34615939 | MS.gene50252:intron | 35.0% | |
| TCTTGAAAATGATGAGCATC+AGG | - | chr4.3:34616026-34616045 | None:intergenic | 35.0% | |
| TGATGGCTAAAGGTTTAATC+AGG | + | chr4.3:34617112-34617131 | MS.gene50252:CDS | 35.0% | |
| TTCAGTTAAGAGCTTGTCAT+AGG | - | chr4.3:34615785-34615804 | None:intergenic | 35.0% | |
| TTGTGGTCTATGCAGATTAA+TGG | + | chr4.3:34617060-34617079 | MS.gene50252:intron | 35.0% | |
| ! | AACTGCAATTTTCGGAAACA+GGG | - | chr4.3:34616600-34616619 | None:intergenic | 35.0% |
| ! | AGATTAATGGATCACTTGCA+AGG | + | chr4.3:34617073-34617092 | MS.gene50252:intron | 35.0% |
| ! | ATAAGAGACTTGATGGCTAA+AGG | + | chr4.3:34617102-34617121 | MS.gene50252:CDS | 35.0% |
| ! | ATTTTCGGAAACAGGGAAAA+TGG | - | chr4.3:34616593-34616612 | None:intergenic | 35.0% |
| ! | CTCTTGTATTGTTGTTCAAG+TGG | + | chr4.3:34616121-34616140 | MS.gene50252:intron | 35.0% |
| ! | GCCAGAATTTTTGTGCTAAA+TGG | + | chr4.3:34616273-34616292 | MS.gene50252:intron | 35.0% |
| ! | TAACTGCAATTTTCGGAAAC+AGG | - | chr4.3:34616601-34616620 | None:intergenic | 35.0% |
| ! | TAATGCCTTTTCTTATGGTG+TGG | + | chr4.3:34615869-34615888 | MS.gene50252:intron | 35.0% |
| ! | TTAATGTTCTATCCGCGTTT+TGG | + | chr4.3:34616220-34616239 | MS.gene50252:intron | 35.0% |
| !! | TAGGTGTCATTCTAAGTTTC+TGG | + | chr4.3:34616808-34616827 | MS.gene50252:intron | 35.0% |
| !! | TTTTTCAGTCCTAGTATTGG+TGG | + | chr4.3:34616075-34616094 | MS.gene50252:intron | 35.0% |
| AAGTCAGCAGATTTACACCA+GGG | + | chr4.3:34617152-34617171 | MS.gene50252:CDS | 40.0% | |
| AGGAGTGATGAGCTTGTATT+TGG | - | chr4.3:34615812-34615831 | None:intergenic | 40.0% | |
| CTAGGGCAATATGTATTTGG+AGG | + | chr4.3:34616377-34616396 | MS.gene50252:intron | 40.0% | |
| GGAGTGATGAGCTTGTATTT+GGG | - | chr4.3:34615811-34615830 | None:intergenic | 40.0% | |
| GGCTAAAGGTTTAATCAGGT+TGG | + | chr4.3:34617116-34617135 | MS.gene50252:CDS | 40.0% | |
| ! | GGCTCGTATTTTCTGATAAG+TGG | + | chr4.3:34616142-34616161 | MS.gene50252:intron | 40.0% |
| ! | TAATGGATCACTTGCAAGGA+GGG | + | chr4.3:34617077-34617096 | MS.gene50252:CDS | 40.0% |
| ! | TTAATGGATCACTTGCAAGG+AGG | + | chr4.3:34617076-34617095 | MS.gene50252:CDS | 40.0% |
| !! | GGAGGTGTTTCTGAGAATAT+AGG | + | chr4.3:34616395-34616414 | MS.gene50252:intron | 40.0% |
| AAACGATCAGAGAGGACAGA+AGG | - | chr4.3:34615832-34615851 | None:intergenic | 45.0% | |
| CAAGTCAGCAGATTTACACC+AGG | + | chr4.3:34617151-34617170 | MS.gene50252:CDS | 45.0% | |
| CATCACTGTAAATGCAGAGG+TGG | - | chr4.3:34616738-34616757 | None:intergenic | 45.0% | |
| GAGGGCTATAAGAGACTTGA+TGG | + | chr4.3:34617095-34617114 | MS.gene50252:CDS | 45.0% | |
| TCTAGTGTGATGCACACCTT+TGG | + | chr4.3:34616934-34616953 | MS.gene50252:intron | 45.0% | |
| TGTCCTCTCTGATCGTTTGA+GGG | + | chr4.3:34615834-34615853 | MS.gene50252:CDS | 45.0% | |
| TTACCCTCAAACGATCAGAG+AGG | - | chr4.3:34615840-34615859 | None:intergenic | 45.0% | |
| ! | GTGAAAGTGCAAGCAACCAA+AGG | - | chr4.3:34616953-34616972 | None:intergenic | 45.0% |
| CTGTCCTCTCTGATCGTTTG+AGG | + | chr4.3:34615833-34615852 | MS.gene50252:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 34615760 | 34617188 | 34615760 | ID=MS.gene50252 |
| chr4.3 | mRNA | 34615760 | 34617188 | 34615760 | ID=MS.gene50252.t1;Parent=MS.gene50252 |
| chr4.3 | exon | 34615760 | 34615855 | 34615760 | ID=MS.gene50252.t1.exon1;Parent=MS.gene50252.t1 |
| chr4.3 | CDS | 34615760 | 34615855 | 34615760 | ID=cds.MS.gene50252.t1;Parent=MS.gene50252.t1 |
| chr4.3 | exon | 34617075 | 34617188 | 34617075 | ID=MS.gene50252.t1.exon2;Parent=MS.gene50252.t1 |
| chr4.3 | CDS | 34617075 | 34617188 | 34617075 | ID=cds.MS.gene50252.t1;Parent=MS.gene50252.t1 |
| Gene Sequence |
| Protein sequence |
