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.gene56419.t1 | XP_003607890.1 | 98.1 | 155 | 3 | 0 | 1 | 155 | 1 | 155 | 1.10E-79 | 305.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56419.t1 | O82179 | 78.2 | 156 | 33 | 1 | 1 | 155 | 1 | 156 | 1.1e-64 | 247.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56419.t1 | Q2MGQ2 | 98.1 | 155 | 3 | 0 | 1 | 155 | 1 | 155 | 8.0e-80 | 305.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050864 | MS.gene56419 | 0.873525 | 1.37E-67 | -1.69E-46 |
| MS.gene050904 | MS.gene56419 | -0.807967 | 3.90E-50 | -1.69E-46 |
| MS.gene051648 | MS.gene56419 | 0.804871 | 1.75E-49 | -1.69E-46 |
| MS.gene052275 | MS.gene56419 | 0.800535 | 1.38E-48 | -1.69E-46 |
| MS.gene053536 | MS.gene56419 | 0.804875 | 1.75E-49 | -1.69E-46 |
| MS.gene053538 | MS.gene56419 | 0.807468 | 4.98E-50 | -1.69E-46 |
| MS.gene056266 | MS.gene56419 | -0.803614 | 3.20E-49 | -1.69E-46 |
| MS.gene056998 | MS.gene56419 | 0.822758 | 2.00E-53 | -1.69E-46 |
| MS.gene058210 | MS.gene56419 | 0.811201 | 7.88E-51 | -1.69E-46 |
| MS.gene058386 | MS.gene56419 | 0.804077 | 2.57E-49 | -1.69E-46 |
| MS.gene059424 | MS.gene56419 | 0.803896 | 2.80E-49 | -1.69E-46 |
| MS.gene06042 | MS.gene56419 | 0.841088 | 5.87E-58 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene059677 | MS.gene56419 | PPI |
| MS.gene015317 | MS.gene56419 | PPI |
| MS.gene56419 | MS.gene21474 | PPI |
| MS.gene09661 | MS.gene56419 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56419.t1 | MTR_4g084110 | 98.065 | 155 | 3 | 0 | 1 | 155 | 1 | 155 | 1.30e-112 | 316 |
| MS.gene56419.t1 | MTR_5g014260 | 66.418 | 134 | 45 | 0 | 22 | 155 | 33 | 166 | 2.85e-66 | 199 |
| MS.gene56419.t1 | MTR_5g014260 | 69.892 | 93 | 28 | 0 | 22 | 114 | 33 | 125 | 1.32e-43 | 141 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56419.t1 | AT2G35120 | 78.205 | 156 | 33 | 1 | 1 | 155 | 1 | 156 | 2.69e-88 | 254 |
| MS.gene56419.t1 | AT1G32470 | 58.084 | 167 | 57 | 2 | 1 | 155 | 1 | 166 | 7.88e-63 | 191 |
| MS.gene56419.t1 | AT2G35370 | 65.441 | 136 | 47 | 0 | 20 | 155 | 30 | 165 | 1.81e-62 | 189 |
Find 31 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACATCAACTCTCCTGTTTC+AGG | 0.209182 | 4.4:-28802223 | MS.gene56419:CDS |
| TTCACTGCCGTTCCCACTTC+TGG | 0.241034 | 4.4:+28802292 | None:intergenic |
| AACTCAAGCCCCTATGAAAA+TGG | 0.268193 | 4.4:-28802031 | MS.gene56419:CDS |
| AGATGGCTTGCAGGCAGTTA+TGG | 0.326829 | 4.4:-28803739 | MS.gene56419:CDS |
| TGATCACGCTCAAGATCATT+TGG | 0.340775 | 4.4:-28802338 | MS.gene56419:CDS |
| GTGAAACAAGGAGATGGTTT+TGG | 0.366878 | 4.4:-28802274 | MS.gene56419:CDS |
| ATCTTCTTCTTCACAGAACT+TGG | 0.368009 | 4.4:+28801940 | None:intergenic |
| GATGGCTTGCAGGCAGTTAT+GGG | 0.405390 | 4.4:-28803738 | MS.gene56419:CDS |
| TGGCGAACTTGACAAATTGA+TGG | 0.434808 | 4.4:-28801978 | MS.gene56419:CDS |
| GCTCAGCAACTCTCCTGCTT+TGG | 0.435121 | 4.4:-28802176 | MS.gene56419:intron |
| CCTGAGGTATGATGCTGCTC+TGG | 0.483257 | 4.4:+28803712 | None:intergenic |
| GCAATAAAACTCACCAAAGC+AGG | 0.490891 | 4.4:+28802163 | None:intergenic |
| CATGAATGGGTGAAAGTTGA+CGG | 0.492157 | 4.4:-28802385 | MS.gene56419:CDS |
| GATCACGCTCAAGATCATTT+GGG | 0.501804 | 4.4:-28802337 | MS.gene56419:CDS |
| AGTATGCTGATTCTCATGAA+TGG | 0.523325 | 4.4:-28802399 | MS.gene56419:CDS |
| CCAGAGCAGCATCATACCTC+AGG | 0.533721 | 4.4:-28803712 | MS.gene56419:CDS |
| CAAGCCCCTATGAAAATGGA+TGG | 0.537218 | 4.4:-28802027 | MS.gene56419:CDS |
| GTATGCTGATTCTCATGAAT+GGG | 0.551627 | 4.4:-28802398 | MS.gene56419:CDS |
| GACGGAAAATCTGCAACCAT+TGG | 0.558598 | 4.4:-28802367 | MS.gene56419:CDS |
| TCGGCAAGACTATCAATGAC+TGG | 0.570070 | 4.4:+28801916 | None:intergenic |
| TTTCACAGAACCTTCTCTAA+CGG | 0.580128 | 4.4:-28803680 | MS.gene56419:intron |
| TGAATGAATACCGTTAGAGA+AGG | 0.619094 | 4.4:+28803670 | None:intergenic |
| TGGTGCAGTTGAAAGTGTGA+AGG | 0.619953 | 4.4:-28802254 | MS.gene56419:CDS |
| TGAATTGCCAGAAGTGGGAA+CGG | 0.630383 | 4.4:-28802299 | MS.gene56419:CDS |
| GTGGGAACGGCAGTGAAACA+AGG | 0.631106 | 4.4:-28802286 | MS.gene56419:CDS |
| ACGGCAGTGAAACAAGGAGA+TGG | 0.634473 | 4.4:-28802280 | MS.gene56419:CDS |
| GTATGTTGAATTGCCAGAAG+TGG | 0.646780 | 4.4:-28802305 | MS.gene56419:CDS |
| AGCGTGATCAGTTATGCCAA+TGG | 0.651521 | 4.4:+28802351 | None:intergenic |
| TGTGAAAGACAGAGATCCTG+AGG | 0.655630 | 4.4:+28803696 | None:intergenic |
| TATGTTGAATTGCCAGAAGT+GGG | 0.663199 | 4.4:-28802304 | MS.gene56419:CDS |
| AAAGTTGAGATGAGTGACAG+TGG | 0.702478 | 4.4:-28801998 | MS.gene56419:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAAAGTTAATTATGAATA+AGG | + | chr4.4:28803527-28803546 | None:intergenic | 10.0% |
| !! | TAATAATAAAATAAAAAGCG+AGG | + | chr4.4:28802100-28802119 | None:intergenic | 15.0% |
| !! | TTAAAATTCAATATGCAAAT+TGG | + | chr4.4:28803019-28803038 | None:intergenic | 15.0% |
| !! | TTGTTAACAAAAAAACAAAA+TGG | + | chr4.4:28802352-28802371 | None:intergenic | 15.0% |
| !!! | AAAATTTATAATTTGTAGGA+TGG | - | chr4.4:28802973-28802992 | MS.gene56419:intron | 15.0% |
| !!! | AACCAAAATTTATAATTTGT+AGG | - | chr4.4:28802969-28802988 | MS.gene56419:intron | 15.0% |
| !!! | AGATTTTATTGAGATATTAA+CGG | + | chr4.4:28802821-28802840 | None:intergenic | 15.0% |
| !!! | ATCCTACAAATTATAAATTT+TGG | + | chr4.4:28802974-28802993 | None:intergenic | 15.0% |
| !!! | TTTTAATATCTTGAAAGTTT+TGG | - | chr4.4:28803033-28803052 | MS.gene56419:intron | 15.0% |
| !! | AAAAATGTAACAAACAACAT+AGG | + | chr4.4:28802450-28802469 | None:intergenic | 20.0% |
| !! | AGATCAAGTTCAAAATAAAT+TGG | + | chr4.4:28802220-28802239 | None:intergenic | 20.0% |
| !! | ATATGTAAGTAACATATACT+AGG | - | chr4.4:28802371-28802390 | MS.gene56419:CDS | 20.0% |
| !!! | AAATGTTTGAATAGCTTTAT+AGG | + | chr4.4:28802720-28802739 | None:intergenic | 20.0% |
| !!! | ATTTTGTTCTAACTATTATC+TGG | - | chr4.4:28802853-28802872 | MS.gene56419:intron | 20.0% |
| ! | ATAACTCAGTCAAAAGAAAT+TGG | + | chr4.4:28802684-28802703 | None:intergenic | 25.0% |
| ! | CTTACAAATGAACAATGATA+TGG | + | chr4.4:28802932-28802951 | None:intergenic | 25.0% |
| ! | TAAAACTTAAAGTGAACGAT+GGG | - | chr4.4:28802901-28802920 | MS.gene56419:intron | 25.0% |
| ! | TAGGAAAACATAAAAACACT+TGG | + | chr4.4:28803596-28803615 | None:intergenic | 25.0% |
| ! | TATTATCTGGTACATCATAT+TGG | - | chr4.4:28802866-28802885 | MS.gene56419:intron | 25.0% |
| ! | TCAAGTTCAAAATAAATTGG+AGG | + | chr4.4:28802217-28802236 | None:intergenic | 25.0% |
| ! | TTAAAACTTAAAGTGAACGA+TGG | - | chr4.4:28802900-28802919 | MS.gene56419:intron | 25.0% |
| !! | AATTATCCATCCATTTTCAT+AGG | + | chr4.4:28803647-28803666 | None:intergenic | 25.0% |
| !! | AGAATATTCCATTTCCATTT+TGG | + | chr4.4:28802404-28802423 | None:intergenic | 25.0% |
| !! | ATTATCCATCCATTTTCATA+GGG | + | chr4.4:28803646-28803665 | None:intergenic | 25.0% |
| !! | TAACGGTTTAATTGATTTCA+AGG | + | chr4.4:28802804-28802823 | None:intergenic | 25.0% |
| !! | TTTTAGTGAATAGTGACAAA+AGG | - | chr4.4:28802320-28802339 | MS.gene56419:CDS | 25.0% |
| !!! | AAGTTCGTTTTTGCTTTTAA+AGG | - | chr4.4:28802569-28802588 | MS.gene56419:intron | 25.0% |
| !!! | GAATAGCTTTATAGGTAAAT+TGG | + | chr4.4:28802712-28802731 | None:intergenic | 25.0% |
| AATAAATTGGAGGTAGGTTA+AGG | + | chr4.4:28802207-28802226 | None:intergenic | 30.0% | |
| AATAATCCAAATTACTCTCG+AGG | - | chr4.4:28802743-28802762 | MS.gene56419:intron | 30.0% | |
| AATTGAAAGAATAGATCGTC+CGG | + | chr4.4:28802302-28802321 | None:intergenic | 30.0% | |
| ATTGCCTTTATATACGTTAG+TGG | - | chr4.4:28802135-28802154 | MS.gene56419:intron | 30.0% | |
| CAATTGAACAAGTAGCATAT+TGG | - | chr4.4:28803144-28803163 | MS.gene56419:intron | 30.0% | |
| GCTAAATTCCAAAATGGAAA+TGG | - | chr4.4:28802393-28802412 | MS.gene56419:CDS | 30.0% | |
| GTGCATATTTCGAAATTAAG+TGG | - | chr4.4:28802527-28802546 | MS.gene56419:intron | 30.0% | |
| GTTCAAAATAAATTGGAGGT+AGG | + | chr4.4:28802213-28802232 | None:intergenic | 30.0% | |
| TACTAGGCTAAATTCCAAAA+TGG | - | chr4.4:28802387-28802406 | MS.gene56419:CDS | 30.0% | |
| TTGCCTTTATATACGTTAGT+GGG | - | chr4.4:28802136-28802155 | MS.gene56419:intron | 30.0% | |
| ! | ATTGAAACCAACATTTTGCA+AGG | - | chr4.4:28803194-28803213 | MS.gene56419:intron | 30.0% |
| ! | CAATATGCTACTTGTTCAAT+TGG | + | chr4.4:28803146-28803165 | None:intergenic | 30.0% |
| ! | TTATCCATCCATTTTCATAG+GGG | + | chr4.4:28803645-28803664 | None:intergenic | 30.0% |
| ! | TTTTGAACTTGATCTGTATG+TGG | - | chr4.4:28802225-28802244 | MS.gene56419:CDS | 30.0% |
| !! | AATTTAGCTTGTTAGCACTT+TGG | - | chr4.4:28802606-28802625 | MS.gene56419:intron | 30.0% |
| !! | ATTTAGCTTGTTAGCACTTT+GGG | - | chr4.4:28802607-28802626 | MS.gene56419:intron | 30.0% |
| !! | TAACAAACTGTTGGTTTGTT+TGG | - | chr4.4:28802636-28802655 | MS.gene56419:intron | 30.0% |
| !! | TTTCCTATTTTTCTTCGTGT+AGG | - | chr4.4:28803609-28803628 | MS.gene56419:intron | 30.0% |
| AAGATCCAGATTCCAGATAT+TGG | + | chr4.4:28802074-28802093 | None:intergenic | 35.0% | |
| ATCTTCTTCTTCACAGAACT+TGG | + | chr4.4:28803728-28803747 | None:intergenic | 35.0% | |
| ATGTTTCCTCGAGAGTAATT+TGG | + | chr4.4:28802752-28802771 | None:intergenic | 35.0% | |
| CATACAACCTTGCAAAATGT+TGG | + | chr4.4:28803204-28803223 | None:intergenic | 35.0% | |
| CATGTTGTTGATCCAATATC+TGG | - | chr4.4:28802059-28802078 | MS.gene56419:intron | 35.0% | |
| CTTCCCACTAACGTATATAA+AGG | + | chr4.4:28802142-28802161 | None:intergenic | 35.0% | |
| CTTTATATACGTTAGTGGGA+AGG | - | chr4.4:28802140-28802159 | MS.gene56419:intron | 35.0% | |
| GAGGTAGGTTAAGGATATAT+CGG | + | chr4.4:28802198-28802217 | None:intergenic | 35.0% | |
| TATGTTGAATTGCCAGAAGT+GGG | - | chr4.4:28803361-28803380 | MS.gene56419:intron | 35.0% | |
| TGAATGAATACCGTTAGAGA+AGG | + | chr4.4:28801998-28802017 | None:intergenic | 35.0% | |
| TGACCTACACGAAGAAAAAT+AGG | + | chr4.4:28803615-28803634 | None:intergenic | 35.0% | |
| TTTCACAGAACCTTCTCTAA+CGG | - | chr4.4:28801985-28802004 | MS.gene56419:CDS | 35.0% | |
| ! | CGGTTTAATTGATTTCAAGG+AGG | + | chr4.4:28802801-28802820 | None:intergenic | 35.0% |
| ! | TTGATCCAATATCTGGAATC+TGG | - | chr4.4:28802066-28802085 | MS.gene56419:intron | 35.0% |
| !! | AGTATGCTGATTCTCATGAA+TGG | - | chr4.4:28803266-28803285 | MS.gene56419:intron | 35.0% |
| !! | GTATGCTGATTCTCATGAAT+GGG | - | chr4.4:28803267-28803286 | MS.gene56419:intron | 35.0% |
| !! | TCAATCACTTTTCCTGAAAC+AGG | + | chr4.4:28803457-28803476 | None:intergenic | 35.0% |
| !! | TTTAGCTTGTTAGCACTTTG+GGG | - | chr4.4:28802608-28802627 | MS.gene56419:intron | 35.0% |
| AAAGTTGAGATGAGTGACAG+TGG | - | chr4.4:28803667-28803686 | MS.gene56419:intron | 40.0% | |
| AACTCAAGCCCCTATGAAAA+TGG | - | chr4.4:28803634-28803653 | MS.gene56419:intron | 40.0% | |
| ATATATCGGTGGTGACTGAA+TGG | + | chr4.4:28802184-28802203 | None:intergenic | 40.0% | |
| CATGAATGGGTGAAAGTTGA+CGG | - | chr4.4:28803280-28803299 | MS.gene56419:intron | 40.0% | |
| GATCACGCTCAAGATCATTT+GGG | - | chr4.4:28803328-28803347 | MS.gene56419:intron | 40.0% | |
| GCAATAAAACTCACCAAAGC+AGG | + | chr4.4:28803505-28803524 | None:intergenic | 40.0% | |
| GGGGGAAAATAACAAACTGT+TGG | - | chr4.4:28802627-28802646 | MS.gene56419:intron | 40.0% | |
| GTAGGTTAAGGATATATCGG+TGG | + | chr4.4:28802195-28802214 | None:intergenic | 40.0% | |
| GTATGTTGAATTGCCAGAAG+TGG | - | chr4.4:28803360-28803379 | MS.gene56419:intron | 40.0% | |
| TGAATGGTGTAGTGCACTTT+CGG | + | chr4.4:28802168-28802187 | None:intergenic | 40.0% | |
| TGATCACGCTCAAGATCATT+TGG | - | chr4.4:28803327-28803346 | MS.gene56419:intron | 40.0% | |
| TGGCGAACTTGACAAATTGA+TGG | - | chr4.4:28803687-28803706 | MS.gene56419:CDS | 40.0% | |
| ! | GTGAAACAAGGAGATGGTTT+TGG | - | chr4.4:28803391-28803410 | MS.gene56419:intron | 40.0% |
| !! | CACCAAAAGTTGATATACGG+CGG | + | chr4.4:28802279-28802298 | None:intergenic | 40.0% |
| !! | CGGCACCAAAAGTTGATATA+CGG | + | chr4.4:28802282-28802301 | None:intergenic | 40.0% |
| !! | CGTATATCAACTTTTGGTGC+CGG | - | chr4.4:28802280-28802299 | MS.gene56419:CDS | 40.0% |
| !! | TTAGCTTGTTAGCACTTTGG+GGG | - | chr4.4:28802609-28802628 | MS.gene56419:intron | 40.0% |
| AGCGTGATCAGTTATGCCAA+TGG | + | chr4.4:28803317-28803336 | None:intergenic | 45.0% | |
| CAAGCCCCTATGAAAATGGA+TGG | - | chr4.4:28803638-28803657 | MS.gene56419:intron | 45.0% | |
| CAGATGAGAAGACAGAGACT+CGG | + | chr4.4:28803066-28803085 | None:intergenic | 45.0% | |
| GACATCAACTCTCCTGTTTC+AGG | - | chr4.4:28803442-28803461 | MS.gene56419:intron | 45.0% | |
| GACGGAAAATCTGCAACCAT+TGG | - | chr4.4:28803298-28803317 | MS.gene56419:intron | 45.0% | |
| TGAATTGCCAGAAGTGGGAA+CGG | - | chr4.4:28803366-28803385 | MS.gene56419:intron | 45.0% | |
| TGTGAAAGACAGAGATCCTG+AGG | + | chr4.4:28801972-28801991 | None:intergenic | 45.0% | |
| ! | GTCCGCCGTATATCAACTTT+TGG | - | chr4.4:28802274-28802293 | MS.gene56419:CDS | 45.0% |
| ! | TGGTGCAGTTGAAAGTGTGA+AGG | - | chr4.4:28803411-28803430 | MS.gene56419:intron | 45.0% |
| ACGGCAGTGAAACAAGGAGA+TGG | - | chr4.4:28803385-28803404 | MS.gene56419:intron | 50.0% | |
| CCAGAGCAGCATCATACCTC+AGG | - | chr4.4:28801953-28801972 | MS.gene56419:CDS | 55.0% | |
| CCTGAGGTATGATGCTGCTC+TGG | + | chr4.4:28801956-28801975 | None:intergenic | 55.0% | |
| GCTCAGCAACTCTCCTGCTT+TGG | - | chr4.4:28803489-28803508 | MS.gene56419:intron | 55.0% | |
| GTGGGAACGGCAGTGAAACA+AGG | - | chr4.4:28803379-28803398 | MS.gene56419:intron | 55.0% | |
| TTCACTGCCGTTCCCACTTC+TGG | + | chr4.4:28803376-28803395 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 28801928 | 28803759 | 28801928 | ID=MS.gene56419 |
| chr4.4 | mRNA | 28801928 | 28803759 | 28801928 | ID=MS.gene56419.t1;Parent=MS.gene56419 |
| chr4.4 | exon | 28803681 | 28803759 | 28803681 | ID=MS.gene56419.t1.exon1;Parent=MS.gene56419.t1 |
| chr4.4 | CDS | 28803681 | 28803759 | 28803681 | ID=cds.MS.gene56419.t1;Parent=MS.gene56419.t1 |
| chr4.4 | exon | 28802177 | 28802436 | 28802177 | ID=MS.gene56419.t1.exon2;Parent=MS.gene56419.t1 |
| chr4.4 | CDS | 28802177 | 28802436 | 28802177 | ID=cds.MS.gene56419.t1;Parent=MS.gene56419.t1 |
| chr4.4 | exon | 28801928 | 28802056 | 28801928 | ID=MS.gene56419.t1.exon3;Parent=MS.gene56419.t1 |
| chr4.4 | CDS | 28801928 | 28802056 | 28801928 | ID=cds.MS.gene56419.t1;Parent=MS.gene56419.t1 |
| Gene Sequence |
| Protein sequence |
