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.gene58539.t1 | XP_024639030.1 | 96.9 | 257 | 8 | 0 | 1 | 257 | 26 | 282 | 3.20E-151 | 544.3 |
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.gene58539.t1 | G7K8A0 | 96.9 | 257 | 8 | 0 | 1 | 257 | 26 | 282 | 2.3e-151 | 544.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene055566 | MS.gene58539 | 0.812493 | 4.12E-51 | -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.gene58539.t1 | MTR_5g037310 | 94.007 | 267 | 16 | 0 | 1 | 267 | 26 | 292 | 0.0 | 516 |
| MS.gene58539.t1 | MTR_5g037310 | 94.007 | 267 | 16 | 0 | 1 | 267 | 26 | 292 | 0.0 | 516 |
| MS.gene58539.t1 | MTR_8g090055 | 40.400 | 250 | 124 | 7 | 1 | 241 | 29 | 262 | 4.86e-53 | 174 |
| MS.gene58539.t1 | MTR_4g123700 | 31.276 | 243 | 151 | 8 | 2 | 241 | 34 | 263 | 1.14e-25 | 103 |
| MS.gene58539.t1 | MTR_4g105550 | 29.070 | 258 | 151 | 11 | 2 | 241 | 32 | 275 | 5.11e-22 | 93.2 |
| MS.gene58539.t1 | MTR_4g132450 | 29.572 | 257 | 148 | 11 | 1 | 241 | 37 | 276 | 1.21e-20 | 90.1 |
| MS.gene58539.t1 | MTR_2g023970 | 27.626 | 257 | 153 | 10 | 1 | 241 | 23 | 262 | 3.87e-18 | 82.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene58539.t1 | AT1G10380 | 59.919 | 247 | 91 | 6 | 2 | 243 | 29 | 272 | 2.35e-93 | 278 |
| MS.gene58539.t1 | AT1G10380 | 57.895 | 247 | 96 | 6 | 2 | 243 | 29 | 272 | 3.48e-93 | 277 |
| MS.gene58539.t1 | AT3G17350 | 33.333 | 246 | 145 | 9 | 2 | 239 | 31 | 265 | 7.62e-25 | 100 |
| MS.gene58539.t1 | AT3G17350 | 33.333 | 246 | 145 | 9 | 2 | 239 | 31 | 265 | 8.72e-25 | 100 |
| MS.gene58539.t1 | AT5G50290 | 31.373 | 255 | 150 | 11 | 2 | 241 | 22 | 266 | 1.66e-22 | 94.7 |
| MS.gene58539.t1 | AT1G11915 | 26.437 | 261 | 153 | 12 | 1 | 241 | 30 | 271 | 1.11e-16 | 79.0 |
Find 53 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCATAGTCAATTGAGGTAAT+AGG | 0.216590 | 5.3:+25612691 | None:intergenic |
| GCTTCAATGCAGTTCATATA+CGG | 0.269705 | 5.3:-25612332 | MS.gene58539:CDS |
| GAAGTGAGGGTCGCCGCAAC+CGG | 0.279119 | 5.3:+25612774 | None:intergenic |
| ACAATCTACTAAAGCGAATA+TGG | 0.279440 | 5.3:+25612558 | None:intergenic |
| TTCACATCATCTTACAATAA+TGG | 0.287235 | 5.3:-25612103 | MS.gene58539:CDS |
| GTTCTTTGCCACAATTTCTT+TGG | 0.298152 | 5.3:+25612824 | None:intergenic |
| GTGCTATCATCGAAAGTAAA+TGG | 0.321565 | 5.3:+25612580 | None:intergenic |
| GTGATGTGATGTATTCTTGT+AGG | 0.341763 | 5.3:-25612447 | MS.gene58539:CDS |
| CATAGTCAATTGAGGTAATA+GGG | 0.351341 | 5.3:+25612692 | None:intergenic |
| GCAAAGGCTTTGGCTTAGAT+TGG | 0.353620 | 5.3:-25612609 | MS.gene58539:CDS |
| GATCCTCAAAAGTGGAACTA+TGG | 0.374420 | 5.3:-25612280 | MS.gene58539:CDS |
| TTCGGTAGCGGCCCCGGTTG+CGG | 0.383447 | 5.3:-25612787 | MS.gene58539:CDS |
| AGGTTAATATTAGTACTAAT+AGG | 0.427315 | 5.3:+25612424 | None:intergenic |
| TACCCTTTCGGTAGCGGCCC+CGG | 0.428105 | 5.3:-25612793 | MS.gene58539:CDS |
| GTTTATACACCGGTTAATCT+TGG | 0.430829 | 5.3:-25612382 | MS.gene58539:CDS |
| TAAACACAACATGTCGAAAT+CGG | 0.436820 | 5.3:+25612400 | None:intergenic |
| GCTGCATGTGAAAGGAGCTT+TGG | 0.444173 | 5.3:-25612205 | MS.gene58539:CDS |
| AACAAATTGATCCTCAAAAG+TGG | 0.460285 | 5.3:-25612288 | MS.gene58539:CDS |
| GTAGTGGTGTTAATTCCATT+AGG | 0.460938 | 5.3:+25612136 | None:intergenic |
| AAGTGAGGGTCGCCGCAACC+GGG | 0.469465 | 5.3:+25612775 | None:intergenic |
| CTTCAATGCAGTTCATATAC+GGG | 0.472909 | 5.3:-25612331 | MS.gene58539:CDS |
| GAACCTCTCAAGTACCCTTT+CGG | 0.476764 | 5.3:-25612805 | MS.gene58539:CDS |
| AAAGCTGGACCAAGATTAAC+CGG | 0.476906 | 5.3:+25612373 | None:intergenic |
| TTGATTTGCATAGTCAATTG+AGG | 0.482998 | 5.3:+25612684 | None:intergenic |
| ACTCTACCTAGCAAAGGCTT+TGG | 0.486666 | 5.3:-25612619 | MS.gene58539:CDS |
| TGAAGATCCATATCAAAAGC+TGG | 0.499024 | 5.3:+25612358 | None:intergenic |
| TGTTGGCTGCAAGTTATATG+TGG | 0.504485 | 5.3:+25612748 | None:intergenic |
| AACCGGGGCCGCTACCGAAA+GGG | 0.520766 | 5.3:+25612791 | None:intergenic |
| CTCAAGTACCCTTTCGGTAG+CGG | 0.533088 | 5.3:-25612799 | MS.gene58539:CDS |
| CAACCGGGGCCGCTACCGAA+AGG | 0.537917 | 5.3:+25612790 | None:intergenic |
| AAATCAAGAAGTTATGATGA+TGG | 0.541719 | 5.3:-25612511 | MS.gene58539:CDS |
| TAGGCTCATCTTATAAGCAA+TGG | 0.553527 | 5.3:-25611745 | MS.gene58539:CDS |
| CAAATGTGCCAAAGAAATTG+TGG | 0.553792 | 5.3:-25612832 | MS.gene58539:CDS |
| GTTATATGTGGTTGGAAGTG+AGG | 0.554598 | 5.3:+25612760 | None:intergenic |
| TTATATGTGGTTGGAAGTGA+GGG | 0.556839 | 5.3:+25612761 | None:intergenic |
| TCACATGCAGCACAAGAGCT+AGG | 0.560587 | 5.3:+25612217 | None:intergenic |
| GACATGTTGTGTTTATACAC+CGG | 0.561125 | 5.3:-25612392 | MS.gene58539:CDS |
| GCTCTTGTGCTGCATGTGAA+AGG | 0.562347 | 5.3:-25612213 | MS.gene58539:CDS |
| GGCTGCAAGTTATATGTGGT+TGG | 0.563811 | 5.3:+25612752 | None:intergenic |
| GGAGCCTGTGTGTGTTGTGA+AGG | 0.568111 | 5.3:+25612717 | None:intergenic |
| AGTGAGGGTCGCCGCAACCG+GGG | 0.580490 | 5.3:+25612776 | None:intergenic |
| TCTAAGCCAAAGCCTTTGCT+AGG | 0.589191 | 5.3:+25612613 | None:intergenic |
| CAAGAACATGTTGACATGGT+GGG | 0.597427 | 5.3:+25612643 | None:intergenic |
| CACAACATGTCGAAATCGGA+AGG | 0.597606 | 5.3:+25612404 | None:intergenic |
| CTCATCTTATAAGCAATGGA+TGG | 0.598526 | 5.3:-25611741 | MS.gene58539:CDS |
| CTCACCTTCACAACACACAC+AGG | 0.609375 | 5.3:-25612721 | MS.gene58539:CDS |
| TCTTGTACTCTACCTAGCAA+AGG | 0.614050 | 5.3:-25612625 | MS.gene58539:CDS |
| GTCAATTGAGGTAATAGGGT+AGG | 0.619560 | 5.3:+25612696 | None:intergenic |
| CTACCGAAAGGGTACTTGAG+AGG | 0.634715 | 5.3:+25612802 | None:intergenic |
| AATCAAGCTTATGATCACCT+AGG | 0.658302 | 5.3:-25611714 | None:intergenic |
| ACAAGAACATGTTGACATGG+TGG | 0.665001 | 5.3:+25612642 | None:intergenic |
| AGTACAAGAACATGTTGACA+TGG | 0.667853 | 5.3:+25612639 | None:intergenic |
| TGTGAAGAAACAATCTGTAG+TGG | 0.691455 | 5.3:+25612120 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATATTTTAAAATTATTAT+CGG | - | chr5.3:25612642-25612661 | MS.gene58539:CDS | 0.0% |
| !!! | TAAGATTATTTTTTTTGAAA+AGG | - | chr5.3:25612535-25612554 | MS.gene58539:CDS | 10.0% |
| !! | TTAAAATGAATGAAAAAAGT+AGG | + | chr5.3:25612711-25612730 | None:intergenic | 15.0% |
| !! | AGGTTAATATTAGTACTAAT+AGG | + | chr5.3:25612123-25612142 | None:intergenic | 20.0% |
| !!! | ACACTAAAATTTAAGATTAG+AGG | - | chr5.3:25612559-25612578 | MS.gene58539:CDS | 20.0% |
| !!! | CACTAAAATTTAAGATTAGA+GGG | - | chr5.3:25612560-25612579 | MS.gene58539:CDS | 20.0% |
| !!! | TACAATAATGGTTTTAGAAA+TGG | - | chr5.3:25612453-25612472 | MS.gene58539:CDS | 20.0% |
| ! | AAATCAAGAAGTTATGATGA+TGG | - | chr5.3:25612033-25612052 | MS.gene58539:intron | 25.0% |
| ! | ATGCAATTGACAAATAAGAA+AGG | + | chr5.3:25612494-25612513 | None:intergenic | 25.0% |
| ! | TGCAATTGACAAATAAGAAA+GGG | + | chr5.3:25612493-25612512 | None:intergenic | 25.0% |
| ! | TTCACATCATCTTACAATAA+TGG | - | chr5.3:25612441-25612460 | MS.gene58539:CDS | 25.0% |
| !!! | TTCATTTTAATGACTTGTTC+TGG | - | chr5.3:25612721-25612740 | MS.gene58539:CDS | 25.0% |
| AACAAATTGATCCTCAAAAG+TGG | - | chr5.3:25612256-25612275 | MS.gene58539:CDS | 30.0% | |
| ACAATCTACTAAAGCGAATA+TGG | + | chr5.3:25611989-25612008 | None:intergenic | 30.0% | |
| ATTGAATGTAACAACAGTGT+TGG | + | chr5.3:25612622-25612641 | None:intergenic | 30.0% | |
| CATAGTCAATTGAGGTAATA+GGG | + | chr5.3:25611855-25611874 | None:intergenic | 30.0% | |
| TAAACACAACATGTCGAAAT+CGG | + | chr5.3:25612147-25612166 | None:intergenic | 30.0% | |
| ! | TTTTTATGCAACTGTCCTAA+TGG | - | chr5.3:25612393-25612412 | MS.gene58539:CDS | 30.0% |
| !! | ATTTTGATCACATTGAAGCT+TGG | + | chr5.3:25612067-25612086 | None:intergenic | 30.0% |
| !! | TTGATTTGCATAGTCAATTG+AGG | + | chr5.3:25611863-25611882 | None:intergenic | 30.0% |
| AGCAAACCCTGAAAACATAA+AGG | + | chr5.3:25612747-25612766 | None:intergenic | 35.0% | |
| AGTACAAGAACATGTTGACA+TGG | + | chr5.3:25611908-25611927 | None:intergenic | 35.0% | |
| CTCATCTTATAAGCAATGGA+TGG | - | chr5.3:25612803-25612822 | MS.gene58539:CDS | 35.0% | |
| CTTCAATGCAGTTCATATAC+GGG | - | chr5.3:25612213-25612232 | MS.gene58539:CDS | 35.0% | |
| GACATGTTGTGTTTATACAC+CGG | - | chr5.3:25612152-25612171 | MS.gene58539:CDS | 35.0% | |
| GCATAGTCAATTGAGGTAAT+AGG | + | chr5.3:25611856-25611875 | None:intergenic | 35.0% | |
| GCTTCAATGCAGTTCATATA+CGG | - | chr5.3:25612212-25612231 | MS.gene58539:CDS | 35.0% | |
| GTGATGTGATGTATTCTTGT+AGG | - | chr5.3:25612097-25612116 | MS.gene58539:CDS | 35.0% | |
| GTGCTATCATCGAAAGTAAA+TGG | + | chr5.3:25611967-25611986 | None:intergenic | 35.0% | |
| GTTCTTTGCCACAATTTCTT+TGG | + | chr5.3:25611723-25611742 | None:intergenic | 35.0% | |
| TAGGCTCATCTTATAAGCAA+TGG | - | chr5.3:25612799-25612818 | MS.gene58539:CDS | 35.0% | |
| TGAAGATCCATATCAAAAGC+TGG | + | chr5.3:25612189-25612208 | None:intergenic | 35.0% | |
| TGTGAAGAAACAATCTGTAG+TGG | + | chr5.3:25612427-25612446 | None:intergenic | 35.0% | |
| TTATATGTGGTTGGAAGTGA+GGG | + | chr5.3:25611786-25611805 | None:intergenic | 35.0% | |
| ! | CTTTTGCATGGTCTTTGATT+AGG | - | chr5.3:25612780-25612799 | MS.gene58539:CDS | 35.0% |
| ! | GTAGTGGTGTTAATTCCATT+AGG | + | chr5.3:25612411-25612430 | None:intergenic | 35.0% |
| ! | GTTTATACACCGGTTAATCT+TGG | - | chr5.3:25612162-25612181 | MS.gene58539:CDS | 35.0% |
| ! | TTGTGAAGGTGAGTTTTTGT+TGG | + | chr5.3:25611816-25611835 | None:intergenic | 35.0% |
| !! | ATTATTATCGGTGTTGTGTC+AGG | - | chr5.3:25612654-25612673 | MS.gene58539:CDS | 35.0% |
| !! | ATTCCATAGTTCCACTTTTG+AGG | + | chr5.3:25612270-25612289 | None:intergenic | 35.0% |
| !! | GGTTGATATATGCTTTTGCA+TGG | - | chr5.3:25612768-25612787 | MS.gene58539:CDS | 35.0% |
| !! | TTATGTTTTCAGGGTTTGCT+TGG | - | chr5.3:25612747-25612766 | MS.gene58539:CDS | 35.0% |
| !! | TTCTGGCCTTTATGTTTTCA+GGG | - | chr5.3:25612738-25612757 | MS.gene58539:CDS | 35.0% |
| AAAGCTGGACCAAGATTAAC+CGG | + | chr5.3:25612174-25612193 | None:intergenic | 40.0% | |
| ACAAGAACATGTTGACATGG+TGG | + | chr5.3:25611905-25611924 | None:intergenic | 40.0% | |
| CAAGAACATGTTGACATGGT+GGG | + | chr5.3:25611904-25611923 | None:intergenic | 40.0% | |
| GATCCTCAAAAGTGGAACTA+TGG | - | chr5.3:25612264-25612283 | MS.gene58539:CDS | 40.0% | |
| GTCAATTGAGGTAATAGGGT+AGG | + | chr5.3:25611851-25611870 | None:intergenic | 40.0% | |
| GTTATATGTGGTTGGAAGTG+AGG | + | chr5.3:25611787-25611806 | None:intergenic | 40.0% | |
| TCTTGTACTCTACCTAGCAA+AGG | - | chr5.3:25611919-25611938 | MS.gene58539:intron | 40.0% | |
| ! | TCTTGGTCCAGCTTTTGATA+TGG | - | chr5.3:25612179-25612198 | MS.gene58539:CDS | 40.0% |
| ! | TGTTGGCTGCAAGTTATATG+TGG | + | chr5.3:25611799-25611818 | None:intergenic | 40.0% |
| !! | GTTCTGGCCTTTATGTTTTC+AGG | - | chr5.3:25612737-25612756 | MS.gene58539:CDS | 40.0% |
| !!! | GAAAGGAGCTTTGGATTTTG+TGG | - | chr5.3:25612348-25612367 | MS.gene58539:CDS | 40.0% |
| ACTCTACCTAGCAAAGGCTT+TGG | - | chr5.3:25611925-25611944 | MS.gene58539:intron | 45.0% | |
| CACAACATGTCGAAATCGGA+AGG | + | chr5.3:25612143-25612162 | None:intergenic | 45.0% | |
| GAACCTCTCAAGTACCCTTT+CGG | - | chr5.3:25611739-25611758 | MS.gene58539:CDS | 45.0% | |
| GGCTGCAAGTTATATGTGGT+TGG | + | chr5.3:25611795-25611814 | None:intergenic | 45.0% | |
| TCTAAGCCAAAGCCTTTGCT+AGG | + | chr5.3:25611934-25611953 | None:intergenic | 45.0% | |
| ! | GCAAAGGCTTTGGCTTAGAT+TGG | - | chr5.3:25611935-25611954 | MS.gene58539:intron | 45.0% |
| CTCAAGTACCCTTTCGGTAG+CGG | - | chr5.3:25611745-25611764 | MS.gene58539:CDS | 50.0% | |
| CTCACCTTCACAACACACAC+AGG | - | chr5.3:25611823-25611842 | MS.gene58539:intron | 50.0% | |
| GCTCTTGTGCTGCATGTGAA+AGG | - | chr5.3:25612331-25612350 | MS.gene58539:CDS | 50.0% | |
| GCTGCATGTGAAAGGAGCTT+TGG | - | chr5.3:25612339-25612358 | MS.gene58539:CDS | 50.0% | |
| TCACATGCAGCACAAGAGCT+AGG | + | chr5.3:25612330-25612349 | None:intergenic | 50.0% | |
| !! | CTACCGAAAGGGTACTTGAG+AGG | + | chr5.3:25611745-25611764 | None:intergenic | 50.0% |
| GGAGCCTGTGTGTGTTGTGA+AGG | + | chr5.3:25611830-25611849 | None:intergenic | 55.0% | |
| AACCGGGGCCGCTACCGAAA+GGG | + | chr5.3:25611756-25611775 | None:intergenic | 65.0% | |
| AAGTGAGGGTCGCCGCAACC+GGG | + | chr5.3:25611772-25611791 | None:intergenic | 65.0% | |
| GAAGTGAGGGTCGCCGCAAC+CGG | + | chr5.3:25611773-25611792 | None:intergenic | 65.0% | |
| ! | TACCCTTTCGGTAGCGGCCC+CGG | - | chr5.3:25611751-25611770 | MS.gene58539:intron | 65.0% |
| AGTGAGGGTCGCCGCAACCG+GGG | + | chr5.3:25611771-25611790 | None:intergenic | 70.0% | |
| CAACCGGGGCCGCTACCGAA+AGG | + | chr5.3:25611757-25611776 | None:intergenic | 70.0% | |
| ! | TTCGGTAGCGGCCCCGGTTG+CGG | - | chr5.3:25611757-25611776 | MS.gene58539:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 25611715 | 25612851 | 25611715 | ID=MS.gene58539 |
| chr5.3 | mRNA | 25611715 | 25612851 | 25611715 | ID=MS.gene58539.t1;Parent=MS.gene58539 |
| chr5.3 | exon | 25612092 | 25612851 | 25612092 | ID=MS.gene58539.t1.exon1;Parent=MS.gene58539.t1 |
| chr5.3 | CDS | 25612092 | 25612851 | 25612092 | ID=cds.MS.gene58539.t1;Parent=MS.gene58539.t1 |
| chr5.3 | exon | 25611715 | 25611764 | 25611715 | ID=MS.gene58539.t1.exon2;Parent=MS.gene58539.t1 |
| chr5.3 | CDS | 25611715 | 25611764 | 25611715 | ID=cds.MS.gene58539.t1;Parent=MS.gene58539.t1 |
| Gene Sequence |
| Protein sequence |
