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.gene027939.t1 | AFK38539.1 | 91.8 | 220 | 17 | 1 | 2 | 220 | 63 | 282 | 2.60E-82 | 315.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027939.t1 | Q9LFD5 | 62.1 | 198 | 64 | 4 | 2 | 194 | 62 | 253 | 1.7e-37 | 157.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027939.t1 | A0A396HQQ7 | 91.8 | 220 | 17 | 1 | 2 | 220 | 63 | 282 | 1.9e-82 | 315.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene027939 | MS.gene042447 | PPI |
| MS.gene027939 | MS.gene067833 | PPI |
| MS.gene027939 | MS.gene08184 | PPI |
| MS.gene027939 | MS.gene41753 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027939.t1 | MTR_5g029640 | 93.519 | 216 | 13 | 1 | 2 | 216 | 63 | 278 | 5.88e-132 | 379 |
| MS.gene027939.t1 | MTR_5g029640 | 95.513 | 156 | 7 | 0 | 46 | 201 | 279 | 434 | 2.80e-97 | 291 |
| MS.gene027939.t1 | MTR_8g066460 | 80.822 | 219 | 40 | 1 | 2 | 220 | 63 | 279 | 1.23e-119 | 341 |
| MS.gene027939.t1 | MTR_8g066460 | 80.822 | 219 | 40 | 1 | 2 | 220 | 79 | 295 | 3.77e-119 | 340 |
| MS.gene027939.t1 | MTR_1g032860 | 53.535 | 198 | 80 | 3 | 2 | 192 | 91 | 283 | 8.27e-61 | 193 |
| MS.gene027939.t1 | MTR_8g105910 | 51.724 | 203 | 87 | 2 | 2 | 197 | 91 | 289 | 4.24e-60 | 191 |
| MS.gene027939.t1 | MTR_7g086080 | 44.792 | 192 | 88 | 3 | 2 | 177 | 63 | 252 | 1.76e-42 | 144 |
| MS.gene027939.t1 | MTR_5g039130 | 35.870 | 184 | 97 | 3 | 2 | 169 | 67 | 245 | 6.07e-27 | 103 |
| MS.gene027939.t1 | MTR_7g010100 | 34.014 | 147 | 79 | 3 | 34 | 169 | 113 | 252 | 1.07e-15 | 73.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027939.t1 | AT4G17720 | 64.679 | 218 | 72 | 3 | 2 | 214 | 63 | 280 | 1.08e-88 | 264 |
| MS.gene027939.t1 | AT5G46870 | 62.844 | 218 | 72 | 3 | 2 | 210 | 63 | 280 | 1.13e-79 | 240 |
| MS.gene027939.t1 | AT5G46870 | 62.844 | 218 | 72 | 3 | 2 | 210 | 63 | 280 | 1.13e-79 | 240 |
| MS.gene027939.t1 | AT5G16840 | 64.368 | 174 | 57 | 3 | 2 | 175 | 62 | 230 | 2.32e-70 | 216 |
| MS.gene027939.t1 | AT5G16840 | 64.368 | 174 | 57 | 3 | 2 | 175 | 63 | 231 | 2.58e-70 | 215 |
| MS.gene027939.t1 | AT5G16840 | 64.368 | 174 | 57 | 3 | 2 | 175 | 60 | 228 | 3.26e-70 | 215 |
| MS.gene027939.t1 | AT1G67950 | 48.370 | 184 | 84 | 3 | 2 | 185 | 29 | 201 | 7.20e-49 | 159 |
| MS.gene027939.t1 | AT1G67950 | 47.826 | 184 | 86 | 2 | 2 | 185 | 88 | 261 | 8.45e-49 | 161 |
| MS.gene027939.t1 | AT1G67950 | 48.370 | 184 | 84 | 3 | 2 | 185 | 88 | 260 | 3.97e-48 | 159 |
| MS.gene027939.t1 | AT1G67950 | 48.370 | 184 | 84 | 3 | 2 | 185 | 89 | 261 | 4.45e-48 | 159 |
| MS.gene027939.t1 | AT5G32450 | 45.989 | 187 | 86 | 2 | 2 | 173 | 64 | 250 | 4.54e-43 | 146 |
| MS.gene027939.t1 | AT1G14340 | 35.754 | 179 | 100 | 2 | 2 | 169 | 66 | 240 | 5.23e-24 | 96.3 |
| MS.gene027939.t1 | AT3G01210 | 32.065 | 184 | 103 | 3 | 2 | 167 | 65 | 244 | 3.83e-16 | 75.1 |
| MS.gene027939.t1 | AT3G01210 | 32.065 | 184 | 103 | 3 | 2 | 167 | 65 | 244 | 3.83e-16 | 75.1 |
Find 49 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCACTTACTGCTGCTGCTTT+TGG | 0.172080 | 5.2:+20497755 | None:intergenic |
| AGAAGTGGATCAAAAGTTTC+TGG | 0.237272 | 5.2:-20498017 | MS.gene027939:CDS |
| TACATAGCGATTCTTCATTA+TGG | 0.279605 | 5.2:+20497931 | None:intergenic |
| GCCTGGTCCTGCTCCTGCTC+AGG | 0.286119 | 5.2:-20497717 | MS.gene027939:CDS |
| ACTGGGGCCTCTTGGGTAAC+AGG | 0.312830 | 5.2:-20497905 | MS.gene027939:CDS |
| CTGAGGCTTTCGATGATAAC+TGG | 0.317547 | 5.2:+20498122 | None:intergenic |
| GCAGCCAAAGGCTTTATCTT+AGG | 0.324517 | 5.2:-20498187 | MS.gene027939:CDS |
| AAGAATCGCTATGTACTTAC+TGG | 0.334978 | 5.2:-20497923 | MS.gene027939:CDS |
| CTTGGGCTTAGTGAGAAAAT+AGG | 0.358546 | 5.2:-20498073 | MS.gene027939:CDS |
| TCAGGTGGAAGCTGGTAATC+TGG | 0.379435 | 5.2:+20498384 | None:intergenic |
| TGTACTTACTGGGGCCTCTT+GGG | 0.389213 | 5.2:-20497912 | MS.gene027939:CDS |
| CCAGCTTCCACCTGATGTCC+TGG | 0.402216 | 5.2:-20498376 | MS.gene027939:CDS |
| ATGTACTTACTGGGGCCTCT+TGG | 0.411693 | 5.2:-20497913 | MS.gene027939:CDS |
| TTTGCCTAAGATAAAGCCTT+TGG | 0.412306 | 5.2:+20498183 | None:intergenic |
| CTCTGCTTTGCGGAAGGCAG+AGG | 0.460878 | 5.2:-20498227 | MS.gene027939:CDS |
| AGCAGGAGCAGGACCAGGCT+TGG | 0.466748 | 5.2:+20497721 | None:intergenic |
| TCAGAAAACAAAAGAGAAAG+TGG | 0.468617 | 5.2:-20497843 | MS.gene027939:CDS |
| ACAGGTGAAACCAGGACATC+AGG | 0.473780 | 5.2:+20498366 | None:intergenic |
| CCTGGTCCTGCTCCTGCTCA+GGG | 0.474520 | 5.2:-20497716 | MS.gene027939:CDS |
| GATAAAGCCTTTGGCTGCCA+TGG | 0.497348 | 5.2:+20498192 | None:intergenic |
| CAAAGGATCAAACCCTGAGC+AGG | 0.508481 | 5.2:+20497704 | None:intergenic |
| CCCTGAGCAGGAGCAGGACC+AGG | 0.511908 | 5.2:+20497716 | None:intergenic |
| GAGCAGAAGTCTTCCAAGCC+TGG | 0.512092 | 5.2:-20497734 | MS.gene027939:CDS |
| ATCAAACCCTGAGCAGGAGC+AGG | 0.514850 | 5.2:+20497710 | None:intergenic |
| CCAGGACATCAGGTGGAAGC+TGG | 0.539426 | 5.2:+20498376 | None:intergenic |
| TGCTGACTCTGCTTTGCGGA+AGG | 0.545827 | 5.2:-20498233 | MS.gene027939:CDS |
| AAAGCAGAGTCAGCACCACC+AGG | 0.550514 | 5.2:+20498241 | None:intergenic |
| AGAATCGCTATGTACTTACT+GGG | 0.560460 | 5.2:-20497922 | MS.gene027939:CDS |
| GTAAGTGAAAGTAAAACTCC+TGG | 0.566343 | 5.2:-20498259 | MS.gene027939:CDS |
| TCTAAGGCAGCTGTAGAAGT+AGG | 0.569408 | 5.2:-20497866 | MS.gene027939:CDS |
| GAGTGATAAAGTTCGAGAAG+TGG | 0.574003 | 5.2:-20498032 | MS.gene027939:CDS |
| CCAGAGTTATTGTAACCGAC+AGG | 0.574661 | 5.2:+20498409 | None:intergenic |
| GTGGTGCTGACTCTGCTTTG+CGG | 0.575762 | 5.2:-20498237 | MS.gene027939:CDS |
| CCTGTCGGTTACAATAACTC+TGG | 0.579610 | 5.2:-20498409 | MS.gene027939:CDS |
| GTCTCGACCATGGCAGCCAA+AGG | 0.583043 | 5.2:-20498199 | MS.gene027939:CDS |
| GAACAGACAGTCAGTACCGC+TGG | 0.585550 | 5.2:-20497959 | MS.gene027939:CDS |
| AAAATCAGCATTTGCAGCTG+CGG | 0.587626 | 5.2:-20497981 | MS.gene027939:CDS |
| AACAGATGCAACTGTTGCTG+AGG | 0.591922 | 5.2:+20498105 | None:intergenic |
| GGTTGAAGATCAATATGCAC+AGG | 0.603498 | 5.2:-20497792 | MS.gene027939:CDS |
| AGAACAGCAAGAGAAGCGAC+AGG | 0.607277 | 5.2:-20497813 | MS.gene027939:CDS |
| ACAGGCTCACAGGTGAAACC+AGG | 0.611215 | 5.2:+20498358 | None:intergenic |
| CTTCATTATGGCAGAACCAG+CGG | 0.621990 | 5.2:+20497943 | None:intergenic |
| CTTAGTGAGAAAATAGGTGC+TGG | 0.632545 | 5.2:-20498067 | MS.gene027939:CDS |
| AAAAGCACCTGTTACCCAAG+AGG | 0.646587 | 5.2:+20497898 | None:intergenic |
| AGCAACAATCGTCGACCTGT+CGG | 0.648969 | 5.2:-20498424 | MS.gene027939:CDS |
| GGTGAAACCAGGACATCAGG+TGG | 0.653918 | 5.2:+20498369 | None:intergenic |
| AGAGGATGTAGTCTCGACCA+TGG | 0.679495 | 5.2:-20498209 | MS.gene027939:CDS |
| AGTGAAAGTAAAACTCCTGG+TGG | 0.700864 | 5.2:-20498256 | MS.gene027939:CDS |
| GAATCGCTATGTACTTACTG+GGG | 0.704674 | 5.2:-20497921 | MS.gene027939:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAAAAATTTACATGTTTATA+AGG | + | chr5.2:20498008-20498027 | None:intergenic | 15.0% |
| !!! | ATAAACATGTAAATTTTTGC+AGG | - | chr5.2:20498009-20498028 | MS.gene027939:CDS | 20.0% |
| ! | CATGCAATAAAAATTACAGA+GGG | + | chr5.2:20497964-20497983 | None:intergenic | 25.0% |
| ! | CATTAGAATAATACAATCTG+AGG | + | chr5.2:20497728-20497747 | None:intergenic | 25.0% |
| ! | TTCTAATGTAACAGTATGTT+TGG | - | chr5.2:20497740-20497759 | MS.gene027939:CDS | 25.0% |
| ATGTGAAACTGCGTTATATT+TGG | + | chr5.2:20497837-20497856 | None:intergenic | 30.0% | |
| GCATGCAATAAAAATTACAG+AGG | + | chr5.2:20497965-20497984 | None:intergenic | 30.0% | |
| TACATAGCGATTCTTCATTA+TGG | + | chr5.2:20498362-20498381 | None:intergenic | 30.0% | |
| TCAGAAAACAAAAGAGAAAG+TGG | - | chr5.2:20498447-20498466 | MS.gene027939:intron | 30.0% | |
| TTTATTGCATGCAAGTAAGT+AGG | - | chr5.2:20497973-20497992 | MS.gene027939:CDS | 30.0% | |
| AACGCAGTTTCACATATTTC+AGG | - | chr5.2:20497842-20497861 | MS.gene027939:CDS | 35.0% | |
| AAGAATCGCTATGTACTTAC+TGG | - | chr5.2:20498367-20498386 | MS.gene027939:intron | 35.0% | |
| ACGCAGTTTCACATATTTCA+GGG | - | chr5.2:20497843-20497862 | MS.gene027939:CDS | 35.0% | |
| AGAAGTGGATCAAAAGTTTC+TGG | - | chr5.2:20498273-20498292 | MS.gene027939:intron | 35.0% | |
| AGAATCGCTATGTACTTACT+GGG | - | chr5.2:20498368-20498387 | MS.gene027939:CDS | 35.0% | |
| CATCTGTTGACCAAAAACTT+GGG | - | chr5.2:20498200-20498219 | MS.gene027939:CDS | 35.0% | |
| GTAAGTGAAAGTAAAACTCC+TGG | - | chr5.2:20498031-20498050 | MS.gene027939:CDS | 35.0% | |
| TTTGCCTAAGATAAAGCCTT+TGG | + | chr5.2:20498110-20498129 | None:intergenic | 35.0% | |
| ! | TGCAAGTAAGTAGGCTATTT+TGG | - | chr5.2:20497982-20498001 | MS.gene027939:CDS | 35.0% |
| ! | TGCTTTTAACAGGGTTTCTA+AGG | - | chr5.2:20498408-20498427 | MS.gene027939:CDS | 35.0% |
| AAAATCAGCATTTGCAGCTG+CGG | - | chr5.2:20498309-20498328 | MS.gene027939:intron | 40.0% | |
| AGTGAAAGTAAAACTCCTGG+TGG | - | chr5.2:20498034-20498053 | MS.gene027939:CDS | 40.0% | |
| CTTAGTGAGAAAATAGGTGC+TGG | - | chr5.2:20498223-20498242 | MS.gene027939:CDS | 40.0% | |
| CTTGGGCTTAGTGAGAAAAT+AGG | - | chr5.2:20498217-20498236 | MS.gene027939:CDS | 40.0% | |
| GAATCGCTATGTACTTACTG+GGG | - | chr5.2:20498369-20498388 | MS.gene027939:CDS | 40.0% | |
| GAGTGATAAAGTTCGAGAAG+TGG | - | chr5.2:20498258-20498277 | MS.gene027939:CDS | 40.0% | |
| GCATCTGTTGACCAAAAACT+TGG | - | chr5.2:20498199-20498218 | MS.gene027939:CDS | 40.0% | |
| GGTTGAAGATCAATATGCAC+AGG | - | chr5.2:20498498-20498517 | MS.gene027939:intron | 40.0% | |
| ! | AATTACAGAGGGTCTAAGAC+AGG | + | chr5.2:20497953-20497972 | None:intergenic | 40.0% |
| ! | GGTAACAGGTGCTTTTAACA+GGG | - | chr5.2:20498399-20498418 | MS.gene027939:CDS | 40.0% |
| ! | TCTCACTAAGCCCAAGTTTT+TGG | + | chr5.2:20498213-20498232 | None:intergenic | 40.0% |
| AACAGATGCAACTGTTGCTG+AGG | + | chr5.2:20498188-20498207 | None:intergenic | 45.0% | |
| CCAGAGTTATTGTAACCGAC+AGG | + | chr5.2:20497884-20497903 | None:intergenic | 45.0% | |
| CTGAGGCTTTCGATGATAAC+TGG | + | chr5.2:20498171-20498190 | None:intergenic | 45.0% | |
| CTTCATTATGGCAGAACCAG+CGG | + | chr5.2:20498350-20498369 | None:intergenic | 45.0% | |
| ! | CCTGTCGGTTACAATAACTC+TGG | - | chr5.2:20497881-20497900 | MS.gene027939:CDS | 45.0% |
| ! | GCAGCCAAAGGCTTTATCTT+AGG | - | chr5.2:20498103-20498122 | MS.gene027939:CDS | 45.0% |
| ! | GGGTAACAGGTGCTTTTAAC+AGG | - | chr5.2:20498398-20498417 | MS.gene027939:CDS | 45.0% |
| ! | TCTAAGGCAGCTGTAGAAGT+AGG | - | chr5.2:20498424-20498443 | MS.gene027939:CDS | 45.0% |
| !! | AAAAGCACCTGTTACCCAAG+AGG | + | chr5.2:20498395-20498414 | None:intergenic | 45.0% |
| !!! | ACTTACTGCTGCTGCTTTTG+GGG | + | chr5.2:20498536-20498555 | None:intergenic | 45.0% |
| !!! | CACTTACTGCTGCTGCTTTT+GGG | + | chr5.2:20498537-20498556 | None:intergenic | 45.0% |
| !!! | TCACTTACTGCTGCTGCTTT+TGG | + | chr5.2:20498538-20498557 | None:intergenic | 45.0% |
| ACAGGTGAAACCAGGACATC+AGG | + | chr5.2:20497927-20497946 | None:intergenic | 50.0% | |
| AGAACAGCAAGAGAAGCGAC+AGG | - | chr5.2:20498477-20498496 | MS.gene027939:intron | 50.0% | |
| AGAGGATGTAGTCTCGACCA+TGG | - | chr5.2:20498081-20498100 | MS.gene027939:CDS | 50.0% | |
| AGCAACAATCGTCGACCTGT+CGG | - | chr5.2:20497866-20497885 | MS.gene027939:CDS | 50.0% | |
| ATGTACTTACTGGGGCCTCT+TGG | - | chr5.2:20498377-20498396 | MS.gene027939:CDS | 50.0% | |
| CAAAGGATCAAACCCTGAGC+AGG | + | chr5.2:20498589-20498608 | None:intergenic | 50.0% | |
| GATAAAGCCTTTGGCTGCCA+TGG | + | chr5.2:20498101-20498120 | None:intergenic | 50.0% | |
| TCAGGTGGAAGCTGGTAATC+TGG | + | chr5.2:20497909-20497928 | None:intergenic | 50.0% | |
| TGTACTTACTGGGGCCTCTT+GGG | - | chr5.2:20498378-20498397 | MS.gene027939:CDS | 50.0% | |
| !!! | CTTACTGCTGCTGCTTTTGG+GGG | + | chr5.2:20498535-20498554 | None:intergenic | 50.0% |
| AAAGCAGAGTCAGCACCACC+AGG | + | chr5.2:20498052-20498071 | None:intergenic | 55.0% | |
| ACAGGCTCACAGGTGAAACC+AGG | + | chr5.2:20497935-20497954 | None:intergenic | 55.0% | |
| ATCAAACCCTGAGCAGGAGC+AGG | + | chr5.2:20498583-20498602 | None:intergenic | 55.0% | |
| GAACAGACAGTCAGTACCGC+TGG | - | chr5.2:20498331-20498350 | MS.gene027939:intron | 55.0% | |
| GAGCAGAAGTCTTCCAAGCC+TGG | - | chr5.2:20498556-20498575 | MS.gene027939:intron | 55.0% | |
| GGTGAAACCAGGACATCAGG+TGG | + | chr5.2:20497924-20497943 | None:intergenic | 55.0% | |
| ! | AGGGTCTAAGACAGGCTCAC+AGG | + | chr5.2:20497945-20497964 | None:intergenic | 55.0% |
| !! | CTGCTTTTGGGGGCTCAGAA+AGG | + | chr5.2:20498525-20498544 | None:intergenic | 55.0% |
| !! | GTGGTGCTGACTCTGCTTTG+CGG | - | chr5.2:20498053-20498072 | MS.gene027939:CDS | 55.0% |
| !! | TGCTGACTCTGCTTTGCGGA+AGG | - | chr5.2:20498057-20498076 | MS.gene027939:CDS | 55.0% |
| ACTGGGGCCTCTTGGGTAAC+AGG | - | chr5.2:20498385-20498404 | MS.gene027939:CDS | 60.0% | |
| CCAGCTTCCACCTGATGTCC+TGG | - | chr5.2:20497914-20497933 | MS.gene027939:CDS | 60.0% | |
| CCAGGACATCAGGTGGAAGC+TGG | + | chr5.2:20497917-20497936 | None:intergenic | 60.0% | |
| CTCTGCTTTGCGGAAGGCAG+AGG | - | chr5.2:20498063-20498082 | MS.gene027939:CDS | 60.0% | |
| GTCTCGACCATGGCAGCCAA+AGG | - | chr5.2:20498091-20498110 | MS.gene027939:CDS | 60.0% | |
| AGCAGGAGCAGGACCAGGCT+TGG | + | chr5.2:20498572-20498591 | None:intergenic | 65.0% | |
| CCTGGTCCTGCTCCTGCTCA+GGG | - | chr5.2:20498574-20498593 | MS.gene027939:intron | 65.0% | |
| CCCTGAGCAGGAGCAGGACC+AGG | + | chr5.2:20498577-20498596 | None:intergenic | 70.0% | |
| GCCTGGTCCTGCTCCTGCTC+AGG | - | chr5.2:20498573-20498592 | MS.gene027939:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.2 | gene | 20497703 | 20498609 | 20497703 | ID=MS.gene027939 |
| chr5.2 | mRNA | 20497703 | 20498609 | 20497703 | ID=MS.gene027939.t1;Parent=MS.gene027939 |
| chr5.2 | exon | 20498607 | 20498609 | 20498607 | ID=MS.gene027939.t1.exon1;Parent=MS.gene027939.t1 |
| chr5.2 | CDS | 20498607 | 20498609 | 20498607 | ID=cds.MS.gene027939.t1;Parent=MS.gene027939.t1 |
| chr5.2 | exon | 20498368 | 20498448 | 20498368 | ID=MS.gene027939.t1.exon2;Parent=MS.gene027939.t1 |
| chr5.2 | CDS | 20498368 | 20498448 | 20498368 | ID=cds.MS.gene027939.t1;Parent=MS.gene027939.t1 |
| chr5.2 | exon | 20497703 | 20498281 | 20497703 | ID=MS.gene027939.t1.exon3;Parent=MS.gene027939.t1 |
| chr5.2 | CDS | 20497703 | 20498281 | 20497703 | ID=cds.MS.gene027939.t1;Parent=MS.gene027939.t1 |
| Gene Sequence |
| Protein sequence |
