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.gene068435.t1 | XP_020207165.1 | 59.8 | 92 | 37 | 0 | 1 | 92 | 154 | 245 | 2.00E-18 | 102.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene068435.t1 | B9S1N2 | 47.2 | 89 | 47 | 0 | 4 | 92 | 149 | 237 | 1.9e-14 | 80.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene068435.t1 | A0A396GY77 | 45.9 | 122 | 66 | 0 | 4 | 125 | 94 | 215 | 2.4e-18 | 101.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene060118 | MS.gene068435 | 0.865587 | 5.30E-65 | -1.69E-46 |
| MS.gene060119 | MS.gene068435 | 0.801811 | 7.55E-49 | -1.69E-46 |
| MS.gene060120 | MS.gene068435 | 0.824757 | 6.79E-54 | -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.gene068435.t1 | MTR_5g062230 | 67.742 | 93 | 30 | 0 | 1 | 93 | 146 | 238 | 1.56e-36 | 130 |
| MS.gene068435.t1 | MTR_6g008560 | 67.742 | 93 | 30 | 0 | 1 | 93 | 150 | 242 | 1.82e-36 | 130 |
| MS.gene068435.t1 | MTR_6g008560 | 69.767 | 86 | 26 | 0 | 8 | 93 | 1 | 86 | 3.85e-34 | 122 |
| MS.gene068435.t1 | MTR_4g048460 | 62.366 | 93 | 35 | 0 | 1 | 93 | 154 | 246 | 7.43e-34 | 122 |
| MS.gene068435.t1 | MTR_4g048460 | 62.366 | 93 | 35 | 0 | 1 | 93 | 154 | 246 | 1.53e-33 | 122 |
| MS.gene068435.t1 | MTR_6g039440 | 63.441 | 93 | 34 | 0 | 1 | 93 | 146 | 238 | 1.57e-33 | 122 |
| MS.gene068435.t1 | MTR_5g094620 | 64.516 | 93 | 33 | 0 | 1 | 93 | 130 | 222 | 1.97e-33 | 122 |
| MS.gene068435.t1 | MTR_4g081460 | 61.290 | 93 | 36 | 0 | 1 | 93 | 155 | 247 | 5.30e-33 | 121 |
| MS.gene068435.t1 | MTR_5g073260 | 63.441 | 93 | 34 | 0 | 1 | 93 | 145 | 237 | 2.90e-32 | 119 |
| MS.gene068435.t1 | MTR_3g464190 | 64.516 | 93 | 33 | 0 | 1 | 93 | 150 | 242 | 5.94e-32 | 118 |
| MS.gene068435.t1 | MTR_5g073200 | 60.215 | 93 | 37 | 0 | 1 | 93 | 142 | 234 | 2.65e-30 | 113 |
| MS.gene068435.t1 | MTR_8g007515 | 51.579 | 95 | 44 | 1 | 1 | 93 | 146 | 240 | 1.09e-26 | 103 |
| MS.gene068435.t1 | MTR_5g094530 | 63.291 | 79 | 25 | 2 | 18 | 93 | 1 | 78 | 1.28e-24 | 93.2 |
| MS.gene068435.t1 | MTR_2g082010 | 47.253 | 91 | 47 | 1 | 3 | 92 | 162 | 252 | 7.50e-22 | 89.7 |
| MS.gene068435.t1 | MTR_2g081980 | 48.913 | 92 | 46 | 1 | 3 | 93 | 150 | 241 | 1.62e-21 | 89.0 |
| MS.gene068435.t1 | MTR_2g082050 | 45.652 | 92 | 49 | 1 | 3 | 93 | 86 | 177 | 1.68e-21 | 88.6 |
| MS.gene068435.t1 | MTR_4g019550 | 44.565 | 92 | 50 | 1 | 3 | 93 | 157 | 248 | 6.27e-20 | 84.3 |
| MS.gene068435.t1 | MTR_2g082060 | 42.553 | 94 | 53 | 1 | 1 | 93 | 154 | 247 | 4.13e-19 | 82.0 |
| MS.gene068435.t1 | MTR_4g045810 | 36.842 | 114 | 69 | 1 | 1 | 114 | 173 | 283 | 3.62e-15 | 70.9 |
| MS.gene068435.t1 | MTR_2g089130 | 38.043 | 92 | 57 | 0 | 1 | 92 | 159 | 250 | 8.93e-14 | 67.0 |
| MS.gene068435.t1 | MTR_2g089120 | 35.870 | 92 | 59 | 0 | 1 | 92 | 159 | 250 | 2.13e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene068435.t1 | AT5G23960 | 43.011 | 93 | 53 | 0 | 1 | 93 | 139 | 231 | 3.27e-20 | 85.1 |
| MS.gene068435.t1 | AT5G23960 | 43.011 | 93 | 53 | 0 | 1 | 93 | 139 | 231 | 3.54e-20 | 85.1 |
| MS.gene068435.t1 | AT1G31950 | 40.678 | 118 | 64 | 3 | 1 | 113 | 195 | 311 | 6.41e-19 | 81.6 |
| MS.gene068435.t1 | AT1G31950 | 40.678 | 118 | 64 | 3 | 1 | 113 | 195 | 311 | 6.55e-19 | 81.6 |
| MS.gene068435.t1 | AT1G31950 | 40.678 | 118 | 64 | 3 | 1 | 113 | 194 | 310 | 7.21e-19 | 81.3 |
| MS.gene068435.t1 | AT5G44630 | 39.640 | 111 | 64 | 2 | 1 | 108 | 146 | 256 | 7.73e-18 | 78.6 |
| MS.gene068435.t1 | AT3G29190 | 41.053 | 95 | 54 | 1 | 1 | 93 | 190 | 284 | 1.10e-17 | 78.2 |
| MS.gene068435.t1 | AT3G14490 | 40.566 | 106 | 58 | 2 | 1 | 101 | 190 | 295 | 1.22e-17 | 77.8 |
| MS.gene068435.t1 | AT3G14540 | 39.623 | 106 | 59 | 2 | 1 | 101 | 189 | 294 | 7.49e-17 | 75.5 |
| MS.gene068435.t1 | AT3G14540 | 39.623 | 106 | 59 | 2 | 1 | 101 | 189 | 294 | 8.35e-17 | 75.5 |
| MS.gene068435.t1 | AT4G20200 | 39.091 | 110 | 65 | 1 | 1 | 108 | 193 | 302 | 9.76e-17 | 75.5 |
| MS.gene068435.t1 | AT4G15870 | 41.304 | 92 | 52 | 1 | 4 | 93 | 202 | 293 | 9.42e-16 | 72.4 |
| MS.gene068435.t1 | AT4G20210 | 43.478 | 92 | 50 | 1 | 4 | 93 | 192 | 283 | 1.22e-15 | 72.4 |
| MS.gene068435.t1 | AT3G32030 | 39.286 | 112 | 63 | 4 | 1 | 108 | 193 | 303 | 1.95e-15 | 71.6 |
| MS.gene068435.t1 | AT3G14520 | 37.168 | 113 | 65 | 3 | 1 | 108 | 192 | 303 | 2.54e-15 | 71.2 |
| MS.gene068435.t1 | AT4G13280 | 37.895 | 95 | 57 | 1 | 1 | 93 | 143 | 237 | 2.61e-15 | 71.2 |
| MS.gene068435.t1 | AT1G70080 | 38.182 | 110 | 64 | 1 | 4 | 109 | 201 | 310 | 2.67e-15 | 71.2 |
| MS.gene068435.t1 | AT4G13280 | 37.895 | 95 | 57 | 1 | 1 | 93 | 143 | 237 | 2.82e-15 | 71.2 |
| MS.gene068435.t1 | AT4G13300 | 34.862 | 109 | 69 | 1 | 1 | 107 | 143 | 251 | 3.29e-15 | 70.9 |
| MS.gene068435.t1 | AT1G66020 | 42.222 | 90 | 50 | 1 | 6 | 93 | 192 | 281 | 3.68e-15 | 70.9 |
| MS.gene068435.t1 | AT3G29410 | 38.835 | 103 | 61 | 2 | 1 | 101 | 89 | 191 | 4.03e-15 | 70.9 |
| MS.gene068435.t1 | AT3G29410 | 38.835 | 103 | 61 | 2 | 1 | 101 | 194 | 296 | 4.86e-15 | 70.5 |
| MS.gene068435.t1 | AT4G20230 | 37.895 | 95 | 57 | 1 | 1 | 93 | 205 | 299 | 6.21e-15 | 70.1 |
| MS.gene068435.t1 | AT4G20230 | 37.895 | 95 | 57 | 1 | 1 | 93 | 193 | 287 | 6.69e-15 | 70.1 |
| MS.gene068435.t1 | AT1G66020 | 42.222 | 90 | 50 | 1 | 6 | 93 | 192 | 281 | 7.36e-15 | 70.1 |
| MS.gene068435.t1 | AT3G29110 | 40.000 | 95 | 55 | 2 | 1 | 93 | 186 | 280 | 2.16e-14 | 68.6 |
| MS.gene068435.t1 | AT2G23230 | 38.043 | 92 | 56 | 1 | 3 | 93 | 191 | 282 | 5.17e-14 | 67.4 |
| MS.gene068435.t1 | AT2G23230 | 38.043 | 92 | 56 | 1 | 3 | 93 | 191 | 282 | 5.23e-14 | 67.4 |
| MS.gene068435.t1 | AT1G33750 | 37.838 | 111 | 64 | 4 | 1 | 108 | 195 | 303 | 1.07e-13 | 66.6 |
| MS.gene068435.t1 | AT1G48820 | 35.789 | 95 | 59 | 1 | 1 | 93 | 168 | 262 | 3.96e-13 | 65.1 |
| MS.gene068435.t1 | AT1G48800 | 37.895 | 95 | 57 | 1 | 1 | 93 | 194 | 288 | 4.04e-13 | 65.1 |
Find 24 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTACTTGCATTGGCAAAAT+TGG | 0.149142 | 6.3:-64353978 | MS.gene068435:CDS |
| AGCCTACATCAAAAGGAATT+TGG | 0.257080 | 6.3:-64353939 | MS.gene068435:CDS |
| ATGCAAGTAGAAGTTCATTA+TGG | 0.286841 | 6.3:+64353990 | None:intergenic |
| AACAATGGTTAGAGATGTTA+AGG | 0.344906 | 6.3:-64354233 | None:intergenic |
| GGATGAATCTTGCTCATAGA+TGG | 0.390050 | 6.3:+64354012 | None:intergenic |
| TTCTGGTCACCTTGAGTCCA+TGG | 0.446304 | 6.3:-64354134 | MS.gene068435:CDS |
| GCTCCAAAGCCTACATCAAA+AGG | 0.450495 | 6.3:-64353946 | MS.gene068435:CDS |
| TGCAAGTAGAAGTTCATTAT+GGG | 0.460366 | 6.3:+64353991 | None:intergenic |
| TTGCAAGAGAAGGACTCAAT+CGG | 0.484754 | 6.3:+64354107 | None:intergenic |
| TAATGAACTTCTACTTGCAT+TGG | 0.485765 | 6.3:-64353987 | MS.gene068435:CDS |
| ACAAATATTCGAAGAGGCGT+TGG | 0.495488 | 6.3:-64354164 | MS.gene068435:CDS |
| AGGACTCAATCGGGTGGCCA+TGG | 0.512884 | 6.3:+64354117 | None:intergenic |
| GCCTCACATATGATGGTTCA+TGG | 0.522278 | 6.3:-64354190 | MS.gene068435:CDS |
| ATATAGGTGGTGGAAGGAGT+TGG | 0.524102 | 6.3:-64353807 | MS.gene068435:intron |
| TGCAAGAGAAGGACTCAATC+GGG | 0.546913 | 6.3:+64354108 | None:intergenic |
| TTTACTTGTGTTGCAAGAGA+AGG | 0.558925 | 6.3:+64354097 | None:intergenic |
| ATCGGGTGGCCATGGACTCA+AGG | 0.566605 | 6.3:+64354125 | None:intergenic |
| GTATGAAGCCTCACATATGA+TGG | 0.567934 | 6.3:-64354197 | MS.gene068435:CDS |
| CTTTATATATAGGTGGTGGA+AGG | 0.588928 | 6.3:-64353813 | MS.gene068435:intron |
| ACTACTCTATCTCGTGCATA+CGG | 0.590301 | 6.3:+64353767 | None:intergenic |
| ACAATGGTTAGAGATGTTAA+GGG | 0.600519 | 6.3:-64354232 | MS.gene068435:CDS |
| ACCATGAACCATCATATGTG+AGG | 0.664721 | 6.3:+64354189 | None:intergenic |
| TGGTGAACAAATATTCGAAG+AGG | 0.665273 | 6.3:-64354170 | MS.gene068435:CDS |
| AAGAGAAGGACTCAATCGGG+TGG | 0.695745 | 6.3:+64354111 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATTTTTTGTCTTTATATAT+AGG | - | chr6.3:64354174-64354193 | MS.gene068435:CDS | 10.0% |
| !! | ATAAAGACAAAAAATAGTAT+AGG | + | chr6.3:64354170-64354189 | None:intergenic | 15.0% |
| !!! | ATACTTTTATATTTTGATGT+AGG | + | chr6.3:64354112-64354131 | None:intergenic | 15.0% |
| !!! | TTTTTGTCTTTATATATAGG+TGG | - | chr6.3:64354177-64354196 | MS.gene068435:CDS | 20.0% |
| ATGCAAGTAGAAGTTCATTA+TGG | + | chr6.3:64354010-64354029 | None:intergenic | 30.0% | |
| TAATGAACTTCTACTTGCAT+TGG | - | chr6.3:64354010-64354029 | MS.gene068435:CDS | 30.0% | |
| TGCAAGTAGAAGTTCATTAT+GGG | + | chr6.3:64354009-64354028 | None:intergenic | 30.0% | |
| TTGTCTTTATATATAGGTGG+TGG | - | chr6.3:64354180-64354199 | MS.gene068435:CDS | 30.0% | |
| ! | TTCCAAATTCCTTTTGATGT+AGG | + | chr6.3:64354063-64354082 | None:intergenic | 30.0% |
| AGCCTACATCAAAAGGAATT+TGG | - | chr6.3:64354058-64354077 | MS.gene068435:CDS | 35.0% | |
| TGGTGAACAAATATTCGAAG+AGG | - | chr6.3:64353827-64353846 | MS.gene068435:intron | 35.0% | |
| TTTACTTGTGTTGCAAGAGA+AGG | + | chr6.3:64353903-64353922 | None:intergenic | 35.0% | |
| ! | ATTCCTTTTGATGTAGGCTT+TGG | + | chr6.3:64354057-64354076 | None:intergenic | 35.0% |
| ! | TCTACTTGCATTGGCAAAAT+TGG | - | chr6.3:64354019-64354038 | MS.gene068435:CDS | 35.0% |
| !! | CTTTATATATAGGTGGTGGA+AGG | - | chr6.3:64354184-64354203 | MS.gene068435:CDS | 35.0% |
| ACCATGAACCATCATATGTG+AGG | + | chr6.3:64353811-64353830 | None:intergenic | 40.0% | |
| GGATGAATCTTGCTCATAGA+TGG | + | chr6.3:64353988-64354007 | None:intergenic | 40.0% | |
| GTATGAAGCCTCACATATGA+TGG | - | chr6.3:64353800-64353819 | MS.gene068435:CDS | 40.0% | |
| TTGCAAGAGAAGGACTCAAT+CGG | + | chr6.3:64353893-64353912 | None:intergenic | 40.0% | |
| ! | ACAAATATTCGAAGAGGCGT+TGG | - | chr6.3:64353833-64353852 | MS.gene068435:intron | 40.0% |
| !! | TAACTTTTTGCCACTAGCCT+AGG | + | chr6.3:64353960-64353979 | None:intergenic | 40.0% |
| CAAAAACTTGCCTAGGCTAG+TGG | - | chr6.3:64353947-64353966 | MS.gene068435:CDS | 45.0% | |
| GCCTCACATATGATGGTTCA+TGG | - | chr6.3:64353807-64353826 | MS.gene068435:intron | 45.0% | |
| GCTCCAAAGCCTACATCAAA+AGG | - | chr6.3:64354051-64354070 | MS.gene068435:CDS | 45.0% | |
| TGCAAGAGAAGGACTCAATC+GGG | + | chr6.3:64353892-64353911 | None:intergenic | 45.0% | |
| !! | ATATAGGTGGTGGAAGGAGT+TGG | - | chr6.3:64354190-64354209 | MS.gene068435:CDS | 45.0% |
| AAGAGAAGGACTCAATCGGG+TGG | + | chr6.3:64353889-64353908 | None:intergenic | 50.0% | |
| CTCTGCGCAAAAACTTGCCT+AGG | - | chr6.3:64353940-64353959 | MS.gene068435:CDS | 50.0% | |
| TTCTGGTCACCTTGAGTCCA+TGG | - | chr6.3:64353863-64353882 | MS.gene068435:intron | 50.0% | |
| !!! | GAGGCGTTGGCTTTTACTTC+TGG | - | chr6.3:64353846-64353865 | MS.gene068435:intron | 50.0% |
| AGGACTCAATCGGGTGGCCA+TGG | + | chr6.3:64353883-64353902 | None:intergenic | 60.0% | |
| ATCGGGTGGCCATGGACTCA+AGG | + | chr6.3:64353875-64353894 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.3 | gene | 64353768 | 64354251 | 64353768 | ID=MS.gene068435 |
| chr6.3 | mRNA | 64353768 | 64354251 | 64353768 | ID=MS.gene068435.t1;Parent=MS.gene068435 |
| chr6.3 | exon | 64353927 | 64354251 | 64353927 | ID=MS.gene068435.t1.exon1;Parent=MS.gene068435.t1 |
| chr6.3 | CDS | 64353927 | 64354251 | 64353927 | ID=cds.MS.gene068435.t1;Parent=MS.gene068435.t1 |
| chr6.3 | exon | 64353768 | 64353823 | 64353768 | ID=MS.gene068435.t1.exon2;Parent=MS.gene068435.t1 |
| chr6.3 | CDS | 64353768 | 64353823 | 64353768 | ID=cds.MS.gene068435.t1;Parent=MS.gene068435.t1 |
| Gene Sequence |
| Protein sequence |
