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.gene034839.t1 | XP_013467946.1 | 96.9 | 194 | 6 | 0 | 1 | 194 | 1 | 194 | 5.50E-92 | 347.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034839.t1 | P0DI40 | 84.5 | 194 | 28 | 1 | 1 | 194 | 1 | 192 | 5.2e-83 | 308.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034839.t1 | A0A072VKN9 | 96.9 | 194 | 6 | 0 | 1 | 194 | 1 | 194 | 3.9e-92 | 347.1 |
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.gene061583 | MS.gene034839 | PPI |
| MS.gene034839 | MS.gene049677 | PPI |
| MS.gene034839 | MS.gene81804 | PPI |
| MS.gene008354 | MS.gene034839 | PPI |
| MS.gene05032 | MS.gene034839 | PPI |
| MS.gene034839 | MS.gene26200 | PPI |
| MS.gene034839 | MS.gene05033 | PPI |
| MS.gene017305 | MS.gene034839 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034839.t1 | MTR_1g058570 | 96.907 | 194 | 6 | 0 | 1 | 194 | 1 | 194 | 2.18e-136 | 379 |
| MS.gene034839.t1 | MTR_1g058540 | 79.082 | 196 | 39 | 1 | 1 | 194 | 1 | 196 | 1.02e-100 | 289 |
| MS.gene034839.t1 | MTR_1g058560 | 87.692 | 195 | 23 | 1 | 1 | 194 | 1 | 195 | 3.34e-100 | 288 |
| MS.gene034839.t1 | MTR_2g086740 | 56.818 | 176 | 76 | 0 | 18 | 193 | 44 | 219 | 1.98e-57 | 180 |
| MS.gene034839.t1 | MTR_7g011090 | 49.180 | 183 | 89 | 1 | 12 | 194 | 8 | 186 | 6.88e-55 | 172 |
| MS.gene034839.t1 | MTR_4g081880 | 43.784 | 185 | 99 | 2 | 9 | 193 | 7 | 186 | 7.07e-49 | 157 |
| MS.gene034839.t1 | MTR_5g041900 | 46.108 | 167 | 90 | 0 | 28 | 194 | 20 | 186 | 8.98e-43 | 142 |
| MS.gene034839.t1 | MTR_2g086740 | 57.944 | 107 | 45 | 0 | 18 | 124 | 44 | 150 | 1.84e-32 | 114 |
| MS.gene034839.t1 | MTR_0004s0210 | 35.849 | 159 | 89 | 4 | 31 | 187 | 3 | 150 | 2.16e-18 | 78.6 |
| MS.gene034839.t1 | MTR_7g108130 | 28.049 | 164 | 113 | 3 | 31 | 191 | 24 | 185 | 8.65e-14 | 67.0 |
| MS.gene034839.t1 | MTR_0097s0070 | 31.356 | 118 | 79 | 2 | 71 | 187 | 69 | 185 | 9.25e-13 | 64.3 |
| MS.gene034839.t1 | MTR_8g089300 | 31.013 | 158 | 96 | 4 | 40 | 187 | 30 | 184 | 1.10e-11 | 61.2 |
| MS.gene034839.t1 | MTR_3g064310 | 32.203 | 118 | 77 | 2 | 74 | 191 | 77 | 191 | 4.79e-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.gene034839.t1 | AT2G36100 | 58.911 | 202 | 74 | 1 | 2 | 194 | 5 | 206 | 3.22e-72 | 217 |
| MS.gene034839.t1 | AT5G06200 | 61.929 | 197 | 70 | 2 | 2 | 193 | 5 | 201 | 9.82e-65 | 198 |
| MS.gene034839.t1 | AT3G11550 | 61.000 | 200 | 71 | 2 | 2 | 194 | 5 | 204 | 3.59e-63 | 194 |
| MS.gene034839.t1 | AT2G27370 | 58.929 | 168 | 69 | 0 | 26 | 193 | 52 | 219 | 5.76e-61 | 189 |
| MS.gene034839.t1 | AT5G15290 | 48.000 | 150 | 78 | 0 | 25 | 174 | 17 | 166 | 1.12e-47 | 154 |
| MS.gene034839.t1 | AT1G14160 | 40.606 | 165 | 98 | 0 | 30 | 194 | 45 | 209 | 1.35e-41 | 139 |
| MS.gene034839.t1 | AT1G03700 | 32.215 | 149 | 92 | 2 | 39 | 187 | 12 | 151 | 7.01e-19 | 79.7 |
| MS.gene034839.t1 | AT4G03540 | 33.058 | 121 | 72 | 2 | 55 | 175 | 28 | 139 | 2.78e-15 | 70.5 |
| MS.gene034839.t1 | AT1G17200 | 27.545 | 167 | 109 | 4 | 29 | 191 | 23 | 181 | 3.14e-14 | 68.6 |
| MS.gene034839.t1 | AT4G15630 | 28.492 | 179 | 108 | 5 | 25 | 191 | 19 | 189 | 7.25e-14 | 67.4 |
| MS.gene034839.t1 | AT5G44550 | 30.263 | 152 | 97 | 3 | 40 | 183 | 22 | 172 | 2.26e-12 | 63.2 |
| MS.gene034839.t1 | AT3G06390 | 28.571 | 133 | 90 | 2 | 36 | 163 | 37 | 169 | 4.21e-12 | 62.8 |
Find 44 sgRNAs with CRISPR-Local
Find 66 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGGTAATGTTGCTTGATTC+TGG | 0.093003 | 1.4:+48608527 | None:intergenic |
| CTAGCCATTTGCAACCAATT+TGG | 0.242258 | 1.4:-48607836 | MS.gene034839:CDS |
| GTGATGTCTGCTTTGGCTCT+TGG | 0.283856 | 1.4:-48607740 | MS.gene034839:CDS |
| AAGGCCTGGAGGATGGAAAA+AGG | 0.302153 | 1.4:-48608477 | MS.gene034839:CDS |
| CCTTAGAATGAAATCCATTA+TGG | 0.309686 | 1.4:+48608448 | None:intergenic |
| CCATAATGGATTTCATTCTA+AGG | 0.312115 | 1.4:-48608448 | MS.gene034839:CDS |
| TTCCATCCTCCAGGCCTTGT+AGG | 0.319831 | 1.4:+48608482 | None:intergenic |
| TTACGATATCTAAGATAATA+AGG | 0.319981 | 1.4:+48608117 | None:intergenic |
| TGATGTCTGCTTTGGCTCTT+GGG | 0.345325 | 1.4:-48607739 | MS.gene034839:CDS |
| TATTGCCGCTGCCGCCTCAA+TGG | 0.357738 | 1.4:-48608405 | MS.gene034839:CDS |
| ATTGCCGCTGCCGCCTCAAT+GGG | 0.364904 | 1.4:-48608404 | MS.gene034839:CDS |
| TGGTAATGTTGCTTGATTCT+GGG | 0.370302 | 1.4:+48608528 | None:intergenic |
| ATGGATTTCATTCTAAGGTT+AGG | 0.379588 | 1.4:-48608443 | MS.gene034839:CDS |
| AGCTGCTTCCATAGTTTACT+TGG | 0.387801 | 1.4:-48607888 | MS.gene034839:CDS |
| GTTGGTTGTGATGTCTGCTT+TGG | 0.390211 | 1.4:-48607747 | MS.gene034839:CDS |
| GTGCACAGAAATCTCCAAAT+TGG | 0.409853 | 1.4:+48607822 | None:intergenic |
| ATGGAAATCAAGACACAAAC+TGG | 0.414877 | 1.4:-48607859 | MS.gene034839:CDS |
| AGCTGCAGCAGCACTTGAAG+TGG | 0.421850 | 1.4:+48607907 | None:intergenic |
| AAGCCTTGGTCCAGGCGCAT+GGG | 0.441787 | 1.4:+48608142 | None:intergenic |
| AAAGCCTTGGTCCAGGCGCA+TGG | 0.443522 | 1.4:+48608141 | None:intergenic |
| AGCGGCAATAGCCGCTGCTA+TGG | 0.444367 | 1.4:+48608418 | None:intergenic |
| ATCTCCAAATTGGTTGCAAA+TGG | 0.445100 | 1.4:+48607832 | None:intergenic |
| TGGTAGGGATAGAACTAAGT+AGG | 0.473587 | 1.4:+48608190 | None:intergenic |
| TGTTCCCATTGAGGCGGCAG+CGG | 0.482406 | 1.4:+48608400 | None:intergenic |
| CTAGTTGCACCTACAAGGCC+TGG | 0.489392 | 1.4:-48608491 | MS.gene034839:CDS |
| ATTGTGTGCCAAGTAAACTA+TGG | 0.493367 | 1.4:+48607880 | None:intergenic |
| GCTTGATTCTGGGACATCAA+TGG | 0.503870 | 1.4:+48608538 | None:intergenic |
| TGGCTACGACAGAGAATGGT+AGG | 0.504458 | 1.4:+48608174 | None:intergenic |
| CAATTCTAGTTGCACCTACA+AGG | 0.507515 | 1.4:-48608496 | MS.gene034839:CDS |
| CACCTACAAGGCCTGGAGGA+TGG | 0.513895 | 1.4:-48608484 | MS.gene034839:CDS |
| CTGATCACTTGTTCCCATTG+AGG | 0.525536 | 1.4:+48608391 | None:intergenic |
| AGCCTTGGTCCAGGCGCATG+GGG | 0.531806 | 1.4:+48608143 | None:intergenic |
| ATGATGGCTACGACAGAGAA+TGG | 0.540767 | 1.4:+48608170 | None:intergenic |
| ATAAGGAAAAGCCTTGGTCC+AGG | 0.552077 | 1.4:+48608134 | None:intergenic |
| AAGATAATAAGGAAAAGCCT+TGG | 0.569952 | 1.4:+48608128 | None:intergenic |
| ATCACTTGTTCCCATTGAGG+CGG | 0.575884 | 1.4:+48608394 | None:intergenic |
| AGTTGCATCATTTATTACTG+TGG | 0.594258 | 1.4:-48607783 | MS.gene034839:CDS |
| ATAGTTTACTTGGCACACAA+TGG | 0.619739 | 1.4:-48607878 | MS.gene034839:CDS |
| AAGGTTAGGTGCCATAGCAG+CGG | 0.656083 | 1.4:-48608429 | MS.gene034839:CDS |
| GGCTACGACAGAGAATGGTA+GGG | 0.661247 | 1.4:+48608175 | None:intergenic |
| GCCTTGGTCCAGGCGCATGG+GGG | 0.663208 | 1.4:+48608144 | None:intergenic |
| AGAATCAAGCAACATTACCA+AGG | 0.678912 | 1.4:-48608525 | MS.gene034839:CDS |
| GATTTCTGTGCACAGACAAG+TGG | 0.683686 | 1.4:-48607812 | MS.gene034839:CDS |
| GTTGCACCTACAAGGCCTGG+AGG | 0.707990 | 1.4:-48608488 | MS.gene034839:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTTAATAAAAATATGATAA+GGG | - | chr1.4:48608231-48608250 | MS.gene034839:intron | 10.0% |
| !! | TTGTTAATAAAAATATGATA+AGG | - | chr1.4:48608230-48608249 | MS.gene034839:intron | 10.0% |
| !! | ATTAAATTGTATACATCAAT+CGG | + | chr1.4:48608270-48608289 | None:intergenic | 15.0% |
| !! | GTTAATAAAAATATGATAAG+GGG | - | chr1.4:48608232-48608251 | MS.gene034839:intron | 15.0% |
| !!! | GTATTAGCTTATTATAATTA+TGG | + | chr1.4:48608022-48608041 | None:intergenic | 15.0% |
| !!! | AACTGTGTTTATGAAATTTT+AGG | - | chr1.4:48608333-48608352 | MS.gene034839:CDS | 20.0% |
| !!! | TTACGATATCTAAGATAATA+AGG | + | chr1.4:48608164-48608183 | None:intergenic | 20.0% |
| !!! | AACTAGAATTGTTTTTTCCT+TGG | + | chr1.4:48607773-48607792 | None:intergenic | 25.0% |
| !!! | CAGGTTTTTTGTTATTTCAA+TGG | - | chr1.4:48608053-48608072 | MS.gene034839:intron | 25.0% |
| AAGATAATAAGGAAAAGCCT+TGG | + | chr1.4:48608153-48608172 | None:intergenic | 30.0% | |
| AGTTGCATCATTTATTACTG+TGG | - | chr1.4:48608495-48608514 | MS.gene034839:CDS | 30.0% | |
| CCTTAGAATGAAATCCATTA+TGG | + | chr1.4:48607833-48607852 | None:intergenic | 30.0% | |
| GAAAGAACTGAGTGAAAAAA+GGG | + | chr1.4:48607918-48607937 | None:intergenic | 30.0% | |
| TAAAAATATGATAAGGGGTG+CGG | - | chr1.4:48608237-48608256 | MS.gene034839:intron | 30.0% | |
| TGAAAGAACTGAGTGAAAAA+AGG | + | chr1.4:48607919-48607938 | None:intergenic | 30.0% | |
| !! | ATGGATTTCATTCTAAGGTT+AGG | - | chr1.4:48607835-48607854 | MS.gene034839:CDS | 30.0% |
| !! | ATTTTAGGTGTTTCTTACTC+TGG | - | chr1.4:48608348-48608367 | MS.gene034839:CDS | 30.0% |
| !! | CCATAATGGATTTCATTCTA+AGG | - | chr1.4:48607830-48607849 | MS.gene034839:CDS | 30.0% |
| !!! | AAGTTTTGAGTGTTACATAC+TGG | + | chr1.4:48607975-48607994 | None:intergenic | 30.0% |
| !!! | TGTGGTTGTTTTAATCTTGT+TGG | - | chr1.4:48608513-48608532 | MS.gene034839:CDS | 30.0% |
| AGAATCAAGCAACATTACCA+AGG | - | chr1.4:48607753-48607772 | MS.gene034839:CDS | 35.0% | |
| ATAGTTTACTTGGCACACAA+TGG | - | chr1.4:48608400-48608419 | MS.gene034839:CDS | 35.0% | |
| ATCTCCAAATTGGTTGCAAA+TGG | + | chr1.4:48608449-48608468 | None:intergenic | 35.0% | |
| ATGGAAATCAAGACACAAAC+TGG | - | chr1.4:48608419-48608438 | MS.gene034839:CDS | 35.0% | |
| ATTGTGTGCCAAGTAAACTA+TGG | + | chr1.4:48608401-48608420 | None:intergenic | 35.0% | |
| GCTAATACTTGAAACAATGC+AGG | - | chr1.4:48608034-48608053 | MS.gene034839:intron | 35.0% | |
| TTTGAGTGTTACATACTGGA+AGG | + | chr1.4:48607971-48607990 | None:intergenic | 35.0% | |
| ! | TGGTAATGTTGCTTGATTCT+GGG | + | chr1.4:48607753-48607772 | None:intergenic | 35.0% |
| !! | TTGGTAATGTTGCTTGATTC+TGG | + | chr1.4:48607754-48607773 | None:intergenic | 35.0% |
| AGCTGCTTCCATAGTTTACT+TGG | - | chr1.4:48608390-48608409 | MS.gene034839:CDS | 40.0% | |
| CTAGCCATTTGCAACCAATT+TGG | - | chr1.4:48608442-48608461 | MS.gene034839:CDS | 40.0% | |
| GAAAAAGGGAACAGCCATAA+TGG | - | chr1.4:48607816-48607835 | MS.gene034839:CDS | 40.0% | |
| GTGCACAGAAATCTCCAAAT+TGG | + | chr1.4:48608459-48608478 | None:intergenic | 40.0% | |
| TGGTAGGGATAGAACTAAGT+AGG | + | chr1.4:48608091-48608110 | None:intergenic | 40.0% | |
| ! | CAATTCTAGTTGCACCTACA+AGG | - | chr1.4:48607782-48607801 | MS.gene034839:CDS | 40.0% |
| ATAAGGAAAAGCCTTGGTCC+AGG | + | chr1.4:48608147-48608166 | None:intergenic | 45.0% | |
| ATCACTTGTTCCCATTGAGG+CGG | + | chr1.4:48607887-48607906 | None:intergenic | 45.0% | |
| ATGATGGCTACGACAGAGAA+TGG | + | chr1.4:48608111-48608130 | None:intergenic | 45.0% | |
| CTGATCACTTGTTCCCATTG+AGG | + | chr1.4:48607890-48607909 | None:intergenic | 45.0% | |
| GATTTCTGTGCACAGACAAG+TGG | - | chr1.4:48608466-48608485 | MS.gene034839:CDS | 45.0% | |
| GTTGGTTGTGATGTCTGCTT+TGG | - | chr1.4:48608531-48608550 | MS.gene034839:CDS | 45.0% | |
| !! | GCTTGATTCTGGGACATCAA+TGG | + | chr1.4:48607743-48607762 | None:intergenic | 45.0% |
| !! | TGATGTCTGCTTTGGCTCTT+GGG | - | chr1.4:48608539-48608558 | MS.gene034839:CDS | 45.0% |
| AAGGCCTGGAGGATGGAAAA+AGG | - | chr1.4:48607801-48607820 | MS.gene034839:CDS | 50.0% | |
| AGGCCTGGAGGATGGAAAAA+GGG | - | chr1.4:48607802-48607821 | MS.gene034839:CDS | 50.0% | |
| GGCTACGACAGAGAATGGTA+GGG | + | chr1.4:48608106-48608125 | None:intergenic | 50.0% | |
| TGGCTACGACAGAGAATGGT+AGG | + | chr1.4:48608107-48608126 | None:intergenic | 50.0% | |
| ! | AAGGTTAGGTGCCATAGCAG+CGG | - | chr1.4:48607849-48607868 | MS.gene034839:CDS | 50.0% |
| ! | GTTCCCTTTTTCCATCCTCC+AGG | + | chr1.4:48607808-48607827 | None:intergenic | 50.0% |
| !! | GTGATGTCTGCTTTGGCTCT+TGG | - | chr1.4:48608538-48608557 | MS.gene034839:CDS | 50.0% |
| AGCTGCAGCAGCACTTGAAG+TGG | + | chr1.4:48608374-48608393 | None:intergenic | 55.0% | |
| CTAGTTGCACCTACAAGGCC+TGG | - | chr1.4:48607787-48607806 | MS.gene034839:CDS | 55.0% | |
| ! | TTCCATCCTCCAGGCCTTGT+AGG | + | chr1.4:48607799-48607818 | None:intergenic | 55.0% |
| AAAGCCTTGGTCCAGGCGCA+TGG | + | chr1.4:48608140-48608159 | None:intergenic | 60.0% | |
| AAGCCTTGGTCCAGGCGCAT+GGG | + | chr1.4:48608139-48608158 | None:intergenic | 60.0% | |
| AGCGGCAATAGCCGCTGCTA+TGG | + | chr1.4:48607863-48607882 | None:intergenic | 60.0% | |
| ATTGCCGCTGCCGCCTCAAT+GGG | - | chr1.4:48607874-48607893 | MS.gene034839:CDS | 60.0% | |
| CACCTACAAGGCCTGGAGGA+TGG | - | chr1.4:48607794-48607813 | MS.gene034839:CDS | 60.0% | |
| GTTGCACCTACAAGGCCTGG+AGG | - | chr1.4:48607790-48607809 | MS.gene034839:CDS | 60.0% | |
| TATTGCCGCTGCCGCCTCAA+TGG | - | chr1.4:48607873-48607892 | MS.gene034839:CDS | 60.0% | |
| TGTTCCCATTGAGGCGGCAG+CGG | + | chr1.4:48607881-48607900 | None:intergenic | 60.0% | |
| AGCCTTGGTCCAGGCGCATG+GGG | + | chr1.4:48608138-48608157 | None:intergenic | 65.0% | |
| ATCATACGCCCCCATGCGCC+TGG | - | chr1.4:48608126-48608145 | MS.gene034839:CDS | 65.0% | |
| ! | AGGCGCATGGGGGCGTATGA+TGG | + | chr1.4:48608127-48608146 | None:intergenic | 65.0% |
| GCCTTGGTCCAGGCGCATGG+GGG | + | chr1.4:48608137-48608156 | None:intergenic | 70.0% | |
| GCCCCCATGCGCCTGGACCA+AGG | - | chr1.4:48608133-48608152 | MS.gene034839:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 48607730 | 48608570 | 48607730 | ID=MS.gene034839 |
| chr1.4 | mRNA | 48607730 | 48608570 | 48607730 | ID=MS.gene034839.t1;Parent=MS.gene034839 |
| chr1.4 | exon | 48608326 | 48608570 | 48608326 | ID=MS.gene034839.t1.exon1;Parent=MS.gene034839.t1 |
| chr1.4 | CDS | 48608326 | 48608570 | 48608326 | ID=cds.MS.gene034839.t1;Parent=MS.gene034839.t1 |
| chr1.4 | exon | 48608121 | 48608244 | 48608121 | ID=MS.gene034839.t1.exon2;Parent=MS.gene034839.t1 |
| chr1.4 | CDS | 48608121 | 48608244 | 48608121 | ID=cds.MS.gene034839.t1;Parent=MS.gene034839.t1 |
| chr1.4 | exon | 48607730 | 48607945 | 48607730 | ID=MS.gene034839.t1.exon3;Parent=MS.gene034839.t1 |
| chr1.4 | CDS | 48607730 | 48607945 | 48607730 | ID=cds.MS.gene034839.t1;Parent=MS.gene034839.t1 |
| Gene Sequence |
| Protein sequence |
