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.gene25195.t1 | XP_013466570.1 | 97.6 | 165 | 4 | 0 | 1 | 165 | 1 | 165 | 8.80E-91 | 342.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25195.t1 | Q9ZU95 | 68.1 | 163 | 51 | 1 | 1 | 163 | 6 | 167 | 1.9e-62 | 240.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25195.t1 | G8A033 | 97.6 | 165 | 4 | 0 | 1 | 165 | 1 | 165 | 6.3e-91 | 342.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04998 | MS.gene25195 | 0.822569 | 2.21E-53 | -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.gene25195.t1 | MTR_1g032290 | 97.576 | 165 | 4 | 0 | 1 | 165 | 1 | 165 | 5.10e-120 | 335 |
| MS.gene25195.t1 | MTR_8g105140 | 81.013 | 158 | 30 | 0 | 1 | 158 | 1 | 158 | 2.34e-95 | 273 |
| MS.gene25195.t1 | MTR_3g065330 | 68.098 | 163 | 49 | 2 | 1 | 161 | 10 | 171 | 5.44e-76 | 225 |
| MS.gene25195.t1 | MTR_5g078020 | 60.479 | 167 | 61 | 3 | 1 | 165 | 10 | 173 | 3.98e-65 | 197 |
| MS.gene25195.t1 | MTR_6g070920 | 59.748 | 159 | 60 | 3 | 1 | 158 | 72 | 227 | 2.30e-63 | 194 |
| MS.gene25195.t1 | MTR_3g065330 | 61.972 | 142 | 51 | 2 | 1 | 140 | 32 | 172 | 1.53e-57 | 178 |
| MS.gene25195.t1 | MTR_6g070920 | 59.420 | 138 | 52 | 3 | 1 | 137 | 72 | 206 | 1.48e-52 | 166 |
| MS.gene25195.t1 | MTR_8g039690 | 47.500 | 160 | 76 | 3 | 1 | 153 | 1 | 159 | 6.21e-43 | 140 |
| MS.gene25195.t1 | MTR_7g084380 | 46.875 | 160 | 74 | 4 | 1 | 150 | 1 | 159 | 1.11e-35 | 124 |
| MS.gene25195.t1 | MTR_6g070920 | 64.045 | 89 | 28 | 3 | 1 | 88 | 72 | 157 | 5.24e-32 | 112 |
| MS.gene25195.t1 | MTR_7g084380 | 46.667 | 135 | 62 | 3 | 26 | 150 | 21 | 155 | 2.07e-29 | 107 |
| MS.gene25195.t1 | MTR_1g078390 | 46.154 | 65 | 33 | 2 | 1 | 64 | 1 | 64 | 9.31e-13 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25195.t1 | AT2G01670 | 68.098 | 163 | 51 | 1 | 1 | 163 | 6 | 167 | 2.67e-80 | 236 |
| MS.gene25195.t1 | AT1G14860 | 71.069 | 159 | 45 | 1 | 1 | 159 | 1 | 158 | 4.32e-80 | 235 |
| MS.gene25195.t1 | AT1G18300 | 54.487 | 156 | 70 | 1 | 1 | 155 | 40 | 195 | 1.39e-61 | 189 |
| MS.gene25195.t1 | AT1G73540 | 54.777 | 157 | 66 | 2 | 1 | 156 | 41 | 193 | 8.99e-60 | 184 |
| MS.gene25195.t1 | AT1G12880 | 46.108 | 167 | 76 | 4 | 1 | 154 | 1 | 166 | 8.72e-38 | 128 |
| MS.gene25195.t1 | AT3G26690 | 44.048 | 168 | 79 | 4 | 1 | 154 | 1 | 167 | 6.43e-37 | 126 |
| MS.gene25195.t1 | AT3G26690 | 44.048 | 168 | 79 | 4 | 1 | 154 | 1 | 167 | 6.43e-37 | 126 |
| MS.gene25195.t1 | AT3G12600 | 48.428 | 159 | 72 | 4 | 1 | 150 | 1 | 158 | 1.12e-34 | 120 |
| MS.gene25195.t1 | AT3G12600 | 48.299 | 147 | 66 | 4 | 13 | 150 | 4 | 149 | 1.19e-30 | 109 |
Find 37 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCTACGTACAAGAATA+TGG | 0.220819 | 1.3:+17217552 | MS.gene25195:CDS |
| CATATTATTGCAGCATGAAT+TGG | 0.282486 | 1.3:+17217433 | MS.gene25195:intron |
| CTTGAAGAAGCAGGAGTTAT+AGG | 0.288124 | 1.3:+17217298 | MS.gene25195:CDS |
| GCAAGACATTGATGGCAATA+TGG | 0.292101 | 1.3:+17217061 | MS.gene25195:CDS |
| GTTTGTTTGGTATCTCGTTC+TGG | 0.365455 | 1.3:+17216630 | MS.gene25195:CDS |
| ATGTCTTGCTTATATCTGTA+TGG | 0.367359 | 1.3:-17217047 | None:intergenic |
| AAGAGAGAAGATGGTTTGTT+TGG | 0.367598 | 1.3:+17216617 | None:intergenic |
| ATGCAAAGATACAATGAAAC+TGG | 0.406646 | 1.3:+17216660 | MS.gene25195:CDS |
| CTTTAGATAGACTTGTTGAT+AGG | 0.406743 | 1.3:+17218079 | MS.gene25195:CDS |
| TGGCAATATGGGTAATGAAT+TGG | 0.419006 | 1.3:+17217073 | MS.gene25195:CDS |
| CTATAACTCCTGCTTCTTCA+AGG | 0.424048 | 1.3:-17217297 | None:intergenic |
| ATATTATTGCAGCATGAATT+GGG | 0.424242 | 1.3:+17217434 | MS.gene25195:intron |
| ACTTGTTGTTAGTTCACAAA+AGG | 0.426291 | 1.3:+17217100 | MS.gene25195:CDS |
| CAAGACATTGATGGCAATAT+GGG | 0.436846 | 1.3:+17217062 | MS.gene25195:CDS |
| AGTTTCATTAGCAAAAGATA+TGG | 0.452059 | 1.3:+17217464 | MS.gene25195:CDS |
| AGATATAAGCAAGACATTGA+TGG | 0.458567 | 1.3:+17217053 | MS.gene25195:CDS |
| AGTTGTTCCTTGACAAGTAA+GGG | 0.479458 | 1.3:-17217512 | None:intergenic |
| ACTGGTGGTCGTCAAGTTGT+AGG | 0.480361 | 1.3:+17216678 | MS.gene25195:CDS |
| CCAGAGATGTTTGTCAGCAT+TGG | 0.482593 | 1.3:+17218043 | MS.gene25195:CDS |
| GAGATGTTTGTCAGCATTGG+TGG | 0.494181 | 1.3:+17218046 | MS.gene25195:CDS |
| AAGTTGTTCCTTGACAAGTA+AGG | 0.495158 | 1.3:-17217513 | None:intergenic |
| TATAACTCCTGCTTCTTCAA+GGG | 0.500603 | 1.3:-17217296 | None:intergenic |
| CCAATGCTGACAAACATCTC+TGG | 0.500836 | 1.3:-17218043 | None:intergenic |
| AAATCTACGTACAAGAATAT+GGG | 0.505617 | 1.3:+17217553 | MS.gene25195:CDS |
| CATGTTTCCCTTACTTGTCA+AGG | 0.509328 | 1.3:+17217505 | MS.gene25195:CDS |
| CTTGTTGTTAGTTCACAAAA+GGG | 0.509904 | 1.3:+17217101 | MS.gene25195:CDS |
| TTGTCAGCATTGGTGGATGA+AGG | 0.547295 | 1.3:+17218053 | MS.gene25195:CDS |
| TCAAGGAACAACTTGAACAC+TGG | 0.547860 | 1.3:+17217522 | MS.gene25195:CDS |
| CTGGTGGTCGTCAAGTTGTA+GGG | 0.551311 | 1.3:+17216679 | MS.gene25195:CDS |
| AGAGAATCCCTTGAAGAAGC+AGG | 0.552630 | 1.3:+17217289 | MS.gene25195:CDS |
| TGCAGCATGAATTGGGCGAA+TGG | 0.558114 | 1.3:+17217441 | MS.gene25195:intron |
| TGTCTTGCTTATATCTGTAT+GGG | 0.559350 | 1.3:-17217046 | None:intergenic |
| GTTTGGTATCTCGTTCTGGA+AGG | 0.561759 | 1.3:+17216634 | MS.gene25195:CDS |
| AGATATGGTACATATTATGA+AGG | 0.566362 | 1.3:+17217479 | MS.gene25195:CDS |
| TCAATCATTTATGTTTCCAA+AGG | 0.579468 | 1.3:+17217124 | MS.gene25195:CDS |
| AGGAGTTATAGGAATTGTTG+AGG | 0.587265 | 1.3:+17217309 | MS.gene25195:CDS |
| CAAAGATACAATGAAACTGG+TGG | 0.647830 | 1.3:+17216663 | MS.gene25195:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATCAAAACAAATTAATAAA+AGG | - | chr1.3:17217224-17217243 | None:intergenic | 10.0% |
| !! | TAATGAATAAATATTATTGA+AGG | - | chr1.3:17216968-17216987 | None:intergenic | 10.0% |
| !!! | AAATGTAAATTTTTTATTGA+CGG | - | chr1.3:17217796-17217815 | None:intergenic | 10.0% |
| !!! | AGCATTATTTTTATAAATTG+TGG | - | chr1.3:17217893-17217912 | None:intergenic | 15.0% |
| !!! | TATTAATTTGTTTTGATTCA+GGG | + | chr1.3:17217226-17217245 | MS.gene25195:intron | 15.0% |
| !!! | TTATTAATTTGTTTTGATTC+AGG | + | chr1.3:17217225-17217244 | MS.gene25195:intron | 15.0% |
| !! | GTGTTTGTCATATATAAAAA+TGG | - | chr1.3:17217774-17217793 | None:intergenic | 20.0% |
| !! | TCTAATCAAGATATATCAAA+AGG | - | chr1.3:17216874-17216893 | None:intergenic | 20.0% |
| !! | TTAGAAATATAATCTACGAT+CGG | + | chr1.3:17217663-17217682 | MS.gene25195:intron | 20.0% |
| !! | TTGGACATATTAATAAATGT+TGG | - | chr1.3:17217012-17217031 | None:intergenic | 20.0% |
| !! | TTTATTCATTAATTGCTTCT+TGG | + | chr1.3:17216977-17216996 | MS.gene25195:intron | 20.0% |
| !! | TTTCTTTCACATAAAGAAAT+TGG | + | chr1.3:17217157-17217176 | MS.gene25195:intron | 20.0% |
| !!! | ATAAAGAAATTGGCTTAATT+AGG | + | chr1.3:17217167-17217186 | MS.gene25195:intron | 20.0% |
| !!! | ATTGAAATTGTTTCTGAATT+AGG | + | chr1.3:17217596-17217615 | MS.gene25195:intron | 20.0% |
| !!! | TATATAGTTTTATCATTGTC+TGG | + | chr1.3:17216748-17216767 | MS.gene25195:intron | 20.0% |
| !!! | TGTTGAGGTATTTAATTAAT+TGG | + | chr1.3:17217324-17217343 | MS.gene25195:intron | 20.0% |
| ! | AAAATCTACGTACAAGAATA+TGG | + | chr1.3:17217552-17217571 | MS.gene25195:CDS | 25.0% |
| ! | AAACTTCGTTAATTATGATG+AGG | + | chr1.3:17217637-17217656 | MS.gene25195:intron | 25.0% |
| ! | AAATCTACGTACAAGAATAT+GGG | + | chr1.3:17217553-17217572 | MS.gene25195:CDS | 25.0% |
| ! | AGATATGGTACATATTATGA+AGG | + | chr1.3:17217479-17217498 | MS.gene25195:CDS | 25.0% |
| ! | AGTTTCATTAGCAAAAGATA+TGG | + | chr1.3:17217464-17217483 | MS.gene25195:CDS | 25.0% |
| ! | ATATTATTGCAGCATGAATT+GGG | + | chr1.3:17217434-17217453 | MS.gene25195:intron | 25.0% |
| ! | ATCAAGATATATCAAAAGGA+TGG | - | chr1.3:17216870-17216889 | None:intergenic | 25.0% |
| ! | ATTAATATGTCCAATTGTGT+AGG | + | chr1.3:17217018-17217037 | MS.gene25195:intron | 25.0% |
| ! | TCAATCATTTATGTTTCCAA+AGG | + | chr1.3:17217124-17217143 | MS.gene25195:CDS | 25.0% |
| !!! | GTGAAGACATGTTTTTTATA+TGG | + | chr1.3:17217918-17217937 | MS.gene25195:intron | 25.0% |
| AACTGAATTTGATGTCCAAA+AGG | - | chr1.3:17216822-17216841 | None:intergenic | 30.0% | |
| AGATATAAGCAAGACATTGA+TGG | + | chr1.3:17217053-17217072 | MS.gene25195:CDS | 30.0% | |
| ATGCAAAGATACAATGAAAC+TGG | + | chr1.3:17216660-17216679 | MS.gene25195:CDS | 30.0% | |
| ATGTCTTGCTTATATCTGTA+TGG | - | chr1.3:17217050-17217069 | None:intergenic | 30.0% | |
| CATATTATTGCAGCATGAAT+TGG | + | chr1.3:17217433-17217452 | MS.gene25195:intron | 30.0% | |
| CATTTATGTTTCCAAAGGTA+GGG | + | chr1.3:17217129-17217148 | MS.gene25195:intron | 30.0% | |
| TCATTTATGTTTCCAAAGGT+AGG | + | chr1.3:17217128-17217147 | MS.gene25195:intron | 30.0% | |
| TGTCTTGCTTATATCTGTAT+GGG | - | chr1.3:17217049-17217068 | None:intergenic | 30.0% | |
| TTAGTCAAACATGACTGATA+TGG | - | chr1.3:17217696-17217715 | None:intergenic | 30.0% | |
| !! | ACTTGTTGTTAGTTCACAAA+AGG | + | chr1.3:17217100-17217119 | MS.gene25195:CDS | 30.0% |
| !! | CTTGTTGTTAGTTCACAAAA+GGG | + | chr1.3:17217101-17217120 | MS.gene25195:CDS | 30.0% |
| !! | CTTTAGATAGACTTGTTGAT+AGG | + | chr1.3:17218079-17218098 | MS.gene25195:CDS | 30.0% |
| !!! | TAATTTGTTTTGATTCAGGG+TGG | + | chr1.3:17217229-17217248 | MS.gene25195:intron | 30.0% |
| AAGAAAGAAATCCCTACCTT+TGG | - | chr1.3:17217143-17217162 | None:intergenic | 35.0% | |
| AAGTTGTTCCTTGACAAGTA+AGG | - | chr1.3:17217516-17217535 | None:intergenic | 35.0% | |
| AGGAGTTATAGGAATTGTTG+AGG | + | chr1.3:17217309-17217328 | MS.gene25195:CDS | 35.0% | |
| AGTTGTTCCTTGACAAGTAA+GGG | - | chr1.3:17217515-17217534 | None:intergenic | 35.0% | |
| CAAAGATACAATGAAACTGG+TGG | + | chr1.3:17216663-17216682 | MS.gene25195:CDS | 35.0% | |
| TATAACTCCTGCTTCTTCAA+GGG | - | chr1.3:17217299-17217318 | None:intergenic | 35.0% | |
| TCAGTCTGATCTTGATCTAA+CGG | - | chr1.3:17216777-17216796 | None:intergenic | 35.0% | |
| TGGCAATATGGGTAATGAAT+TGG | + | chr1.3:17217073-17217092 | MS.gene25195:CDS | 35.0% | |
| ! | CAAGACATTGATGGCAATAT+GGG | + | chr1.3:17217062-17217081 | MS.gene25195:CDS | 35.0% |
| ! | CTTGTACGTAGATTTTTCTC+AGG | - | chr1.3:17217548-17217567 | None:intergenic | 35.0% |
| !!! | TGCAAATCACTTTTTGCAGA+TGG | + | chr1.3:17218008-17218027 | MS.gene25195:intron | 35.0% |
| ATGTCCAAAAGGAACGAAAG+CGG | - | chr1.3:17216811-17216830 | None:intergenic | 40.0% | |
| CATGTTTCCCTTACTTGTCA+AGG | + | chr1.3:17217505-17217524 | MS.gene25195:CDS | 40.0% | |
| CTATAACTCCTGCTTCTTCA+AGG | - | chr1.3:17217300-17217319 | None:intergenic | 40.0% | |
| CTTGAAGAAGCAGGAGTTAT+AGG | + | chr1.3:17217298-17217317 | MS.gene25195:CDS | 40.0% | |
| GTTTGTTTGGTATCTCGTTC+TGG | + | chr1.3:17216630-17216649 | MS.gene25195:CDS | 40.0% | |
| TCAAGGAACAACTTGAACAC+TGG | + | chr1.3:17217522-17217541 | MS.gene25195:CDS | 40.0% | |
| ! | GCAAGACATTGATGGCAATA+TGG | + | chr1.3:17217061-17217080 | MS.gene25195:CDS | 40.0% |
| !!! | TGTTTTGATTCAGGGTGGAT+GGG | + | chr1.3:17217234-17217253 | MS.gene25195:intron | 40.0% |
| !!! | TTGTTTTGATTCAGGGTGGA+TGG | + | chr1.3:17217233-17217252 | MS.gene25195:intron | 40.0% |
| AGAGAATCCCTTGAAGAAGC+AGG | + | chr1.3:17217289-17217308 | MS.gene25195:CDS | 45.0% | |
| ATGGGATGCACCTACACAAT+TGG | - | chr1.3:17217031-17217050 | None:intergenic | 45.0% | |
| CCAATGCTGACAAACATCTC+TGG | - | chr1.3:17218046-17218065 | None:intergenic | 45.0% | |
| CCAGAGATGTTTGTCAGCAT+TGG | + | chr1.3:17218043-17218062 | MS.gene25195:CDS | 45.0% | |
| TGTCCAAAAGGAACGAAAGC+GGG | - | chr1.3:17216810-17216829 | None:intergenic | 45.0% | |
| ! | GAGATGTTTGTCAGCATTGG+TGG | + | chr1.3:17218046-17218065 | MS.gene25195:CDS | 45.0% |
| ! | GTTTGGTATCTCGTTCTGGA+AGG | + | chr1.3:17216634-17216653 | MS.gene25195:CDS | 45.0% |
| !! | TTGTCAGCATTGGTGGATGA+AGG | + | chr1.3:17218053-17218072 | MS.gene25195:CDS | 45.0% |
| TGCAGCATGAATTGGGCGAA+TGG | + | chr1.3:17217441-17217460 | MS.gene25195:intron | 50.0% | |
| ! | ACTGGTGGTCGTCAAGTTGT+AGG | + | chr1.3:17216678-17216697 | MS.gene25195:CDS | 50.0% |
| ! | CTGGTGGTCGTCAAGTTGTA+GGG | + | chr1.3:17216679-17216698 | MS.gene25195:CDS | 50.0% |
| ! | GAACCCGCTTTCGTTCCTTT+TGG | + | chr1.3:17216804-17216823 | MS.gene25195:intron | 50.0% |
| ! | GAACGAAAGCGGGTTCACTT+TGG | - | chr1.3:17216800-17216819 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 17216627 | 17218131 | 17216627 | ID=MS.gene25195 |
| chr1.3 | mRNA | 17216627 | 17218131 | 17216627 | ID=MS.gene25195.t1;Parent=MS.gene25195 |
| chr1.3 | exon | 17216627 | 17216700 | 17216627 | ID=MS.gene25195.t1.exon1;Parent=MS.gene25195.t1 |
| chr1.3 | CDS | 17216627 | 17216700 | 17216627 | ID=cds.MS.gene25195.t1;Parent=MS.gene25195.t1 |
| chr1.3 | exon | 17217040 | 17217145 | 17217040 | ID=MS.gene25195.t1.exon2;Parent=MS.gene25195.t1 |
| chr1.3 | CDS | 17217040 | 17217145 | 17217040 | ID=cds.MS.gene25195.t1;Parent=MS.gene25195.t1 |
| chr1.3 | exon | 17217247 | 17217330 | 17217247 | ID=MS.gene25195.t1.exon3;Parent=MS.gene25195.t1 |
| chr1.3 | CDS | 17217247 | 17217330 | 17217247 | ID=cds.MS.gene25195.t1;Parent=MS.gene25195.t1 |
| chr1.3 | exon | 17217446 | 17217574 | 17217446 | ID=MS.gene25195.t1.exon4;Parent=MS.gene25195.t1 |
| chr1.3 | CDS | 17217446 | 17217574 | 17217446 | ID=cds.MS.gene25195.t1;Parent=MS.gene25195.t1 |
| chr1.3 | exon | 17218027 | 17218131 | 17218027 | ID=MS.gene25195.t1.exon5;Parent=MS.gene25195.t1 |
| chr1.3 | CDS | 17218027 | 17218131 | 17218027 | ID=cds.MS.gene25195.t1;Parent=MS.gene25195.t1 |
| Gene Sequence |
| Protein sequence |
