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.gene039598.t1 | ABD28345.2 | 98 | 99 | 2 | 0 | 86 | 184 | 95 | 193 | 6.70E-50 | 207.2 |
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.gene039598.t1 | G7I8T1 | 98.0 | 99 | 2 | 0 | 86 | 184 | 78 | 176 | 4.8e-50 | 207.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene039598.t1 | TF | FAR1 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene039598.t1 | MTR_1g083640 | 89.286 | 112 | 9 | 1 | 76 | 184 | 65 | 176 | 1.50e-68 | 211 |
| MS.gene039598.t1 | MTR_5g071590 | 93.939 | 99 | 6 | 0 | 86 | 184 | 75 | 173 | 2.61e-66 | 201 |
| MS.gene039598.t1 | MTR_0558s0020 | 87.500 | 112 | 11 | 1 | 76 | 184 | 50 | 161 | 4.44e-66 | 204 |
| MS.gene039598.t1 | MTR_3g008240 | 68.966 | 145 | 31 | 3 | 54 | 184 | 17 | 161 | 8.50e-62 | 191 |
| MS.gene039598.t1 | MTR_2g014100 | 81.250 | 112 | 18 | 1 | 76 | 184 | 58 | 169 | 4.63e-61 | 190 |
| MS.gene039598.t1 | MTR_4g040430 | 87.879 | 99 | 8 | 1 | 86 | 184 | 62 | 156 | 7.37e-58 | 181 |
| MS.gene039598.t1 | MTR_6g090505 | 90.625 | 96 | 9 | 0 | 89 | 184 | 1 | 96 | 3.61e-57 | 184 |
| MS.gene039598.t1 | MTR_8g446020 | 76.344 | 93 | 22 | 0 | 92 | 184 | 29 | 121 | 7.50e-45 | 149 |
| MS.gene039598.t1 | MTR_1g055240 | 92.958 | 71 | 5 | 0 | 114 | 184 | 2 | 72 | 4.66e-44 | 144 |
| MS.gene039598.t1 | MTR_0337s0040 | 72.043 | 93 | 26 | 0 | 92 | 184 | 30 | 122 | 2.11e-43 | 144 |
| MS.gene039598.t1 | MTR_0019s0290 | 85.000 | 80 | 9 | 1 | 108 | 184 | 8 | 87 | 5.21e-43 | 141 |
| MS.gene039598.t1 | MTR_1281s0010 | 91.176 | 68 | 6 | 0 | 86 | 153 | 44 | 111 | 2.13e-38 | 128 |
| MS.gene039598.t1 | MTR_4g006790 | 61.017 | 59 | 15 | 2 | 28 | 85 | 190 | 241 | 2.88e-11 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGATGTTGGCCTGTTGTT+AGG | 0.302249 | 3.1:-9206165 | None:intergenic |
| TTCACCCTTGCTCGCCGCTC+CGG | 0.419405 | 3.1:+9205205 | MS.gene039598:CDS |
| ATGTGTATAAGATATATAGA+TGG | 0.452819 | 3.1:+9206286 | MS.gene039598:CDS |
| CGTTGGAACTTTCTCCGACA+TGG | 0.460056 | 3.1:+9205080 | MS.gene039598:CDS |
| GTTTGCTTAATCCTAACAAC+AGG | 0.484661 | 3.1:+9206154 | MS.gene039598:CDS |
| GAAAGGGTTCGTTGTAAAGC+TGG | 0.486564 | 3.1:+9206234 | MS.gene039598:CDS |
| GCTAACCGGAGCGGCGAGCA+AGG | 0.493218 | 3.1:-9205210 | None:intergenic |
| CGTTATGTTTGTAACAAACA+AGG | 0.494754 | 3.1:+9206117 | MS.gene039598:CDS |
| CGTTGCTATCTTGCTCGCGT+TGG | 0.497104 | 3.1:+9205063 | MS.gene039598:CDS |
| TTACAACGAACCCTTTCCTC+AGG | 0.505082 | 3.1:-9206228 | None:intergenic |
| AGCTGGAATATATTTGAAGC+TGG | 0.507410 | 3.1:+9206251 | MS.gene039598:CDS |
| ACAAAACAAGAAATCTGATA+AGG | 0.511435 | 3.1:+9206083 | MS.gene039598:CDS |
| TAACAAACAAGGTTTCAAGA+AGG | 0.511682 | 3.1:+9206128 | MS.gene039598:CDS |
| GAGCCACGCCGTGACCTAGC+CGG | 0.532463 | 3.1:-9205107 | None:intergenic |
| CGCGAGCAAGAGAGCAATGT+CGG | 0.543389 | 3.1:-9205137 | None:intergenic |
| GAATGCTCTGGTTTATGTAA+TGG | 0.551630 | 3.1:-9206327 | None:intergenic |
| CGCTGACCCTTGCTCCGACG+TGG | 0.551647 | 3.1:+9204990 | MS.gene039598:CDS |
| AACAAACAAGGTTTCAAGAA+GGG | 0.554561 | 3.1:+9206129 | MS.gene039598:CDS |
| GAAATGATCTGCGAATGCTC+TGG | 0.563063 | 3.1:-9206339 | None:intergenic |
| TAAGATATATAGATGGGATG+TGG | 0.566406 | 3.1:+9206293 | MS.gene039598:CDS |
| CGGCGAGCAAGGGTGAATGC+CGG | 0.580196 | 3.1:-9205199 | None:intergenic |
| GCAAGAGAGCAAGGTAACAT+CGG | 0.583018 | 3.1:-9204964 | None:intergenic |
| TCAGCGCGAGCAAGAGAGCA+AGG | 0.588953 | 3.1:-9204973 | None:intergenic |
| TGTGTATAAGATATATAGAT+GGG | 0.601002 | 3.1:+9206287 | MS.gene039598:CDS |
| CGTTTACGCTTGCTCCGACG+TGG | 0.602897 | 3.1:+9205158 | MS.gene039598:CDS |
| GCCAACATCAGACAGTCCAC+TGG | 0.611268 | 3.1:+9206176 | MS.gene039598:CDS |
| ACCAGTGGACTGTCTGATGT+TGG | 0.614292 | 3.1:-9206177 | None:intergenic |
| CTAACCGGAGCGGCGAGCAA+GGG | 0.616383 | 3.1:-9205209 | None:intergenic |
| TTCACAAACTCAATAACCAG+TGG | 0.633415 | 3.1:-9206192 | None:intergenic |
| CGCGAGCAAGATAGCAACGT+CGG | 0.634398 | 3.1:-9205059 | None:intergenic |
| GAATGCCGGTGAAATCAAGC+CGG | 0.641182 | 3.1:-9205185 | None:intergenic |
| ACCTAGCCGGAAAACCATGT+CGG | 0.677746 | 3.1:-9205094 | None:intergenic |
| GAGCAAGATAGCAACGTCGG+AGG | 0.693389 | 3.1:-9205056 | None:intergenic |
| TTTCCGGCTAGGTCACGGCG+TGG | 0.703886 | 3.1:+9205104 | MS.gene039598:CDS |
| TTCATGCAAGCTAACCGGAG+CGG | 0.710979 | 3.1:-9205219 | None:intergenic |
| ATCAAGCCGGAAAACCACGT+CGG | 0.738574 | 3.1:-9205172 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAAGATTGAAGATTTTTA+TGG | + | chr3.1:9206000-9206019 | MS.gene039598:intron | 15.0% |
| !! | ATGTGTATAAGATATATAGA+TGG | + | chr3.1:9206286-9206305 | MS.gene039598:CDS | 20.0% |
| !! | GTAATCAGTAAATTGTATTT+AGG | + | chr3.1:9205262-9205281 | MS.gene039598:intron | 20.0% |
| !! | GTTATTCAAATTTAGTGATT+AGG | + | chr3.1:9205703-9205722 | MS.gene039598:intron | 20.0% |
| !! | GTTCAATTTATGATATCTAA+TGG | + | chr3.1:9205762-9205781 | MS.gene039598:intron | 20.0% |
| !! | TGTGTATAAGATATATAGAT+GGG | + | chr3.1:9206287-9206306 | MS.gene039598:CDS | 20.0% |
| !!! | TTAGGTTTTGATTCAAAATT+CGG | + | chr3.1:9205280-9205299 | MS.gene039598:intron | 20.0% |
| ! | ACAAAACAAGAAATCTGATA+AGG | + | chr3.1:9206083-9206102 | MS.gene039598:CDS | 25.0% |
| !! | ATAACACTGGATTTTCTATT+AGG | + | chr3.1:9206034-9206053 | MS.gene039598:intron | 25.0% |
| !! | GTTAATTGTTTTCTGTTCTT+AGG | + | chr3.1:9205307-9205326 | MS.gene039598:intron | 25.0% |
| !!! | TGGCATATTGATTCAAATAT+CGG | + | chr3.1:9205658-9205677 | MS.gene039598:intron | 25.0% |
| AACAAACAAGGTTTCAAGAA+GGG | + | chr3.1:9206129-9206148 | MS.gene039598:CDS | 30.0% | |
| ACACTATTTACACAGCATAT+TGG | + | chr3.1:9205632-9205651 | MS.gene039598:intron | 30.0% | |
| AGTTCTTCAATGATTCATGA+TGG | + | chr3.1:9205913-9205932 | MS.gene039598:intron | 30.0% | |
| CGTTATGTTTGTAACAAACA+AGG | + | chr3.1:9206117-9206136 | MS.gene039598:CDS | 30.0% | |
| GGTAATTATGCATATAACAC+TGG | + | chr3.1:9206021-9206040 | MS.gene039598:intron | 30.0% | |
| TAACAAACAAGGTTTCAAGA+AGG | + | chr3.1:9206128-9206147 | MS.gene039598:CDS | 30.0% | |
| TAAGATATATAGATGGGATG+TGG | + | chr3.1:9206293-9206312 | MS.gene039598:CDS | 30.0% | |
| TACAGTGATTCAAATTACAG+TGG | + | chr3.1:9205411-9205430 | MS.gene039598:intron | 30.0% | |
| TCCATGATTCTTTATTGCTA+GGG | - | chr3.1:9205957-9205976 | None:intergenic | 30.0% | |
| TTATTATTGCACTGTATTGC+CGG | - | chr3.1:9205390-9205409 | None:intergenic | 30.0% | |
| TTCCATGATTCTTTATTGCT+AGG | - | chr3.1:9205958-9205977 | None:intergenic | 30.0% | |
| !!! | GTGTTTGTTGTTGTTTTCAA+TGG | + | chr3.1:9205801-9205820 | MS.gene039598:intron | 30.0% |
| !!! | TTTACACAGCATATTGGTTT+TGG | + | chr3.1:9205638-9205657 | MS.gene039598:intron | 30.0% |
| AAACCATTTCCACAGCAAAA+TGG | + | chr3.1:9205589-9205608 | MS.gene039598:intron | 35.0% | |
| ACTGATTACCTCAAAATGCA+AGG | - | chr3.1:9205251-9205270 | None:intergenic | 35.0% | |
| ATATCAACTTCATCTGAGAG+TGG | + | chr3.1:9205829-9205848 | MS.gene039598:intron | 35.0% | |
| CCATGATTCTTTATTGCTAG+GGG | - | chr3.1:9205956-9205975 | None:intergenic | 35.0% | |
| CTGATTACCTCAAAATGCAA+GGG | - | chr3.1:9205250-9205269 | None:intergenic | 35.0% | |
| GAAAGAAAAACCTGAGGAAA+GGG | + | chr3.1:9206218-9206237 | MS.gene039598:CDS | 35.0% | |
| GAAAGTGAAAGAAAAACCTG+AGG | + | chr3.1:9206212-9206231 | MS.gene039598:CDS | 35.0% | |
| GTTTGCTTAATCCTAACAAC+AGG | + | chr3.1:9206154-9206173 | MS.gene039598:CDS | 35.0% | |
| TGAAAGAAAAACCTGAGGAA+AGG | + | chr3.1:9206217-9206236 | MS.gene039598:CDS | 35.0% | |
| TGAAATTCATGCAAGCTAAC+CGG | - | chr3.1:9205227-9205246 | None:intergenic | 35.0% | |
| TGAAATTCGTGCAACATAGA+CGG | - | chr3.1:9205339-9205358 | None:intergenic | 35.0% | |
| TTCACAAACTCAATAACCAG+TGG | - | chr3.1:9206195-9206214 | None:intergenic | 35.0% | |
| ! | AATTTCACCCTTGCATTTTG+AGG | + | chr3.1:9205240-9205259 | MS.gene039598:intron | 35.0% |
| ! | AGCTGGAATATATTTGAAGC+TGG | + | chr3.1:9206251-9206270 | MS.gene039598:CDS | 35.0% |
| ! | GAATGCTCTGGTTTATGTAA+TGG | - | chr3.1:9206330-9206349 | None:intergenic | 35.0% |
| !! | AAACCATTTTGCTGTGGAAA+TGG | - | chr3.1:9205595-9205614 | None:intergenic | 35.0% |
| !! | GAAACTTCATCACTGATTCA+TGG | + | chr3.1:9205865-9205884 | MS.gene039598:intron | 35.0% |
| CCCCTAGCAATAAAGAATCA+TGG | + | chr3.1:9205953-9205972 | MS.gene039598:intron | 40.0% | |
| ! | ACTCAGAAACCATTTTGCTG+TGG | - | chr3.1:9205601-9205620 | None:intergenic | 40.0% |
| ! | TTCGAGTTTGCTTCAGTTGT+AGG | + | chr3.1:9205740-9205759 | MS.gene039598:intron | 40.0% |
| CGAATTTCACCCTTTCTTGC+CGG | + | chr3.1:9205350-9205369 | MS.gene039598:intron | 45.0% | |
| GAAAGGGTTCGTTGTAAAGC+TGG | + | chr3.1:9206234-9206253 | MS.gene039598:CDS | 45.0% | |
| GAAATGATCTGCGAATGCTC+TGG | - | chr3.1:9206342-9206361 | None:intergenic | 45.0% | |
| GTATTGCCGGAAAACTACGT+CGG | - | chr3.1:9205377-9205396 | None:intergenic | 45.0% | |
| TTACAACGAACCCTTTCCTC+AGG | - | chr3.1:9206231-9206250 | None:intergenic | 45.0% | |
| ! | CTTTCTCCGACATGGTTTTC+CGG | + | chr3.1:9205088-9205107 | MS.gene039598:CDS | 45.0% |
| ! | TCTGATGTTGGCCTGTTGTT+AGG | - | chr3.1:9206168-9206187 | None:intergenic | 45.0% |
| !! | GTTTTCCGGCTTGATTTCAC+CGG | + | chr3.1:9205180-9205199 | MS.gene039598:CDS | 45.0% |
| !! | TCACTGATTCATGGTGAGAG+TGG | + | chr3.1:9205874-9205893 | MS.gene039598:intron | 45.0% |
| ACCTAGCCGAAAAACCACGT+CGG | - | chr3.1:9205007-9205026 | None:intergenic | 50.0% | |
| ACCTAGCCGGAAAACCATGT+CGG | - | chr3.1:9205097-9205116 | None:intergenic | 50.0% | |
| ATCAAGCCGGAAAACCACGT+CGG | - | chr3.1:9205175-9205194 | None:intergenic | 50.0% | |
| CGTTGGAACTTTCTCCGACA+TGG | + | chr3.1:9205080-9205099 | MS.gene039598:CDS | 50.0% | |
| GAAAAACCACGTCGGAGCAA+GGG | - | chr3.1:9204999-9205018 | None:intergenic | 50.0% | |
| GAATGCCGGTGAAATCAAGC+CGG | - | chr3.1:9205188-9205207 | None:intergenic | 50.0% | |
| TTCATGCAAGCTAACCGGAG+CGG | - | chr3.1:9205222-9205241 | None:intergenic | 50.0% | |
| ! | ATGGTTTTCCGGCTAGGTCA+CGG | + | chr3.1:9205099-9205118 | MS.gene039598:CDS | 50.0% |
| ! | CTTGCTCCGACGTGGTTTTT+CGG | + | chr3.1:9204998-9205017 | MS.gene039598:CDS | 50.0% |
| !! | ACCAGTGGACTGTCTGATGT+TGG | - | chr3.1:9206180-9206199 | None:intergenic | 50.0% |
| !! | GTGGTTTTTCGGCTAGGTCA+CGG | + | chr3.1:9205009-9205028 | MS.gene039598:CDS | 50.0% |
| CGAAAAACCACGTCGGAGCA+AGG | - | chr3.1:9205000-9205019 | None:intergenic | 55.0% | |
| CGCGAGCAAGAGAGCAATGT+CGG | - | chr3.1:9205140-9205159 | None:intergenic | 55.0% | |
| CGCGAGCAAGATAGCAACGT+CGG | - | chr3.1:9205062-9205081 | None:intergenic | 55.0% | |
| CGTTGCTATCTTGCTCGCGT+TGG | + | chr3.1:9205063-9205082 | MS.gene039598:CDS | 55.0% | |
| GAGCAAGATAGCAACGTCGG+AGG | - | chr3.1:9205059-9205078 | None:intergenic | 55.0% | |
| GCCAACATCAGACAGTCCAC+TGG | + | chr3.1:9206176-9206195 | MS.gene039598:CDS | 55.0% | |
| TACGTCGGACCGGCAAGAAA+GGG | - | chr3.1:9205362-9205381 | None:intergenic | 55.0% | |
| ! | CTTGCTCCGACGTGGTTTTC+CGG | + | chr3.1:9205166-9205185 | MS.gene039598:CDS | 55.0% |
| ! | TCCGACATGGTTTTCCGGCT+AGG | + | chr3.1:9205093-9205112 | MS.gene039598:CDS | 55.0% |
| !! | TCCGACGTGGTTTTTCGGCT+AGG | + | chr3.1:9205003-9205022 | MS.gene039598:CDS | 55.0% |
| CGTTTACGCTTGCTCCGACG+TGG | + | chr3.1:9205158-9205177 | MS.gene039598:CDS | 60.0% | |
| CTACGTCGGACCGGCAAGAA+AGG | - | chr3.1:9205363-9205382 | None:intergenic | 60.0% | |
| GCCGGAAAACTACGTCGGAC+CGG | - | chr3.1:9205372-9205391 | None:intergenic | 60.0% | |
| TCAGCGCGAGCAAGAGAGCA+AGG | - | chr3.1:9204976-9204995 | None:intergenic | 60.0% | |
| ! | GCCGGTCCGACGTAGTTTTC+CGG | + | chr3.1:9205368-9205387 | MS.gene039598:intron | 60.0% |
| CGGCGAGCAAGGGTGAATGC+CGG | - | chr3.1:9205202-9205221 | None:intergenic | 65.0% | |
| CTAACCGGAGCGGCGAGCAA+GGG | - | chr3.1:9205212-9205231 | None:intergenic | 65.0% | |
| TTCACCCTTGCTCGCCGCTC+CGG | + | chr3.1:9205205-9205224 | MS.gene039598:CDS | 65.0% | |
| TTTCCGGCTAGGTCACGGCG+TGG | + | chr3.1:9205104-9205123 | MS.gene039598:CDS | 65.0% | |
| CGCTGACCCTTGCTCCGACG+TGG | + | chr3.1:9204990-9205009 | MS.gene039598:CDS | 70.0% | |
| GAGCCACGCCGTGACCTAGC+CGG | - | chr3.1:9205110-9205129 | None:intergenic | 70.0% | |
| GCTAACCGGAGCGGCGAGCA+AGG | - | chr3.1:9205213-9205232 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 9204967 | 9206374 | 9204967 | ID=MS.gene039598 |
| chr3.1 | mRNA | 9204967 | 9206374 | 9204967 | ID=MS.gene039598.t1;Parent=MS.gene039598 |
| chr3.1 | exon | 9204967 | 9205226 | 9204967 | ID=MS.gene039598.t1.exon1;Parent=MS.gene039598.t1 |
| chr3.1 | CDS | 9204967 | 9205226 | 9204967 | ID=cds.MS.gene039598.t1;Parent=MS.gene039598.t1 |
| chr3.1 | exon | 9206056 | 9206374 | 9206056 | ID=MS.gene039598.t1.exon2;Parent=MS.gene039598.t1 |
| chr3.1 | CDS | 9206056 | 9206374 | 9206056 | ID=cds.MS.gene039598.t1;Parent=MS.gene039598.t1 |
| Gene Sequence |
| Protein sequence |
