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.gene34043.t1 | XP_013458449.1 | 85.6 | 284 | 12 | 1 | 1 | 255 | 1 | 284 | 2.20E-128 | 468.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34043.t1 | Q9LNP9 | 30.5 | 275 | 160 | 7 | 1 | 253 | 1 | 266 | 6.4e-23 | 109.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34043.t1 | A0A072V2X5 | 85.6 | 284 | 12 | 1 | 1 | 255 | 1 | 284 | 1.6e-128 | 468.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051594 | MS.gene34043 | 0.80396 | 2.72E-49 | -1.69E-46 |
| MS.gene055818 | MS.gene34043 | 0.808037 | 3.77E-50 | -1.69E-46 |
| MS.gene056174 | MS.gene34043 | 0.827187 | 1.80E-54 | -1.69E-46 |
| MS.gene057598 | MS.gene34043 | 0.811326 | 7.40E-51 | -1.69E-46 |
| MS.gene057855 | MS.gene34043 | 0.822117 | 2.81E-53 | -1.69E-46 |
| MS.gene058979 | MS.gene34043 | 0.805205 | 1.49E-49 | -1.69E-46 |
| MS.gene060011 | MS.gene34043 | 0.806958 | 6.39E-50 | -1.69E-46 |
| MS.gene060918 | MS.gene34043 | 0.81723 | 3.67E-52 | -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.gene34043.t1 | MTR_4g125810 | 85.563 | 284 | 12 | 1 | 1 | 255 | 1 | 284 | 2.26e-173 | 488 |
| MS.gene34043.t1 | MTR_2g040500 | 47.386 | 306 | 100 | 8 | 1 | 254 | 1 | 297 | 6.08e-76 | 240 |
| MS.gene34043.t1 | MTR_3g104710 | 28.972 | 321 | 154 | 9 | 1 | 253 | 1 | 315 | 7.16e-30 | 117 |
| MS.gene34043.t1 | MTR_1g015110 | 51.923 | 104 | 46 | 1 | 154 | 253 | 216 | 319 | 2.07e-28 | 113 |
| MS.gene34043.t1 | MTR_8g102550 | 40.230 | 87 | 39 | 2 | 175 | 253 | 100 | 181 | 1.88e-11 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34043.t1 | AT1G17550 | 50.000 | 102 | 49 | 1 | 154 | 253 | 165 | 266 | 2.21e-27 | 110 |
| MS.gene34043.t1 | AT1G17550 | 50.000 | 102 | 49 | 1 | 154 | 253 | 165 | 266 | 2.21e-27 | 110 |
| MS.gene34043.t1 | AT5G57050 | 42.262 | 168 | 82 | 7 | 95 | 258 | 40 | 196 | 4.54e-27 | 107 |
| MS.gene34043.t1 | AT5G57050 | 42.262 | 168 | 82 | 7 | 95 | 258 | 40 | 196 | 2.19e-26 | 107 |
| MS.gene34043.t1 | AT5G57050 | 46.324 | 136 | 61 | 6 | 127 | 258 | 29 | 156 | 9.67e-26 | 104 |
| MS.gene34043.t1 | AT1G72770 | 49.020 | 102 | 50 | 1 | 154 | 253 | 166 | 267 | 1.81e-25 | 104 |
| MS.gene34043.t1 | AT1G72770 | 49.020 | 102 | 50 | 1 | 154 | 253 | 166 | 267 | 1.81e-25 | 104 |
| MS.gene34043.t1 | AT4G26080 | 41.481 | 135 | 58 | 4 | 127 | 258 | 92 | 208 | 2.20e-25 | 104 |
| MS.gene34043.t1 | AT1G72770 | 49.020 | 102 | 50 | 1 | 154 | 253 | 166 | 267 | 6.89e-25 | 103 |
| MS.gene34043.t1 | AT1G72770 | 49.020 | 102 | 50 | 1 | 154 | 253 | 166 | 267 | 6.89e-25 | 103 |
| MS.gene34043.t1 | AT1G72770 | 49.020 | 102 | 50 | 1 | 154 | 253 | 166 | 267 | 6.89e-25 | 103 |
Find 60 sgRNAs with CRISPR-Local
Find 68 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAATTTCCAAGTGTAAA+TGG | 0.209870 | 1.4:-73885041 | None:intergenic |
| TGATGGGCATAGAGGCTTTC+AGG | 0.209915 | 1.4:+73885694 | MS.gene34043:CDS |
| TGATTGAATGTGGGAGTAAT+TGG | 0.283028 | 1.4:+73885258 | MS.gene34043:CDS |
| TACTCAATTCCAAACCATTC+TGG | 0.307215 | 1.4:-73885508 | None:intergenic |
| AATTGAGTAGTGGCCCTCTA+TGG | 0.315879 | 1.4:+73885522 | MS.gene34043:CDS |
| CGTCCTTTATAGCCTGGTTA+TGG | 0.318628 | 1.4:-73885295 | None:intergenic |
| TTTCAGTGCCTGCATAATTC+CGG | 0.352210 | 1.4:+73885341 | MS.gene34043:CDS |
| ACACATCTATGGCTTTAGTC+TGG | 0.353259 | 1.4:-73885886 | None:intergenic |
| GATAACCGGGTTGAAGCTTA+TGG | 0.383742 | 1.4:+73885097 | MS.gene34043:CDS |
| CACGGTATCCGCGGAGGTAA+AGG | 0.384992 | 1.4:+73885199 | MS.gene34043:CDS |
| ACAACTCATATGGAGATAAC+CGG | 0.401599 | 1.4:+73885083 | MS.gene34043:CDS |
| ATTGAGTAGTGGCCCTCTAT+GGG | 0.404588 | 1.4:+73885523 | MS.gene34043:CDS |
| ACTTGGAAATTTGATTCAAA+AGG | 0.416275 | 1.4:+73885049 | MS.gene34043:CDS |
| AAGCCATAACCAGGCTATAA+AGG | 0.423467 | 1.4:+73885292 | MS.gene34043:CDS |
| TTGATATTAAATCCTGCAGT+TGG | 0.427928 | 1.4:+73885137 | MS.gene34043:CDS |
| CACATCTATGGCTTTAGTCT+GGG | 0.440772 | 1.4:-73885885 | None:intergenic |
| CTTGAAGATATTTCTTCCAT+TGG | 0.442941 | 1.4:-73885008 | None:intergenic |
| AGATTCACCAATCATCGTTA+AGG | 0.450055 | 1.4:+73885379 | MS.gene34043:CDS |
| TGCTGCTGTTACAACTCATA+TGG | 0.453647 | 1.4:+73885073 | MS.gene34043:CDS |
| AACAAGCAACCAGAATGGTT+TGG | 0.455011 | 1.4:+73885499 | MS.gene34043:CDS |
| TCACCAACCTTAACGATGAT+TGG | 0.459136 | 1.4:-73885386 | None:intergenic |
| AGTCCCTTCACAGATGCTAA+TGG | 0.459379 | 1.4:+73885616 | MS.gene34043:CDS |
| AAGGTTGGTGATGAGATTCA+TGG | 0.470185 | 1.4:+73885398 | MS.gene34043:CDS |
| TCTCATCGTCCTTTATAGCC+TGG | 0.499525 | 1.4:-73885301 | None:intergenic |
| CTGTGGAAATAGACCGGAGA+TGG | 0.511631 | 1.4:+73885559 | MS.gene34043:CDS |
| AGTTGGTGCGGCCGTTGTCT+CGG | 0.516995 | 1.4:+73885229 | MS.gene34043:CDS |
| ATTGAGAGCCGGAATTATGC+AGG | 0.533788 | 1.4:-73885349 | None:intergenic |
| ATCAATCTGTGGAAATAGAC+CGG | 0.533852 | 1.4:+73885553 | MS.gene34043:CDS |
| GCAACAACATCTTCCATCTC+CGG | 0.542671 | 1.4:-73885572 | None:intergenic |
| TTGAGAACAAGCAACCAGAA+TGG | 0.553751 | 1.4:+73885494 | MS.gene34043:CDS |
| TCTTCTTGATCAGTTGCCAA+AGG | 0.560115 | 1.4:+73885460 | MS.gene34043:CDS |
| TCACCAATCATCGTTAAGGT+TGG | 0.561708 | 1.4:+73885383 | MS.gene34043:CDS |
| TGTGTCTATGATGGGCATAG+AGG | 0.564142 | 1.4:+73885686 | MS.gene34043:CDS |
| GTTGCAGTGCCATTTACACT+TGG | 0.572388 | 1.4:+73885032 | MS.gene34043:CDS |
| GAGGTAAAGGAGAATCAAGT+TGG | 0.572537 | 1.4:+73885212 | MS.gene34043:CDS |
| TCTACACTCAGCGTTGATTG+AGG | 0.579519 | 1.4:+73885819 | MS.gene34043:CDS |
| TTGATGAGAAACCCCATAGA+GGG | 0.580491 | 1.4:-73885535 | None:intergenic |
| CTTGAGTGAAAGCCATAACC+AGG | 0.583606 | 1.4:+73885283 | MS.gene34043:CDS |
| ATCTGCCACAGATTGAGAGC+CGG | 0.587568 | 1.4:-73885360 | None:intergenic |
| ATTGATGAGAAACCCCATAG+AGG | 0.590904 | 1.4:-73885536 | None:intergenic |
| TCGGAAATGTTGATTGAATG+TGG | 0.599725 | 1.4:+73885248 | MS.gene34043:CDS |
| CGATGAGATCATGTTAGCTG+TGG | 0.601298 | 1.4:+73885316 | MS.gene34043:CDS |
| CAACTCATATGGAGATAACC+GGG | 0.606916 | 1.4:+73885084 | MS.gene34043:CDS |
| TTGAGTAGTGGCCCTCTATG+GGG | 0.609354 | 1.4:+73885524 | MS.gene34043:CDS |
| TCATCCATTAGCATCTGTGA+AGG | 0.613517 | 1.4:-73885620 | None:intergenic |
| TAATTCCGGCTCTCAATCTG+TGG | 0.620923 | 1.4:+73885355 | MS.gene34043:CDS |
| TGGGGTTTCTCATCAATCTG+TGG | 0.622774 | 1.4:+73885542 | MS.gene34043:CDS |
| CATCCATTAGCATCTGTGAA+GGG | 0.623872 | 1.4:-73885619 | None:intergenic |
| AATCAACATTTCCGAGACAA+CGG | 0.634725 | 1.4:-73885240 | None:intergenic |
| AATGGTTTGGAATTGAGTAG+TGG | 0.634780 | 1.4:+73885512 | MS.gene34043:CDS |
| CGGAAATGTTGATTGAATGT+GGG | 0.636981 | 1.4:+73885249 | MS.gene34043:CDS |
| GTTGAAGACTAACATCAGCA+TGG | 0.646810 | 1.4:-73885169 | None:intergenic |
| TCAGATCACGGTATCCGCGG+AGG | 0.649352 | 1.4:+73885193 | MS.gene34043:CDS |
| ATTTGCCATAAGCTTCAACC+CGG | 0.654249 | 1.4:-73885102 | None:intergenic |
| ACATCAGATCACGGTATCCG+CGG | 0.656186 | 1.4:+73885190 | MS.gene34043:CDS |
| AAAGGAGAATCAAGTTGGTG+CGG | 0.659401 | 1.4:+73885217 | MS.gene34043:CDS |
| TAGTCTTCAACATCAGATCA+CGG | 0.669945 | 1.4:+73885181 | MS.gene34043:CDS |
| TCAAGAAGAATAGCAGATAG+CGG | 0.674460 | 1.4:-73885446 | None:intergenic |
| TTGATTCTCCTTTACCTCCG+CGG | 0.675182 | 1.4:-73885207 | None:intergenic |
| TGGTAAGTTTAGCATAAACG+AGG | 0.709809 | 1.4:+73885418 | MS.gene34043:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCATAGACACAAAAAAAAT+GGG | - | chr1.4:73885678-73885697 | None:intergenic | 20.0% |
| !! | CAAATTGTATGATTTGATTA+AGG | - | chr1.4:73885726-73885745 | None:intergenic | 20.0% |
| !!! | ATTTTGTGTTTTCATTCAAA+TGG | - | chr1.4:73885646-73885665 | None:intergenic | 20.0% |
| !!! | ATTTTTTTTGTGTCTATGAT+GGG | + | chr1.4:73885678-73885697 | MS.gene34043:CDS | 20.0% |
| ! | ACTTGGAAATTTGATTCAAA+AGG | + | chr1.4:73885049-73885068 | MS.gene34043:CDS | 25.0% |
| ! | ATCAAATTTCCAAGTGTAAA+TGG | - | chr1.4:73885044-73885063 | None:intergenic | 25.0% |
| ! | CATCATAGACACAAAAAAAA+TGG | - | chr1.4:73885679-73885698 | None:intergenic | 25.0% |
| !!! | CATTTTTTTTGTGTCTATGA+TGG | + | chr1.4:73885677-73885696 | MS.gene34043:CDS | 25.0% |
| TTGATATTAAATCCTGCAGT+TGG | + | chr1.4:73885137-73885156 | MS.gene34043:CDS | 30.0% | |
| AATCAACATTTCCGAGACAA+CGG | - | chr1.4:73885243-73885262 | None:intergenic | 35.0% | |
| ACAACTCATATGGAGATAAC+CGG | + | chr1.4:73885083-73885102 | MS.gene34043:CDS | 35.0% | |
| AGATTCACCAATCATCGTTA+AGG | + | chr1.4:73885379-73885398 | MS.gene34043:CDS | 35.0% | |
| ATCAATCTGTGGAAATAGAC+CGG | + | chr1.4:73885553-73885572 | MS.gene34043:CDS | 35.0% | |
| TACTCAATTCCAAACCATTC+TGG | - | chr1.4:73885511-73885530 | None:intergenic | 35.0% | |
| TAGTCTTCAACATCAGATCA+CGG | + | chr1.4:73885181-73885200 | MS.gene34043:CDS | 35.0% | |
| TCAAGAAGAATAGCAGATAG+CGG | - | chr1.4:73885449-73885468 | None:intergenic | 35.0% | |
| TGATTGAATGTGGGAGTAAT+TGG | + | chr1.4:73885258-73885277 | MS.gene34043:CDS | 35.0% | |
| TGGTAAGTTTAGCATAAACG+AGG | + | chr1.4:73885418-73885437 | MS.gene34043:CDS | 35.0% | |
| ! | AATGGTTTGGAATTGAGTAG+TGG | + | chr1.4:73885512-73885531 | MS.gene34043:CDS | 35.0% |
| ! | ACACAAAAAAAATGGGCTTG+TGG | - | chr1.4:73885671-73885690 | None:intergenic | 35.0% |
| ! | CGGAAATGTTGATTGAATGT+GGG | + | chr1.4:73885249-73885268 | MS.gene34043:CDS | 35.0% |
| ! | TCGGAAATGTTGATTGAATG+TGG | + | chr1.4:73885248-73885267 | MS.gene34043:CDS | 35.0% |
| !! | CTCAATGTTTTGTTCTCCTT+TGG | - | chr1.4:73885479-73885498 | None:intergenic | 35.0% |
| !!! | GAGAGTGTTTTGTTTCTGAT+AGG | + | chr1.4:73885774-73885793 | MS.gene34043:intron | 35.0% |
| AACAAGCAACCAGAATGGTT+TGG | + | chr1.4:73885499-73885518 | MS.gene34043:CDS | 40.0% | |
| AAGCCATAACCAGGCTATAA+AGG | + | chr1.4:73885292-73885311 | MS.gene34043:CDS | 40.0% | |
| ATTGATGAGAAACCCCATAG+AGG | - | chr1.4:73885539-73885558 | None:intergenic | 40.0% | |
| ATTTGCCATAAGCTTCAACC+CGG | - | chr1.4:73885105-73885124 | None:intergenic | 40.0% | |
| CAACTCATATGGAGATAACC+GGG | + | chr1.4:73885084-73885103 | MS.gene34043:CDS | 40.0% | |
| CATCCATTAGCATCTGTGAA+GGG | - | chr1.4:73885622-73885641 | None:intergenic | 40.0% | |
| GAGGTAAAGGAGAATCAAGT+TGG | + | chr1.4:73885212-73885231 | MS.gene34043:CDS | 40.0% | |
| GTTGAAGACTAACATCAGCA+TGG | - | chr1.4:73885172-73885191 | None:intergenic | 40.0% | |
| TCACCAACCTTAACGATGAT+TGG | - | chr1.4:73885389-73885408 | None:intergenic | 40.0% | |
| TCACCAATCATCGTTAAGGT+TGG | + | chr1.4:73885383-73885402 | MS.gene34043:CDS | 40.0% | |
| TCATCCATTAGCATCTGTGA+AGG | - | chr1.4:73885623-73885642 | None:intergenic | 40.0% | |
| TCTTCTTGATCAGTTGCCAA+AGG | + | chr1.4:73885460-73885479 | MS.gene34043:CDS | 40.0% | |
| TGCTGCTGTTACAACTCATA+TGG | + | chr1.4:73885073-73885092 | MS.gene34043:CDS | 40.0% | |
| TTGAGAACAAGCAACCAGAA+TGG | + | chr1.4:73885494-73885513 | MS.gene34043:CDS | 40.0% | |
| TTGATGAGAAACCCCATAGA+GGG | - | chr1.4:73885538-73885557 | None:intergenic | 40.0% | |
| TTTCAGTGCCTGCATAATTC+CGG | + | chr1.4:73885341-73885360 | MS.gene34043:CDS | 40.0% | |
| ! | TGGTTTTCATTTCCAACTGC+AGG | - | chr1.4:73885152-73885171 | None:intergenic | 40.0% |
| !! | AAAGGAGAATCAAGTTGGTG+CGG | + | chr1.4:73885217-73885236 | MS.gene34043:CDS | 40.0% |
| !! | AAGGTTGGTGATGAGATTCA+TGG | + | chr1.4:73885398-73885417 | MS.gene34043:CDS | 40.0% |
| AATTGAGTAGTGGCCCTCTA+TGG | + | chr1.4:73885522-73885541 | MS.gene34043:CDS | 45.0% | |
| AGTCCCTTCACAGATGCTAA+TGG | + | chr1.4:73885616-73885635 | MS.gene34043:CDS | 45.0% | |
| ATTGAGAGCCGGAATTATGC+AGG | - | chr1.4:73885352-73885371 | None:intergenic | 45.0% | |
| ATTGAGTAGTGGCCCTCTAT+GGG | + | chr1.4:73885523-73885542 | MS.gene34043:CDS | 45.0% | |
| CGATGAGATCATGTTAGCTG+TGG | + | chr1.4:73885316-73885335 | MS.gene34043:CDS | 45.0% | |
| CGTCCTTTATAGCCTGGTTA+TGG | - | chr1.4:73885298-73885317 | None:intergenic | 45.0% | |
| CTTGAGTGAAAGCCATAACC+AGG | + | chr1.4:73885283-73885302 | MS.gene34043:CDS | 45.0% | |
| GAAGGGACTTGAAAAAGCTG+AGG | - | chr1.4:73885605-73885624 | None:intergenic | 45.0% | |
| GCAACAACATCTTCCATCTC+CGG | - | chr1.4:73885575-73885594 | None:intergenic | 45.0% | |
| TAATTCCGGCTCTCAATCTG+TGG | + | chr1.4:73885355-73885374 | MS.gene34043:CDS | 45.0% | |
| TCTCATCGTCCTTTATAGCC+TGG | - | chr1.4:73885304-73885323 | None:intergenic | 45.0% | |
| TGGGGTTTCTCATCAATCTG+TGG | + | chr1.4:73885542-73885561 | MS.gene34043:CDS | 45.0% | |
| TTGATTCTCCTTTACCTCCG+CGG | - | chr1.4:73885210-73885229 | None:intergenic | 45.0% | |
| ! | GATAACCGGGTTGAAGCTTA+TGG | + | chr1.4:73885097-73885116 | MS.gene34043:CDS | 45.0% |
| !! | GTTGCAGTGCCATTTACACT+TGG | + | chr1.4:73885032-73885051 | MS.gene34043:CDS | 45.0% |
| !! | TCTACACTCAGCGTTGATTG+AGG | + | chr1.4:73885819-73885838 | MS.gene34043:CDS | 45.0% |
| !! | TGTGTCTATGATGGGCATAG+AGG | + | chr1.4:73885686-73885705 | MS.gene34043:CDS | 45.0% |
| ACATCAGATCACGGTATCCG+CGG | + | chr1.4:73885190-73885209 | MS.gene34043:CDS | 50.0% | |
| ATCTGCCACAGATTGAGAGC+CGG | - | chr1.4:73885363-73885382 | None:intergenic | 50.0% | |
| CTGTGGAAATAGACCGGAGA+TGG | + | chr1.4:73885559-73885578 | MS.gene34043:CDS | 50.0% | |
| TTGAGTAGTGGCCCTCTATG+GGG | + | chr1.4:73885524-73885543 | MS.gene34043:CDS | 50.0% | |
| ! | TGATGGGCATAGAGGCTTTC+AGG | + | chr1.4:73885694-73885713 | MS.gene34043:CDS | 50.0% |
| CACGGTATCCGCGGAGGTAA+AGG | + | chr1.4:73885199-73885218 | MS.gene34043:CDS | 60.0% | |
| TCAGATCACGGTATCCGCGG+AGG | + | chr1.4:73885193-73885212 | MS.gene34043:CDS | 60.0% | |
| ! | AGTTGGTGCGGCCGTTGTCT+CGG | + | chr1.4:73885229-73885248 | MS.gene34043:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 73885011 | 73885894 | 73885011 | ID=MS.gene34043 |
| chr1.4 | mRNA | 73885011 | 73885894 | 73885011 | ID=MS.gene34043.t1;Parent=MS.gene34043 |
| chr1.4 | exon | 73885011 | 73885715 | 73885011 | ID=MS.gene34043.t1.exon1;Parent=MS.gene34043.t1 |
| chr1.4 | CDS | 73885011 | 73885715 | 73885011 | ID=cds.MS.gene34043.t1;Parent=MS.gene34043.t1 |
| chr1.4 | exon | 73885796 | 73885894 | 73885796 | ID=MS.gene34043.t1.exon2;Parent=MS.gene34043.t1 |
| chr1.4 | CDS | 73885796 | 73885894 | 73885796 | ID=cds.MS.gene34043.t1;Parent=MS.gene34043.t1 |
| Gene Sequence |
| Protein sequence |
