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.gene35053.t1 | XP_013457230.1 | 93.3 | 224 | 15 | 0 | 1 | 224 | 1 | 224 | 1.40E-91 | 345.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35053.t1 | Q9M2C0 | 58.0 | 200 | 75 | 2 | 26 | 224 | 7 | 198 | 2.1e-56 | 220.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35053.t1 | A0A072UPG2 | 93.3 | 224 | 15 | 0 | 1 | 224 | 1 | 224 | 1.0e-91 | 345.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051323 | MS.gene35053 | 0.90098 | 4.25E-78 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene35053 | MS.gene60673 | PPI |
| MS.gene35053 | MS.gene59206 | PPI |
| MS.gene48173 | MS.gene35053 | PPI |
| MS.gene67394 | MS.gene35053 | PPI |
| MS.gene000219 | MS.gene35053 | PPI |
| MS.gene35053 | MS.gene066222 | PPI |
| MS.gene006180 | MS.gene35053 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35053.t1 | MTR_4g094332 | 95.536 | 224 | 10 | 0 | 1 | 224 | 1 | 224 | 1.87e-137 | 384 |
| MS.gene35053.t1 | MTR_4g094328 | 93.750 | 224 | 14 | 0 | 1 | 224 | 1 | 224 | 4.30e-133 | 373 |
| MS.gene35053.t1 | MTR_4g094330 | 93.750 | 224 | 14 | 0 | 1 | 224 | 1 | 224 | 4.30e-133 | 373 |
| MS.gene35053.t1 | MTR_1g099010 | 66.169 | 201 | 64 | 1 | 24 | 224 | 21 | 217 | 2.44e-90 | 265 |
| MS.gene35053.t1 | MTR_6g034975 | 66.507 | 209 | 67 | 2 | 16 | 224 | 5 | 210 | 5.27e-88 | 259 |
| MS.gene35053.t1 | MTR_4g094325 | 63.333 | 210 | 73 | 2 | 15 | 224 | 34 | 239 | 4.39e-85 | 252 |
| MS.gene35053.t1 | MTR_2g008110 | 62.105 | 190 | 63 | 1 | 30 | 219 | 27 | 207 | 2.88e-73 | 221 |
| MS.gene35053.t1 | MTR_0119s0010 | 62.105 | 190 | 63 | 1 | 30 | 219 | 27 | 207 | 2.91e-73 | 221 |
| MS.gene35053.t1 | MTR_0119s0020 | 62.105 | 190 | 63 | 1 | 30 | 219 | 27 | 207 | 2.91e-73 | 221 |
| MS.gene35053.t1 | MTR_4g094335 | 57.073 | 205 | 79 | 2 | 18 | 219 | 27 | 225 | 2.01e-70 | 215 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35053.t1 | AT3G43660 | 63.500 | 200 | 64 | 2 | 26 | 224 | 7 | 198 | 2.94e-91 | 266 |
| MS.gene35053.t1 | AT1G21140 | 63.874 | 191 | 61 | 1 | 34 | 224 | 18 | 200 | 3.38e-81 | 241 |
| MS.gene35053.t1 | AT3G43630 | 62.312 | 199 | 66 | 2 | 24 | 221 | 4 | 194 | 1.11e-80 | 240 |
| MS.gene35053.t1 | AT1G76800 | 62.500 | 200 | 66 | 1 | 25 | 224 | 6 | 196 | 1.09e-79 | 237 |
| MS.gene35053.t1 | AT3G25190 | 64.455 | 211 | 69 | 2 | 18 | 224 | 9 | 217 | 5.66e-75 | 226 |
Find 52 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGGCTATGGCCATTACTTT+TGG | 0.296297 | 4.4:+20477632 | MS.gene35053:CDS |
| ACCAAATTGATTGGCACTAC+TGG | 0.296615 | 4.4:+20477659 | MS.gene35053:CDS |
| TCTTGTGTTAGAGTGCTTAT+TGG | 0.298679 | 4.4:+20477602 | MS.gene35053:CDS |
| TGTGGTTAGCTTTGCATTGT+TGG | 0.307872 | 4.4:+20477532 | MS.gene35053:CDS |
| TCCAGTAGTGCCAATCAATT+TGG | 0.330163 | 4.4:-20477660 | None:intergenic |
| TTTGGTTTCACCAAATTGAT+TGG | 0.341339 | 4.4:+20477650 | MS.gene35053:CDS |
| AGCTTTGCATTGTTGGTGTT+TGG | 0.347559 | 4.4:+20477539 | MS.gene35053:CDS |
| TTCAAAGGGCACAGTGGCTT+AGG | 0.366043 | 4.4:+20477135 | MS.gene35053:CDS |
| TGGCTTAGGGCAGCCATGTT+AGG | 0.370873 | 4.4:+20477149 | MS.gene35053:CDS |
| ATCTCAACCTCAAAATTGTT+TGG | 0.384795 | 4.4:-20477053 | None:intergenic |
| AGGGCTGCTTGAAATGGATT+TGG | 0.388581 | 4.4:-20477413 | None:intergenic |
| ATCAAAGTAATGCTCCTTGC+TGG | 0.393708 | 4.4:+20477236 | MS.gene35053:CDS |
| GATGCTAGGGCTGCTTGAAA+TGG | 0.413748 | 4.4:-20477419 | None:intergenic |
| ATGCTCCTTGCTGGTTTCGC+TGG | 0.425505 | 4.4:+20477245 | MS.gene35053:CDS |
| GTTTGGAGGAGTGGGAGCAT+TGG | 0.437850 | 4.4:+20477556 | MS.gene35053:CDS |
| TCCTTCATGGCCTCCCACCT+TGG | 0.453012 | 4.4:+20477008 | None:intergenic |
| CAACATTGATTACTTTCAAA+GGG | 0.466059 | 4.4:+20477121 | MS.gene35053:CDS |
| GGTTTCGCTGGTTTAGTAGC+CGG | 0.470478 | 4.4:+20477257 | MS.gene35053:CDS |
| TCAAAGGGCACAGTGGCTTA+GGG | 0.472665 | 4.4:+20477136 | MS.gene35053:CDS |
| AACAGTGATTAGTCCATCAT+TGG | 0.482821 | 4.4:-20477174 | None:intergenic |
| TTAGAGTGCTTATTGGTGGT+TGG | 0.485640 | 4.4:+20477609 | MS.gene35053:CDS |
| TTGTTGGTGTTTGGAGGAGT+GGG | 0.488776 | 4.4:+20477548 | MS.gene35053:CDS |
| TGATGATGAAAGTACTGAAA+AGG | 0.488855 | 4.4:+20477382 | MS.gene35053:CDS |
| ACAACATTGATTACTTTCAA+AGG | 0.489039 | 4.4:+20477120 | MS.gene35053:CDS |
| AAGAATCACAAAATCAGAAT+GGG | 0.491528 | 4.4:+20477497 | MS.gene35053:CDS |
| AAAATGCCAGTGCTGATGCT+AGG | 0.492361 | 4.4:-20477433 | None:intergenic |
| AAAGAATCACAAAATCAGAA+TGG | 0.497277 | 4.4:+20477496 | MS.gene35053:CDS |
| TTTGCATTGTTGGTGTTTGG+AGG | 0.499902 | 4.4:+20477542 | MS.gene35053:CDS |
| GGAGGAGTGGGAGCATTGGT+TGG | 0.501548 | 4.4:+20477560 | MS.gene35053:CDS |
| ATTGTTGGTGTTTGGAGGAG+TGG | 0.501761 | 4.4:+20477547 | MS.gene35053:CDS |
| AGAAAACTATTAGCATGGAT+AGG | 0.502706 | 4.4:-20477077 | None:intergenic |
| TGTGTTAGAGTGCTTATTGG+TGG | 0.506211 | 4.4:+20477605 | MS.gene35053:CDS |
| GCATCGTTGATGATTGGTGT+TGG | 0.506584 | 4.4:+20477197 | MS.gene35053:CDS |
| TATTGGTGGTTGGATGGCTA+TGG | 0.515341 | 4.4:+20477619 | MS.gene35053:CDS |
| ACTGTTGCATCGTTGATGAT+TGG | 0.516876 | 4.4:+20477191 | MS.gene35053:CDS |
| AACCTCAAAATTGTTTGGTG+AGG | 0.527938 | 4.4:-20477048 | None:intergenic |
| GAAAACTATTAGCATGGATA+GGG | 0.536330 | 4.4:-20477076 | None:intergenic |
| AGTGCTTATTGGTGGTTGGA+TGG | 0.539553 | 4.4:+20477613 | MS.gene35053:CDS |
| TTTGGTGAAACCAAAAGTAA+TGG | 0.542621 | 4.4:-20477642 | None:intergenic |
| TCCATCATTGGCTCCTAACA+TGG | 0.543290 | 4.4:-20477162 | None:intergenic |
| CTTTGAGAAAACTATTAGCA+TGG | 0.548309 | 4.4:-20477082 | None:intergenic |
| GGTGCTTGTAGCATGGCAAT+TGG | 0.557712 | 4.4:+20477278 | MS.gene35053:CDS |
| AGCAGCCCTAGCATCAGCAC+TGG | 0.559205 | 4.4:+20477427 | MS.gene35053:CDS |
| ATAAATGCAGCTGCTAGCAA+TGG | 0.565330 | 4.4:-20477473 | None:intergenic |
| AAATGCCAGTGCTGATGCTA+GGG | 0.565337 | 4.4:-20477432 | None:intergenic |
| AATTGCCATGCTACAAGCAC+CGG | 0.567135 | 4.4:-20477276 | None:intergenic |
| AGTAGCCGGTGCTTGTAGCA+TGG | 0.572629 | 4.4:+20477271 | MS.gene35053:CDS |
| GCCATGTTAGGAGCCAATGA+TGG | 0.577904 | 4.4:+20477161 | MS.gene35053:CDS |
| CTAACACAAGACCTCATCAA+AGG | 0.611245 | 4.4:-20477590 | None:intergenic |
| AATGGGAGTTGTAGCTGCTG+TGG | 0.646963 | 4.4:+20477514 | MS.gene35053:CDS |
| CTAAACCAGCGAAACCAGCA+AGG | 0.672858 | 4.4:-20477250 | None:intergenic |
| ATTACTTTCAAAGGGCACAG+TGG | 0.699406 | 4.4:+20477129 | MS.gene35053:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAGAATCACAAAATCAGAA+TGG | + | chr4.4:20477496-20477515 | MS.gene35053:CDS | 25.0% |
| ! | AAGAATCACAAAATCAGAAT+GGG | + | chr4.4:20477497-20477516 | MS.gene35053:CDS | 25.0% |
| !! | ACAACATTGATTACTTTCAA+AGG | + | chr4.4:20477120-20477139 | MS.gene35053:CDS | 25.0% |
| !! | CAACATTGATTACTTTCAAA+GGG | + | chr4.4:20477121-20477140 | MS.gene35053:CDS | 25.0% |
| AGAAAACTATTAGCATGGAT+AGG | - | chr4.4:20477080-20477099 | None:intergenic | 30.0% | |
| ATCTCAACCTCAAAATTGTT+TGG | - | chr4.4:20477056-20477075 | None:intergenic | 30.0% | |
| GAAAACTATTAGCATGGATA+GGG | - | chr4.4:20477079-20477098 | None:intergenic | 30.0% | |
| TTTGGTGAAACCAAAAGTAA+TGG | - | chr4.4:20477645-20477664 | None:intergenic | 30.0% | |
| ! | CTTTGAGAAAACTATTAGCA+TGG | - | chr4.4:20477085-20477104 | None:intergenic | 30.0% |
| ! | TTTGGTTTCACCAAATTGAT+TGG | + | chr4.4:20477650-20477669 | MS.gene35053:CDS | 30.0% |
| !! | TGATGATGAAAGTACTGAAA+AGG | + | chr4.4:20477382-20477401 | MS.gene35053:CDS | 30.0% |
| CACCTTGGAGAAAAAACTAA+CGG | + | chr4.4:20477023-20477042 | MS.gene35053:CDS | 35.0% | |
| TTGGAAAAACTCCTTTGATG+AGG | + | chr4.4:20477579-20477598 | MS.gene35053:CDS | 35.0% | |
| ! | AACAGTGATTAGTCCATCAT+TGG | - | chr4.4:20477177-20477196 | None:intergenic | 35.0% |
| ! | AACCTCAAAATTGTTTGGTG+AGG | - | chr4.4:20477051-20477070 | None:intergenic | 35.0% |
| ! | AACCTCACCAAACAATTTTG+AGG | + | chr4.4:20477046-20477065 | MS.gene35053:CDS | 35.0% |
| ! | TCTTGTGTTAGAGTGCTTAT+TGG | + | chr4.4:20477602-20477621 | MS.gene35053:CDS | 35.0% |
| !!! | GTTAGTTTTTTCTCCAAGGT+GGG | - | chr4.4:20477024-20477043 | None:intergenic | 35.0% |
| !!! | TTCCGTTAGTTTTTTCTCCA+AGG | - | chr4.4:20477028-20477047 | None:intergenic | 35.0% |
| ACCAAATTGATTGGCACTAC+TGG | + | chr4.4:20477659-20477678 | MS.gene35053:CDS | 40.0% | |
| ATAAATGCAGCTGCTAGCAA+TGG | - | chr4.4:20477476-20477495 | None:intergenic | 40.0% | |
| ATCAAAGTAATGCTCCTTGC+TGG | + | chr4.4:20477236-20477255 | MS.gene35053:CDS | 40.0% | |
| CTAACACAAGACCTCATCAA+AGG | - | chr4.4:20477593-20477612 | None:intergenic | 40.0% | |
| TCCAGTAGTGCCAATCAATT+TGG | - | chr4.4:20477663-20477682 | None:intergenic | 40.0% | |
| ! | AGCTTTGCATTGTTGGTGTT+TGG | + | chr4.4:20477539-20477558 | MS.gene35053:CDS | 40.0% |
| ! | ATGGCTATGGCCATTACTTT+TGG | + | chr4.4:20477632-20477651 | MS.gene35053:CDS | 40.0% |
| ! | ATTACTTTCAAAGGGCACAG+TGG | + | chr4.4:20477129-20477148 | MS.gene35053:CDS | 40.0% |
| ! | TGTGTTAGAGTGCTTATTGG+TGG | + | chr4.4:20477605-20477624 | MS.gene35053:CDS | 40.0% |
| ! | TTAGAGTGCTTATTGGTGGT+TGG | + | chr4.4:20477609-20477628 | MS.gene35053:CDS | 40.0% |
| ! | TTTGCATTGTTGGTGTTTGG+AGG | + | chr4.4:20477542-20477561 | MS.gene35053:CDS | 40.0% |
| !! | ACTGTTGCATCGTTGATGAT+TGG | + | chr4.4:20477191-20477210 | MS.gene35053:CDS | 40.0% |
| !! | TGTGGTTAGCTTTGCATTGT+TGG | + | chr4.4:20477532-20477551 | MS.gene35053:CDS | 40.0% |
| !!! | CGTTAGTTTTTTCTCCAAGG+TGG | - | chr4.4:20477025-20477044 | None:intergenic | 40.0% |
| AATTGCCATGCTACAAGCAC+CGG | - | chr4.4:20477279-20477298 | None:intergenic | 45.0% | |
| ! | AGGGCTGCTTGAAATGGATT+TGG | - | chr4.4:20477416-20477435 | None:intergenic | 45.0% |
| ! | AGTGCTTATTGGTGGTTGGA+TGG | + | chr4.4:20477613-20477632 | MS.gene35053:CDS | 45.0% |
| ! | ATTGTTGGTGTTTGGAGGAG+TGG | + | chr4.4:20477547-20477566 | MS.gene35053:CDS | 45.0% |
| ! | TATTGGTGGTTGGATGGCTA+TGG | + | chr4.4:20477619-20477638 | MS.gene35053:CDS | 45.0% |
| ! | TTGTTGGTGTTTGGAGGAGT+GGG | + | chr4.4:20477548-20477567 | MS.gene35053:CDS | 45.0% |
| !! | AAAATGCCAGTGCTGATGCT+AGG | - | chr4.4:20477436-20477455 | None:intergenic | 45.0% |
| !! | AAATGCCAGTGCTGATGCTA+GGG | - | chr4.4:20477435-20477454 | None:intergenic | 45.0% |
| !! | GCATCGTTGATGATTGGTGT+TGG | + | chr4.4:20477197-20477216 | MS.gene35053:CDS | 45.0% |
| !! | TCCATCATTGGCTCCTAACA+TGG | - | chr4.4:20477165-20477184 | None:intergenic | 45.0% |
| !!! | AGTTTTTTCTCCAAGGTGGG+AGG | - | chr4.4:20477021-20477040 | None:intergenic | 45.0% |
| !!! | TCAGCACTGGCATTTTCTGT+TGG | + | chr4.4:20477440-20477459 | MS.gene35053:CDS | 45.0% |
| AATGGGAGTTGTAGCTGCTG+TGG | + | chr4.4:20477514-20477533 | MS.gene35053:CDS | 50.0% | |
| CTAAACCAGCGAAACCAGCA+AGG | - | chr4.4:20477253-20477272 | None:intergenic | 50.0% | |
| GATGCTAGGGCTGCTTGAAA+TGG | - | chr4.4:20477422-20477441 | None:intergenic | 50.0% | |
| GCCATGTTAGGAGCCAATGA+TGG | + | chr4.4:20477161-20477180 | MS.gene35053:CDS | 50.0% | |
| GGTGCTTGTAGCATGGCAAT+TGG | + | chr4.4:20477278-20477297 | MS.gene35053:CDS | 50.0% | |
| ! | TCAAAGGGCACAGTGGCTTA+GGG | + | chr4.4:20477136-20477155 | MS.gene35053:CDS | 50.0% |
| ! | TTCAAAGGGCACAGTGGCTT+AGG | + | chr4.4:20477135-20477154 | MS.gene35053:CDS | 50.0% |
| !! | GGTTTCGCTGGTTTAGTAGC+CGG | + | chr4.4:20477257-20477276 | MS.gene35053:CDS | 50.0% |
| AGTAGCCGGTGCTTGTAGCA+TGG | + | chr4.4:20477271-20477290 | MS.gene35053:CDS | 55.0% | |
| TGGCTTAGGGCAGCCATGTT+AGG | + | chr4.4:20477149-20477168 | MS.gene35053:CDS | 55.0% | |
| ! | GTTTGGAGGAGTGGGAGCAT+TGG | + | chr4.4:20477556-20477575 | MS.gene35053:CDS | 55.0% |
| !! | ATGCTCCTTGCTGGTTTCGC+TGG | + | chr4.4:20477245-20477264 | MS.gene35053:CDS | 55.0% |
| AGCAGCCCTAGCATCAGCAC+TGG | + | chr4.4:20477427-20477446 | MS.gene35053:CDS | 60.0% | |
| !! | GGAGGAGTGGGAGCATTGGT+TGG | + | chr4.4:20477560-20477579 | MS.gene35053:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 20477014 | 20477688 | 20477014 | ID=MS.gene35053 |
| chr4.4 | mRNA | 20477014 | 20477688 | 20477014 | ID=MS.gene35053.t1;Parent=MS.gene35053 |
| chr4.4 | exon | 20477014 | 20477688 | 20477014 | ID=MS.gene35053.t1.exon1;Parent=MS.gene35053.t1 |
| chr4.4 | CDS | 20477014 | 20477688 | 20477014 | ID=cds.MS.gene35053.t1;Parent=MS.gene35053.t1 |
| Gene Sequence |
| Protein sequence |
