Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0143990 | sp|Q7Y1X1|EST_HEVBR | 63.904 | 374 | 129 | 5 | 11 | 380 | 10 | 381 | 6.02e-171 | 485 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0060360 | Msa0143990 | 0.992562 | 4.837715e-194 | -8.615850e-47 |
| Msa0105200 | Msa0143990 | 0.830663 | 2.587414e-55 | -8.615850e-47 |
| Msa0143960 | Msa0143990 | 0.948073 | 1.940185e-106 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0143990 | MtrunA17_Chr1g0160031 | 89.764 | 381 | 39 | 0 | 1 | 381 | 4 | 384 | 0.0 | 712 |
| Msa0143990 | MtrunA17_Chr1g0160011 | 85.488 | 379 | 54 | 1 | 1 | 378 | 4 | 382 | 0.0 | 668 |
| Msa0143990 | MtrunA17_Chr1g0159991 | 82.768 | 383 | 64 | 1 | 1 | 381 | 1 | 383 | 0.0 | 652 |
| Msa0143990 | MtrunA17_Chr1g0159981 | 78.851 | 383 | 75 | 2 | 1 | 381 | 15 | 393 | 0.0 | 609 |
| Msa0143990 | MtrunA17_Chr1g0159971 | 66.844 | 377 | 120 | 3 | 9 | 380 | 17 | 393 | 0.0 | 525 |
| Msa0143990 | MtrunA17_Chr1g0160101 | 60.800 | 375 | 144 | 2 | 9 | 380 | 15 | 389 | 8.63e-164 | 464 |
| Msa0143990 | MtrunA17_Chr7g0254461 | 52.800 | 375 | 171 | 4 | 12 | 380 | 19 | 393 | 2.77e-141 | 407 |
| Msa0143990 | MtrunA17_Chr8g0381581 | 53.261 | 368 | 167 | 3 | 12 | 374 | 16 | 383 | 5.86e-141 | 406 |
| Msa0143990 | MtrunA17_Chr7g0226941 | 48.603 | 358 | 177 | 4 | 28 | 380 | 25 | 380 | 1.37e-114 | 338 |
| Msa0143990 | MtrunA17_Chr6g0450701 | 43.411 | 387 | 198 | 7 | 1 | 378 | 4 | 378 | 1.35e-100 | 303 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0143990 | AT3G26430.1 | 49.737 | 380 | 186 | 3 | 6 | 380 | 1 | 380 | 8.34e-135 | 390 |
| Msa0143990 | AT1G67830.1 | 49.014 | 355 | 168 | 4 | 32 | 381 | 26 | 372 | 1.10e-123 | 362 |
| Msa0143990 | AT5G14450.1 | 47.043 | 372 | 190 | 4 | 15 | 381 | 20 | 389 | 1.95e-118 | 349 |
| Msa0143990 | AT3G27950.1 | 46.933 | 375 | 178 | 8 | 13 | 378 | 8 | 370 | 2.17e-103 | 310 |
| Msa0143990 | AT1G54790.3 | 42.781 | 374 | 196 | 9 | 13 | 376 | 10 | 375 | 1.89e-91 | 280 |
| Msa0143990 | AT1G54790.1 | 41.509 | 371 | 200 | 8 | 16 | 376 | 11 | 374 | 6.86e-88 | 271 |
| Msa0143990 | AT4G01130.1 | 40.420 | 381 | 216 | 6 | 4 | 378 | 5 | 380 | 1.24e-85 | 265 |
| Msa0143990 | AT1G56670.1 | 40.691 | 376 | 200 | 8 | 10 | 380 | 16 | 373 | 1.09e-84 | 262 |
| Msa0143990 | AT1G09390.1 | 39.844 | 384 | 209 | 8 | 1 | 378 | 1 | 368 | 9.75e-83 | 257 |
| Msa0143990 | AT1G54790.2 | 38.791 | 397 | 200 | 9 | 16 | 376 | 11 | 400 | 6.88e-82 | 256 |
Find 76 sgRNAs with CRISPR-Local
Find 355 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACGTTGATACTGGTGGTT+TGG | 0.423737 | 1_4:-3254259 | Msa0143990:CDS |
| AATGGACTGAGTATTCCTTT+AGG | 0.412825 | 1_4:+3249874 | None:intergenic |
| AATGTGTTGAAGCAAATATT+GGG | 0.376489 | 1_4:+3254316 | None:intergenic |
| ACAAAACTCATTAGAGATCA+AGG | 0.473797 | 1_4:-3249805 | Msa0143990:intron |
| ACATATGTGATTGCAGCAAG+AGG | 0.602551 | 1_4:+3248925 | None:intergenic |
| ACATGCCATATCTAGAGAAA+TGG | 0.371448 | 1_4:+3248423 | None:intergenic |
| ACCGATATCAAATACGTATA+AGG | 0.280352 | 1_4:+3249623 | None:intergenic |
| AGAGAATTAAGATATGGACT+TGG | 0.598236 | 1_4:+3249970 | None:intergenic |
| AGCACAATCAAAGTCACAAG+TGG | 0.609410 | 1_4:+3254357 | None:intergenic |
| AGGATTTGAGCTTCCATATG+TGG | 0.510385 | 1_4:-3248641 | Msa0143990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGTGTTGAAGCAAATATTG+GGG | + | chr1_4:3248484-3248503 | None:intergenic | 30.0% | |
| CAATGTGTTGAAGCAAATAT+TGG | + | chr1_4:3248486-3248505 | None:intergenic | 30.0% | |
| ATTGTTAAGTTAACACCTTG+TGG | + | chr1_4:3248832-3248851 | None:intergenic | 30.0% | |
| CAAATTATCCATATAGCTCA+CGG | - | chr1_4:3248980-3248999 | Msa0143990:CDS | 30.0% | |
| AAATTATCCATATAGCTCAC+GGG | - | chr1_4:3248981-3249000 | Msa0143990:CDS | 30.0% | |
| AGACCCTTTAAATACACATT+TGG | - | chr1_4:3249285-3249304 | Msa0143990:intron | 30.0% | |
| AGAGAGAGAGTTTAAATACT+TGG | + | chr1_4:3249363-3249382 | None:intergenic | 30.0% | |
| ACTATCTAATTGATTACCTC+TGG | - | chr1_4:3249591-3249610 | Msa0143990:CDS | 30.0% | |
| AGATTCAAACTCTATTTGAG+AGG | - | chr1_4:3249760-3249779 | Msa0143990:intron | 30.0% | |
| TGTTTGCATGTTCAGAAAAT+TGG | + | chr1_4:3250013-3250032 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 3248411 | 3254409 | 3248411 | ID=Msa0143990;Name=Msa0143990 |
| chr1_4 | mRNA | 3248411 | 3254409 | 3248411 | ID=Msa0143990-mRNA-1;Parent=Msa0143990;Name=Msa0143990-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0|0.75|0.4|1|1|1|5|0|381 |
| chr1_4 | exon | 3254160 | 3254409 | 3254160 | ID=Msa0143990-mRNA-1:exon:1407;Parent=Msa0143990-mRNA-1 |
| chr1_4 | exon | 3249806 | 3250015 | 3249806 | ID=Msa0143990-mRNA-1:exon:1406;Parent=Msa0143990-mRNA-1 |
| chr1_4 | exon | 3249524 | 3249693 | 3249524 | ID=Msa0143990-mRNA-1:exon:1405;Parent=Msa0143990-mRNA-1 |
| chr1_4 | exon | 3248875 | 3249139 | 3248875 | ID=Msa0143990-mRNA-1:exon:1404;Parent=Msa0143990-mRNA-1 |
| chr1_4 | exon | 3248411 | 3248661 | 3248411 | ID=Msa0143990-mRNA-1:exon:1403;Parent=Msa0143990-mRNA-1 |
| chr1_4 | CDS | 3254160 | 3254409 | 3254160 | ID=Msa0143990-mRNA-1:cds;Parent=Msa0143990-mRNA-1 |
| chr1_4 | CDS | 3249806 | 3250015 | 3249806 | ID=Msa0143990-mRNA-1:cds;Parent=Msa0143990-mRNA-1 |
| chr1_4 | CDS | 3249524 | 3249693 | 3249524 | ID=Msa0143990-mRNA-1:cds;Parent=Msa0143990-mRNA-1 |
| chr1_4 | CDS | 3248875 | 3249139 | 3248875 | ID=Msa0143990-mRNA-1:cds;Parent=Msa0143990-mRNA-1 |
| chr1_4 | CDS | 3248411 | 3248661 | 3248411 | ID=Msa0143990-mRNA-1:cds;Parent=Msa0143990-mRNA-1 |
| Gene Sequence |
>Msa0143990 ATGGCGAGAATTGAGCTCTCTAGGCACATGCCACTTGTGACTTTGATTGTGCTTGTTTTATGTACTACACCCCCAATATTTGCTTCAACACATTGTGATTTTCCTGCCATATTTAGCTTTGGTGCTTCAAACGTTGATACTGGTGGTTTGGCTGCTGCCTTTCGAGCACCACCTTCTCCATATGGACAGACTTATTTTAATAGATCAACTGGAAGATTTTCTGATGGCCGAATCATTATTGATTTCATAGCACAAAGCTTTCGACTTCCCTATCCAAGTCCATATCTTAATTCTCTTGGGTCAAACTTCACACATGGTGCAAACTTCGCAACAGCAGGATCAACAATCAATATCCCTACTAGTATTCTACCTAAAGGAATACTCAGTCCATTTTCTCTTCAAATTCAATACATTCAATTCAAAGATTTCATATCGAAAACAAAACTCATTAGAGATCAAGGAGGTGTTTTTGCAACGTTGGTACCCAAAGAAGATTATTTCTCCAAAGCCTTATACGTATTTGATATCGGTCAAAATGATCTTACTATTGGGTTTTTTGGTAACAAGACTATACAACAAGTCAATGCCACTGTACCAGATCTAGTAAACAATTACATAGAGAATATCAAGAATATATACAATTTAGGGGCAAGATCATTTTGGATACACAGCACAGGACCAAAGGGTTGTGCTCCTGTAATTTTGGCTAATTTTCCATCTGCAATAAAGGATAGTTATGGTTGTGCAAAACAATACAATGAAGTATCTCAATATTTTAATTTAAAGTTGAAGGAAGCTCTAGCTCAACTTCGTAGTGATCTTCCTCTTGCTGCAATCACATATGTAGATATTTACTCTCCTAAGTACTCTCTTTTTACAAACCCGAAAAAATATGGATTTGAGCTTCCATATGTGGCATGTTGTGGCTATGGAGGAGAGTATAACATTGGTGCTGGCTGTGGAGCAACCATAAACATAAATGGTACAAAAACTGTTGCAGGTTCGTGTAAAAATCCATCTACTAGAATCACATGGGATGGTACCCATTACACTGAGGCAGCTAACGAGATTGTCTTTGATCAAATCTCTTTTGGAATTTTCAATGATCCTCCCATTTCTCTAGATATGGCATGTTATAGAAAGTGA |
| Protein sequence |
>Msa0143990 MARIELSRHMPLVTLIVLVLCTTPPIFASTHCDFPAIFSFGASNVDTGGLAAAFRAPPSPYGQTYFNRSTGRFSDGRIIIDFIAQSFRLPYPSPYLNSLGSNFTHGANFATAGSTINIPTSILPKGILSPFSLQIQYIQFKDFISKTKLIRDQGGVFATLVPKEDYFSKALYVFDIGQNDLTIGFFGNKTIQQVNATVPDLVNNYIENIKNIYNLGARSFWIHSTGPKGCAPVILANFPSAIKDSYGCAKQYNEVSQYFNLKLKEALAQLRSDLPLAAITYVDIYSPKYSLFTNPKKYGFELPYVACCGYGGEYNIGAGCGATININGTKTVAGSCKNPSTRITWDGTHYTEAANEIVFDQISFGIFNDPPISLDMACYRK* |
