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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675830 | XP_024630708.1 | 90.678 | 118 | 11 | 0 | 1 | 118 | 349 | 466 | 7.81e-69 | 224 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675830 | A0A392QUU2 | 75.221 | 113 | 28 | 0 | 1 | 113 | 1 | 113 | 2.07e-56 | 181 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0675820 | Msa0675830 | 0.869648 | 2.646070e-66 | -8.615850e-47 |
| Msa0675830 | Msa0743810 | 0.816515 | 5.314889e-52 | -8.615850e-47 |
| Msa0675830 | Msa0745060 | 0.828981 | 6.644427e-55 | -8.615850e-47 |
| Msa0675830 | Msa0811270 | 0.803186 | 3.931391e-49 | -8.615850e-47 |
| Msa0675830 | Msa0825860 | 0.835558 | 1.564475e-56 | -8.615850e-47 |
| Msa0675830 | Msa0865320 | 0.822981 | 1.770335e-53 | -8.615850e-47 |
| Msa0675830 | Msa1016280 | 0.845950 | 2.949052e-59 | -8.615850e-47 |
| Msa0675830 | Msa1025360 | 0.857656 | 1.406809e-62 | -8.615850e-47 |
| Msa0675830 | Msa1025370 | 0.827265 | 1.720804e-54 | -8.615850e-47 |
| Msa0675830 | Msa1044830 | 0.820529 | 6.535670e-53 | -8.615850e-47 |
| Msa0675830 | Msa1044840 | 0.860699 | 1.721759e-63 | -8.615850e-47 |
| Msa0675830 | Msa1092990 | 0.831255 | 1.851852e-55 | -8.615850e-47 |
| Msa0675830 | Msa1100980 | 0.834635 | 2.673992e-56 | -8.615850e-47 |
| Msa0675830 | Msa1135740 | 0.816678 | 4.886316e-52 | -8.615850e-47 |
| Msa0675830 | Msa1173920 | 0.806192 | 9.267721e-50 | -8.615850e-47 |
| Msa0675830 | Msa1187940 | 0.812447 | 4.220225e-51 | -8.615850e-47 |
| Msa0675830 | Msa1269670 | 0.824433 | 8.093934e-54 | -8.615850e-47 |
| Msa0675830 | Msa1270230 | 0.812360 | 4.409422e-51 | -8.615850e-47 |
| Msa0675830 | Msa1270240 | 0.828179 | 1.038122e-54 | -8.615850e-47 |
| Msa0675830 | Msa1270270 | 0.816595 | 5.099818e-52 | -8.615850e-47 |
| Msa0675830 | Msa1283330 | 0.826937 | 2.061616e-54 | -8.615850e-47 |
| Msa0675830 | Msa1285930 | 0.803369 | 3.603176e-49 | -8.615850e-47 |
| Msa0675830 | Msa1287810 | 0.810296 | 1.237042e-50 | -8.615850e-47 |
| Msa0675830 | Msa1307890 | 0.805153 | 1.531799e-49 | -8.615850e-47 |
| Msa0675830 | Msa1321560 | 0.825718 | 4.023592e-54 | -8.615850e-47 |
| Msa0227480 | Msa0675830 | 0.803295 | 3.732830e-49 | -8.615850e-47 |
| Msa0232850 | Msa0675830 | 0.803005 | 4.285724e-49 | -8.615850e-47 |
| Msa0365500 | Msa0675830 | 0.812439 | 4.238149e-51 | -8.615850e-47 |
| Msa0452900 | Msa0675830 | 0.813137 | 2.980590e-51 | -8.615850e-47 |
| Msa0267000 | Msa0675830 | 0.832878 | 7.353328e-56 | -8.615850e-47 |
| Msa0267010 | Msa0675830 | 0.852664 | 3.979538e-61 | -8.615850e-47 |
| Msa0342240 | Msa0675830 | 0.800937 | 1.139937e-48 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675830 | MtrunA17_Chr3g0101861 | 70.339 | 118 | 35 | 0 | 1 | 118 | 348 | 465 | 2.18e-54 | 177 |
| Msa0675830 | MtrunA17_Chr7g0248821 | 61.017 | 118 | 46 | 0 | 1 | 118 | 80 | 197 | 2.75e-47 | 151 |
| Msa0675830 | MtrunA17_Chr1g0206511 | 56.780 | 118 | 51 | 0 | 1 | 118 | 81 | 198 | 7.01e-44 | 142 |
| Msa0675830 | MtrunA17_Chr1g0173691 | 58.475 | 118 | 49 | 0 | 1 | 118 | 254 | 371 | 3.99e-42 | 142 |
| Msa0675830 | MtrunA17_Chr3g0133361 | 54.237 | 118 | 54 | 0 | 1 | 118 | 176 | 293 | 2.04e-41 | 139 |
| Msa0675830 | MtrunA17_Chr7g0269671 | 65.385 | 78 | 27 | 0 | 1 | 78 | 255 | 332 | 1.12e-28 | 107 |
| Msa0675830 | MtrunA17_Chr3g0139511 | 62.500 | 72 | 27 | 0 | 47 | 118 | 109 | 180 | 1.46e-25 | 95.5 |
| Msa0675830 | MtrunA17_Chr6g0472831 | 48.684 | 76 | 39 | 0 | 1 | 76 | 176 | 251 | 4.85e-22 | 87.8 |
| Msa0675830 | MtrunA17_Chr3g0129801 | 60.417 | 48 | 19 | 0 | 21 | 68 | 7 | 54 | 6.70e-13 | 60.1 |
| Msa0675830 | MtrunA17_Chr2g0307571 | 47.368 | 57 | 30 | 0 | 1 | 57 | 1 | 57 | 2.61e-11 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675830 | AT5G28780.1 | 48.780 | 123 | 61 | 1 | 1 | 123 | 215 | 335 | 5.71e-30 | 110 |
| Msa0675830 | AT3G51700.1 | 50.000 | 110 | 54 | 1 | 5 | 113 | 221 | 330 | 1.24e-29 | 110 |
| Msa0675830 | AT3G51690.1 | 42.857 | 119 | 67 | 1 | 1 | 118 | 213 | 331 | 1.47e-27 | 104 |
Find 24 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGATTATAACTTGGATTT+TGG | 0.190449 | 4_4:-25121704 | None:intergenic |
| ATTGCATAAGAGACTATAAT+TGG | 0.227481 | 4_4:-25121339 | None:intergenic |
| TATGCAGGCATGGCACAAAA+TGG | 0.361697 | 4_4:+25121663 | Msa0675830:intron |
| TTCTTTGTAGACTACATTCA+TGG | 0.386505 | 4_4:-25121526 | None:intergenic |
| CAGCAATGTTGATTATAACT+TGG | 0.410203 | 4_4:-25121711 | None:intergenic |
| AAATGGATACATTTGCTGAT+AGG | 0.422824 | 4_4:+25121680 | Msa0675830:CDS |
| CTTGAAGCCAAAATCATCTC+AGG | 0.438739 | 4_4:+25121225 | Msa0675830:CDS |
| CCATGACTAAACACAGATCT+AGG | 0.449672 | 4_4:-25121414 | None:intergenic |
| TCAAGAGTTAAGAGCAAGGC+AGG | 0.467261 | 4_4:+25121456 | Msa0675830:CDS |
| CCTAGATCTGTGTTTAGTCA+TGG | 0.498618 | 4_4:+25121414 | Msa0675830:CDS |
| GCTCAACCTTGTTAGAATTG+TGG | 0.521801 | 4_4:-25121494 | None:intergenic |
| TTGACATAGCTACATAAAGT+TGG | 0.530949 | 4_4:-25121437 | None:intergenic |
| TATGACTTACATTCCAAGGT+TGG | 0.532981 | 4_4:+25121263 | Msa0675830:CDS |
| TTGCATAAGAGACTATAATT+GGG | 0.534183 | 4_4:-25121338 | None:intergenic |
| GAAATATGACTTACATTCCA+AGG | 0.561369 | 4_4:+25121259 | Msa0675830:CDS |
| GAAGGAGACATGTCCAACCT+TGG | 0.563793 | 4_4:-25121276 | None:intergenic |
| ATGACTATTAATATATCTCA+AGG | 0.577306 | 4_4:+25121360 | Msa0675830:CDS |
| CTTGTAAGCTTAAATGACCA+AGG | 0.583372 | 4_4:-25121306 | None:intergenic |
| AATGACCAAGGTGATTGAGA+AGG | 0.583892 | 4_4:-25121294 | None:intergenic |
| GGTCAGTCTCTAGATAGTGT+TGG | 0.587387 | 4_4:+25121381 | Msa0675830:CDS |
| TTTGATCCACAATTCTAACA+AGG | 0.618914 | 4_4:+25121488 | Msa0675830:CDS |
| TGTCTCCTTCTCAATCACCT+TGG | 0.628558 | 4_4:+25121289 | Msa0675830:CDS |
| TTGAAGCCAAAATCATCTCA+GGG | 0.641445 | 4_4:+25121226 | Msa0675830:CDS |
| TATGTCAAGAGTTAAGAGCA+AGG | 0.651096 | 4_4:+25121452 | Msa0675830:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGACTATTAATATATCTCA+AGG | + | chr4_4:25121360-25121379 | Msa0675830:CDS | 20.0% |
| ! | TTGCATAAGAGACTATAATT+GGG | - | chr4_4:25121341-25121360 | None:intergenic | 25.0% |
| ! | ATTGCATAAGAGACTATAAT+TGG | - | chr4_4:25121342-25121361 | None:intergenic | 25.0% |
| !! | GTTGATTATAACTTGGATTT+TGG | - | chr4_4:25121707-25121726 | None:intergenic | 25.0% |
| GAAATATGACTTACATTCCA+AGG | + | chr4_4:25121259-25121278 | Msa0675830:CDS | 30.0% | |
| TTGACATAGCTACATAAAGT+TGG | - | chr4_4:25121440-25121459 | None:intergenic | 30.0% | |
| TTTGATCCACAATTCTAACA+AGG | + | chr4_4:25121488-25121507 | Msa0675830:CDS | 30.0% | |
| TTCTTTGTAGACTACATTCA+TGG | - | chr4_4:25121529-25121548 | None:intergenic | 30.0% | |
| ! | AAATGGATACATTTGCTGAT+AGG | + | chr4_4:25121680-25121699 | Msa0675830:CDS | 30.0% |
| ! | CAGCAATGTTGATTATAACT+TGG | - | chr4_4:25121714-25121733 | None:intergenic | 30.0% |
| TTGAAGCCAAAATCATCTCA+GGG | + | chr4_4:25121226-25121245 | Msa0675830:CDS | 35.0% | |
| ! | GTTTTTCCCTGAGATGATTT+TGG | - | chr4_4:25121235-25121254 | None:intergenic | 35.0% |
| ATCATCTCAGGGAAAAACAT+AGG | + | chr4_4:25121237-25121256 | Msa0675830:CDS | 35.0% | |
| TATGACTTACATTCCAAGGT+TGG | + | chr4_4:25121263-25121282 | Msa0675830:CDS | 35.0% | |
| CTTGTAAGCTTAAATGACCA+AGG | - | chr4_4:25121309-25121328 | None:intergenic | 35.0% | |
| TATGTCAAGAGTTAAGAGCA+AGG | + | chr4_4:25121452-25121471 | Msa0675830:CDS | 35.0% | |
| ! | GAGTACCCTTTTTATTATGC+AGG | + | chr4_4:25121648-25121667 | Msa0675830:intron | 35.0% |
| CCATGCCTGCATAATAAAAA+GGG | - | chr4_4:25121656-25121675 | None:intergenic | 35.0% | |
| !!! | TGATTTTGGCTTCAAGGACA+TGG | - | chr4_4:25121221-25121240 | None:intergenic | 40.0% |
| !!! | CTGAGATGATTTTGGCTTCA+AGG | - | chr4_4:25121227-25121246 | None:intergenic | 40.0% |
| CTTGAAGCCAAAATCATCTC+AGG | + | chr4_4:25121225-25121244 | Msa0675830:CDS | 40.0% | |
| AATGACCAAGGTGATTGAGA+AGG | - | chr4_4:25121297-25121316 | None:intergenic | 40.0% | |
| CCATGACTAAACACAGATCT+AGG | - | chr4_4:25121417-25121436 | None:intergenic | 40.0% | |
| CCTAGATCTGTGTTTAGTCA+TGG | + | chr4_4:25121414-25121433 | Msa0675830:CDS | 40.0% | |
| GCTCAACCTTGTTAGAATTG+TGG | - | chr4_4:25121497-25121516 | None:intergenic | 40.0% | |
| ! | CCCTTTTTATTATGCAGGCA+TGG | + | chr4_4:25121653-25121672 | Msa0675830:intron | 40.0% |
| GCCATGCCTGCATAATAAAA+AGG | - | chr4_4:25121657-25121676 | None:intergenic | 40.0% | |
| TGTCTCCTTCTCAATCACCT+TGG | + | chr4_4:25121289-25121308 | Msa0675830:CDS | 45.0% | |
| GGTCAGTCTCTAGATAGTGT+TGG | + | chr4_4:25121381-25121400 | Msa0675830:CDS | 45.0% | |
| TCAAGAGTTAAGAGCAAGGC+AGG | + | chr4_4:25121456-25121475 | Msa0675830:CDS | 45.0% | |
| TATGCAGGCATGGCACAAAA+TGG | + | chr4_4:25121663-25121682 | Msa0675830:intron | 45.0% | |
| GAAGGAGACATGTCCAACCT+TGG | - | chr4_4:25121279-25121298 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 25121210 | 25121744 | 25121210 | ID=Msa0675830;Name=Msa0675830 |
| chr4_4 | mRNA | 25121210 | 25121744 | 25121210 | ID=Msa0675830-mRNA-1;Parent=Msa0675830;Name=Msa0675830-mRNA-1;_AED=0.64;_eAED=0.64;_QI=0|0|0|0.5|1|1|2|0|137 |
| chr4_4 | exon | 25121210 | 25121548 | 25121210 | ID=Msa0675830-mRNA-1:exon:6870;Parent=Msa0675830-mRNA-1 |
| chr4_4 | exon | 25121670 | 25121744 | 25121670 | ID=Msa0675830-mRNA-1:exon:6871;Parent=Msa0675830-mRNA-1 |
| chr4_4 | CDS | 25121210 | 25121548 | 25121210 | ID=Msa0675830-mRNA-1:cds;Parent=Msa0675830-mRNA-1 |
| chr4_4 | CDS | 25121670 | 25121744 | 25121670 | ID=Msa0675830-mRNA-1:cds;Parent=Msa0675830-mRNA-1 |
| Gene Sequence |
| Protein sequence |
