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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1087490 | RHN38783.1 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 2.58e-48 | 162 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1087490 | A0A396GD97 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 1.23e-48 | 162 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0689390 | Msa1087490 | 0.853777 | 1.910012e-61 | -8.615850e-47 |
| Msa0743810 | Msa1087490 | 0.838782 | 2.343006e-57 | -8.615850e-47 |
| Msa0745060 | Msa1087490 | 0.815262 | 1.011864e-51 | -8.615850e-47 |
| Msa0787600 | Msa1087490 | 0.805729 | 1.159607e-49 | -8.615850e-47 |
| Msa0808010 | Msa1087490 | 0.807351 | 5.273090e-50 | -8.615850e-47 |
| Msa0808020 | Msa1087490 | 0.801970 | 7.003346e-49 | -8.615850e-47 |
| Msa0811270 | Msa1087490 | 0.806392 | 8.412390e-50 | -8.615850e-47 |
| Msa0825860 | Msa1087490 | 0.811781 | 5.896530e-51 | -8.615850e-47 |
| Msa0142220 | Msa1087490 | 0.802477 | 5.506629e-49 | -8.615850e-47 |
| Msa0227480 | Msa1087490 | 0.812423 | 4.272391e-51 | -8.615850e-47 |
| Msa0394970 | Msa1087490 | 0.806129 | 9.554969e-50 | -8.615850e-47 |
| Msa0436780 | Msa1087490 | 0.820253 | 7.560965e-53 | -8.615850e-47 |
| Msa0452900 | Msa1087490 | 0.807572 | 4.735201e-50 | -8.615850e-47 |
| Msa0453120 | Msa1087490 | 0.808848 | 2.532039e-50 | -8.615850e-47 |
| Msa0459160 | Msa1087490 | 0.800725 | 1.259762e-48 | -8.615850e-47 |
| Msa1016280 | Msa1087490 | 0.807515 | 4.868391e-50 | -8.615850e-47 |
| Msa1023050 | Msa1087490 | 0.824447 | 8.034244e-54 | -8.615850e-47 |
| Msa1025360 | Msa1087490 | 0.827926 | 1.194672e-54 | -8.615850e-47 |
| Msa1025370 | Msa1087490 | 0.815387 | 9.490586e-52 | -8.615850e-47 |
| Msa1044830 | Msa1087490 | 0.820705 | 5.957129e-53 | -8.615850e-47 |
| Msa1044840 | Msa1087490 | 0.828206 | 1.022498e-54 | -8.615850e-47 |
| Msa1087490 | Msa1091900 | 0.811004 | 8.693962e-51 | -8.615850e-47 |
| Msa1087490 | Msa1092990 | 0.809750 | 1.621312e-50 | -8.615850e-47 |
| Msa1087490 | Msa1100980 | 0.837130 | 6.231279e-57 | -8.615850e-47 |
| Msa1087490 | Msa1135220 | 0.811550 | 6.618463e-51 | -8.615850e-47 |
| Msa1087490 | Msa1135740 | 0.815745 | 7.896890e-52 | -8.615850e-47 |
| Msa1087490 | Msa1146110 | 0.809320 | 2.005717e-50 | -8.615850e-47 |
| Msa1087490 | Msa1187950 | 0.818416 | 1.983121e-52 | -8.615850e-47 |
| Msa1087490 | Msa1192640 | 0.816209 | 6.222425e-52 | -8.615850e-47 |
| Msa1087490 | Msa1211030 | 0.859558 | 3.806953e-63 | -8.615850e-47 |
| Msa1087490 | Msa1269670 | 0.813716 | 2.223505e-51 | -8.615850e-47 |
| Msa1087490 | Msa1270230 | 0.825933 | 3.577882e-54 | -8.615850e-47 |
| Msa1087490 | Msa1283330 | 0.814126 | 1.805179e-51 | -8.615850e-47 |
| Msa1087490 | Msa1285930 | 0.825063 | 5.748866e-54 | -8.615850e-47 |
| Msa1087490 | Msa1287800 | 0.804613 | 1.985959e-49 | -8.615850e-47 |
| Msa1087490 | Msa1287810 | 0.817915 | 2.573755e-52 | -8.615850e-47 |
| Msa1087490 | Msa1310120 | 0.899183 | 2.549350e-77 | -8.615850e-47 |
| Msa1087490 | Msa1408780 | 0.910867 | 1.158316e-82 | -8.615850e-47 |
| Msa1087490 | Msa1451570 | 0.803185 | 3.932954e-49 | -8.615850e-47 |
| Msa0267000 | Msa1087490 | 0.826632 | 2.438499e-54 | -8.615850e-47 |
| Msa0267010 | Msa1087490 | 0.833832 | 4.251841e-56 | -8.615850e-47 |
| Msa0360510 | Msa1087490 | 0.806695 | 7.260067e-50 | -8.615850e-47 |
| Msa0506270 | Msa1087490 | 0.807436 | 5.060329e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1087490 | MtrunA17_Chr8g0336901 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 2.38e-52 | 162 |
| Msa1087490 | MtrunA17_Chr8g0336891 | 67.742 | 124 | 36 | 3 | 13 | 134 | 101 | 222 | 7.68e-44 | 144 |
| Msa1087490 | MtrunA17_Chr8g0336921 | 43.590 | 117 | 61 | 4 | 16 | 130 | 37 | 150 | 2.84e-18 | 78.2 |
| Msa1087490 | MtrunA17_Chr7g0221241 | 34.058 | 138 | 81 | 4 | 8 | 144 | 34 | 162 | 9.82e-13 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 31 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTGATCAATTTGGCCTTA+TGG | 0.174747 | 7_3:-215969 | Msa1087490:CDS |
| TCTGATCAATTTGGCCTTAT+GGG | 0.206934 | 7_3:-215968 | Msa1087490:CDS |
| AACAAGAGTAAGAGTGAAAT+TGG | 0.208263 | 7_3:+216042 | Msa1087480:CDS |
| GAACATTGCTCTGATCAATT+TGG | 0.249003 | 7_3:-215977 | Msa1087490:CDS |
| TAAAGAAGTGTTTAAAGATT+TGG | 0.260488 | 7_3:-216253 | Msa1087490:CDS |
| ATTTCACTCTTACTCTTGTT+GGG | 0.276326 | 7_3:-216039 | Msa1087490:CDS |
| TTTCTCAGACAGTACTTTGC+TGG | 0.310858 | 7_3:+215903 | Msa1087480:intron |
| AATTTCACTCTTACTCTTGT+TGG | 0.319682 | 7_3:-216040 | Msa1087490:CDS |
| GTTGTAGTTGCAAGAGAGTT+TGG | 0.331524 | 7_3:+216082 | Msa1087480:CDS |
| AAAATTCCTCCGCAACTTAG+AGG | 0.340276 | 7_3:-215853 | Msa1087490:CDS |
| TAGCCTTGACACTGATTTCA+AGG | 0.344509 | 7_3:-215999 | Msa1087490:CDS |
| GAAATTGGGAAAATAGTAAC+AGG | 0.404325 | 7_3:+216057 | Msa1087480:CDS |
| TTCTCAGACAGTACTTTGCT+GGG | 0.420636 | 7_3:+215904 | Msa1087480:intron |
| GCAATGAAGTGCACAAATGA+TGG | 0.482030 | 7_3:-216186 | Msa1087490:CDS |
| TGTGAAAATAAGAACCCATA+AGG | 0.488209 | 7_3:+215954 | Msa1087480:CDS |
| GCAACTTAGAGGTAGATTGC+CGG | 0.494987 | 7_3:-215842 | Msa1087490:CDS |
| CCGATAGCAATGCGGTTTCA+AGG | 0.497144 | 7_3:-216391 | Msa1087490:intron |
| TTTCACTCTTACTCTTGTTG+GGG | 0.497838 | 7_3:-216038 | Msa1087490:CDS |
| CCTTGAAACCGCATTGCTAT+CGG | 0.508859 | 7_3:+216391 | None:intergenic |
| ACAAGAGTAAGAGTGAAATT+GGG | 0.519071 | 7_3:+216043 | Msa1087480:CDS |
| AATCAGTGTCAAGGCTAGAA+AGG | 0.525707 | 7_3:+216005 | Msa1087480:CDS |
| CAATGAAGTGCACAAATGAT+GGG | 0.531410 | 7_3:-216185 | Msa1087490:CDS |
| GTTCACAACTTTAGCCGCAA+TGG | 0.546781 | 7_3:-216211 | Msa1087490:CDS |
| AGCAAGTGTCTACATCATCA+TGG | 0.594333 | 7_3:-216127 | Msa1087490:CDS |
| GTTCCTTGAAATCAGTGTCA+AGG | 0.600166 | 7_3:+215996 | Msa1087480:CDS |
| GGCAATCTACCTCTAAGTTG+CGG | 0.630114 | 7_3:+215844 | Msa1087480:intron |
| GCACTTCATTGCAACCATTG+CGG | 0.643939 | 7_3:+216197 | None:intergenic |
| AATCTACCTCTAAGTTGCGG+AGG | 0.644985 | 7_3:+215847 | Msa1087480:intron |
| AAGCATTCTACAATCTACAC+CGG | 0.658127 | 7_3:+215823 | Msa1087480:intron |
| AATGAAGTGCACAAATGATG+GGG | 0.734597 | 7_3:-216184 | Msa1087490:CDS |
| TTGCAGCTCCGATAGCAATG+CGG | 0.739864 | 7_3:-216399 | Msa1087490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAAAAACACCTTGTT+TGG | - | chr7_3:215937-215956 | Msa1087490:CDS | 20.0% |
| !!! | AAAAAAAAAACACCTTGTTT+GGG | - | chr7_3:215938-215957 | Msa1087490:CDS | 20.0% |
| !!! | TAAAGAAGTGTTTAAAGATT+TGG | - | chr7_3:215988-216007 | Msa1087490:CDS | 20.0% |
| ! | GAAAATGAATATCATAGTTG+AGG | + | chr7_3:215891-215910 | Msa1087480:intron | 25.0% |
| !!! | AAATCAAACAGATTTTTGAG+AGG | - | chr7_3:216359-216378 | Msa1087490:intron | 25.0% |
| GAAATTGGGAAAATAGTAAC+AGG | + | chr7_3:216187-216206 | None:intergenic | 30.0% | |
| ACAAGAGTAAGAGTGAAATT+GGG | + | chr7_3:216201-216220 | None:intergenic | 30.0% | |
| AACAAGAGTAAGAGTGAAAT+TGG | + | chr7_3:216202-216221 | None:intergenic | 30.0% | |
| AATTTCACTCTTACTCTTGT+TGG | - | chr7_3:216201-216220 | Msa1087490:CDS | 30.0% | |
| ATTTCACTCTTACTCTTGTT+GGG | - | chr7_3:216202-216221 | Msa1087490:CDS | 30.0% | |
| TGTGAAAATAAGAACCCATA+AGG | + | chr7_3:216290-216309 | None:intergenic | 30.0% | |
| CAATGAAGTGCACAAATGAT+GGG | - | chr7_3:216056-216075 | Msa1087490:CDS | 35.0% | |
| AATGAAGTGCACAAATGATG+GGG | - | chr7_3:216057-216076 | Msa1087490:CDS | 35.0% | |
| TTTCACTCTTACTCTTGTTG+GGG | - | chr7_3:216203-216222 | Msa1087490:CDS | 35.0% | |
| GAACATTGCTCTGATCAATT+TGG | - | chr7_3:216264-216283 | Msa1087490:intron | 35.0% | |
| !! | TCTGATCAATTTGGCCTTAT+GGG | - | chr7_3:216273-216292 | Msa1087490:intron | 35.0% |
| ATGCATCAATCACCCAAACA+AGG | + | chr7_3:215953-215972 | Msa1087480:CDS | 40.0% | |
| GTGATTGATGCATGTGAAAC+AGG | - | chr7_3:215960-215979 | Msa1087490:CDS | 40.0% | |
| GCAATGAAGTGCACAAATGA+TGG | - | chr7_3:216055-216074 | Msa1087490:CDS | 40.0% | |
| AGCAAGTGTCTACATCATCA+TGG | - | chr7_3:216114-216133 | Msa1087490:CDS | 40.0% | |
| GTTGTAGTTGCAAGAGAGTT+TGG | + | chr7_3:216162-216181 | None:intergenic | 40.0% | |
| AATCAGTGTCAAGGCTAGAA+AGG | + | chr7_3:216239-216258 | None:intergenic | 40.0% | |
| !! | TAGCCTTGACACTGATTTCA+AGG | - | chr7_3:216242-216261 | Msa1087490:CDS | 40.0% |
| GTTCCTTGAAATCAGTGTCA+AGG | + | chr7_3:216248-216267 | None:intergenic | 40.0% | |
| !! | CTCTGATCAATTTGGCCTTA+TGG | - | chr7_3:216272-216291 | Msa1087490:intron | 40.0% |
| TTCTCAGACAGTACTTTGCT+GGG | + | chr7_3:216340-216359 | None:intergenic | 40.0% | |
| TTTCTCAGACAGTACTTTGC+TGG | + | chr7_3:216341-216360 | None:intergenic | 40.0% | |
| AAAATTCCTCCGCAACTTAG+AGG | - | chr7_3:216388-216407 | Msa1087490:intron | 40.0% | |
| CCTTGAAACCGCATTGCTAT+CGG | + | chr7_3:215853-215872 | Msa1087480:intron | 45.0% | |
| GTTCACAACTTTAGCCGCAA+TGG | - | chr7_3:216030-216049 | Msa1087490:CDS | 45.0% | |
| GCACTTCATTGCAACCATTG+CGG | + | chr7_3:216047-216066 | Msa1087480:CDS | 45.0% | |
| AATCTACCTCTAAGTTGCGG+AGG | + | chr7_3:216397-216416 | None:intergenic | 45.0% | |
| GGCAATCTACCTCTAAGTTG+CGG | + | chr7_3:216400-216419 | None:intergenic | 45.0% | |
| GCAACTTAGAGGTAGATTGC+CGG | - | chr7_3:216399-216418 | Msa1087490:CDS | 45.0% | |
| !!! | TTTTTTTTTTTTTTTAGAAT+TGG | + | chr7_3:215925-215944 | Msa1087480:intron | 5.0% |
| TTGCAGCTCCGATAGCAATG+CGG | - | chr7_3:215842-215861 | Msa1087490:CDS | 50.0% | |
| CCGATAGCAATGCGGTTTCA+AGG | - | chr7_3:215850-215869 | Msa1087490:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 215837 | 216426 | 215837 | ID=Msa1087490;Name=Msa1087490 |
| chr7_3 | mRNA | 215837 | 216426 | 215837 | ID=Msa1087490-mRNA-1;Parent=Msa1087490;Name=Msa1087490-mRNA-1;_AED=0.53;_eAED=0.53;_QI=0|0|0|0.5|1|1|2|0|159 |
| chr7_3 | exon | 216392 | 216426 | 216392 | ID=Msa1087490-mRNA-1:exon:131;Parent=Msa1087490-mRNA-1 |
| chr7_3 | exon | 215837 | 216281 | 215837 | ID=Msa1087490-mRNA-1:exon:130;Parent=Msa1087490-mRNA-1 |
| chr7_3 | CDS | 216392 | 216426 | 216392 | ID=Msa1087490-mRNA-1:cds;Parent=Msa1087490-mRNA-1 |
| chr7_3 | CDS | 215837 | 216281 | 215837 | ID=Msa1087490-mRNA-1:cds;Parent=Msa1087490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
