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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675820 | XP_039689765.1 | 70.354 | 226 | 41 | 1 | 1 | 200 | 1 | 226 | 1.38e-109 | 332 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675820 | A0A396ISK7 | 61.674 | 227 | 60 | 1 | 1 | 200 | 1 | 227 | 4.20e-95 | 294 |
| 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 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675820 | MtrunA17_Chr3g0101861 | 61.674 | 227 | 60 | 1 | 1 | 200 | 1 | 227 | 8.08e-99 | 294 |
| Msa0675820 | MtrunA17_Chr1g0206501 | 42.672 | 232 | 101 | 1 | 1 | 200 | 242 | 473 | 9.85e-58 | 189 |
| Msa0675820 | MtrunA17_Chr7g0269661 | 63.636 | 77 | 28 | 0 | 1 | 77 | 152 | 228 | 4.09e-30 | 110 |
| Msa0675820 | MtrunA17_Chr1g0173691 | 35.338 | 133 | 54 | 1 | 100 | 200 | 1 | 133 | 2.09e-22 | 93.2 |
| Msa0675820 | MtrunA17_Chr7g0269671 | 36.434 | 129 | 49 | 2 | 100 | 195 | 1 | 129 | 1.31e-20 | 87.8 |
| Msa0675820 | MtrunA17_Chr2g0308591 | 81.081 | 37 | 7 | 0 | 81 | 117 | 45 | 81 | 3.04e-13 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTGAAATATAGCCTATAT+TGG | 0.261747 | 4_4:-25120736 | None:intergenic |
| GCATAAATTCTTCTTACATC+TGG | 0.298534 | 4_4:+25120521 | Msa0675820:CDS |
| ATTTCTGCATTTCCATCATT+TGG | 0.302976 | 4_4:-25120673 | None:intergenic |
| TAGCGACCATCAAAACTATT+TGG | 0.330208 | 4_4:-25120166 | None:intergenic |
| AATTAACAAAACTGATCATA+TGG | 0.332021 | 4_4:+25120318 | Msa0675820:CDS |
| TCATCTGTTAGTGAACAAAA+AGG | 0.392204 | 4_4:+25120059 | Msa0675820:CDS |
| GTCTTCTTCTTACATGGTTA+CGG | 0.394865 | 4_4:+25120086 | Msa0675820:CDS |
| TTACATGGTTACGGTGGAAC+AGG | 0.427289 | 4_4:+25120095 | Msa0675820:CDS |
| AAATTGGGATAATCCAATAT+AGG | 0.431314 | 4_4:+25120723 | Msa0675820:CDS |
| TCTGAATGGTTGTTGAAAGT+TGG | 0.450928 | 4_4:+25120631 | Msa0675820:CDS |
| GGCGAAGTCTTCTTCTTACA+TGG | 0.464898 | 4_4:+25120080 | Msa0675820:CDS |
| AAAGCAAAATTTATGAGCCA+TGG | 0.465069 | 4_4:-25120351 | None:intergenic |
| CATAAATTCTTCTTACATCT+GGG | 0.477819 | 4_4:+25120522 | Msa0675820:CDS |
| TGCATTTCCATCATTTGGCT+CGG | 0.488629 | 4_4:-25120668 | None:intergenic |
| AAATGCAGAAATTGATATAC+CGG | 0.493391 | 4_4:+25120684 | Msa0675820:CDS |
| ATAACAGCACTATTATTGTC+TGG | 0.496455 | 4_4:+25120197 | Msa0675820:CDS |
| AGGCTAGCCGAGCCAAATGA+TGG | 0.501078 | 4_4:+25120661 | Msa0675820:CDS |
| ATTAACAAAACTGATCATAT+GGG | 0.530842 | 4_4:+25120319 | Msa0675820:CDS |
| CATATGGGACGAAGCATCCA+TGG | 0.541486 | 4_4:+25120334 | Msa0675820:CDS |
| TGTTGAAAGTTGGTGAAGGA+AGG | 0.565122 | 4_4:+25120641 | Msa0675820:CDS |
| TAATAGTGCTGTTATACCAC+TGG | 0.583256 | 4_4:-25120189 | None:intergenic |
| TTCTTCTTACATGGTTACGG+TGG | 0.608388 | 4_4:+25120089 | Msa0675820:CDS |
| GAACAGGTAAAACATTTATG+TGG | 0.613139 | 4_4:+25120111 | Msa0675820:CDS |
| AACTCCACATGTAATATAGA+CGG | 0.613688 | 4_4:+25120269 | Msa0675820:CDS |
| TTACATCTGGGATAAATGTG+AGG | 0.615763 | 4_4:+25120534 | Msa0675820:CDS |
| CAGGTAAAACATTTATGTGG+CGG | 0.660926 | 4_4:+25120114 | Msa0675820:CDS |
| TACACCGTCTATATTACATG+TGG | 0.662637 | 4_4:-25120273 | None:intergenic |
| TGGTTGTTGAAAGTTGGTGA+AGG | 0.674455 | 4_4:+25120637 | Msa0675820:CDS |
| TTGGCAACGACTTCTTAGTG+AGG | 0.697536 | 4_4:-25120147 | None:intergenic |
| ACAGCACTATTATTGTCTGG+AGG | 0.698316 | 4_4:+25120200 | Msa0675820:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTAACAAAACTGATCATA+TGG | + | chr4_4:25120318-25120337 | Msa0675820:CDS | 20.0% |
| !! | ATTAACAAAACTGATCATAT+GGG | + | chr4_4:25120319-25120338 | Msa0675820:CDS | 20.0% |
| !!! | AGTTAAAAATGTTTTCTGAA+TGG | + | chr4_4:25120617-25120636 | Msa0675820:CDS | 20.0% |
| !!! | TGAGTTTTTGATACAAAATT+GGG | + | chr4_4:25120708-25120727 | Msa0675820:CDS | 20.0% |
| ! | CATAAATTCTTCTTACATCT+GGG | + | chr4_4:25120522-25120541 | Msa0675820:CDS | 25.0% |
| ! | AAATGCAGAAATTGATATAC+CGG | + | chr4_4:25120684-25120703 | Msa0675820:CDS | 25.0% |
| !! | CTGAGTTTTTGATACAAAAT+TGG | + | chr4_4:25120707-25120726 | Msa0675820:CDS | 25.0% |
| TCATCTGTTAGTGAACAAAA+AGG | + | chr4_4:25120059-25120078 | Msa0675820:CDS | 30.0% | |
| GAACAGGTAAAACATTTATG+TGG | + | chr4_4:25120111-25120130 | Msa0675820:CDS | 30.0% | |
| ATAACAGCACTATTATTGTC+TGG | + | chr4_4:25120197-25120216 | Msa0675820:CDS | 30.0% | |
| AACTCCACATGTAATATAGA+CGG | + | chr4_4:25120269-25120288 | Msa0675820:CDS | 30.0% | |
| AAAGCAAAATTTATGAGCCA+TGG | - | chr4_4:25120354-25120373 | None:intergenic | 30.0% | |
| ! | TATGTCCTCTGATAAGATTT+TGG | + | chr4_4:25120403-25120422 | Msa0675820:intron | 30.0% |
| ! | ATGTCCTCTGATAAGATTTT+GGG | + | chr4_4:25120404-25120423 | Msa0675820:intron | 30.0% |
| GCATAAATTCTTCTTACATC+TGG | + | chr4_4:25120521-25120540 | Msa0675820:CDS | 30.0% | |
| ATTTCTGCATTTCCATCATT+TGG | - | chr4_4:25120676-25120695 | None:intergenic | 30.0% | |
| ! | TTTTGTATCAAAAACTCAGC+CGG | - | chr4_4:25120706-25120725 | None:intergenic | 30.0% |
| GTCTTCTTCTTACATGGTTA+CGG | + | chr4_4:25120086-25120105 | Msa0675820:CDS | 35.0% | |
| CAGGTAAAACATTTATGTGG+CGG | + | chr4_4:25120114-25120133 | Msa0675820:CDS | 35.0% | |
| !!! | TCGTTGCCAAATAGTTTTGA+TGG | + | chr4_4:25120160-25120179 | Msa0675820:CDS | 35.0% |
| TAGCGACCATCAAAACTATT+TGG | - | chr4_4:25120169-25120188 | None:intergenic | 35.0% | |
| ! | TAATAGTGCTGTTATACCAC+TGG | - | chr4_4:25120192-25120211 | None:intergenic | 35.0% |
| TACACCGTCTATATTACATG+TGG | - | chr4_4:25120276-25120295 | None:intergenic | 35.0% | |
| ! | TGTCCTCTGATAAGATTTTG+GGG | + | chr4_4:25120405-25120424 | Msa0675820:intron | 35.0% |
| ! | TTACATCTGGGATAAATGTG+AGG | + | chr4_4:25120534-25120553 | Msa0675820:CDS | 35.0% |
| ! | TTGTTGCAGACGCATATTTT+TGG | - | chr4_4:25120572-25120591 | None:intergenic | 35.0% |
| TCTGAATGGTTGTTGAAAGT+TGG | + | chr4_4:25120631-25120650 | Msa0675820:CDS | 35.0% | |
| TTCTTCTTACATGGTTACGG+TGG | + | chr4_4:25120089-25120108 | Msa0675820:CDS | 40.0% | |
| ACAGCACTATTATTGTCTGG+AGG | + | chr4_4:25120200-25120219 | Msa0675820:CDS | 40.0% | |
| ! | GTCCTCTGATAAGATTTTGG+GGG | + | chr4_4:25120406-25120425 | Msa0675820:intron | 40.0% |
| ! | TCCTCTGATAAGATTTTGGG+GGG | + | chr4_4:25120407-25120426 | Msa0675820:intron | 40.0% |
| !! | TGGTTGTTGAAAGTTGGTGA+AGG | + | chr4_4:25120637-25120656 | Msa0675820:CDS | 40.0% |
| !! | TGTTGAAAGTTGGTGAAGGA+AGG | + | chr4_4:25120641-25120660 | Msa0675820:CDS | 40.0% |
| TGCATTTCCATCATTTGGCT+CGG | - | chr4_4:25120671-25120690 | None:intergenic | 40.0% | |
| GGCGAAGTCTTCTTCTTACA+TGG | + | chr4_4:25120080-25120099 | Msa0675820:CDS | 45.0% | |
| TTACATGGTTACGGTGGAAC+AGG | + | chr4_4:25120095-25120114 | Msa0675820:CDS | 45.0% | |
| TTGGCAACGACTTCTTAGTG+AGG | - | chr4_4:25120150-25120169 | None:intergenic | 45.0% | |
| !!! | GAGTTTTCAAGTGCTGGTAC+GGG | - | chr4_4:25120254-25120273 | None:intergenic | 45.0% |
| !!! | GGAGTTTTCAAGTGCTGGTA+CGG | - | chr4_4:25120255-25120274 | None:intergenic | 45.0% |
| !!! | CATGTGGAGTTTTCAAGTGC+TGG | - | chr4_4:25120260-25120279 | None:intergenic | 45.0% |
| !! | CCTCTGATAAGATTTTGGGG+GGG | + | chr4_4:25120408-25120427 | Msa0675820:intron | 45.0% |
| !! | CTCTGATAAGATTTTGGGGG+GGG | + | chr4_4:25120409-25120428 | Msa0675820:intron | 45.0% |
| !! | TCTGATAAGATTTTGGGGGG+GGG | + | chr4_4:25120410-25120429 | Msa0675820:intron | 45.0% |
| !!! | GGGGGAGTTATTGTTTTTGG+AGG | + | chr4_4:25120436-25120455 | Msa0675820:intron | 45.0% |
| ATGTCTGAACGATCCACTCT+GGG | - | chr4_4:25120490-25120509 | None:intergenic | 45.0% | |
| AATGTCTGAACGATCCACTC+TGG | - | chr4_4:25120491-25120510 | None:intergenic | 45.0% | |
| !! | GTTTTGATGGTCGCTACCAG+TGG | + | chr4_4:25120173-25120192 | Msa0675820:CDS | 50.0% |
| ! | CATATGGGACGAAGCATCCA+TGG | + | chr4_4:25120334-25120353 | Msa0675820:CDS | 50.0% |
| CCCCCCCAAAATCTTATCAG+AGG | - | chr4_4:25120411-25120430 | None:intergenic | 50.0% | |
| !! | CTGATAAGATTTTGGGGGGG+GGG | + | chr4_4:25120411-25120430 | Msa0675820:intron | 50.0% |
| !! | TGATAAGATTTTGGGGGGGG+GGG | + | chr4_4:25120412-25120431 | Msa0675820:intron | 50.0% |
| ! | GGGGGGGGAGTTATTGTTTT+TGG | + | chr4_4:25120433-25120452 | Msa0675820:intron | 50.0% |
| TTTACCTGTCGTACCCAGAG+TGG | + | chr4_4:25120474-25120493 | Msa0675820:intron | 50.0% | |
| !! | GATAAGATTTTGGGGGGGGG+GGG | + | chr4_4:25120413-25120432 | Msa0675820:intron | 55.0% |
| !! | ATAAGATTTTGGGGGGGGGG+GGG | + | chr4_4:25120414-25120433 | Msa0675820:intron | 55.0% |
| ! | AGGCTAGCCGAGCCAAATGA+TGG | + | chr4_4:25120661-25120680 | Msa0675820:CDS | 55.0% |
| !! | TAAGATTTTGGGGGGGGGGG+GGG | + | chr4_4:25120415-25120434 | Msa0675820:intron | 60.0% |
| CGATCCACTCTGGGTACGAC+AGG | - | chr4_4:25120481-25120500 | None:intergenic | 60.0% | |
| !! | AAGATTTTGGGGGGGGGGGG+GGG | + | chr4_4:25120416-25120435 | Msa0675820:intron | 65.0% |
| !! | AGATTTTGGGGGGGGGGGGG+GGG | + | chr4_4:25120417-25120436 | Msa0675820:intron | 70.0% |
| !! | GATTTTGGGGGGGGGGGGGG+GGG | + | chr4_4:25120418-25120437 | Msa0675820:intron | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 25120056 | 25120744 | 25120056 | ID=Msa0675820;Name=Msa0675820 |
| chr4_4 | mRNA | 25120056 | 25120744 | 25120056 | ID=Msa0675820-mRNA-1;Parent=Msa0675820;Name=Msa0675820-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|0|0|1|1|1|2|0|200 |
| chr4_4 | exon | 25120056 | 25120405 | 25120056 | ID=Msa0675820-mRNA-1:exon:6862;Parent=Msa0675820-mRNA-1 |
| chr4_4 | exon | 25120492 | 25120744 | 25120492 | ID=Msa0675820-mRNA-1:exon:6863;Parent=Msa0675820-mRNA-1 |
| chr4_4 | CDS | 25120056 | 25120405 | 25120056 | ID=Msa0675820-mRNA-1:cds;Parent=Msa0675820-mRNA-1 |
| chr4_4 | CDS | 25120492 | 25120744 | 25120492 | ID=Msa0675820-mRNA-1:cds;Parent=Msa0675820-mRNA-1 |
| Gene Sequence |
| Protein sequence |
