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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0820230 | XP_003616973.1 | 93.671 | 158 | 9 | 1 | 67 | 224 | 1 | 157 | 1.14e-98 | 294 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0820230 | G7KCM2 | 93.671 | 158 | 9 | 1 | 67 | 224 | 1 | 157 | 5.43e-99 | 294 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0014570 | Msa0820230 | 0.825268 | 5.143324e-54 | -8.615850e-47 |
| Msa0058160 | Msa0820230 | 0.826072 | 3.315485e-54 | -8.615850e-47 |
| Msa0820230 | Msa0860540 | 0.803039 | 4.215456e-49 | -8.615850e-47 |
| Msa0820230 | Msa1079430 | 0.808235 | 3.421589e-50 | -8.615850e-47 |
| Msa0131330 | Msa0820230 | 0.803045 | 4.204510e-49 | -8.615850e-47 |
| Msa0178510 | Msa0820230 | 0.800676 | 1.289005e-48 | -8.615850e-47 |
| Msa0207350 | Msa0820230 | 0.801008 | 1.102652e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0820230 | MtrunA17_Chr5g0439711 | 93.671 | 158 | 9 | 1 | 67 | 224 | 1 | 157 | 1.05e-102 | 294 |
| Msa0820230 | MtrunA17_Chr7g0264841 | 71.930 | 114 | 31 | 1 | 112 | 225 | 192 | 304 | 4.03e-49 | 162 |
| Msa0820230 | MtrunA17_Chr8g0391991 | 63.964 | 111 | 39 | 1 | 114 | 224 | 72 | 181 | 1.49e-41 | 139 |
| Msa0820230 | MtrunA17_Chr6g0471571 | 65.714 | 70 | 23 | 1 | 114 | 183 | 72 | 140 | 1.11e-21 | 87.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATTTCATTCAACACTTCT+TGG | 0.240484 | 5_3:-57441047 | Msa0820220:intron |
| TTGCCAAGTATAACCTTCTA+AGG | 0.276635 | 5_3:-57440698 | Msa0820220:intron |
| CAGAATTTACATGGTGTTCT+TGG | 0.297654 | 5_3:+57440375 | Msa0820230:CDS |
| TAGTGTTGTTACTATGCTAT+TGG | 0.309426 | 5_3:+57440819 | Msa0820230:CDS |
| TAACGAATATATTGATTTAG+AGG | 0.335320 | 5_3:+57440861 | Msa0820230:CDS |
| TAAGAAGAAGGATTTCCTTT+TGG | 0.337967 | 5_3:+57441170 | Msa0820230:CDS |
| AGTGTTGTTACTATGCTATT+GGG | 0.364474 | 5_3:+57440820 | Msa0820230:CDS |
| TTGAGAATCGCCAATCTGTT+TGG | 0.376213 | 5_3:-57441132 | Msa0820220:intron |
| TTCTTCTTTGATGCGGAGCT+TGG | 0.385578 | 5_3:-57440886 | Msa0820220:intron |
| TACGTTATAAAGCAATCAAT+TGG | 0.415866 | 5_3:+57441097 | Msa0820230:CDS |
| TCTTCCGTTGATTAAGAAGA+AGG | 0.423371 | 5_3:+57441158 | Msa0820230:CDS |
| GGAAGGAAATTCTCAAGAAA+TGG | 0.435903 | 5_3:+57441023 | Msa0820230:CDS |
| AAGCAATACAATGAGTGGTC+AGG | 0.440240 | 5_3:-57440652 | Msa0820220:intron |
| CTGATAGTTCAGAATTTACA+TGG | 0.450200 | 5_3:+57440366 | Msa0820230:CDS |
| TTGCCTTAGAAGGTTATACT+TGG | 0.469789 | 5_3:+57440695 | Msa0820230:CDS |
| CTCATAACATAGAAGCCAAA+AGG | 0.487450 | 5_3:-57441185 | Msa0820220:intron |
| TGCTATTGGGTGCAATAGCT+TGG | 0.489850 | 5_3:+57440833 | Msa0820230:CDS |
| TGTATGCTTCATGTTGTGAA+TGG | 0.491722 | 5_3:+57440318 | Msa0820230:CDS |
| TGACTTATTATGATGATGAA+TGG | 0.496460 | 5_3:+57440273 | None:intergenic |
| GACTGAAAATCCAAACAGAT+TGG | 0.507299 | 5_3:+57441122 | Msa0820230:CDS |
| AAATCCTTCTTCTTAATCAA+CGG | 0.553574 | 5_3:-57441162 | Msa0820220:intron |
| AGCAATACAATGAGTGGTCA+GGG | 0.557931 | 5_3:-57440651 | Msa0820220:intron |
| TAGTACTTTCTTCTTTGATG+CGG | 0.586763 | 5_3:-57440893 | Msa0820220:intron |
| AAAACGTAAAAGAAATGAAG+AGG | 0.599015 | 5_3:+57440762 | Msa0820230:CDS |
| TGAAGAGGTGGCAGAGCTCG+AGG | 0.600263 | 5_3:+57440777 | Msa0820230:CDS |
| GCTGAAAGCAATACAATGAG+TGG | 0.626456 | 5_3:-57440657 | Msa0820220:intron |
| ACGTAAAAGAAATGAAGAGG+TGG | 0.634856 | 5_3:+57440765 | Msa0820230:CDS |
| TGAATGGTTCTGTTATCCGC+TGG | 0.640749 | 5_3:+57440289 | Msa0820230:CDS |
| CAATTCTATTATGAGAGACG+TGG | 0.645435 | 5_3:+57440957 | Msa0820230:CDS |
| GAAGCATACAACGGAACCAG+CGG | 0.659698 | 5_3:-57440305 | Msa0820220:intron |
| TTAAGAAGAGAGACGAAGAG+AGG | 0.660591 | 5_3:+57440929 | Msa0820230:CDS |
| TCACAACATGAAGCATACAA+CGG | 0.712217 | 5_3:-57440314 | Msa0820220:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAACGAATATATTGATTTAG+AGG | + | chr5_3:57440861-57440880 | Msa0820230:CDS | 20.0% |
| !!! | TTTTTTTAGTAACTTGTAGA+AGG | - | chr5_3:57440999-57441018 | Msa0820220:intron | 20.0% |
| !! | TTCTACAAGTTACTAAAAAA+AGG | + | chr5_3:57440998-57441017 | Msa0820230:CDS | 20.0% |
| !!! | TAACGAATATATTGATTTAG+AGG | + | chr5_3:57440861-57440880 | Msa0820230:CDS | 20.0% |
| !!! | TTTTTTTAGTAACTTGTAGA+AGG | - | chr5_3:57440999-57441018 | Msa0820220:intron | 20.0% |
| !! | TTCTACAAGTTACTAAAAAA+AGG | + | chr5_3:57440998-57441017 | Msa0820230:CDS | 20.0% |
| ! | AAAAAGAAACAAAATGCATG+AGG | - | chr5_3:57440530-57440549 | Msa0820220:intron | 25.0% |
| ! | GCTAAGGAATTAGTAAAATA+TGG | - | chr5_3:57440619-57440638 | Msa0820220:intron | 25.0% |
| !! | TATTTTACTAATTCCTTAGC+TGG | + | chr5_3:57440619-57440638 | Msa0820230:intron | 25.0% |
| ! | AAGGCAAGAAAATGAAAAAA+GGG | - | chr5_3:57440682-57440701 | Msa0820220:intron | 25.0% |
| ! | TAAGGCAAGAAAATGAAAAA+AGG | - | chr5_3:57440683-57440702 | Msa0820220:intron | 25.0% |
| ! | TTATACTTGGCAAAAAGAAA+TGG | + | chr5_3:57440708-57440727 | Msa0820230:CDS | 25.0% |
| ! | TATACTTGGCAAAAAGAAAT+GGG | + | chr5_3:57440709-57440728 | Msa0820230:CDS | 25.0% |
| ! | AAAACGTAAAAGAAATGAAG+AGG | + | chr5_3:57440762-57440781 | Msa0820230:CDS | 25.0% |
| ! | ACAAGTTACTAAAAAAAGGA+TGG | + | chr5_3:57441002-57441021 | Msa0820230:CDS | 25.0% |
| ! | TACGTTATAAAGCAATCAAT+TGG | + | chr5_3:57441097-57441116 | Msa0820230:CDS | 25.0% |
| ! | AAATCCTTCTTCTTAATCAA+CGG | - | chr5_3:57441165-57441184 | Msa0820220:intron | 25.0% |
| ! | AAAAAGAAACAAAATGCATG+AGG | - | chr5_3:57440530-57440549 | Msa0820220:intron | 25.0% |
| ! | GCTAAGGAATTAGTAAAATA+TGG | - | chr5_3:57440619-57440638 | Msa0820220:intron | 25.0% |
| !! | TATTTTACTAATTCCTTAGC+TGG | + | chr5_3:57440619-57440638 | Msa0820230:intron | 25.0% |
| ! | AAGGCAAGAAAATGAAAAAA+GGG | - | chr5_3:57440682-57440701 | Msa0820220:intron | 25.0% |
| ! | TAAGGCAAGAAAATGAAAAA+AGG | - | chr5_3:57440683-57440702 | Msa0820220:intron | 25.0% |
| ! | TTATACTTGGCAAAAAGAAA+TGG | + | chr5_3:57440708-57440727 | Msa0820230:CDS | 25.0% |
| ! | TATACTTGGCAAAAAGAAAT+GGG | + | chr5_3:57440709-57440728 | Msa0820230:CDS | 25.0% |
| ! | AAAACGTAAAAGAAATGAAG+AGG | + | chr5_3:57440762-57440781 | Msa0820230:CDS | 25.0% |
| ! | ACAAGTTACTAAAAAAAGGA+TGG | + | chr5_3:57441002-57441021 | Msa0820230:CDS | 25.0% |
| ! | TACGTTATAAAGCAATCAAT+TGG | + | chr5_3:57441097-57441116 | Msa0820230:CDS | 25.0% |
| ! | AAATCCTTCTTCTTAATCAA+CGG | - | chr5_3:57441165-57441184 | Msa0820220:intron | 25.0% |
| CTGATAGTTCAGAATTTACA+TGG | + | chr5_3:57440366-57440385 | Msa0820230:CDS | 30.0% | |
| ! | ATAATTCTGAAAGCAGTTTG+AGG | - | chr5_3:57440456-57440475 | Msa0820220:intron | 30.0% |
| !! | CATTTTGTTTCTTTTTGAGC+TGG | + | chr5_3:57440534-57440553 | Msa0820230:intron | 30.0% |
| ! | TTTCATTTTCTTGCCTTAGA+AGG | + | chr5_3:57440685-57440704 | Msa0820230:CDS | 30.0% |
| !!! | CGTTTTCTTGAAAGTATTGA+AGG | - | chr5_3:57440748-57440767 | Msa0820220:intron | 30.0% |
| ! | TAGTGTTGTTACTATGCTAT+TGG | + | chr5_3:57440819-57440838 | Msa0820230:CDS | 30.0% |
| ! | AGTGTTGTTACTATGCTATT+GGG | + | chr5_3:57440820-57440839 | Msa0820230:CDS | 30.0% |
| TAGTACTTTCTTCTTTGATG+CGG | - | chr5_3:57440896-57440915 | Msa0820220:intron | 30.0% | |
| GTTACTAAAAAAAGGATGGA+AGG | + | chr5_3:57441006-57441025 | Msa0820230:CDS | 30.0% | |
| TCATTTCATTCAACACTTCT+TGG | - | chr5_3:57441050-57441069 | Msa0820220:intron | 30.0% | |
| ! | TAAGAAGAAGGATTTCCTTT+TGG | + | chr5_3:57441170-57441189 | Msa0820230:CDS | 30.0% |
| CTGATAGTTCAGAATTTACA+TGG | + | chr5_3:57440366-57440385 | Msa0820230:CDS | 30.0% | |
| ! | ATAATTCTGAAAGCAGTTTG+AGG | - | chr5_3:57440456-57440475 | Msa0820220:intron | 30.0% |
| !! | CATTTTGTTTCTTTTTGAGC+TGG | + | chr5_3:57440534-57440553 | Msa0820230:intron | 30.0% |
| ! | TTTCATTTTCTTGCCTTAGA+AGG | + | chr5_3:57440685-57440704 | Msa0820230:CDS | 30.0% |
| !!! | CGTTTTCTTGAAAGTATTGA+AGG | - | chr5_3:57440748-57440767 | Msa0820220:intron | 30.0% |
| ! | TAGTGTTGTTACTATGCTAT+TGG | + | chr5_3:57440819-57440838 | Msa0820230:CDS | 30.0% |
| ! | AGTGTTGTTACTATGCTATT+GGG | + | chr5_3:57440820-57440839 | Msa0820230:CDS | 30.0% |
| TAGTACTTTCTTCTTTGATG+CGG | - | chr5_3:57440896-57440915 | Msa0820220:intron | 30.0% | |
| GTTACTAAAAAAAGGATGGA+AGG | + | chr5_3:57441006-57441025 | Msa0820230:CDS | 30.0% | |
| TCATTTCATTCAACACTTCT+TGG | - | chr5_3:57441050-57441069 | Msa0820220:intron | 30.0% | |
| ! | TAAGAAGAAGGATTTCCTTT+TGG | + | chr5_3:57441170-57441189 | Msa0820230:CDS | 30.0% |
| TCACAACATGAAGCATACAA+CGG | - | chr5_3:57440317-57440336 | Msa0820220:intron | 35.0% | |
| TGTATGCTTCATGTTGTGAA+TGG | + | chr5_3:57440318-57440337 | Msa0820230:CDS | 35.0% | |
| CAGAATTTACATGGTGTTCT+TGG | + | chr5_3:57440375-57440394 | Msa0820230:CDS | 35.0% | |
| TTGCCTTAGAAGGTTATACT+TGG | + | chr5_3:57440695-57440714 | Msa0820230:CDS | 35.0% | |
| TTGCCAAGTATAACCTTCTA+AGG | - | chr5_3:57440701-57440720 | Msa0820220:intron | 35.0% | |
| ACGTAAAAGAAATGAAGAGG+TGG | + | chr5_3:57440765-57440784 | Msa0820230:CDS | 35.0% | |
| CAATTCTATTATGAGAGACG+TGG | + | chr5_3:57440957-57440976 | Msa0820230:CDS | 35.0% | |
| GGAAGGAAATTCTCAAGAAA+TGG | + | chr5_3:57441023-57441042 | Msa0820230:CDS | 35.0% | |
| GACTGAAAATCCAAACAGAT+TGG | + | chr5_3:57441122-57441141 | Msa0820230:CDS | 35.0% | |
| ! | TCTTCCGTTGATTAAGAAGA+AGG | + | chr5_3:57441158-57441177 | Msa0820230:CDS | 35.0% |
| TCACAACATGAAGCATACAA+CGG | - | chr5_3:57440317-57440336 | Msa0820220:intron | 35.0% | |
| TGTATGCTTCATGTTGTGAA+TGG | + | chr5_3:57440318-57440337 | Msa0820230:CDS | 35.0% | |
| CAGAATTTACATGGTGTTCT+TGG | + | chr5_3:57440375-57440394 | Msa0820230:CDS | 35.0% | |
| TTGCCTTAGAAGGTTATACT+TGG | + | chr5_3:57440695-57440714 | Msa0820230:CDS | 35.0% | |
| TTGCCAAGTATAACCTTCTA+AGG | - | chr5_3:57440701-57440720 | Msa0820220:intron | 35.0% | |
| ACGTAAAAGAAATGAAGAGG+TGG | + | chr5_3:57440765-57440784 | Msa0820230:CDS | 35.0% | |
| CAATTCTATTATGAGAGACG+TGG | + | chr5_3:57440957-57440976 | Msa0820230:CDS | 35.0% | |
| GGAAGGAAATTCTCAAGAAA+TGG | + | chr5_3:57441023-57441042 | Msa0820230:CDS | 35.0% | |
| GACTGAAAATCCAAACAGAT+TGG | + | chr5_3:57441122-57441141 | Msa0820230:CDS | 35.0% | |
| ! | TCTTCCGTTGATTAAGAAGA+AGG | + | chr5_3:57441158-57441177 | Msa0820230:CDS | 35.0% |
| AGCAATACAATGAGTGGTCA+GGG | - | chr5_3:57440654-57440673 | Msa0820220:intron | 40.0% | |
| AAGCAATACAATGAGTGGTC+AGG | - | chr5_3:57440655-57440674 | Msa0820220:intron | 40.0% | |
| GCTGAAAGCAATACAATGAG+TGG | - | chr5_3:57440660-57440679 | Msa0820220:intron | 40.0% | |
| TTAAGAAGAGAGACGAAGAG+AGG | + | chr5_3:57440929-57440948 | Msa0820230:CDS | 40.0% | |
| TTGAGAATCGCCAATCTGTT+TGG | - | chr5_3:57441135-57441154 | Msa0820220:intron | 40.0% | |
| AGCAATACAATGAGTGGTCA+GGG | - | chr5_3:57440654-57440673 | Msa0820220:intron | 40.0% | |
| AAGCAATACAATGAGTGGTC+AGG | - | chr5_3:57440655-57440674 | Msa0820220:intron | 40.0% | |
| GCTGAAAGCAATACAATGAG+TGG | - | chr5_3:57440660-57440679 | Msa0820220:intron | 40.0% | |
| TTAAGAAGAGAGACGAAGAG+AGG | + | chr5_3:57440929-57440948 | Msa0820230:CDS | 40.0% | |
| TTGAGAATCGCCAATCTGTT+TGG | - | chr5_3:57441135-57441154 | Msa0820220:intron | 40.0% | |
| ! | TGAATGGTTCTGTTATCCGC+TGG | + | chr5_3:57440289-57440308 | Msa0820230:CDS | 45.0% |
| TGCTATTGGGTGCAATAGCT+TGG | + | chr5_3:57440833-57440852 | Msa0820230:CDS | 45.0% | |
| TTCTTCTTTGATGCGGAGCT+TGG | - | chr5_3:57440889-57440908 | Msa0820220:intron | 45.0% | |
| ! | TGAATGGTTCTGTTATCCGC+TGG | + | chr5_3:57440289-57440308 | Msa0820230:CDS | 45.0% |
| TGCTATTGGGTGCAATAGCT+TGG | + | chr5_3:57440833-57440852 | Msa0820230:CDS | 45.0% | |
| TTCTTCTTTGATGCGGAGCT+TGG | - | chr5_3:57440889-57440908 | Msa0820220:intron | 45.0% | |
| GAAGCATACAACGGAACCAG+CGG | - | chr5_3:57440308-57440327 | Msa0820220:intron | 50.0% | |
| AGGGTAAGCATCACCAGCTA+AGG | - | chr5_3:57440635-57440654 | Msa0820220:intron | 50.0% | |
| GAAGCATACAACGGAACCAG+CGG | - | chr5_3:57440308-57440327 | Msa0820220:intron | 50.0% | |
| AGGGTAAGCATCACCAGCTA+AGG | - | chr5_3:57440635-57440654 | Msa0820220:intron | 50.0% | |
| TGAAGAGGTGGCAGAGCTCG+AGG | + | chr5_3:57440777-57440796 | Msa0820230:CDS | 60.0% | |
| TGAAGAGGTGGCAGAGCTCG+AGG | + | chr5_3:57440777-57440796 | Msa0820230:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 57440288 | 57441206 | 57440288 | ID=Msa0820230;Name=Msa0820230 |
| chr5_3 | mRNA | 57440288 | 57441206 | 57440288 | ID=Msa0820230-mRNA-1;Parent=Msa0820230;Name=Msa0820230-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|0|0|0.5|1|1|2|0|225 |
| chr5_3 | exon | 57440288 | 57440396 | 57440288 | ID=Msa0820230-mRNA-1:exon:17349;Parent=Msa0820230-mRNA-1 |
| chr5_3 | exon | 57440638 | 57441206 | 57440638 | ID=Msa0820230-mRNA-1:exon:17350;Parent=Msa0820230-mRNA-1 |
| chr5_3 | CDS | 57440288 | 57440396 | 57440288 | ID=Msa0820230-mRNA-1:cds;Parent=Msa0820230-mRNA-1 |
| chr5_3 | CDS | 57440638 | 57441206 | 57440638 | ID=Msa0820230-mRNA-1:cds;Parent=Msa0820230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
