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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087430 | XP_003592389.1 | 92.670 | 191 | 14 | 0 | 1 | 191 | 1 | 191 | 1.97e-123 | 356 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087430 | sp|Q9FLI0|BH120_ARATH | 33.333 | 183 | 104 | 5 | 18 | 190 | 26 | 200 | 8.06e-26 | 101 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087430 | G7ID50 | 92.670 | 191 | 14 | 0 | 1 | 191 | 1 | 191 | 9.40e-124 | 356 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0087430 | TF | bHLH |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087430 | MtrunA17_Chr1g0204361 | 92.670 | 191 | 14 | 0 | 1 | 191 | 1 | 191 | 1.81e-127 | 356 |
| Msa0087430 | MtrunA17_Chr6g0474681 | 38.372 | 172 | 103 | 2 | 17 | 187 | 4 | 173 | 5.32e-38 | 129 |
| Msa0087430 | MtrunA17_Chr1g0204351 | 40.120 | 167 | 94 | 2 | 17 | 183 | 73 | 233 | 1.11e-33 | 120 |
| Msa0087430 | MtrunA17_Chr6g0474671 | 36.310 | 168 | 97 | 3 | 18 | 183 | 70 | 229 | 2.06e-30 | 111 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0087430 | AT5G51780.2 | 35.196 | 179 | 104 | 4 | 13 | 183 | 19 | 193 | 6.65e-28 | 104 |
| Msa0087430 | AT5G51790.1 | 33.333 | 183 | 104 | 5 | 18 | 190 | 26 | 200 | 8.20e-27 | 101 |
| Msa0087430 | AT5G51790.3 | 33.333 | 183 | 104 | 5 | 18 | 190 | 91 | 265 | 2.45e-26 | 102 |
| Msa0087430 | AT5G51780.1 | 34.682 | 173 | 101 | 4 | 19 | 183 | 2 | 170 | 1.06e-25 | 97.8 |
| Msa0087430 | AT4G25410.1 | 32.584 | 178 | 102 | 3 | 24 | 190 | 48 | 218 | 4.42e-25 | 97.4 |
| Msa0087430 | AT1G12540.1 | 38.122 | 181 | 96 | 8 | 16 | 183 | 69 | 246 | 1.80e-24 | 96.7 |
| Msa0087430 | AT4G25400.1 | 32.727 | 165 | 104 | 3 | 19 | 183 | 25 | 182 | 3.29e-24 | 94.4 |
| Msa0087430 | AT1G62975.1 | 34.225 | 187 | 105 | 4 | 15 | 183 | 70 | 256 | 8.48e-24 | 95.1 |
| Msa0087430 | AT5G51790.4 | 32.919 | 161 | 90 | 5 | 18 | 168 | 26 | 178 | 1.15e-22 | 90.5 |
| Msa0087430 | AT4G25400.2 | 31.548 | 168 | 106 | 4 | 15 | 180 | 19 | 179 | 2.35e-22 | 89.4 |
| Msa0087430 | AT5G51790.2 | 32.919 | 161 | 90 | 5 | 18 | 168 | 91 | 243 | 2.70e-22 | 90.9 |
| Msa0087430 | AT1G62975.2 | 34.270 | 178 | 99 | 4 | 15 | 174 | 70 | 247 | 4.74e-21 | 87.4 |
Find 31 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCACGTTTATCAGATTTAA+TGG | 0.200332 | 1_2:-68379733 | Msa0087430:CDS |
| TTTGCAGCTGAGCAAGATTA+AGG | 0.301232 | 1_2:+68379446 | None:intergenic |
| TGCTCAGCTGCAAAATAAAC+TGG | 0.330890 | 1_2:-68379437 | Msa0087430:CDS |
| ACACACTTCACTACACTTGT+AGG | 0.335290 | 1_2:+68379819 | None:intergenic |
| TGTGTTACCAACCAAGTAAA+TGG | 0.368730 | 1_2:-68379675 | Msa0087430:CDS |
| GTCAAGATTGATCTAATTCC+AGG | 0.380052 | 1_2:-68379798 | Msa0087430:CDS |
| TTTATGCTGTTTCAGATCTT+CGG | 0.390845 | 1_2:+68380231 | None:intergenic |
| GAGAGATAAGATCAAAGAAA+TGG | 0.392291 | 1_2:-68379886 | Msa0087430:CDS |
| AGTTCAAGTAGGGTTGAAAC+TGG | 0.407760 | 1_2:-68379861 | Msa0087430:CDS |
| AAGACCTTGATGAGCTCAAA+AGG | 0.412689 | 1_2:+68380100 | None:intergenic |
| GAAATATCTTGCCATTTACT+TGG | 0.419250 | 1_2:+68379664 | None:intergenic |
| TATCTTGCCATTTACTTGGT+TGG | 0.419948 | 1_2:+68379668 | None:intergenic |
| AAGAAATGGTTAGTTCAAGT+AGG | 0.512409 | 1_2:-68379872 | Msa0087430:CDS |
| AGAAATGGTTAGTTCAAGTA+GGG | 0.521680 | 1_2:-68379871 | Msa0087430:CDS |
| ATAACAATTTCCACCCCACC+TGG | 0.524411 | 1_2:+68379780 | None:intergenic |
| GTGGAAATTGTTATATGTAG+TGG | 0.547521 | 1_2:-68379771 | Msa0087430:CDS |
| ATGGAAATAATACTTCAAGA+AGG | 0.552508 | 1_2:-68379714 | Msa0087430:CDS |
| TGATCTAATTCCAGGTGGGG+TGG | 0.577334 | 1_2:-68379790 | Msa0087430:CDS |
| AGACCTTGATGAGCTCAAAA+GGG | 0.578199 | 1_2:+68380101 | None:intergenic |
| GCATAAAATATTAACTACAT+CGG | 0.605079 | 1_2:-68380215 | Msa0087430:CDS |
| ATTTCATACTATTAAATCTG+AGG | 0.612912 | 1_2:-68379646 | Msa0087430:intron |
| GATTGATCTAATTCCAGGTG+GGG | 0.621637 | 1_2:-68379793 | Msa0087430:CDS |
| AGATTGATCTAATTCCAGGT+GGG | 0.625836 | 1_2:-68379794 | Msa0087430:CDS |
| GCTCAAAAGGGAGTGAAGAA+CGG | 0.633531 | 1_2:+68380113 | None:intergenic |
| GTAGGGAAGTTGAAAAGCAA+AGG | 0.634358 | 1_2:-68380168 | Msa0087430:CDS |
| AAAAGGGAGTGAAGAACGGA+GGG | 0.640895 | 1_2:+68380117 | None:intergenic |
| CGTTCAGTATCAGATCACAT+AGG | 0.655166 | 1_2:-68379966 | Msa0087430:CDS |
| AGTATCAGATCACATAGGTG+AGG | 0.667408 | 1_2:-68379961 | Msa0087430:CDS |
| CAAAAGGGAGTGAAGAACGG+AGG | 0.674543 | 1_2:+68380116 | None:intergenic |
| GGGAAGTTGAAAAGCAAAGG+AGG | 0.678696 | 1_2:-68380165 | Msa0087430:CDS |
| AAGATTGATCTAATTCCAGG+TGG | 0.682027 | 1_2:-68379795 | Msa0087430:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACTTAATAATTAATTAGCT+AGG | + | chr1_2:68380028-68380047 | None:intergenic | 15.0% |
| !!! | ATTATTGTTGTTGAATATAT+AGG | - | chr1_2:68380161-68380180 | Msa0087430:CDS | 15.0% |
| !! | AACTTAATAATTAATTAGCT+AGG | + | chr1_2:68380028-68380047 | None:intergenic | 15.0% |
| !!! | ATTATTGTTGTTGAATATAT+AGG | - | chr1_2:68380161-68380180 | Msa0087430:CDS | 15.0% |
| !! | GCATAAAATATTAACTACAT+CGG | - | chr1_2:68379431-68379450 | Msa0087430:CDS | 20.0% |
| !!! | TCATGTTGATAAATAATAAG+AGG | + | chr1_2:68379593-68379612 | None:intergenic | 20.0% |
| !!! | TAATTTTCTGCTTCAAAATT+TGG | + | chr1_2:68379724-68379743 | None:intergenic | 20.0% |
| !! | ATTTCATACTATTAAATCTG+AGG | - | chr1_2:68380000-68380019 | Msa0087430:intron | 20.0% |
| !! | GCATAAAATATTAACTACAT+CGG | - | chr1_2:68379431-68379450 | Msa0087430:CDS | 20.0% |
| !!! | TCATGTTGATAAATAATAAG+AGG | + | chr1_2:68379593-68379612 | None:intergenic | 20.0% |
| !!! | TAATTTTCTGCTTCAAAATT+TGG | + | chr1_2:68379724-68379743 | None:intergenic | 20.0% |
| !! | ATTTCATACTATTAAATCTG+AGG | - | chr1_2:68380000-68380019 | Msa0087430:intron | 20.0% |
| !!! | TTCATAACATCTTTGCTTTT+AGG | - | chr1_2:68379652-68379671 | Msa0087430:CDS | 25.0% |
| !!! | TCATAACATCTTTGCTTTTA+GGG | - | chr1_2:68379653-68379672 | Msa0087430:CDS | 25.0% |
| ! | TTCACGTTTATCAGATTTAA+TGG | - | chr1_2:68379913-68379932 | Msa0087430:CDS | 25.0% |
| ! | ATGGAAATAATACTTCAAGA+AGG | - | chr1_2:68379932-68379951 | Msa0087430:CDS | 25.0% |
| !! | ATTGTTGTTGAATATATAGG+TGG | - | chr1_2:68380164-68380183 | Msa0087430:CDS | 25.0% |
| !!! | TTCATAACATCTTTGCTTTT+AGG | - | chr1_2:68379652-68379671 | Msa0087430:CDS | 25.0% |
| !!! | TCATAACATCTTTGCTTTTA+GGG | - | chr1_2:68379653-68379672 | Msa0087430:CDS | 25.0% |
| ! | TTCACGTTTATCAGATTTAA+TGG | - | chr1_2:68379913-68379932 | Msa0087430:CDS | 25.0% |
| ! | ATGGAAATAATACTTCAAGA+AGG | - | chr1_2:68379932-68379951 | Msa0087430:CDS | 25.0% |
| !! | ATTGTTGTTGAATATATAGG+TGG | - | chr1_2:68380164-68380183 | Msa0087430:CDS | 25.0% |
| !! | TTTATGCTGTTTCAGATCTT+CGG | + | chr1_2:68379418-68379437 | None:intergenic | 30.0% |
| ATGAGAAAAAGATGATTCGT+AGG | - | chr1_2:68379460-68379479 | Msa0087430:CDS | 30.0% | |
| TGAGAAAAAGATGATTCGTA+GGG | - | chr1_2:68379461-68379480 | Msa0087430:CDS | 30.0% | |
| GAGAGATAAGATCAAAGAAA+TGG | - | chr1_2:68379760-68379779 | Msa0087430:CDS | 30.0% | |
| ! | AAGAAATGGTTAGTTCAAGT+AGG | - | chr1_2:68379774-68379793 | Msa0087430:CDS | 30.0% |
| ! | AGAAATGGTTAGTTCAAGTA+GGG | - | chr1_2:68379775-68379794 | Msa0087430:CDS | 30.0% |
| GTGGAAATTGTTATATGTAG+TGG | - | chr1_2:68379875-68379894 | Msa0087430:CDS | 30.0% | |
| !! | TGTTATATGTAGTGGTTTTG+AGG | - | chr1_2:68379883-68379902 | Msa0087430:CDS | 30.0% |
| ! | GAAATATCTTGCCATTTACT+TGG | + | chr1_2:68379985-68380004 | None:intergenic | 30.0% |
| ! | ATCACGCAATTTTATTGTCA+AGG | - | chr1_2:68380232-68380251 | Msa0087430:CDS | 30.0% |
| !! | TTTATGCTGTTTCAGATCTT+CGG | + | chr1_2:68379418-68379437 | None:intergenic | 30.0% |
| ATGAGAAAAAGATGATTCGT+AGG | - | chr1_2:68379460-68379479 | Msa0087430:CDS | 30.0% | |
| TGAGAAAAAGATGATTCGTA+GGG | - | chr1_2:68379461-68379480 | Msa0087430:CDS | 30.0% | |
| GAGAGATAAGATCAAAGAAA+TGG | - | chr1_2:68379760-68379779 | Msa0087430:CDS | 30.0% | |
| ! | AAGAAATGGTTAGTTCAAGT+AGG | - | chr1_2:68379774-68379793 | Msa0087430:CDS | 30.0% |
| ! | AGAAATGGTTAGTTCAAGTA+GGG | - | chr1_2:68379775-68379794 | Msa0087430:CDS | 30.0% |
| GTGGAAATTGTTATATGTAG+TGG | - | chr1_2:68379875-68379894 | Msa0087430:CDS | 30.0% | |
| !! | TGTTATATGTAGTGGTTTTG+AGG | - | chr1_2:68379883-68379902 | Msa0087430:CDS | 30.0% |
| ! | GAAATATCTTGCCATTTACT+TGG | + | chr1_2:68379985-68380004 | None:intergenic | 30.0% |
| ! | ATCACGCAATTTTATTGTCA+AGG | - | chr1_2:68380232-68380251 | Msa0087430:CDS | 30.0% |
| GTCAAGATTGATCTAATTCC+AGG | - | chr1_2:68379848-68379867 | Msa0087430:CDS | 35.0% | |
| AAGATTGATCTAATTCCAGG+TGG | - | chr1_2:68379851-68379870 | Msa0087430:CDS | 35.0% | |
| AGATTGATCTAATTCCAGGT+GGG | - | chr1_2:68379852-68379871 | Msa0087430:CDS | 35.0% | |
| TGTGTTACCAACCAAGTAAA+TGG | - | chr1_2:68379971-68379990 | Msa0087430:CDS | 35.0% | |
| ! | TATCTTGCCATTTACTTGGT+TGG | + | chr1_2:68379981-68380000 | None:intergenic | 35.0% |
| !! | TCTAGGGTATTTCTGAGTTT+TGG | - | chr1_2:68380100-68380119 | Msa0087430:intron | 35.0% |
| GTCAAGATTGATCTAATTCC+AGG | - | chr1_2:68379848-68379867 | Msa0087430:CDS | 35.0% | |
| AAGATTGATCTAATTCCAGG+TGG | - | chr1_2:68379851-68379870 | Msa0087430:CDS | 35.0% | |
| AGATTGATCTAATTCCAGGT+GGG | - | chr1_2:68379852-68379871 | Msa0087430:CDS | 35.0% | |
| TGTGTTACCAACCAAGTAAA+TGG | - | chr1_2:68379971-68379990 | Msa0087430:CDS | 35.0% | |
| ! | TATCTTGCCATTTACTTGGT+TGG | + | chr1_2:68379981-68380000 | None:intergenic | 35.0% |
| !! | TCTAGGGTATTTCTGAGTTT+TGG | - | chr1_2:68380100-68380119 | Msa0087430:intron | 35.0% |
| GTAGGGAAGTTGAAAAGCAA+AGG | - | chr1_2:68379478-68379497 | Msa0087430:intron | 40.0% | |
| AGACCTTGATGAGCTCAAAA+GGG | + | chr1_2:68379548-68379567 | None:intergenic | 40.0% | |
| AAGACCTTGATGAGCTCAAA+AGG | + | chr1_2:68379549-68379568 | None:intergenic | 40.0% | |
| CGTTCAGTATCAGATCACAT+AGG | - | chr1_2:68379680-68379699 | Msa0087430:CDS | 40.0% | |
| AGTATCAGATCACATAGGTG+AGG | - | chr1_2:68379685-68379704 | Msa0087430:CDS | 40.0% | |
| AGTTCAAGTAGGGTTGAAAC+TGG | - | chr1_2:68379785-68379804 | Msa0087430:CDS | 40.0% | |
| ACACACTTCACTACACTTGT+AGG | + | chr1_2:68379830-68379849 | None:intergenic | 40.0% | |
| GATTGATCTAATTCCAGGTG+GGG | - | chr1_2:68379853-68379872 | Msa0087430:CDS | 40.0% | |
| TTACGATCTAGCTAGAGTCT+AGG | - | chr1_2:68380083-68380102 | Msa0087430:intron | 40.0% | |
| TACGATCTAGCTAGAGTCTA+GGG | - | chr1_2:68380084-68380103 | Msa0087430:intron | 40.0% | |
| TTTGCAGCTGAGCAAGATTA+AGG | + | chr1_2:68380203-68380222 | None:intergenic | 40.0% | |
| TGCTCAGCTGCAAAATAAAC+TGG | - | chr1_2:68380209-68380228 | Msa0087430:CDS | 40.0% | |
| GTAGGGAAGTTGAAAAGCAA+AGG | - | chr1_2:68379478-68379497 | Msa0087430:intron | 40.0% | |
| AGACCTTGATGAGCTCAAAA+GGG | + | chr1_2:68379548-68379567 | None:intergenic | 40.0% | |
| AAGACCTTGATGAGCTCAAA+AGG | + | chr1_2:68379549-68379568 | None:intergenic | 40.0% | |
| CGTTCAGTATCAGATCACAT+AGG | - | chr1_2:68379680-68379699 | Msa0087430:CDS | 40.0% | |
| AGTATCAGATCACATAGGTG+AGG | - | chr1_2:68379685-68379704 | Msa0087430:CDS | 40.0% | |
| AGTTCAAGTAGGGTTGAAAC+TGG | - | chr1_2:68379785-68379804 | Msa0087430:CDS | 40.0% | |
| ACACACTTCACTACACTTGT+AGG | + | chr1_2:68379830-68379849 | None:intergenic | 40.0% | |
| GATTGATCTAATTCCAGGTG+GGG | - | chr1_2:68379853-68379872 | Msa0087430:CDS | 40.0% | |
| TTACGATCTAGCTAGAGTCT+AGG | - | chr1_2:68380083-68380102 | Msa0087430:intron | 40.0% | |
| TACGATCTAGCTAGAGTCTA+GGG | - | chr1_2:68380084-68380103 | Msa0087430:intron | 40.0% | |
| TTTGCAGCTGAGCAAGATTA+AGG | + | chr1_2:68380203-68380222 | None:intergenic | 40.0% | |
| TGCTCAGCTGCAAAATAAAC+TGG | - | chr1_2:68380209-68380228 | Msa0087430:CDS | 40.0% | |
| GGGAAGTTGAAAAGCAAAGG+AGG | - | chr1_2:68379481-68379500 | Msa0087430:intron | 45.0% | |
| AAAAGGGAGTGAAGAACGGA+GGG | + | chr1_2:68379532-68379551 | None:intergenic | 45.0% | |
| GCTCAAAAGGGAGTGAAGAA+CGG | + | chr1_2:68379536-68379555 | None:intergenic | 45.0% | |
| ! | ACTCCCTTTTGAGCTCATCA+AGG | - | chr1_2:68379542-68379561 | Msa0087430:intron | 45.0% |
| ATAACAATTTCCACCCCACC+TGG | + | chr1_2:68379869-68379888 | None:intergenic | 45.0% | |
| GGGAAGTTGAAAAGCAAAGG+AGG | - | chr1_2:68379481-68379500 | Msa0087430:intron | 45.0% | |
| AAAAGGGAGTGAAGAACGGA+GGG | + | chr1_2:68379532-68379551 | None:intergenic | 45.0% | |
| GCTCAAAAGGGAGTGAAGAA+CGG | + | chr1_2:68379536-68379555 | None:intergenic | 45.0% | |
| ! | ACTCCCTTTTGAGCTCATCA+AGG | - | chr1_2:68379542-68379561 | Msa0087430:intron | 45.0% |
| ATAACAATTTCCACCCCACC+TGG | + | chr1_2:68379869-68379888 | None:intergenic | 45.0% | |
| CAAAAGGGAGTGAAGAACGG+AGG | + | chr1_2:68379533-68379552 | None:intergenic | 50.0% | |
| TGATCTAATTCCAGGTGGGG+TGG | - | chr1_2:68379856-68379875 | Msa0087430:CDS | 50.0% | |
| CAAAAGGGAGTGAAGAACGG+AGG | + | chr1_2:68379533-68379552 | None:intergenic | 50.0% | |
| TGATCTAATTCCAGGTGGGG+TGG | - | chr1_2:68379856-68379875 | Msa0087430:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 68379411 | 68380257 | 68379411 | ID=Msa0087430;Name=Msa0087430 |
| chr1_2 | mRNA | 68379411 | 68380257 | 68379411 | ID=Msa0087430-mRNA-1;Parent=Msa0087430;Name=Msa0087430-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|0|0|1|1|1|3|0|191 |
| chr1_2 | exon | 68380105 | 68380257 | 68380105 | ID=Msa0087430-mRNA-1:exon:23307;Parent=Msa0087430-mRNA-1 |
| chr1_2 | exon | 68379647 | 68379994 | 68379647 | ID=Msa0087430-mRNA-1:exon:23306;Parent=Msa0087430-mRNA-1 |
| chr1_2 | exon | 68379411 | 68379485 | 68379411 | ID=Msa0087430-mRNA-1:exon:23305;Parent=Msa0087430-mRNA-1 |
| chr1_2 | CDS | 68380105 | 68380257 | 68380105 | ID=Msa0087430-mRNA-1:cds;Parent=Msa0087430-mRNA-1 |
| chr1_2 | CDS | 68379647 | 68379994 | 68379647 | ID=Msa0087430-mRNA-1:cds;Parent=Msa0087430-mRNA-1 |
| chr1_2 | CDS | 68379411 | 68379485 | 68379411 | ID=Msa0087430-mRNA-1:cds;Parent=Msa0087430-mRNA-1 |
| Gene Sequence |
| Protein sequence |
