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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0524900 | AES73668.1 | 96.078 | 153 | 3 | 2 | 1 | 153 | 1 | 150 | 1.38e-102 | 300 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0524900 | sp|Q9ZP41|EGC_CITJA | 35.115 | 131 | 67 | 5 | 33 | 153 | 8 | 130 | 2.98e-18 | 78.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0524900 | G7JB40 | 96.078 | 153 | 3 | 2 | 1 | 153 | 1 | 150 | 6.59e-103 | 300 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0230140 | Msa0524900 | 0.809583 | 1.761352e-50 | -8.615850e-47 |
| Msa0480400 | Msa0524900 | 0.801410 | 9.125150e-49 | -8.615850e-47 |
| Msa0524900 | Msa0524930 | 0.848839 | 4.746052e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0524900 | MtrunA17_Chr3g0137931 | 96.078 | 153 | 3 | 2 | 1 | 153 | 1 | 150 | 1.27e-106 | 300 |
| Msa0524900 | MtrunA17_Chr6g0477991 | 93.750 | 96 | 6 | 0 | 58 | 153 | 7 | 102 | 6.43e-65 | 193 |
| Msa0524900 | MtrunA17_Chr6g0476161 | 87.879 | 66 | 8 | 0 | 76 | 141 | 10 | 75 | 2.03e-38 | 127 |
| Msa0524900 | MtrunA17_Chr3g0138201 | 61.538 | 52 | 20 | 0 | 43 | 94 | 28 | 79 | 4.75e-19 | 76.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0524900 | AT2G18660.1 | 37.879 | 132 | 68 | 5 | 23 | 151 | 7 | 127 | 5.50e-19 | 78.2 |
| Msa0524900 | AT4G30380.1 | 33.333 | 132 | 68 | 6 | 27 | 152 | 5 | 122 | 4.76e-11 | 57.4 |
Find 31 sgRNAs with CRISPR-Local
Find 106 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGGTACTGCTTCTTCTTA+TGG | 0.173763 | 3_4:+78435269 | Msa0524900:CDS |
| TGCTCATTTGTTTGAGCAAT+AGG | 0.304172 | 3_4:-78435232 | None:intergenic |
| TCAACATTGATATTTGCATT+AGG | 0.313036 | 3_4:-78436064 | None:intergenic |
| CAACATTGATATTTGCATTA+GGG | 0.313463 | 3_4:-78436063 | None:intergenic |
| ACTGCCACAAATATATTTCC+TGG | 0.404012 | 3_4:-78435845 | None:intergenic |
| CTACAGCTTGTGATGGGAAT+AGG | 0.406360 | 3_4:+78435807 | Msa0524900:CDS |
| TGGGTGTACTCACGTATATA+TGG | 0.432788 | 3_4:-78435296 | None:intergenic |
| AATGAAGGGTTGTGGGATAA+TGG | 0.441192 | 3_4:+78435869 | Msa0524900:CDS |
| AGCATTATTCTTGCAGATGT+TGG | 0.481138 | 3_4:+78435251 | Msa0524900:CDS |
| TGGCAGTGAATGAAGGGTTG+TGG | 0.485625 | 3_4:+78435861 | Msa0524900:CDS |
| ATATTTGTGGCAGTGAATGA+AGG | 0.490865 | 3_4:+78435854 | Msa0524900:CDS |
| TACAGAGTAAGGTGTGTAAG+TGG | 0.500626 | 3_4:+78435911 | Msa0524900:CDS |
| GGCAGTGAATGAAGGGTTGT+GGG | 0.502397 | 3_4:+78435862 | Msa0524900:CDS |
| ATCAATAAGCCATGCAAAGG+TGG | 0.523686 | 3_4:+78435935 | Msa0524900:CDS |
| TCCACCAGGAAATATATTTG+TGG | 0.549161 | 3_4:+78435841 | Msa0524900:CDS |
| AGTTGACATGTGGAAAGTGT+GGG | 0.573051 | 3_4:-78436014 | None:intergenic |
| CAGTTGACATGTGGAAAGTG+TGG | 0.576339 | 3_4:-78436015 | None:intergenic |
| ATACTACTACCACCTTTGCA+TGG | 0.578652 | 3_4:-78435944 | None:intergenic |
| GTGGAAGGAGATACAGAGTA+AGG | 0.582766 | 3_4:+78435900 | Msa0524900:CDS |
| TGGGATAATGGTGCAGCATG+TGG | 0.603337 | 3_4:+78435881 | Msa0524900:CDS |
| GGAATCAATAAGCCATGCAA+AGG | 0.623535 | 3_4:+78435932 | Msa0524900:CDS |
| TATTTGTGGCAGTGAATGAA+GGG | 0.626127 | 3_4:+78435855 | Msa0524900:CDS |
| TGTGCAGCTACAGCTTGTGA+TGG | 0.627923 | 3_4:+78435800 | Msa0524900:intron |
| GTGCAGCTACAGCTTGTGAT+GGG | 0.628864 | 3_4:+78435801 | Msa0524900:intron |
| GCCACAAATATATTTCCTGG+TGG | 0.638508 | 3_4:-78435842 | None:intergenic |
| CAAATGCTTCAGTTGACATG+TGG | 0.644023 | 3_4:-78436024 | None:intergenic |
| ATAATGGTGCAGCATGTGGA+AGG | 0.648736 | 3_4:+78435885 | Msa0524900:CDS |
| AGGAGACAACAGTTTCCACC+AGG | 0.667613 | 3_4:+78435827 | Msa0524900:CDS |
| GTGTACTCACGTATATATGG+AGG | 0.706847 | 3_4:-78435293 | None:intergenic |
| TTGACATGTGGAAAGTGTGG+GGG | 0.720155 | 3_4:-78436012 | None:intergenic |
| GTTGACATGTGGAAAGTGTG+GGG | 0.728941 | 3_4:-78436013 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAATATTGAATGAATAAA+TGG | - | chr3_4:78435322-78435341 | None:intergenic | 15.0% |
| !! | AGAAATATTGAATGAATAAA+TGG | - | chr3_4:78435322-78435341 | None:intergenic | 15.0% |
| !! | ATATTGAATGAATAAATGGT+GGG | - | chr3_4:78435318-78435337 | None:intergenic | 20.0% |
| !! | AATATTGAATGAATAAATGG+TGG | - | chr3_4:78435319-78435338 | None:intergenic | 20.0% |
| !!! | GTTCCAAACATTTTAAAAAT+GGG | - | chr3_4:78435628-78435647 | None:intergenic | 20.0% |
| !! | ATTAATATGTGAAATTTGTG+TGG | - | chr3_4:78435650-78435669 | None:intergenic | 20.0% |
| !! | ATATTGAATGAATAAATGGT+GGG | - | chr3_4:78435318-78435337 | None:intergenic | 20.0% |
| !! | AATATTGAATGAATAAATGG+TGG | - | chr3_4:78435319-78435338 | None:intergenic | 20.0% |
| !!! | GTTCCAAACATTTTAAAAAT+GGG | - | chr3_4:78435628-78435647 | None:intergenic | 20.0% |
| !! | ATTAATATGTGAAATTTGTG+TGG | - | chr3_4:78435650-78435669 | None:intergenic | 20.0% |
| !!! | AACTATGATTTTTTGCTTGA+TGG | - | chr3_4:78435145-78435164 | None:intergenic | 25.0% |
| ! | TAGCTCAAAAACAAATAATG+AGG | + | chr3_4:78435180-78435199 | Msa0524900:CDS | 25.0% |
| ! | ATGATATATCATGTATACGT+AGG | - | chr3_4:78435349-78435368 | None:intergenic | 25.0% |
| !!! | AGTCCCATTTTTAAAATGTT+TGG | + | chr3_4:78435622-78435641 | Msa0524900:intron | 25.0% |
| !!! | GGTTCCAAACATTTTAAAAA+TGG | - | chr3_4:78435629-78435648 | None:intergenic | 25.0% |
| ! | CAACATTGATATTTGCATTA+GGG | - | chr3_4:78436066-78436085 | None:intergenic | 25.0% |
| ! | TCAACATTGATATTTGCATT+AGG | - | chr3_4:78436067-78436086 | None:intergenic | 25.0% |
| !!! | AACTATGATTTTTTGCTTGA+TGG | - | chr3_4:78435145-78435164 | None:intergenic | 25.0% |
| ! | TAGCTCAAAAACAAATAATG+AGG | + | chr3_4:78435180-78435199 | Msa0524900:CDS | 25.0% |
| ! | ATGATATATCATGTATACGT+AGG | - | chr3_4:78435349-78435368 | None:intergenic | 25.0% |
| !!! | AGTCCCATTTTTAAAATGTT+TGG | + | chr3_4:78435622-78435641 | Msa0524900:intron | 25.0% |
| !!! | GGTTCCAAACATTTTAAAAA+TGG | - | chr3_4:78435629-78435648 | None:intergenic | 25.0% |
| ! | CAACATTGATATTTGCATTA+GGG | - | chr3_4:78436066-78436085 | None:intergenic | 25.0% |
| ! | TCAACATTGATATTTGCATT+AGG | - | chr3_4:78436067-78436086 | None:intergenic | 25.0% |
| !! | AAAGAGATTAGTCTCCTATA+AGG | - | chr3_4:78435434-78435453 | None:intergenic | 30.0% |
| !! | AAAGAGATTAGTCTCCTATA+AGG | - | chr3_4:78435434-78435453 | None:intergenic | 30.0% |
| TGCTCATTTGTTTGAGCAAT+AGG | - | chr3_4:78435235-78435254 | None:intergenic | 35.0% | |
| AGCATTATTCTTGCAGATGT+TGG | + | chr3_4:78435251-78435270 | Msa0524900:CDS | 35.0% | |
| !! | AGAGGTGTTGATATTTAACG+TGG | - | chr3_4:78435392-78435411 | None:intergenic | 35.0% |
| AGTTTAGTGCATCACCTTAT+AGG | + | chr3_4:78435417-78435436 | Msa0524900:intron | 35.0% | |
| TCCACCAGGAAATATATTTG+TGG | + | chr3_4:78435841-78435860 | Msa0524900:CDS | 35.0% | |
| ACTGCCACAAATATATTTCC+TGG | - | chr3_4:78435848-78435867 | None:intergenic | 35.0% | |
| ATATTTGTGGCAGTGAATGA+AGG | + | chr3_4:78435854-78435873 | Msa0524900:CDS | 35.0% | |
| TATTTGTGGCAGTGAATGAA+GGG | + | chr3_4:78435855-78435874 | Msa0524900:CDS | 35.0% | |
| TGCTCATTTGTTTGAGCAAT+AGG | - | chr3_4:78435235-78435254 | None:intergenic | 35.0% | |
| AGCATTATTCTTGCAGATGT+TGG | + | chr3_4:78435251-78435270 | Msa0524900:CDS | 35.0% | |
| !! | AGAGGTGTTGATATTTAACG+TGG | - | chr3_4:78435392-78435411 | None:intergenic | 35.0% |
| AGTTTAGTGCATCACCTTAT+AGG | + | chr3_4:78435417-78435436 | Msa0524900:intron | 35.0% | |
| TCCACCAGGAAATATATTTG+TGG | + | chr3_4:78435841-78435860 | Msa0524900:CDS | 35.0% | |
| ACTGCCACAAATATATTTCC+TGG | - | chr3_4:78435848-78435867 | None:intergenic | 35.0% | |
| ATATTTGTGGCAGTGAATGA+AGG | + | chr3_4:78435854-78435873 | Msa0524900:CDS | 35.0% | |
| TATTTGTGGCAGTGAATGAA+GGG | + | chr3_4:78435855-78435874 | Msa0524900:CDS | 35.0% | |
| GTTGGTACTGCTTCTTCTTA+TGG | + | chr3_4:78435269-78435288 | Msa0524900:CDS | 40.0% | |
| GTGTACTCACGTATATATGG+AGG | - | chr3_4:78435296-78435315 | None:intergenic | 40.0% | |
| TGGGTGTACTCACGTATATA+TGG | - | chr3_4:78435299-78435318 | None:intergenic | 40.0% | |
| GATGCACTAAACTACAAGAG+AGG | - | chr3_4:78435410-78435429 | None:intergenic | 40.0% | |
| TCCAATCGGTATCATTGTAG+GGG | - | chr3_4:78435462-78435481 | None:intergenic | 40.0% | |
| CTCCAATCGGTATCATTGTA+GGG | - | chr3_4:78435463-78435482 | None:intergenic | 40.0% | |
| !! | TCACTTTTACCACCTCCAAT+CGG | - | chr3_4:78435476-78435495 | None:intergenic | 40.0% |
| GCCACAAATATATTTCCTGG+TGG | - | chr3_4:78435845-78435864 | None:intergenic | 40.0% | |
| AATGAAGGGTTGTGGGATAA+TGG | + | chr3_4:78435869-78435888 | Msa0524900:CDS | 40.0% | |
| TACAGAGTAAGGTGTGTAAG+TGG | + | chr3_4:78435911-78435930 | Msa0524900:CDS | 40.0% | |
| GGAATCAATAAGCCATGCAA+AGG | + | chr3_4:78435932-78435951 | Msa0524900:CDS | 40.0% | |
| ATCAATAAGCCATGCAAAGG+TGG | + | chr3_4:78435935-78435954 | Msa0524900:CDS | 40.0% | |
| ATACTACTACCACCTTTGCA+TGG | - | chr3_4:78435947-78435966 | None:intergenic | 40.0% | |
| ! | AGTTGACATGTGGAAAGTGT+GGG | - | chr3_4:78436017-78436036 | None:intergenic | 40.0% |
| CAAATGCTTCAGTTGACATG+TGG | - | chr3_4:78436027-78436046 | None:intergenic | 40.0% | |
| GTTGGTACTGCTTCTTCTTA+TGG | + | chr3_4:78435269-78435288 | Msa0524900:CDS | 40.0% | |
| GTGTACTCACGTATATATGG+AGG | - | chr3_4:78435296-78435315 | None:intergenic | 40.0% | |
| TGGGTGTACTCACGTATATA+TGG | - | chr3_4:78435299-78435318 | None:intergenic | 40.0% | |
| GATGCACTAAACTACAAGAG+AGG | - | chr3_4:78435410-78435429 | None:intergenic | 40.0% | |
| TCCAATCGGTATCATTGTAG+GGG | - | chr3_4:78435462-78435481 | None:intergenic | 40.0% | |
| CTCCAATCGGTATCATTGTA+GGG | - | chr3_4:78435463-78435482 | None:intergenic | 40.0% | |
| !! | TCACTTTTACCACCTCCAAT+CGG | - | chr3_4:78435476-78435495 | None:intergenic | 40.0% |
| GCCACAAATATATTTCCTGG+TGG | - | chr3_4:78435845-78435864 | None:intergenic | 40.0% | |
| AATGAAGGGTTGTGGGATAA+TGG | + | chr3_4:78435869-78435888 | Msa0524900:CDS | 40.0% | |
| TACAGAGTAAGGTGTGTAAG+TGG | + | chr3_4:78435911-78435930 | Msa0524900:CDS | 40.0% | |
| GGAATCAATAAGCCATGCAA+AGG | + | chr3_4:78435932-78435951 | Msa0524900:CDS | 40.0% | |
| ATCAATAAGCCATGCAAAGG+TGG | + | chr3_4:78435935-78435954 | Msa0524900:CDS | 40.0% | |
| ATACTACTACCACCTTTGCA+TGG | - | chr3_4:78435947-78435966 | None:intergenic | 40.0% | |
| ! | AGTTGACATGTGGAAAGTGT+GGG | - | chr3_4:78436017-78436036 | None:intergenic | 40.0% |
| CAAATGCTTCAGTTGACATG+TGG | - | chr3_4:78436027-78436046 | None:intergenic | 40.0% | |
| ACCCCTACAATGATACCGAT+TGG | + | chr3_4:78435458-78435477 | Msa0524900:intron | 45.0% | |
| CCTCCAATCGGTATCATTGT+AGG | - | chr3_4:78435464-78435483 | None:intergenic | 45.0% | |
| ! | CCTACAATGATACCGATTGG+AGG | + | chr3_4:78435461-78435480 | Msa0524900:intron | 45.0% |
| ! | ACAATGATACCGATTGGAGG+TGG | + | chr3_4:78435464-78435483 | Msa0524900:intron | 45.0% |
| ! | CTACAGCTTGTGATGGGAAT+AGG | + | chr3_4:78435807-78435826 | Msa0524900:CDS | 45.0% |
| ATAATGGTGCAGCATGTGGA+AGG | + | chr3_4:78435885-78435904 | Msa0524900:CDS | 45.0% | |
| GTGGAAGGAGATACAGAGTA+AGG | + | chr3_4:78435900-78435919 | Msa0524900:CDS | 45.0% | |
| ! | TTGACATGTGGAAAGTGTGG+GGG | - | chr3_4:78436015-78436034 | None:intergenic | 45.0% |
| ! | GTTGACATGTGGAAAGTGTG+GGG | - | chr3_4:78436016-78436035 | None:intergenic | 45.0% |
| CAGTTGACATGTGGAAAGTG+TGG | - | chr3_4:78436018-78436037 | None:intergenic | 45.0% | |
| ACCCCTACAATGATACCGAT+TGG | + | chr3_4:78435458-78435477 | Msa0524900:intron | 45.0% | |
| CCTCCAATCGGTATCATTGT+AGG | - | chr3_4:78435464-78435483 | None:intergenic | 45.0% | |
| ! | CCTACAATGATACCGATTGG+AGG | + | chr3_4:78435461-78435480 | Msa0524900:intron | 45.0% |
| ! | ACAATGATACCGATTGGAGG+TGG | + | chr3_4:78435464-78435483 | Msa0524900:intron | 45.0% |
| ! | CTACAGCTTGTGATGGGAAT+AGG | + | chr3_4:78435807-78435826 | Msa0524900:CDS | 45.0% |
| ATAATGGTGCAGCATGTGGA+AGG | + | chr3_4:78435885-78435904 | Msa0524900:CDS | 45.0% | |
| GTGGAAGGAGATACAGAGTA+AGG | + | chr3_4:78435900-78435919 | Msa0524900:CDS | 45.0% | |
| ! | TTGACATGTGGAAAGTGTGG+GGG | - | chr3_4:78436015-78436034 | None:intergenic | 45.0% |
| ! | GTTGACATGTGGAAAGTGTG+GGG | - | chr3_4:78436016-78436035 | None:intergenic | 45.0% |
| CAGTTGACATGTGGAAAGTG+TGG | - | chr3_4:78436018-78436037 | None:intergenic | 45.0% | |
| TGTGCAGCTACAGCTTGTGA+TGG | + | chr3_4:78435800-78435819 | Msa0524900:intron | 50.0% | |
| GTGCAGCTACAGCTTGTGAT+GGG | + | chr3_4:78435801-78435820 | Msa0524900:intron | 50.0% | |
| AGGAGACAACAGTTTCCACC+AGG | + | chr3_4:78435827-78435846 | Msa0524900:CDS | 50.0% | |
| TGGCAGTGAATGAAGGGTTG+TGG | + | chr3_4:78435861-78435880 | Msa0524900:CDS | 50.0% | |
| GGCAGTGAATGAAGGGTTGT+GGG | + | chr3_4:78435862-78435881 | Msa0524900:CDS | 50.0% | |
| ! | TGGGATAATGGTGCAGCATG+TGG | + | chr3_4:78435881-78435900 | Msa0524900:CDS | 50.0% |
| TGTGCAGCTACAGCTTGTGA+TGG | + | chr3_4:78435800-78435819 | Msa0524900:intron | 50.0% | |
| GTGCAGCTACAGCTTGTGAT+GGG | + | chr3_4:78435801-78435820 | Msa0524900:intron | 50.0% | |
| AGGAGACAACAGTTTCCACC+AGG | + | chr3_4:78435827-78435846 | Msa0524900:CDS | 50.0% | |
| TGGCAGTGAATGAAGGGTTG+TGG | + | chr3_4:78435861-78435880 | Msa0524900:CDS | 50.0% | |
| GGCAGTGAATGAAGGGTTGT+GGG | + | chr3_4:78435862-78435881 | Msa0524900:CDS | 50.0% | |
| ! | TGGGATAATGGTGCAGCATG+TGG | + | chr3_4:78435881-78435900 | Msa0524900:CDS | 50.0% |
| ! | GTGGAAAGTGTGGGGGCATG+AGG | - | chr3_4:78436008-78436027 | None:intergenic | 60.0% |
| ! | GTGGAAAGTGTGGGGGCATG+AGG | - | chr3_4:78436008-78436027 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 78435137 | 78436099 | 78435137 | ID=Msa0524900;Name=Msa0524900 |
| chr3_4 | mRNA | 78435137 | 78436099 | 78435137 | ID=Msa0524900-mRNA-1;Parent=Msa0524900;Name=Msa0524900-mRNA-1;_AED=0.00;_eAED=0.02;_QI=0|0|0|1|1|1|2|0|153 |
| chr3_4 | exon | 78435137 | 78435305 | 78435137 | ID=Msa0524900-mRNA-1:exon:23234;Parent=Msa0524900-mRNA-1 |
| chr3_4 | exon | 78435807 | 78436099 | 78435807 | ID=Msa0524900-mRNA-1:exon:23235;Parent=Msa0524900-mRNA-1 |
| chr3_4 | CDS | 78435137 | 78435305 | 78435137 | ID=Msa0524900-mRNA-1:cds;Parent=Msa0524900-mRNA-1 |
| chr3_4 | CDS | 78435807 | 78436099 | 78435807 | ID=Msa0524900-mRNA-1:cds;Parent=Msa0524900-mRNA-1 |
| Gene Sequence |
| Protein sequence |
