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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355660 | XP_039686443.1 | 94.958 | 119 | 6 | 0 | 7 | 125 | 1 | 119 | 1.57e-74 | 236 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355660 | sp|Q9SZL8|FRS5_ARATH | 35.000 | 100 | 62 | 1 | 29 | 125 | 60 | 159 | 8.58e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355660 | A0A072VK17 | 73.109 | 119 | 30 | 1 | 7 | 125 | 1 | 117 | 2.50e-51 | 168 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1355660 | TF | FAR1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355660 | MtrunA17_Chr3g0082121 | 62.500 | 120 | 45 | 0 | 6 | 125 | 7 | 126 | 2.93e-43 | 150 |
| Msa1355660 | MtrunA17_Chr5g0401121 | 59.167 | 120 | 45 | 1 | 5 | 124 | 23 | 138 | 9.25e-38 | 126 |
| Msa1355660 | MtrunA17_Chr6g0458391 | 46.078 | 102 | 52 | 1 | 35 | 133 | 218 | 319 | 3.82e-22 | 91.3 |
| Msa1355660 | MtrunA17_Chr6g0458391 | 44.578 | 83 | 45 | 1 | 40 | 122 | 89 | 170 | 1.56e-15 | 72.4 |
| Msa1355660 | MtrunA17_Chr1g0203721 | 45.455 | 77 | 42 | 0 | 47 | 123 | 68 | 144 | 4.21e-18 | 79.7 |
| Msa1355660 | MtrunA17_Chr2g0329421 | 42.308 | 78 | 44 | 1 | 41 | 118 | 26 | 102 | 6.05e-13 | 63.2 |
| Msa1355660 | MtrunA17_Chr4g0033611 | 43.590 | 78 | 43 | 1 | 41 | 118 | 75 | 151 | 1.11e-12 | 63.2 |
| Msa1355660 | MtrunA17_Chr2g0324011 | 40.449 | 89 | 51 | 2 | 36 | 123 | 4 | 91 | 1.34e-12 | 63.9 |
| Msa1355660 | MtrunA17_Chr5g0448761 | 36.264 | 91 | 55 | 1 | 38 | 125 | 56 | 146 | 1.22e-11 | 61.2 |
| Msa1355660 | MtrunA17_Chr7g0258861 | 39.535 | 86 | 50 | 2 | 39 | 123 | 7 | 91 | 4.36e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355660 | AT4G38180.1 | 35.000 | 100 | 62 | 1 | 29 | 125 | 60 | 159 | 8.73e-12 | 62.0 |
| Msa1355660 | AT3G59470.3 | 35.537 | 121 | 67 | 3 | 15 | 125 | 33 | 152 | 2.92e-11 | 59.7 |
| Msa1355660 | AT3G59470.1 | 35.537 | 121 | 67 | 3 | 15 | 125 | 33 | 152 | 2.92e-11 | 59.7 |
| Msa1355660 | AT3G59470.2 | 35.537 | 121 | 67 | 3 | 15 | 125 | 45 | 164 | 2.92e-11 | 59.7 |
| Msa1355660 | AT2G43280.1 | 40.476 | 84 | 49 | 1 | 40 | 122 | 20 | 103 | 3.34e-11 | 58.9 |
Find 26 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGACAATTCTGTTGATAAAT+TGG | 0.199895 | tig0015000:-34039 | Msa1355660:CDS |
| CATGAATCCGTCGTCTATTT+TGG | 0.206115 | tig0015000:-34063 | Msa1355660:CDS |
| TTTGATATTCGTCGAGAATA+TGG | 0.244644 | tig0015000:-33882 | Msa1355660:CDS |
| AATGAGTATAGTAAAAGAAT+TGG | 0.336174 | tig0015000:-33906 | Msa1355660:CDS |
| AACCGGGTGCAATGCACGTA+TGG | 0.440531 | tig0015000:-33742 | Msa1355660:CDS |
| GACAAAAGACGTCAACCGAC+TGG | 0.454042 | tig0015000:-33786 | Msa1355660:CDS |
| TTGATATTCGTCGAGAATAT+GGG | 0.454332 | tig0015000:-33881 | Msa1355660:CDS |
| TGCCGACATCAAACCTCGCT+TGG | 0.474766 | tig0015000:-33970 | Msa1355660:CDS |
| TCTACGGCAGAAACTAGAAC+CGG | 0.508196 | tig0015000:-33759 | Msa1355660:CDS |
| CAATATTCTTGAACAAAATG+AGG | 0.537039 | tig0015000:-34012 | Msa1355660:CDS |
| GCCCATACGTGCATTGCACC+CGG | 0.550034 | tig0015000:+33740 | None:intergenic |
| ACAAAAGACGTCAACCGACT+GGG | 0.550284 | tig0015000:-33785 | Msa1355660:CDS |
| TCAACCGACTGGGGAGTCTA+CGG | 0.568520 | tig0015000:-33775 | Msa1355660:CDS |
| ACCGGGTGCAATGCACGTAT+GGG | 0.569580 | tig0015000:-33741 | Msa1355660:CDS |
| AGATTCACATGCTACAAAGA+AGG | 0.592653 | tig0015000:-33822 | Msa1355660:CDS |
| CTTGAACAAAATGAGGAACA+TGG | 0.594103 | tig0015000:-34005 | Msa1355660:CDS |
| GGATATGATATTTGAATCCG+AGG | 0.604669 | tig0015000:-33949 | Msa1355660:CDS |
| TGTATGTTTGTATTATGAGT+GGG | 0.611966 | tig0015000:-33680 | Msa1355660:CDS |
| TCAAATATCATATCCAAGCG+AGG | 0.630717 | tig0015000:+33957 | None:intergenic |
| GTGTATGTTTGTATTATGAG+TGG | 0.645317 | tig0015000:-33681 | Msa1355660:CDS |
| CTACGGCAGAAACTAGAACC+GGG | 0.648731 | tig0015000:-33758 | Msa1355660:CDS |
| ATCCAAGCGAGGTTTGATGT+CGG | 0.664750 | tig0015000:+33968 | None:intergenic |
| TCTGCCGTAGACTCCCCAGT+CGG | 0.665919 | tig0015000:+33771 | None:intergenic |
| CAAAAGACGTCAACCGACTG+GGG | 0.676456 | tig0015000:-33784 | Msa1355660:CDS |
| AAATTCATAAGCATCTACCT+CGG | 0.685544 | tig0015000:+33932 | None:intergenic |
| TTGTCTACCAAAATAGACGA+CGG | 0.691097 | tig0015000:+34056 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTATTTGTTTGTTTTAA+AGG | - | tig0015000:33782-33801 | Msa1355660:CDS | 10.0% |
| !!! | TTTTATTTGTTTGTTTTAAA+GGG | - | tig0015000:33783-33802 | Msa1355660:CDS | 10.0% |
| !! | TAGCAGTAAACAAAAAAAAA+AGG | + | tig0015000:33704-33723 | None:intergenic | 20.0% |
| !! | AATGAGTATAGTAAAAGAAT+TGG | - | tig0015000:34036-34055 | Msa1355660:CDS | 20.0% |
| ! | AACTTAACGAGAAACAAAAA+AGG | + | tig0015000:33739-33758 | None:intergenic | 25.0% |
| !!! | TTGTTTCTCGTTAAGTTTTT+TGG | - | tig0015000:33742-33761 | Msa1355660:CDS | 25.0% |
| !!! | GTTTTTTGGTTTTTGTTTAC+AGG | - | tig0015000:33756-33775 | Msa1355660:CDS | 25.0% |
| !! | AGACAATTCTGTTGATAAAT+TGG | - | tig0015000:33903-33922 | Msa1355660:CDS | 25.0% |
| ! | CAATATTCTTGAACAAAATG+AGG | - | tig0015000:33930-33949 | Msa1355660:CDS | 25.0% |
| ! | TGTATGTTTGTATTATGAGT+GGG | - | tig0015000:34262-34281 | Msa1355660:intron | 25.0% |
| AAATTCATAAGCATCTACCT+CGG | + | tig0015000:34013-34032 | None:intergenic | 30.0% | |
| TTTGATATTCGTCGAGAATA+TGG | - | tig0015000:34060-34079 | Msa1355660:CDS | 30.0% | |
| TTGATATTCGTCGAGAATAT+GGG | - | tig0015000:34061-34080 | Msa1355660:CDS | 30.0% | |
| GGGAATAAAAGCAAAAAAGA+CGG | - | tig0015000:34081-34100 | Msa1355660:intron | 30.0% | |
| GGAATAAAAGCAAAAAAGAC+GGG | - | tig0015000:34082-34101 | Msa1355660:intron | 30.0% | |
| GAATAAAAGCAAAAAAGACG+GGG | - | tig0015000:34083-34102 | Msa1355660:intron | 30.0% | |
| GTGTATGTTTGTATTATGAG+TGG | - | tig0015000:34261-34280 | Msa1355660:intron | 30.0% | |
| TTGTCTACCAAAATAGACGA+CGG | + | tig0015000:33889-33908 | None:intergenic | 35.0% | |
| CTTGAACAAAATGAGGAACA+TGG | - | tig0015000:33937-33956 | Msa1355660:CDS | 35.0% | |
| TCAAATATCATATCCAAGCG+AGG | + | tig0015000:33988-34007 | None:intergenic | 35.0% | |
| GGATATGATATTTGAATCCG+AGG | - | tig0015000:33993-34012 | Msa1355660:CDS | 35.0% | |
| AGATTCACATGCTACAAAGA+AGG | - | tig0015000:34120-34139 | Msa1355660:intron | 35.0% | |
| ! | CATGAATCCGTCGTCTATTT+TGG | - | tig0015000:33879-33898 | Msa1355660:CDS | 40.0% |
| ATCCAAGCGAGGTTTGATGT+CGG | + | tig0015000:33977-33996 | None:intergenic | 45.0% | |
| ACAAAAGACGTCAACCGACT+GGG | - | tig0015000:34157-34176 | Msa1355660:intron | 45.0% | |
| TCTACGGCAGAAACTAGAAC+CGG | - | tig0015000:34183-34202 | Msa1355660:intron | 45.0% | |
| GACAAAAGACGTCAACCGAC+TGG | - | tig0015000:34156-34175 | Msa1355660:intron | 50.0% | |
| CAAAAGACGTCAACCGACTG+GGG | - | tig0015000:34158-34177 | Msa1355660:intron | 50.0% | |
| CTACGGCAGAAACTAGAACC+GGG | - | tig0015000:34184-34203 | Msa1355660:intron | 50.0% | |
| TGCCGACATCAAACCTCGCT+TGG | - | tig0015000:33972-33991 | Msa1355660:CDS | 55.0% | |
| TCAACCGACTGGGGAGTCTA+CGG | - | tig0015000:34167-34186 | Msa1355660:intron | 55.0% | |
| AACCGGGTGCAATGCACGTA+TGG | - | tig0015000:34200-34219 | Msa1355660:intron | 55.0% | |
| ACCGGGTGCAATGCACGTAT+GGG | - | tig0015000:34201-34220 | Msa1355660:intron | 55.0% | |
| TCTGCCGTAGACTCCCCAGT+CGG | + | tig0015000:34174-34193 | None:intergenic | 60.0% | |
| GCCCATACGTGCATTGCACC+CGG | + | tig0015000:34205-34224 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0015000 | gene | 33674 | 34290 | 33674 | ID=Msa1355660;Name=Msa1355660 |
| tig0015000 | mRNA | 33674 | 34290 | 33674 | ID=Msa1355660-mRNA-1;Parent=Msa1355660;Name=Msa1355660-mRNA-1;_AED=0.32;_eAED=0.32;_QI=0|0|0|0.33|1|1|3|0|142 |
| tig0015000 | exon | 34285 | 34290 | 34285 | ID=Msa1355660-mRNA-1:exon:9595;Parent=Msa1355660-mRNA-1 |
| tig0015000 | exon | 34201 | 34207 | 34201 | ID=Msa1355660-mRNA-1:exon:9594;Parent=Msa1355660-mRNA-1 |
| tig0015000 | exon | 33674 | 34089 | 33674 | ID=Msa1355660-mRNA-1:exon:9593;Parent=Msa1355660-mRNA-1 |
| tig0015000 | CDS | 34285 | 34290 | 34285 | ID=Msa1355660-mRNA-1:cds;Parent=Msa1355660-mRNA-1 |
| tig0015000 | CDS | 34201 | 34207 | 34201 | ID=Msa1355660-mRNA-1:cds;Parent=Msa1355660-mRNA-1 |
| tig0015000 | CDS | 33674 | 34089 | 33674 | ID=Msa1355660-mRNA-1:cds;Parent=Msa1355660-mRNA-1 |
| Gene Sequence |
| Protein sequence |
