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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0309370 | KEH41604.1 | 62.264 | 159 | 59 | 1 | 1 | 158 | 41 | 199 | 1.17e-66 | 217 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0309370 | A0A072VHU7 | 62.264 | 159 | 59 | 1 | 1 | 158 | 41 | 199 | 5.58e-67 | 217 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0236460 | Msa0309370 | 0.973862 | 3.749903e-137 | -8.615850e-47 |
| Msa0309370 | Msa0946430 | 0.969179 | 9.603522e-130 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0309370 | MtrunA17_Chr1g0206481 | 46.296 | 162 | 87 | 0 | 1 | 162 | 82 | 243 | 2.11e-53 | 171 |
| Msa0309370 | MtrunA17_Chr5g0423441 | 46.104 | 154 | 83 | 0 | 5 | 158 | 86 | 239 | 1.21e-46 | 153 |
| Msa0309370 | MtrunA17_Chr2g0280031 | 44.910 | 167 | 83 | 1 | 1 | 158 | 63 | 229 | 1.54e-46 | 153 |
| Msa0309370 | MtrunA17_Chr5g0411141 | 46.104 | 154 | 83 | 0 | 5 | 158 | 87 | 240 | 1.93e-46 | 154 |
| Msa0309370 | MtrunA17_Chr2g0278111 | 46.104 | 154 | 83 | 0 | 5 | 158 | 86 | 239 | 1.95e-46 | 154 |
| Msa0309370 | MtrunA17_Chr1g0158831 | 48.000 | 100 | 52 | 0 | 59 | 158 | 3 | 102 | 2.90e-33 | 116 |
| Msa0309370 | MtrunA17_Chr3g0096071 | 49.020 | 102 | 49 | 1 | 57 | 158 | 27 | 125 | 8.70e-32 | 114 |
| Msa0309370 | MtrunA17_Chr5g0421841 | 40.310 | 129 | 76 | 1 | 1 | 129 | 82 | 209 | 1.57e-27 | 102 |
| Msa0309370 | MtrunA17_Chr1g0167871 | 30.435 | 161 | 105 | 3 | 1 | 159 | 283 | 438 | 2.76e-16 | 75.9 |
| Msa0309370 | MtrunA17_Chr6g0462951 | 30.000 | 140 | 94 | 3 | 5 | 142 | 2 | 139 | 3.73e-14 | 66.2 |
| Msa0309370 | MtrunA17_Chr4g0044661 | 27.607 | 163 | 110 | 4 | 2 | 159 | 86 | 245 | 8.83e-14 | 68.6 |
| Msa0309370 | MtrunA17_Chr7g0231491 | 32.308 | 130 | 84 | 3 | 1 | 128 | 112 | 239 | 1.80e-12 | 63.5 |
| Msa0309370 | MtrunA17_Chr2g0304851 | 31.250 | 160 | 88 | 4 | 2 | 159 | 83 | 222 | 2.64e-12 | 63.9 |
| Msa0309370 | MtrunA17_Chr6g0469931 | 29.375 | 160 | 106 | 5 | 5 | 159 | 82 | 239 | 1.27e-11 | 62.4 |
| Msa0309370 | MtrunA17_Chr3g0112231 | 46.296 | 54 | 29 | 0 | 106 | 159 | 1 | 54 | 2.38e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0309370 | AT1G52950.1 | 26.144 | 153 | 108 | 4 | 9 | 159 | 89 | 238 | 7.96e-16 | 74.7 |
Find 28 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAAGTACAAGTTAAGCTTTA+TGG | 0.204177 | 2_4:+3827520 | Msa0309370:CDS |
| TGAGAAACTTCAGGAATATT+AGG | 0.210888 | 2_4:-3828231 | None:intergenic |
| ATTAGGATTCAACATCATTT+TGG | 0.212610 | 2_4:-3828214 | None:intergenic |
| ACAGAATTCATTGCACTCTT+TGG | 0.243423 | 2_4:+3827933 | Msa0309370:CDS |
| CTGTAATCATTCACACCTTT+TGG | 0.257336 | 2_4:+3828283 | Msa0309370:CDS |
| TGCAAGCTTAAGAAGTATTA+TGG | 0.272495 | 2_4:+3828034 | Msa0309370:CDS |
| ACAAAGCAGATAACTCTTTC+AGG | 0.297357 | 2_4:-3827581 | None:intergenic |
| AGGAAAGACTAGCAAGGTTT+TGG | 0.297514 | 2_4:+3827784 | Msa0309370:CDS |
| CAGAATTCATTGCACTCTTT+GGG | 0.309559 | 2_4:+3827934 | Msa0309370:CDS |
| GTATGATGTTGCAATTCTTC+TGG | 0.336370 | 2_4:+3828260 | Msa0309370:CDS |
| ATGTAATTTATAGATGTTAT+CGG | 0.353224 | 2_4:+3827719 | Msa0309370:intron |
| ACATGACTCATCCCTGCCTT+TGG | 0.403365 | 2_4:+3827994 | Msa0309370:CDS |
| TACCTATATTGAGAAACTTC+AGG | 0.419821 | 2_4:-3828240 | None:intergenic |
| TTCCTGAAGTTTCTCAATAT+AGG | 0.426742 | 2_4:+3828238 | Msa0309370:CDS |
| CACAATGAGGATCGTTTGCT+TGG | 0.465741 | 2_4:+3827629 | Msa0309370:CDS |
| CAAAGCAGATAACTCTTTCA+GGG | 0.513038 | 2_4:-3827580 | None:intergenic |
| GTTAAAGAGACTGTGAAAGA+AGG | 0.519632 | 2_4:+3827764 | Msa0309370:CDS |
| AGATGTTATCGGCCATGTTG+TGG | 0.530639 | 2_4:+3827730 | Msa0309370:intron |
| ACATCACCAAACAAACCAAA+AGG | 0.544013 | 2_4:-3828298 | None:intergenic |
| TATGAAGATGCAACAATGCT+TGG | 0.548233 | 2_4:+3827967 | Msa0309370:CDS |
| GAAAGATAACAACCAAAGGC+AGG | 0.548872 | 2_4:-3828006 | None:intergenic |
| TACAAGTTAAGCTTTATGGC+AGG | 0.552310 | 2_4:+3827524 | Msa0309370:CDS |
| TATCGGCCATGTTGTGGAGA+AGG | 0.582289 | 2_4:+3827736 | Msa0309370:CDS |
| AACTGAAAGATAACAACCAA+AGG | 0.618472 | 2_4:-3828010 | None:intergenic |
| AAAGATAACAACCAAAGGCA+GGG | 0.642200 | 2_4:-3828005 | None:intergenic |
| CATCGTCCTTCTCCACAACA+TGG | 0.644418 | 2_4:-3827742 | None:intergenic |
| AATTCTGTCTGCTCACAATG+AGG | 0.645022 | 2_4:+3827616 | Msa0309370:CDS |
| GAAAGAAGGAAAGACTAGCA+AGG | 0.648178 | 2_4:+3827778 | Msa0309370:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCATTTTATTAATTTTTGT+AGG | + | chr2_4:3828159-3828178 | Msa0309370:intron | 10.0% |
| !!! | TTCATTTTATTAATTTTTGT+AGG | + | chr2_4:3828159-3828178 | Msa0309370:intron | 10.0% |
| !! | ATGTAATTTATAGATGTTAT+CGG | + | chr2_4:3827719-3827738 | Msa0309370:intron | 15.0% |
| !! | ATGTAATTTATAGATGTTAT+CGG | + | chr2_4:3827719-3827738 | Msa0309370:intron | 15.0% |
| !!! | GCTCTTTTTAATTCAAATTT+TGG | + | chr2_4:3827661-3827680 | Msa0309370:intron | 20.0% |
| !! | AATACTCTTATGTATATTGT+AGG | + | chr2_4:3827906-3827925 | Msa0309370:intron | 20.0% |
| !! | ATACTCTTATGTATATTGTA+GGG | + | chr2_4:3827907-3827926 | Msa0309370:intron | 20.0% |
| !!! | GCTCTTTTTAATTCAAATTT+TGG | + | chr2_4:3827661-3827680 | Msa0309370:intron | 20.0% |
| !! | AATACTCTTATGTATATTGT+AGG | + | chr2_4:3827906-3827925 | Msa0309370:intron | 20.0% |
| !! | ATACTCTTATGTATATTGTA+GGG | + | chr2_4:3827907-3827926 | Msa0309370:intron | 20.0% |
| ! | TAAGTACAAGTTAAGCTTTA+TGG | + | chr2_4:3827520-3827539 | Msa0309370:CDS | 25.0% |
| ! | TACTCTTATGTATATTGTAG+GGG | + | chr2_4:3827908-3827927 | Msa0309370:intron | 25.0% |
| !!! | AGAATCTTCAATGCTTTTTA+TGG | + | chr2_4:3828189-3828208 | Msa0309370:CDS | 25.0% |
| !! | ATTAGGATTCAACATCATTT+TGG | - | chr2_4:3828217-3828236 | None:intergenic | 25.0% |
| ! | TAAGTACAAGTTAAGCTTTA+TGG | + | chr2_4:3827520-3827539 | Msa0309370:CDS | 25.0% |
| ! | TACTCTTATGTATATTGTAG+GGG | + | chr2_4:3827908-3827927 | Msa0309370:intron | 25.0% |
| !!! | AGAATCTTCAATGCTTTTTA+TGG | + | chr2_4:3828189-3828208 | Msa0309370:CDS | 25.0% |
| !! | ATTAGGATTCAACATCATTT+TGG | - | chr2_4:3828217-3828236 | None:intergenic | 25.0% |
| !! | TTTGAAAGTAGGGTCATTTT+GGG | - | chr2_4:3827489-3827508 | None:intergenic | 30.0% |
| !! | TTTTGAAAGTAGGGTCATTT+TGG | - | chr2_4:3827490-3827509 | None:intergenic | 30.0% |
| !!! | GATCAGTAGTTTTGAAAGTA+GGG | - | chr2_4:3827499-3827518 | None:intergenic | 30.0% |
| !!! | TGATCAGTAGTTTTGAAAGT+AGG | - | chr2_4:3827500-3827519 | None:intergenic | 30.0% |
| ! | TGTGTATTAGATAGCTTTTG+AGG | + | chr2_4:3827858-3827877 | Msa0309370:intron | 30.0% |
| AACTGAAAGATAACAACCAA+AGG | - | chr2_4:3828013-3828032 | None:intergenic | 30.0% | |
| !! | TGCAAGCTTAAGAAGTATTA+TGG | + | chr2_4:3828034-3828053 | Msa0309370:CDS | 30.0% |
| !!! | TTAAACTGCATGAGCTTTTT+TGG | + | chr2_4:3828123-3828142 | Msa0309370:intron | 30.0% |
| TGAGAAACTTCAGGAATATT+AGG | - | chr2_4:3828234-3828253 | None:intergenic | 30.0% | |
| TTCCTGAAGTTTCTCAATAT+AGG | + | chr2_4:3828238-3828257 | Msa0309370:CDS | 30.0% | |
| TACCTATATTGAGAAACTTC+AGG | - | chr2_4:3828243-3828262 | None:intergenic | 30.0% | |
| !! | TTTGAAAGTAGGGTCATTTT+GGG | - | chr2_4:3827489-3827508 | None:intergenic | 30.0% |
| !! | TTTTGAAAGTAGGGTCATTT+TGG | - | chr2_4:3827490-3827509 | None:intergenic | 30.0% |
| !!! | GATCAGTAGTTTTGAAAGTA+GGG | - | chr2_4:3827499-3827518 | None:intergenic | 30.0% |
| !!! | TGATCAGTAGTTTTGAAAGT+AGG | - | chr2_4:3827500-3827519 | None:intergenic | 30.0% |
| ! | TGTGTATTAGATAGCTTTTG+AGG | + | chr2_4:3827858-3827877 | Msa0309370:intron | 30.0% |
| AACTGAAAGATAACAACCAA+AGG | - | chr2_4:3828013-3828032 | None:intergenic | 30.0% | |
| !! | TGCAAGCTTAAGAAGTATTA+TGG | + | chr2_4:3828034-3828053 | Msa0309370:CDS | 30.0% |
| !!! | TTAAACTGCATGAGCTTTTT+TGG | + | chr2_4:3828123-3828142 | Msa0309370:intron | 30.0% |
| TGAGAAACTTCAGGAATATT+AGG | - | chr2_4:3828234-3828253 | None:intergenic | 30.0% | |
| TTCCTGAAGTTTCTCAATAT+AGG | + | chr2_4:3828238-3828257 | Msa0309370:CDS | 30.0% | |
| TACCTATATTGAGAAACTTC+AGG | - | chr2_4:3828243-3828262 | None:intergenic | 30.0% | |
| ! | TACAAGTTAAGCTTTATGGC+AGG | + | chr2_4:3827524-3827543 | Msa0309370:CDS | 35.0% |
| CAAAGCAGATAACTCTTTCA+GGG | - | chr2_4:3827583-3827602 | None:intergenic | 35.0% | |
| ACAAAGCAGATAACTCTTTC+AGG | - | chr2_4:3827584-3827603 | None:intergenic | 35.0% | |
| GTTAAAGAGACTGTGAAAGA+AGG | + | chr2_4:3827764-3827783 | Msa0309370:CDS | 35.0% | |
| AGTATTTAGTTATCCTGCTG+AGG | - | chr2_4:3827892-3827911 | None:intergenic | 35.0% | |
| ACAGAATTCATTGCACTCTT+TGG | + | chr2_4:3827933-3827952 | Msa0309370:CDS | 35.0% | |
| CAGAATTCATTGCACTCTTT+GGG | + | chr2_4:3827934-3827953 | Msa0309370:CDS | 35.0% | |
| TATGAAGATGCAACAATGCT+TGG | + | chr2_4:3827967-3827986 | Msa0309370:CDS | 35.0% | |
| AAAGATAACAACCAAAGGCA+GGG | - | chr2_4:3828008-3828027 | None:intergenic | 35.0% | |
| AAAGCTCATGCAGTTTAATG+CGG | - | chr2_4:3828121-3828140 | None:intergenic | 35.0% | |
| GTATGATGTTGCAATTCTTC+TGG | + | chr2_4:3828260-3828279 | Msa0309370:CDS | 35.0% | |
| ! | CTGTAATCATTCACACCTTT+TGG | + | chr2_4:3828283-3828302 | Msa0309370:CDS | 35.0% |
| !!! | TTCACACCTTTTGGTTTGTT+TGG | + | chr2_4:3828292-3828311 | Msa0309370:CDS | 35.0% |
| ! | TACAAGTTAAGCTTTATGGC+AGG | + | chr2_4:3827524-3827543 | Msa0309370:CDS | 35.0% |
| CAAAGCAGATAACTCTTTCA+GGG | - | chr2_4:3827583-3827602 | None:intergenic | 35.0% | |
| ACAAAGCAGATAACTCTTTC+AGG | - | chr2_4:3827584-3827603 | None:intergenic | 35.0% | |
| GTTAAAGAGACTGTGAAAGA+AGG | + | chr2_4:3827764-3827783 | Msa0309370:CDS | 35.0% | |
| AGTATTTAGTTATCCTGCTG+AGG | - | chr2_4:3827892-3827911 | None:intergenic | 35.0% | |
| ACAGAATTCATTGCACTCTT+TGG | + | chr2_4:3827933-3827952 | Msa0309370:CDS | 35.0% | |
| CAGAATTCATTGCACTCTTT+GGG | + | chr2_4:3827934-3827953 | Msa0309370:CDS | 35.0% | |
| TATGAAGATGCAACAATGCT+TGG | + | chr2_4:3827967-3827986 | Msa0309370:CDS | 35.0% | |
| AAAGATAACAACCAAAGGCA+GGG | - | chr2_4:3828008-3828027 | None:intergenic | 35.0% | |
| AAAGCTCATGCAGTTTAATG+CGG | - | chr2_4:3828121-3828140 | None:intergenic | 35.0% | |
| GTATGATGTTGCAATTCTTC+TGG | + | chr2_4:3828260-3828279 | Msa0309370:CDS | 35.0% | |
| ! | CTGTAATCATTCACACCTTT+TGG | + | chr2_4:3828283-3828302 | Msa0309370:CDS | 35.0% |
| !!! | TTCACACCTTTTGGTTTGTT+TGG | + | chr2_4:3828292-3828311 | Msa0309370:CDS | 35.0% |
| AATTCTGTCTGCTCACAATG+AGG | + | chr2_4:3827616-3827635 | Msa0309370:CDS | 40.0% | |
| GAAAGAAGGAAAGACTAGCA+AGG | + | chr2_4:3827778-3827797 | Msa0309370:CDS | 40.0% | |
| ! | AGGAAAGACTAGCAAGGTTT+TGG | + | chr2_4:3827784-3827803 | Msa0309370:CDS | 40.0% |
| !!! | CAAGGTTTTGGATGCTACTT+TGG | + | chr2_4:3827796-3827815 | Msa0309370:CDS | 40.0% |
| GAAAGATAACAACCAAAGGC+AGG | - | chr2_4:3828009-3828028 | None:intergenic | 40.0% | |
| AATTCTGTCTGCTCACAATG+AGG | + | chr2_4:3827616-3827635 | Msa0309370:CDS | 40.0% | |
| GAAAGAAGGAAAGACTAGCA+AGG | + | chr2_4:3827778-3827797 | Msa0309370:CDS | 40.0% | |
| ! | AGGAAAGACTAGCAAGGTTT+TGG | + | chr2_4:3827784-3827803 | Msa0309370:CDS | 40.0% |
| !!! | CAAGGTTTTGGATGCTACTT+TGG | + | chr2_4:3827796-3827815 | Msa0309370:CDS | 40.0% |
| GAAAGATAACAACCAAAGGC+AGG | - | chr2_4:3828009-3828028 | None:intergenic | 40.0% | |
| CACAATGAGGATCGTTTGCT+TGG | + | chr2_4:3827629-3827648 | Msa0309370:CDS | 45.0% | |
| AGATGTTATCGGCCATGTTG+TGG | + | chr2_4:3827730-3827749 | Msa0309370:intron | 45.0% | |
| TGAGGAAAATGTACCTCAGC+AGG | + | chr2_4:3827876-3827895 | Msa0309370:intron | 45.0% | |
| CACAATGAGGATCGTTTGCT+TGG | + | chr2_4:3827629-3827648 | Msa0309370:CDS | 45.0% | |
| AGATGTTATCGGCCATGTTG+TGG | + | chr2_4:3827730-3827749 | Msa0309370:intron | 45.0% | |
| TGAGGAAAATGTACCTCAGC+AGG | + | chr2_4:3827876-3827895 | Msa0309370:intron | 45.0% | |
| TATCGGCCATGTTGTGGAGA+AGG | + | chr2_4:3827736-3827755 | Msa0309370:CDS | 50.0% | |
| CATCGTCCTTCTCCACAACA+TGG | - | chr2_4:3827745-3827764 | None:intergenic | 50.0% | |
| ACATGACTCATCCCTGCCTT+TGG | + | chr2_4:3827994-3828013 | Msa0309370:CDS | 50.0% | |
| TATCGGCCATGTTGTGGAGA+AGG | + | chr2_4:3827736-3827755 | Msa0309370:CDS | 50.0% | |
| CATCGTCCTTCTCCACAACA+TGG | - | chr2_4:3827745-3827764 | None:intergenic | 50.0% | |
| ACATGACTCATCCCTGCCTT+TGG | + | chr2_4:3827994-3828013 | Msa0309370:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 3827479 | 3828317 | 3827479 | ID=Msa0309370;Name=Msa0309370 |
| chr2_4 | mRNA | 3827479 | 3828317 | 3827479 | ID=Msa0309370-mRNA-1;Parent=Msa0309370;Name=Msa0309370-mRNA-1;_AED=0.18;_eAED=0.18;_QI=0|0|0|1|1|1|4|0|177 |
| chr2_4 | exon | 3827479 | 3827650 | 3827479 | ID=Msa0309370-mRNA-1:exon:1306;Parent=Msa0309370-mRNA-1 |
| chr2_4 | exon | 3827732 | 3827828 | 3827732 | ID=Msa0309370-mRNA-1:exon:1307;Parent=Msa0309370-mRNA-1 |
| chr2_4 | exon | 3827928 | 3828055 | 3827928 | ID=Msa0309370-mRNA-1:exon:1308;Parent=Msa0309370-mRNA-1 |
| chr2_4 | exon | 3828181 | 3828317 | 3828181 | ID=Msa0309370-mRNA-1:exon:1309;Parent=Msa0309370-mRNA-1 |
| chr2_4 | CDS | 3827479 | 3827650 | 3827479 | ID=Msa0309370-mRNA-1:cds;Parent=Msa0309370-mRNA-1 |
| chr2_4 | CDS | 3827732 | 3827828 | 3827732 | ID=Msa0309370-mRNA-1:cds;Parent=Msa0309370-mRNA-1 |
| chr2_4 | CDS | 3827928 | 3828055 | 3827928 | ID=Msa0309370-mRNA-1:cds;Parent=Msa0309370-mRNA-1 |
| chr2_4 | CDS | 3828181 | 3828317 | 3828181 | ID=Msa0309370-mRNA-1:cds;Parent=Msa0309370-mRNA-1 |
| Gene Sequence |
| Protein sequence |
