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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554810 | XP_013456685.1 | 75.694 | 144 | 4 | 1 | 1 | 113 | 41 | 184 | 2.70e-68 | 213 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554810 | sp|Q9SS03|DIR21_ARATH | 39.456 | 147 | 54 | 4 | 1 | 113 | 44 | 189 | 4.79e-29 | 106 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554810 | A0A072UMV6 | 75.694 | 144 | 4 | 1 | 1 | 113 | 41 | 184 | 1.29e-68 | 213 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0554810 | Msa0691410 | 0.821295 | 4.357097e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554810 | MtrunA17_Chr4g0040551 | 75.694 | 144 | 4 | 1 | 1 | 113 | 41 | 184 | 2.48e-72 | 213 |
| Msa0554810 | MtrunA17_Chr3g0090231 | 75.694 | 144 | 4 | 1 | 1 | 113 | 41 | 184 | 1.09e-71 | 211 |
| Msa0554810 | MtrunA17_Chr3g0085321 | 57.639 | 144 | 30 | 1 | 1 | 113 | 45 | 188 | 2.12e-56 | 173 |
| Msa0554810 | MtrunA17_Chr3g0085301 | 55.556 | 144 | 33 | 1 | 1 | 113 | 50 | 193 | 3.25e-53 | 165 |
| Msa0554810 | MtrunA17_Chr3g0085311 | 46.528 | 144 | 46 | 1 | 1 | 113 | 45 | 188 | 1.07e-42 | 138 |
| Msa0554810 | MtrunA17_Chr3g0085291 | 49.306 | 144 | 40 | 3 | 1 | 113 | 45 | 186 | 3.34e-41 | 134 |
| Msa0554810 | MtrunA17_Chr1g0177051 | 41.096 | 146 | 53 | 2 | 2 | 114 | 41 | 186 | 7.37e-34 | 115 |
| Msa0554810 | MtrunA17_Chr1g0175911 | 39.041 | 146 | 54 | 4 | 1 | 113 | 48 | 191 | 2.84e-27 | 99.4 |
| Msa0554810 | MtrunA17_Chr4g0005081 | 34.932 | 146 | 62 | 2 | 1 | 113 | 51 | 196 | 8.98e-25 | 92.8 |
| Msa0554810 | MtrunA17_Chr4g0005031 | 34.932 | 146 | 62 | 2 | 1 | 113 | 75 | 220 | 1.71e-24 | 92.8 |
| Msa0554810 | MtrunA17_Chr4g0005041 | 34.247 | 146 | 63 | 2 | 1 | 113 | 52 | 197 | 6.57e-24 | 90.9 |
| Msa0554810 | MtrunA17_Chr4g0005071 | 34.247 | 146 | 63 | 2 | 1 | 113 | 50 | 195 | 2.86e-23 | 89.0 |
| Msa0554810 | MtrunA17_Chr7g0243501 | 36.552 | 145 | 60 | 2 | 1 | 113 | 47 | 191 | 3.93e-23 | 88.6 |
| Msa0554810 | MtrunA17_Chr7g0259091 | 37.162 | 148 | 57 | 5 | 1 | 113 | 47 | 193 | 1.68e-22 | 87.0 |
| Msa0554810 | MtrunA17_Chr4g0005011 | 35.616 | 146 | 59 | 4 | 1 | 113 | 53 | 196 | 4.04e-22 | 85.9 |
| Msa0554810 | MtrunA17_Chr7g0259121 | 34.437 | 151 | 61 | 2 | 1 | 113 | 42 | 192 | 4.67e-22 | 86.3 |
| Msa0554810 | MtrunA17_Chr7g0259101 | 39.189 | 148 | 54 | 5 | 1 | 113 | 47 | 193 | 1.16e-21 | 87.8 |
| Msa0554810 | MtrunA17_Chr7g0259101 | 37.162 | 148 | 57 | 5 | 1 | 113 | 246 | 392 | 8.79e-21 | 85.5 |
| Msa0554810 | MtrunA17_Chr4g0005111 | 31.034 | 145 | 68 | 2 | 1 | 113 | 45 | 189 | 1.98e-21 | 84.0 |
| Msa0554810 | MtrunA17_Chr7g0259071 | 38.514 | 148 | 55 | 5 | 1 | 113 | 44 | 190 | 2.84e-21 | 83.6 |
| Msa0554810 | MtrunA17_Chr5g0446751 | 34.000 | 150 | 62 | 4 | 1 | 113 | 39 | 188 | 3.76e-21 | 83.2 |
| Msa0554810 | MtrunA17_Chr3g0136631 | 32.215 | 149 | 65 | 2 | 1 | 113 | 40 | 188 | 1.22e-20 | 82.0 |
| Msa0554810 | MtrunA17_Chr4g0037481 | 30.137 | 146 | 68 | 2 | 2 | 113 | 46 | 191 | 1.03e-19 | 79.7 |
| Msa0554810 | MtrunA17_Chr3g0136641 | 30.667 | 150 | 65 | 3 | 1 | 113 | 40 | 187 | 9.30e-19 | 77.0 |
| Msa0554810 | MtrunA17_Chr4g0005131 | 28.767 | 146 | 70 | 2 | 2 | 113 | 45 | 190 | 8.15e-15 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554810 | AT1G65870.1 | 39.456 | 147 | 54 | 4 | 1 | 113 | 44 | 189 | 4.87e-30 | 106 |
| Msa0554810 | AT1G22900.1 | 34.932 | 146 | 60 | 4 | 1 | 113 | 50 | 193 | 6.16e-26 | 96.3 |
| Msa0554810 | AT5G42500.1 | 35.616 | 146 | 59 | 5 | 1 | 113 | 42 | 185 | 2.23e-23 | 89.4 |
| Msa0554810 | AT5G42510.1 | 34.247 | 146 | 61 | 5 | 1 | 113 | 39 | 182 | 3.45e-23 | 89.0 |
| Msa0554810 | AT2G21100.1 | 34.247 | 146 | 63 | 2 | 1 | 113 | 42 | 187 | 4.35e-23 | 88.6 |
| Msa0554810 | AT2G21100.2 | 34.247 | 146 | 63 | 2 | 1 | 113 | 42 | 187 | 4.35e-23 | 88.6 |
| Msa0554810 | AT3G13650.1 | 32.639 | 144 | 65 | 2 | 1 | 113 | 43 | 185 | 1.34e-21 | 84.7 |
| Msa0554810 | AT1G58170.1 | 32.192 | 146 | 66 | 2 | 1 | 113 | 39 | 184 | 5.20e-20 | 80.5 |
| Msa0554810 | AT1G55210.1 | 34.722 | 144 | 62 | 2 | 1 | 113 | 44 | 186 | 1.25e-19 | 79.7 |
| Msa0554810 | AT1G55210.2 | 34.722 | 144 | 62 | 2 | 1 | 113 | 44 | 186 | 1.25e-19 | 79.7 |
| Msa0554810 | AT2G21110.1 | 28.000 | 150 | 71 | 2 | 1 | 113 | 36 | 185 | 1.51e-18 | 77.0 |
| Msa0554810 | AT4G38700.1 | 32.237 | 152 | 64 | 3 | 1 | 113 | 38 | 189 | 3.76e-18 | 75.9 |
| Msa0554810 | AT5G49040.1 | 32.192 | 146 | 66 | 2 | 1 | 113 | 45 | 190 | 3.87e-18 | 75.9 |
| Msa0554810 | AT5G49030.3 | 34.921 | 126 | 49 | 2 | 1 | 93 | 45 | 170 | 1.07e-16 | 74.7 |
| Msa0554810 | AT3G58090.1 | 48.438 | 64 | 33 | 0 | 50 | 113 | 208 | 271 | 4.73e-16 | 72.0 |
| Msa0554810 | AT3G13662.1 | 37.903 | 124 | 45 | 4 | 1 | 93 | 42 | 164 | 8.51e-16 | 69.3 |
| Msa0554810 | AT3G13660.1 | 47.619 | 63 | 33 | 0 | 51 | 113 | 62 | 124 | 1.67e-13 | 62.4 |
Find 26 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGTGCTTTGAACTCATTTC+AGG | 0.222086 | 4_1:+52527464 | None:intergenic |
| GGGAGCACGCTTAGCATGTT+AGG | 0.292093 | 4_1:-52527346 | Msa0554810:CDS |
| GAAAACGTGCCTAATGAATT+TGG | 0.336672 | 4_1:-52527524 | Msa0554810:CDS |
| TTGGTGGGACTGGAATGTTC+AGG | 0.402628 | 4_1:-52527282 | Msa0554810:CDS |
| TACTCCATAACAAAATTCTC+AGG | 0.432205 | 4_1:+52527211 | None:intergenic |
| ATTCCAGTCCCACCAACTAT+TGG | 0.436737 | 4_1:+52527289 | None:intergenic |
| TTCACAGATGGAAACTATGC+AGG | 0.451242 | 4_1:-52527367 | Msa0554810:intron |
| ATGCCAATAGTTGGTGGGAC+TGG | 0.457329 | 4_1:-52527292 | Msa0554810:CDS |
| TAAGTTGCACCAAATTCATT+AGG | 0.471798 | 4_1:+52527515 | None:intergenic |
| CTGGAATGTTCAGGTTTGCT+AGG | 0.473866 | 4_1:-52527273 | Msa0554810:CDS |
| TGGAATGTTCAGGTTTGCTA+GGG | 0.474864 | 4_1:-52527272 | Msa0554810:CDS |
| AATAGAGAAATGCCAATAGT+TGG | 0.500781 | 4_1:-52527301 | Msa0554810:CDS |
| TAACAATTTGCACAATTGTT+GGG | 0.503519 | 4_1:+52527555 | None:intergenic |
| TTAACAATTTGCACAATTGT+TGG | 0.513099 | 4_1:+52527554 | None:intergenic |
| ATTTGGTGCAACTTATGTAA+TGG | 0.527915 | 4_1:-52527507 | Msa0554810:CDS |
| AGAGAAATGCCAATAGTTGG+TGG | 0.536074 | 4_1:-52527298 | Msa0554810:CDS |
| GGAGCACGCTTAGCATGTTA+GGG | 0.537025 | 4_1:-52527345 | Msa0554810:CDS |
| ACTCCATAACAAAATTCTCA+GGG | 0.574234 | 4_1:+52527212 | None:intergenic |
| GAGAAATGCCAATAGTTGGT+GGG | 0.610676 | 4_1:-52527297 | Msa0554810:CDS |
| TGGATGATGAAATCACTGAA+GGG | 0.627124 | 4_1:-52527487 | Msa0554810:CDS |
| TCACAGATGGAAACTATGCA+GGG | 0.630485 | 4_1:-52527366 | Msa0554810:intron |
| ATGGATGATGAAATCACTGA+AGG | 0.641459 | 4_1:-52527488 | Msa0554810:CDS |
| GAATGTTCAGGTTTGCTAGG+GGG | 0.641654 | 4_1:-52527270 | Msa0554810:CDS |
| GGAATGTTCAGGTTTGCTAG+GGG | 0.654163 | 4_1:-52527271 | Msa0554810:CDS |
| GCACGCTTAGCATGTTAGGG+AGG | 0.657463 | 4_1:-52527342 | Msa0554810:CDS |
| CTCCATAACAAAATTCTCAG+GGG | 0.687282 | 4_1:+52527213 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTTGTTTTTAATGTCA+TGG | + | chr4_1:52527212-52527231 | None:intergenic | 20.0% |
| !!! | ACAAATTTTATTTTCACAGA+TGG | - | chr4_1:52527409-52527428 | Msa0554810:intron | 20.0% |
| ! | TAACAATTTGCACAATTGTT+GGG | + | chr4_1:52527236-52527255 | None:intergenic | 25.0% |
| ! | TTAACAATTTGCACAATTGT+TGG | + | chr4_1:52527237-52527256 | None:intergenic | 25.0% |
| TAAGTTGCACCAAATTCATT+AGG | + | chr4_1:52527276-52527295 | None:intergenic | 30.0% | |
| !! | ATTTGGTGCAACTTATGTAA+TGG | - | chr4_1:52527281-52527300 | Msa0554810:CDS | 30.0% |
| AATAGAGAAATGCCAATAGT+TGG | - | chr4_1:52527487-52527506 | Msa0554810:CDS | 30.0% | |
| ACTCCATAACAAAATTCTCA+GGG | + | chr4_1:52527579-52527598 | None:intergenic | 30.0% | |
| TACTCCATAACAAAATTCTC+AGG | + | chr4_1:52527580-52527599 | None:intergenic | 30.0% | |
| ! | AATTCATTAGGCACGTTTTC+AGG | + | chr4_1:52527264-52527283 | None:intergenic | 35.0% |
| GAAAACGTGCCTAATGAATT+TGG | - | chr4_1:52527264-52527283 | Msa0554810:CDS | 35.0% | |
| ATGGATGATGAAATCACTGA+AGG | - | chr4_1:52527300-52527319 | Msa0554810:CDS | 35.0% | |
| TGGATGATGAAATCACTGAA+GGG | - | chr4_1:52527301-52527320 | Msa0554810:CDS | 35.0% | |
| ! | ATGTGCTTTGAACTCATTTC+AGG | + | chr4_1:52527327-52527346 | None:intergenic | 35.0% |
| GAAATGAGTTCAAAGCACAT+TGG | - | chr4_1:52527327-52527346 | Msa0554810:CDS | 35.0% | |
| ! | TCTCTATTTTGTTCAGCAAC+AGG | + | chr4_1:52527475-52527494 | None:intergenic | 35.0% |
| ! | TTCCCCTGAGAATTTTGTTA+TGG | - | chr4_1:52527573-52527592 | Msa0554810:CDS | 35.0% |
| CTCCATAACAAAATTCTCAG+GGG | + | chr4_1:52527578-52527597 | None:intergenic | 35.0% | |
| CAAGCTTCTCTGCATGATAT+TGG | - | chr4_1:52527373-52527392 | Msa0554810:intron | 40.0% | |
| TTCACAGATGGAAACTATGC+AGG | - | chr4_1:52527421-52527440 | Msa0554810:intron | 40.0% | |
| TCACAGATGGAAACTATGCA+GGG | - | chr4_1:52527422-52527441 | Msa0554810:intron | 40.0% | |
| AGAGAAATGCCAATAGTTGG+TGG | - | chr4_1:52527490-52527509 | Msa0554810:CDS | 40.0% | |
| GAGAAATGCCAATAGTTGGT+GGG | - | chr4_1:52527491-52527510 | Msa0554810:CDS | 40.0% | |
| !! | TGGAATGTTCAGGTTTGCTA+GGG | - | chr4_1:52527516-52527535 | Msa0554810:CDS | 40.0% |
| ! | AGCACATTGGAAGAGCACAA+AGG | - | chr4_1:52527340-52527359 | Msa0554810:CDS | 45.0% |
| ! | GCACATTGGAAGAGCACAAA+GGG | - | chr4_1:52527341-52527360 | Msa0554810:CDS | 45.0% |
| ! | GAAGAGCACAAAGGGTTGTT+TGG | - | chr4_1:52527349-52527368 | Msa0554810:CDS | 45.0% |
| ATTCCAGTCCCACCAACTAT+TGG | + | chr4_1:52527502-52527521 | None:intergenic | 45.0% | |
| ! | CTGGAATGTTCAGGTTTGCT+AGG | - | chr4_1:52527515-52527534 | Msa0554810:CDS | 45.0% |
| !! | GGAATGTTCAGGTTTGCTAG+GGG | - | chr4_1:52527517-52527536 | Msa0554810:CDS | 45.0% |
| !! | GAATGTTCAGGTTTGCTAGG+GGG | - | chr4_1:52527518-52527537 | Msa0554810:CDS | 45.0% |
| GGAGCACGCTTAGCATGTTA+GGG | - | chr4_1:52527443-52527462 | Msa0554810:intron | 50.0% | |
| !! | ATGCCAATAGTTGGTGGGAC+TGG | - | chr4_1:52527496-52527515 | Msa0554810:CDS | 50.0% |
| TTGGTGGGACTGGAATGTTC+AGG | - | chr4_1:52527506-52527525 | Msa0554810:CDS | 50.0% | |
| ! | GGGAGCACGCTTAGCATGTT+AGG | - | chr4_1:52527442-52527461 | Msa0554810:intron | 55.0% |
| GCACGCTTAGCATGTTAGGG+AGG | - | chr4_1:52527446-52527465 | Msa0554810:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 52527186 | 52527624 | 52527186 | ID=Msa0554810;Name=Msa0554810 |
| chr4_1 | mRNA | 52527186 | 52527624 | 52527186 | ID=Msa0554810-mRNA-1;Parent=Msa0554810;Name=Msa0554810-mRNA-1;_AED=0.20;_eAED=0.20;_QI=0|0|0|1|1|1|2|0|114 |
| chr4_1 | exon | 52527477 | 52527624 | 52527477 | ID=Msa0554810-mRNA-1:exon:15186;Parent=Msa0554810-mRNA-1 |
| chr4_1 | exon | 52527186 | 52527382 | 52527186 | ID=Msa0554810-mRNA-1:exon:15185;Parent=Msa0554810-mRNA-1 |
| chr4_1 | CDS | 52527477 | 52527624 | 52527477 | ID=Msa0554810-mRNA-1:cds;Parent=Msa0554810-mRNA-1 |
| chr4_1 | CDS | 52527186 | 52527382 | 52527186 | ID=Msa0554810-mRNA-1:cds;Parent=Msa0554810-mRNA-1 |
| Gene Sequence |
| Protein sequence |
