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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0138200 | XP_013470331.1 | 94.611 | 167 | 6 | 2 | 1 | 165 | 1 | 166 | 5.60e-111 | 323 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0138200 | sp|Q41001|BCP_PEA | 38.333 | 120 | 63 | 5 | 18 | 129 | 7 | 123 | 1.84e-19 | 83.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0138200 | I3RZA8 | 94.611 | 167 | 6 | 2 | 1 | 165 | 1 | 166 | 2.67e-111 | 323 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0036130 | Msa0138200 | 0.805245 | 1.465128e-49 | -8.615850e-47 |
| Msa0130240 | Msa0138200 | 0.805200 | 1.497415e-49 | -8.615850e-47 |
| Msa0138200 | Msa0183430 | 0.865239 | 6.821287e-65 | -8.615850e-47 |
| Msa0138200 | Msa1165870 | 0.802526 | 5.380600e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0138200 | MtrunA17_Chr1g0211101 | 94.611 | 167 | 6 | 2 | 1 | 165 | 1 | 166 | 5.15e-115 | 323 |
| Msa0138200 | MtrunA17_Chr3g0132441 | 38.835 | 103 | 58 | 4 | 29 | 129 | 22 | 121 | 3.37e-19 | 80.1 |
| Msa0138200 | MtrunA17_Chr8g0335531 | 35.484 | 124 | 71 | 6 | 9 | 128 | 2 | 120 | 5.68e-17 | 74.3 |
| Msa0138200 | MtrunA17_Chr8g0380901 | 35.897 | 117 | 68 | 5 | 15 | 128 | 8 | 120 | 8.89e-17 | 72.0 |
| Msa0138200 | MtrunA17_Chr6g0453801 | 35.833 | 120 | 72 | 4 | 14 | 129 | 14 | 132 | 1.39e-16 | 72.8 |
| Msa0138200 | MtrunA17_Chr8g0335571 | 37.097 | 124 | 69 | 6 | 9 | 128 | 2 | 120 | 1.80e-16 | 73.2 |
| Msa0138200 | MtrunA17_Chr3g0132511 | 35.000 | 120 | 69 | 5 | 18 | 130 | 7 | 124 | 7.34e-16 | 72.0 |
| Msa0138200 | MtrunA17_Chr1g0205701 | 33.065 | 124 | 73 | 5 | 13 | 132 | 9 | 126 | 1.43e-15 | 70.5 |
| Msa0138200 | MtrunA17_Chr1g0196801 | 32.787 | 122 | 69 | 5 | 30 | 149 | 20 | 130 | 1.29e-14 | 67.8 |
| Msa0138200 | MtrunA17_Chr7g0253761 | 30.645 | 124 | 78 | 4 | 14 | 133 | 7 | 126 | 2.20e-14 | 67.0 |
| Msa0138200 | MtrunA17_Chr4g0064041 | 36.275 | 102 | 57 | 4 | 33 | 128 | 191 | 290 | 7.18e-14 | 68.2 |
| Msa0138200 | MtrunA17_Chr4g0064041 | 30.263 | 152 | 86 | 6 | 7 | 152 | 5 | 142 | 2.08e-13 | 66.6 |
| Msa0138200 | MtrunA17_Chr8g0380711 | 36.275 | 102 | 61 | 3 | 28 | 128 | 23 | 121 | 3.59e-13 | 62.8 |
| Msa0138200 | MtrunA17_Chr6g0481491 | 30.579 | 121 | 77 | 5 | 17 | 134 | 12 | 128 | 1.22e-12 | 63.2 |
| Msa0138200 | MtrunA17_Chr3g0125791 | 36.735 | 98 | 57 | 4 | 30 | 126 | 30 | 123 | 1.69e-12 | 60.8 |
| Msa0138200 | MtrunA17_Chr7g0253731 | 31.356 | 118 | 76 | 4 | 14 | 128 | 6 | 121 | 4.13e-12 | 60.8 |
| Msa0138200 | MtrunA17_Chr7g0253701 | 32.743 | 113 | 69 | 4 | 8 | 118 | 4 | 111 | 4.30e-12 | 60.8 |
| Msa0138200 | MtrunA17_Chr7g0253671 | 32.743 | 113 | 69 | 4 | 8 | 118 | 4 | 111 | 4.30e-12 | 60.8 |
| Msa0138200 | MtrunA17_Chr4g0001571 | 34.286 | 105 | 64 | 4 | 28 | 130 | 24 | 125 | 7.85e-12 | 60.1 |
| Msa0138200 | MtrunA17_Chr8g0360371 | 28.099 | 121 | 81 | 4 | 12 | 128 | 3 | 121 | 3.09e-11 | 60.1 |
| Msa0138200 | MtrunA17_Chr7g0253631 | 31.707 | 123 | 76 | 4 | 13 | 131 | 6 | 124 | 4.72e-11 | 59.3 |
| Msa0138200 | MtrunA17_Chr2g0306461 | 30.894 | 123 | 75 | 6 | 14 | 129 | 7 | 126 | 5.67e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0138200 | AT2G31050.1 | 38.194 | 144 | 73 | 6 | 11 | 151 | 8 | 138 | 5.80e-21 | 85.5 |
| Msa0138200 | AT5G26330.1 | 34.951 | 103 | 61 | 4 | 30 | 128 | 21 | 121 | 4.69e-16 | 72.0 |
| Msa0138200 | AT3G17675.1 | 32.500 | 120 | 73 | 4 | 15 | 128 | 10 | 127 | 1.05e-15 | 69.7 |
| Msa0138200 | AT2G02850.1 | 34.211 | 114 | 66 | 5 | 14 | 126 | 21 | 126 | 1.22e-14 | 67.0 |
| Msa0138200 | AT2G26720.1 | 35.938 | 128 | 76 | 5 | 8 | 132 | 5 | 129 | 1.27e-14 | 68.9 |
| Msa0138200 | AT5G07475.1 | 28.571 | 147 | 98 | 5 | 12 | 154 | 9 | 152 | 3.87e-14 | 67.0 |
| Msa0138200 | AT1G72230.1 | 30.872 | 149 | 89 | 7 | 8 | 154 | 3 | 139 | 6.23e-14 | 66.2 |
| Msa0138200 | AT1G22480.1 | 33.058 | 121 | 74 | 5 | 18 | 135 | 4 | 120 | 3.31e-11 | 58.9 |
| Msa0138200 | AT1G17800.1 | 32.231 | 121 | 74 | 5 | 13 | 127 | 17 | 135 | 4.01e-11 | 58.2 |
| Msa0138200 | AT2G27035.1 | 28.205 | 117 | 79 | 4 | 36 | 149 | 32 | 146 | 5.02e-11 | 58.2 |
| Msa0138200 | AT5G20230.1 | 30.400 | 125 | 80 | 4 | 33 | 152 | 25 | 147 | 6.30e-11 | 58.5 |
Find 31 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCCTTGGAGGAATGAGGTT+TGG | 0.332332 | 1_3:-70980293 | Msa0138200:CDS |
| CCCATGTAGCATAATTTGTT+TGG | 0.336122 | 1_3:+70980767 | None:intergenic |
| GCCTTGGAGGAATGAGGTTT+GGG | 0.340464 | 1_3:-70980292 | Msa0138200:CDS |
| AGATCAAGTGGTTCTAAATA+AGG | 0.343342 | 1_3:-70980354 | Msa0138200:intron |
| GATGGAGTTGGTTGAATTTG+TGG | 0.383777 | 1_3:+70980212 | None:intergenic |
| TAAATAAGGTGAAGAGATAT+TGG | 0.384569 | 1_3:-70980340 | Msa0138200:intron |
| TCTCAAAGATGGAGAGTGAT+TGG | 0.389696 | 1_3:-70980173 | Msa0138200:CDS |
| TTTAGCCGTGGAGATGTTCT+TGG | 0.401037 | 1_3:-70980730 | Msa0138200:CDS |
| TGGTTCATTTGCAATATAGC+TGG | 0.431102 | 1_3:-70980320 | Msa0138200:CDS |
| TGGATTTAATGCACCGTCCA+TGG | 0.449414 | 1_3:+70980232 | None:intergenic |
| ATAGCTGGACATTGCCTTGG+AGG | 0.459542 | 1_3:-70980305 | Msa0138200:CDS |
| ATGGCTAGTGTTTATGCTGT+TGG | 0.480177 | 1_3:-70980811 | Msa0138200:CDS |
| CTCAAAGATGGAGAGTGATT+GGG | 0.483596 | 1_3:-70980172 | Msa0138200:CDS |
| ATTCTTGTATCTCTCAAAGA+TGG | 0.484655 | 1_3:-70980184 | Msa0138200:CDS |
| GACATTGCCTTGGAGGAATG+AGG | 0.494262 | 1_3:-70980298 | Msa0138200:CDS |
| GCCAAACAAATTATGCTACA+TGG | 0.511548 | 1_3:-70980768 | Msa0138200:CDS |
| CAACAATGGTACTAATTCCA+TGG | 0.540787 | 1_3:-70980249 | Msa0138200:CDS |
| AATATAGCTGGACATTGCCT+TGG | 0.550956 | 1_3:-70980308 | Msa0138200:CDS |
| CTGTTGGTGATCAAGATGAA+TGG | 0.566698 | 1_3:-70980795 | Msa0138200:CDS |
| AATAAGAATTGAGAGTATGA+AGG | 0.571197 | 1_3:+70980864 | None:intergenic |
| GTGTTGGCTAAGTATGAAAG+TGG | 0.577082 | 1_3:-70980380 | Msa0138200:CDS |
| GTCAAAGAAGATAGCAACAA+TGG | 0.584763 | 1_3:-70980263 | Msa0138200:CDS |
| TAATGTGTATGAAGTGAGAG+AGG | 0.584918 | 1_3:-70980435 | Msa0138200:CDS |
| CCAAACAAATTATGCTACAT+GGG | 0.597055 | 1_3:-70980767 | Msa0138200:CDS |
| TGAAACAAGTAGTGGAGTGT+TGG | 0.609215 | 1_3:-70980396 | Msa0138200:CDS |
| AGATCATGTGAAACAAGTAG+TGG | 0.611448 | 1_3:-70980404 | Msa0138200:CDS |
| AATGGTACTAATTCCATGGA+CGG | 0.621827 | 1_3:-70980245 | Msa0138200:CDS |
| GAGAGATACAACTTTAGCCG+TGG | 0.623416 | 1_3:-70980742 | Msa0138200:CDS |
| TCCCAAACCTCATTCCTCCA+AGG | 0.624087 | 1_3:+70980291 | None:intergenic |
| TGAAAGTGGAGAAGATCAAG+TGG | 0.654735 | 1_3:-70980366 | Msa0138200:CDS |
| TACTACCAAGAACATCTCCA+CGG | 0.676544 | 1_3:+70980725 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTAATTAAATTATATTTT+TGG | - | chr1_3:70980568-70980587 | Msa0138200:intron | 0.0% |
| !!! | TTATATTTTTGGTGTTGTAT+TGG | - | chr1_3:70980579-70980598 | Msa0138200:intron | 20.0% |
| !! | AATAAGAATTGAGAGTATGA+AGG | + | chr1_3:70980206-70980225 | None:intergenic | 25.0% |
| !! | ATCACATGGATATCTTTTAT+TGG | + | chr1_3:70980437-70980456 | None:intergenic | 25.0% |
| ! | AAGATAATGTTATGATCACA+TGG | + | chr1_3:70980451-70980470 | None:intergenic | 25.0% |
| !!! | TATAGTTTTCAAGTATGTGA+AGG | - | chr1_3:70980602-70980621 | Msa0138200:intron | 25.0% |
| !!! | ATAGTTTTCAAGTATGTGAA+GGG | - | chr1_3:70980603-70980622 | Msa0138200:intron | 25.0% |
| ! | TAAATAAGGTGAAGAGATAT+TGG | - | chr1_3:70980727-70980746 | Msa0138200:intron | 25.0% |
| ! | TTTTCTCTTGAATTGTGTCA+TGG | - | chr1_3:70980237-70980256 | Msa0138200:CDS | 30.0% |
| CCAAACAAATTATGCTACAT+GGG | - | chr1_3:70980300-70980319 | Msa0138200:CDS | 30.0% | |
| !!! | TAGTTTTCAAGTATGTGAAG+GGG | - | chr1_3:70980604-70980623 | Msa0138200:intron | 30.0% |
| !! | AGATCAAGTGGTTCTAAATA+AGG | - | chr1_3:70980713-70980732 | Msa0138200:intron | 30.0% |
| ! | GAGATACAAGAATTTTGTGA+TGG | + | chr1_3:70980876-70980895 | None:intergenic | 30.0% |
| ATTCTTGTATCTCTCAAAGA+TGG | - | chr1_3:70980883-70980902 | Msa0138200:CDS | 30.0% | |
| GCCAAACAAATTATGCTACA+TGG | - | chr1_3:70980299-70980318 | Msa0138200:CDS | 35.0% | |
| !! | CCCATGTAGCATAATTTGTT+TGG | + | chr1_3:70980303-70980322 | None:intergenic | 35.0% |
| TAATGTGTATGAAGTGAGAG+AGG | - | chr1_3:70980632-70980651 | Msa0138200:intron | 35.0% | |
| AGATCATGTGAAACAAGTAG+TGG | - | chr1_3:70980663-70980682 | Msa0138200:intron | 35.0% | |
| TGGTTCATTTGCAATATAGC+TGG | - | chr1_3:70980747-70980766 | Msa0138200:CDS | 35.0% | |
| GTCAAAGAAGATAGCAACAA+TGG | - | chr1_3:70980804-70980823 | Msa0138200:CDS | 35.0% | |
| CAACAATGGTACTAATTCCA+TGG | - | chr1_3:70980818-70980837 | Msa0138200:CDS | 35.0% | |
| AATGGTACTAATTCCATGGA+CGG | - | chr1_3:70980822-70980841 | Msa0138200:CDS | 35.0% | |
| !! | CAAGAATTTTGTGATGGAGT+TGG | + | chr1_3:70980870-70980889 | None:intergenic | 35.0% |
| ATGGCTAGTGTTTATGCTGT+TGG | - | chr1_3:70980256-70980275 | Msa0138200:CDS | 40.0% | |
| !! | CTGTTGGTGATCAAGATGAA+TGG | - | chr1_3:70980272-70980291 | Msa0138200:CDS | 40.0% |
| TACTACCAAGAACATCTCCA+CGG | + | chr1_3:70980345-70980364 | None:intergenic | 40.0% | |
| ! | TGAAACAAGTAGTGGAGTGT+TGG | - | chr1_3:70980671-70980690 | Msa0138200:intron | 40.0% |
| !! | GTGTTGGCTAAGTATGAAAG+TGG | - | chr1_3:70980687-70980706 | Msa0138200:intron | 40.0% |
| TGAAAGTGGAGAAGATCAAG+TGG | - | chr1_3:70980701-70980720 | Msa0138200:intron | 40.0% | |
| AATATAGCTGGACATTGCCT+TGG | - | chr1_3:70980759-70980778 | Msa0138200:CDS | 40.0% | |
| ! | GATGGAGTTGGTTGAATTTG+TGG | + | chr1_3:70980858-70980877 | None:intergenic | 40.0% |
| TCTCAAAGATGGAGAGTGAT+TGG | - | chr1_3:70980894-70980913 | Msa0138200:CDS | 40.0% | |
| GAGAGATACAACTTTAGCCG+TGG | - | chr1_3:70980325-70980344 | Msa0138200:CDS | 45.0% | |
| TTTAGCCGTGGAGATGTTCT+TGG | - | chr1_3:70980337-70980356 | Msa0138200:intron | 45.0% | |
| TGGATTTAATGCACCGTCCA+TGG | + | chr1_3:70980838-70980857 | None:intergenic | 45.0% | |
| ATAGCTGGACATTGCCTTGG+AGG | - | chr1_3:70980762-70980781 | Msa0138200:CDS | 50.0% | |
| GACATTGCCTTGGAGGAATG+AGG | - | chr1_3:70980769-70980788 | Msa0138200:CDS | 50.0% | |
| TGCCTTGGAGGAATGAGGTT+TGG | - | chr1_3:70980774-70980793 | Msa0138200:CDS | 50.0% | |
| GCCTTGGAGGAATGAGGTTT+GGG | - | chr1_3:70980775-70980794 | Msa0138200:CDS | 50.0% | |
| TCCCAAACCTCATTCCTCCA+AGG | + | chr1_3:70980779-70980798 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 70980172 | 70980917 | 70980172 | ID=Msa0138200;Name=Msa0138200 |
| chr1_3 | mRNA | 70980172 | 70980917 | 70980172 | ID=Msa0138200-mRNA-1;Parent=Msa0138200;Name=Msa0138200-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|1|0|0|3|0|165 |
| chr1_3 | exon | 70980728 | 70980917 | 70980728 | ID=Msa0138200-mRNA-1:exon:24672;Parent=Msa0138200-mRNA-1 |
| chr1_3 | exon | 70980355 | 70980482 | 70980355 | ID=Msa0138200-mRNA-1:exon:24671;Parent=Msa0138200-mRNA-1 |
| chr1_3 | exon | 70980172 | 70980348 | 70980172 | ID=Msa0138200-mRNA-1:exon:24670;Parent=Msa0138200-mRNA-1 |
| chr1_3 | CDS | 70980728 | 70980917 | 70980728 | ID=Msa0138200-mRNA-1:cds;Parent=Msa0138200-mRNA-1 |
| chr1_3 | CDS | 70980355 | 70980482 | 70980355 | ID=Msa0138200-mRNA-1:cds;Parent=Msa0138200-mRNA-1 |
| chr1_3 | CDS | 70980172 | 70980348 | 70980172 | ID=Msa0138200-mRNA-1:cds;Parent=Msa0138200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
