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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1383020 | RHN77988.1 | 72.951 | 244 | 55 | 5 | 1 | 239 | 1 | 238 | 4.52e-112 | 333 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1383020 | sp|Q9SKK8|ATL22_ARATH | 33.659 | 205 | 115 | 7 | 42 | 236 | 40 | 233 | 4.47e-24 | 102 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1383020 | A0A396JNY8 | 72.951 | 244 | 55 | 5 | 1 | 239 | 1 | 238 | 2.16e-112 | 333 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0650520 | Msa1383020 | 0.805248 | 1.462713e-49 | -8.615850e-47 |
| Msa0692540 | Msa1383020 | 0.804982 | 1.663274e-49 | -8.615850e-47 |
| Msa0229540 | Msa1383020 | 0.988017 | 2.136965e-172 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1383020 | MtrunA17_Chr1g0160671 | 72.951 | 244 | 55 | 5 | 1 | 239 | 1 | 238 | 4.15e-116 | 333 |
| Msa1383020 | MtrunA17_Chr1g0160731 | 71.369 | 241 | 58 | 4 | 1 | 238 | 1 | 233 | 1.28e-114 | 341 |
| Msa1383020 | MtrunA17_Chr1g0160771 | 68.980 | 245 | 61 | 6 | 1 | 238 | 1 | 237 | 3.61e-105 | 317 |
| Msa1383020 | MtrunA17_Chr1g0160581 | 63.786 | 243 | 75 | 7 | 7 | 238 | 1 | 241 | 6.66e-95 | 290 |
| Msa1383020 | MtrunA17_Chr1g0160541 | 63.542 | 96 | 26 | 3 | 1 | 94 | 1 | 89 | 1.08e-31 | 112 |
| Msa1383020 | MtrunA17_Chr1g0158181 | 39.815 | 216 | 116 | 8 | 35 | 241 | 53 | 263 | 3.50e-27 | 109 |
| Msa1383020 | MtrunA17_Chr1g0158531 | 31.944 | 216 | 118 | 6 | 31 | 236 | 25 | 221 | 1.89e-26 | 107 |
| Msa1383020 | MtrunA17_Chr3g0126611 | 32.549 | 255 | 148 | 10 | 2 | 243 | 5 | 248 | 2.04e-26 | 105 |
| Msa1383020 | MtrunA17_Chr1g0158051 | 39.437 | 213 | 115 | 9 | 38 | 240 | 32 | 240 | 2.84e-26 | 106 |
| Msa1383020 | MtrunA17_Chr8g0347101 | 34.862 | 218 | 117 | 9 | 32 | 238 | 21 | 224 | 4.40e-26 | 104 |
| Msa1383020 | MtrunA17_Chr1g0158311 | 31.780 | 236 | 125 | 8 | 12 | 236 | 9 | 219 | 8.90e-26 | 105 |
| Msa1383020 | MtrunA17_Chr4g0037001 | 31.330 | 233 | 140 | 8 | 11 | 229 | 11 | 237 | 1.03e-25 | 105 |
| Msa1383020 | MtrunA17_Chr1g0158651 | 35.377 | 212 | 106 | 11 | 34 | 235 | 49 | 239 | 3.26e-23 | 97.8 |
| Msa1383020 | MtrunA17_Chr1g0158101 | 35.437 | 206 | 121 | 8 | 35 | 230 | 31 | 234 | 4.48e-23 | 97.4 |
| Msa1383020 | MtrunA17_Chr1g0158771 | 30.500 | 200 | 126 | 6 | 6 | 200 | 9 | 200 | 6.98e-23 | 97.1 |
| Msa1383020 | MtrunA17_Chr1g0157781 | 33.173 | 208 | 127 | 6 | 41 | 241 | 38 | 240 | 5.35e-21 | 91.7 |
| Msa1383020 | MtrunA17_Chr1g0157801 | 32.110 | 218 | 129 | 8 | 34 | 241 | 27 | 235 | 4.86e-19 | 85.9 |
| Msa1383020 | MtrunA17_Chr8g0388231 | 29.515 | 227 | 135 | 9 | 36 | 243 | 34 | 254 | 6.59e-18 | 82.0 |
| Msa1383020 | MtrunA17_Chr1g0157971 | 30.392 | 204 | 129 | 6 | 35 | 230 | 30 | 228 | 1.17e-17 | 81.6 |
| Msa1383020 | MtrunA17_Chr1g0158621 | 40.541 | 111 | 60 | 3 | 34 | 138 | 32 | 142 | 3.13e-16 | 73.6 |
| Msa1383020 | MtrunA17_Chr1g0157871 | 37.415 | 147 | 83 | 5 | 62 | 202 | 31 | 174 | 5.23e-12 | 65.1 |
| Msa1383020 | MtrunA17_Chr1g0158711 | 31.138 | 167 | 97 | 6 | 62 | 211 | 29 | 194 | 3.51e-11 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1383020 | AT2G25410.1 | 33.659 | 205 | 115 | 7 | 42 | 236 | 40 | 233 | 4.55e-25 | 102 |
| Msa1383020 | AT5G53110.1 | 34.848 | 198 | 111 | 6 | 37 | 222 | 36 | 227 | 1.10e-24 | 101 |
| Msa1383020 | AT2G46495.2 | 30.244 | 205 | 123 | 5 | 43 | 236 | 38 | 233 | 9.98e-24 | 97.8 |
| Msa1383020 | AT2G46495.1 | 29.412 | 204 | 125 | 4 | 43 | 236 | 38 | 232 | 2.62e-23 | 97.1 |
| Msa1383020 | AT2G46494.1 | 33.175 | 211 | 112 | 10 | 37 | 237 | 38 | 229 | 7.18e-20 | 87.4 |
| Msa1383020 | AT1G28040.1 | 33.333 | 156 | 85 | 5 | 84 | 226 | 7 | 156 | 9.22e-13 | 67.0 |
Find 34 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGAAACATTAAACATTT+TGG | 0.159805 | tig0020564:+8859 | None:intergenic |
| TATGGGATTGTTGTTGTTTA+TGG | 0.178581 | tig0020564:-9368 | Msa1383020:CDS |
| CATGAACACTGATTATATTA+TGG | 0.199434 | tig0020564:-9386 | Msa1383020:CDS |
| TTTCCACATCTTAAATCTTC+TGG | 0.227108 | tig0020564:+9289 | None:intergenic |
| GATTCACAATGTTTGCAATT+AGG | 0.232490 | tig0020564:+8779 | None:intergenic |
| AGATAGGTTGAAATCCTATT+TGG | 0.249004 | tig0020564:-8966 | Msa1383020:CDS |
| GTTTCATTAAACAGCAATTC+TGG | 0.263893 | tig0020564:-8845 | Msa1383020:CDS |
| CTAAATCAACAAACATATTA+AGG | 0.316301 | tig0020564:+9341 | None:intergenic |
| ATGAACACTGATTATATTAT+GGG | 0.317165 | tig0020564:-9385 | Msa1383020:CDS |
| ACATCAAACTAAGAATGTTT+TGG | 0.339634 | tig0020564:+8810 | None:intergenic |
| TCATCAATAATTCTACTAGA+AGG | 0.350874 | tig0020564:+8902 | None:intergenic |
| GCACCCATGTGTGGCTATCC+TGG | 0.372670 | tig0020564:-9226 | Msa1383020:CDS |
| AGCACTTGCAGCAACAGATA+TGG | 0.397229 | tig0020564:-9320 | Msa1383020:CDS |
| ACATTGAGTTTCACTTTGTA+AGG | 0.402144 | tig0020564:+9157 | None:intergenic |
| GCTTAGACAAGGAACCAAAT+AGG | 0.431986 | tig0020564:+8952 | None:intergenic |
| ATTCTGAAAGATTGAGGTTG+TGG | 0.434719 | tig0020564:+9065 | None:intergenic |
| AAAGAGATTCTGAAAGATTG+AGG | 0.446235 | tig0020564:+9059 | None:intergenic |
| GATCGGATAGTTGAATAGTT+TGG | 0.451389 | tig0020564:+9113 | None:intergenic |
| AGCCACACATGGGTGCTTGA+TGG | 0.461765 | tig0020564:+9233 | None:intergenic |
| TATCTAGTAATCTATATTGA+AGG | 0.463084 | tig0020564:+8673 | None:intergenic |
| AACATATGTTTGAGAGGTTG+AGG | 0.467390 | tig0020564:+8928 | None:intergenic |
| TGCAAACATTGTGAATCAAA+AGG | 0.480676 | tig0020564:-8773 | Msa1383020:CDS |
| GAACAAAATAACTCGAATCC+AGG | 0.516202 | tig0020564:+9208 | None:intergenic |
| CATCAATAATTCTACTAGAA+GGG | 0.534575 | tig0020564:+8903 | None:intergenic |
| AAAACATTCTTAGTTTGATG+TGG | 0.543656 | tig0020564:-8808 | Msa1383020:CDS |
| TGGTGCAAAATGAGAGGGGA+AGG | 0.556699 | tig0020564:+8879 | None:intergenic |
| CAAAAGGAAACAGATGTGGA+TGG | 0.578458 | tig0020564:-8757 | Msa1383020:CDS |
| TGTCCAGAAGATTTAAGATG+TGG | 0.582775 | tig0020564:-9292 | Msa1383020:CDS |
| AGGGATAACATATGTTTGAG+AGG | 0.588716 | tig0020564:+8922 | None:intergenic |
| GAGGTTGAGGTGCTTAGACA+AGG | 0.591807 | tig0020564:+8941 | None:intergenic |
| AACCATCAAGCACCCATGTG+TGG | 0.617921 | tig0020564:-9235 | Msa1383020:CDS |
| GAATCCAGGATAGCCACACA+TGG | 0.622433 | tig0020564:+9222 | None:intergenic |
| GAATCAAAAGGAAACAGATG+TGG | 0.660175 | tig0020564:-8761 | Msa1383020:CDS |
| AATCCAGGATAGCCACACAT+GGG | 0.712277 | tig0020564:+9223 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGAAACATTAAACATTT+TGG | + | tig0020564:9205-9224 | None:intergenic | 15.0% |
| !!! | ATGAACACTGATTATATTAT+GGG | - | tig0020564:8676-8695 | Msa1383020:CDS | 20.0% |
| !! | CTAAATCAACAAACATATTA+AGG | + | tig0020564:8723-8742 | None:intergenic | 20.0% |
| !!! | GTTATTTTGTTCATCAAATA+AGG | - | tig0020564:8864-8883 | Msa1383020:CDS | 20.0% |
| !! | TGTTTGTAAAGACAATTTTG+TGG | + | tig0020564:8973-8992 | None:intergenic | 25.0% |
| ! | CATCAATAATTCTACTAGAA+GGG | + | tig0020564:9161-9180 | None:intergenic | 25.0% |
| ! | TCATCAATAATTCTACTAGA+AGG | + | tig0020564:9162-9181 | None:intergenic | 25.0% |
| !! | ACATCAAACTAAGAATGTTT+TGG | + | tig0020564:9254-9273 | None:intergenic | 25.0% |
| !! | AAAACATTCTTAGTTTGATG+TGG | - | tig0020564:9253-9272 | Msa1383020:CDS | 25.0% |
| !! | GAAACAATCTATTTTCTTGT+TGG | + | tig0020564:9346-9365 | None:intergenic | 25.0% |
| !! | TATGGGATTGTTGTTGTTTA+TGG | - | tig0020564:8693-8712 | Msa1383020:CDS | 30.0% |
| TTTCCACATCTTAAATCTTC+TGG | + | tig0020564:8775-8794 | None:intergenic | 30.0% | |
| !!! | GATGGTTTTTGATTTGGAAA+GGG | + | tig0020564:8813-8832 | None:intergenic | 30.0% |
| !!! | TGATGGTTTTTGATTTGGAA+AGG | + | tig0020564:8814-8833 | None:intergenic | 30.0% |
| ACATTGAGTTTCACTTTGTA+AGG | + | tig0020564:8907-8926 | None:intergenic | 30.0% | |
| ! | GTAAAGACAATTTTGTGGAT+CGG | + | tig0020564:8968-8987 | None:intergenic | 30.0% |
| ! | AAAGAGATTCTGAAAGATTG+AGG | + | tig0020564:9005-9024 | None:intergenic | 30.0% |
| !! | GTTCACTTTTGATTAGAGAT+AGG | - | tig0020564:9079-9098 | Msa1383020:CDS | 30.0% |
| ! | AGATAGGTTGAAATCCTATT+TGG | - | tig0020564:9095-9114 | Msa1383020:CDS | 30.0% |
| GTTTCATTAAACAGCAATTC+TGG | - | tig0020564:9216-9235 | Msa1383020:CDS | 30.0% | |
| GATTCACAATGTTTGCAATT+AGG | + | tig0020564:9285-9304 | None:intergenic | 30.0% | |
| TGCAAACATTGTGAATCAAA+AGG | - | tig0020564:9288-9307 | Msa1383020:CDS | 30.0% | |
| TGTTTCATCAAAAACAGCAA+AGG | - | tig0020564:9360-9379 | Msa1383020:CDS | 30.0% | |
| ! | TGTCCAGAAGATTTAAGATG+TGG | - | tig0020564:8769-8788 | Msa1383020:CDS | 35.0% |
| !! | GTGCTTGATGGTTTTTGATT+TGG | + | tig0020564:8819-8838 | None:intergenic | 35.0% |
| GAACAAAATAACTCGAATCC+AGG | + | tig0020564:8856-8875 | None:intergenic | 35.0% | |
| GATCGGATAGTTGAATAGTT+TGG | + | tig0020564:8951-8970 | None:intergenic | 35.0% | |
| ! | ATTCTGAAAGATTGAGGTTG+TGG | + | tig0020564:8999-9018 | None:intergenic | 35.0% |
| AACATATGTTTGAGAGGTTG+AGG | + | tig0020564:9136-9155 | None:intergenic | 35.0% | |
| AGGGATAACATATGTTTGAG+AGG | + | tig0020564:9142-9161 | None:intergenic | 35.0% | |
| !! | ATTTTGGTGCAAAATGAGAG+GGG | + | tig0020564:9189-9208 | None:intergenic | 35.0% |
| !! | CATTTTGGTGCAAAATGAGA+GGG | + | tig0020564:9190-9209 | None:intergenic | 35.0% |
| !! | ACATTTTGGTGCAAAATGAG+AGG | + | tig0020564:9191-9210 | None:intergenic | 35.0% |
| GAATCAAAAGGAAACAGATG+TGG | - | tig0020564:9300-9319 | Msa1383020:CDS | 35.0% | |
| GCTTAGACAAGGAACCAAAT+AGG | + | tig0020564:9112-9131 | None:intergenic | 40.0% | |
| CAAAAGGAAACAGATGTGGA+TGG | - | tig0020564:9304-9323 | Msa1383020:CDS | 40.0% | |
| AGCACTTGCAGCAACAGATA+TGG | - | tig0020564:8741-8760 | Msa1383020:CDS | 45.0% | |
| AATCCAGGATAGCCACACAT+GGG | + | tig0020564:8841-8860 | None:intergenic | 45.0% | |
| AACCATCAAGCACCCATGTG+TGG | - | tig0020564:8826-8845 | Msa1383020:CDS | 50.0% | |
| GAATCCAGGATAGCCACACA+TGG | + | tig0020564:8842-8861 | None:intergenic | 50.0% | |
| ! | GAGGTTGAGGTGCTTAGACA+AGG | + | tig0020564:9123-9142 | None:intergenic | 50.0% |
| TGGTGCAAAATGAGAGGGGA+AGG | + | tig0020564:9185-9204 | None:intergenic | 50.0% | |
| AGCCACACATGGGTGCTTGA+TGG | + | tig0020564:8831-8850 | None:intergenic | 55.0% | |
| GCACCCATGTGTGGCTATCC+TGG | - | tig0020564:8835-8854 | Msa1383020:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020564 | gene | 8676 | 9407 | 8676 | ID=Msa1383020;Name=Msa1383020 |
| tig0020564 | mRNA | 8676 | 9407 | 8676 | ID=Msa1383020-mRNA-1;Parent=Msa1383020;Name=Msa1383020-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|243 |
| tig0020564 | exon | 8676 | 9407 | 8676 | ID=Msa1383020-mRNA-1:exon:8456;Parent=Msa1383020-mRNA-1 |
| tig0020564 | CDS | 8676 | 9407 | 8676 | ID=Msa1383020-mRNA-1:cds;Parent=Msa1383020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
