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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187020 | XP_024639963.1 | 92.632 | 190 | 14 | 0 | 1 | 190 | 1 | 190 | 9.71e-128 | 367 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187020 | sp|P05332|YP20_BACLI | 32.353 | 170 | 104 | 3 | 21 | 184 | 8 | 172 | 1.25e-19 | 84.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187020 | A0A396HL91 | 68.557 | 194 | 51 | 5 | 1 | 190 | 214 | 401 | 2.22e-78 | 248 |
| Msa0187020 | A0A396HL91 | 92.818 | 181 | 13 | 0 | 1 | 181 | 1 | 181 | 3.69e-119 | 352 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0187020 | TR | GNAT |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012040 | Msa0187020 | 0.800955 | 1.130372e-48 | -8.615850e-47 |
| Msa0044540 | Msa0187020 | -0.803412 | 3.529401e-49 | -8.615850e-47 |
| Msa0052800 | Msa0187020 | 0.815825 | 7.581681e-52 | -8.615850e-47 |
| Msa0054260 | Msa0187020 | 0.844929 | 5.575034e-59 | -8.615850e-47 |
| Msa0054310 | Msa0187020 | 0.825906 | 3.630243e-54 | -8.615850e-47 |
| Msa0055730 | Msa0187020 | 0.800501 | 1.398950e-48 | -8.615850e-47 |
| Msa0081930 | Msa0187020 | 0.812156 | 4.885888e-51 | -8.615850e-47 |
| Msa0100090 | Msa0187020 | 0.858852 | 6.195534e-63 | -8.615850e-47 |
| Msa0109590 | Msa0187020 | 0.806674 | 7.334924e-50 | -8.615850e-47 |
| Msa0141250 | Msa0187020 | 0.825588 | 4.319902e-54 | -8.615850e-47 |
| Msa0148720 | Msa0187020 | 0.810516 | 1.108837e-50 | -8.615850e-47 |
| Msa0165510 | Msa0187020 | 0.806601 | 7.600734e-50 | -8.615850e-47 |
| Msa0173990 | Msa0187020 | 0.842496 | 2.496433e-58 | -8.615850e-47 |
| Msa0187020 | Msa0197660 | 0.857359 | 1.722730e-62 | -8.615850e-47 |
| Msa0187020 | Msa0212310 | 0.820493 | 6.662597e-53 | -8.615850e-47 |
| Msa0187020 | Msa0239800 | 0.851485 | 8.607306e-61 | -8.615850e-47 |
| Msa0187020 | Msa0276920 | 0.808783 | 2.613594e-50 | -8.615850e-47 |
| Msa0187020 | Msa0277820 | 0.838293 | 3.135107e-57 | -8.615850e-47 |
| Msa0187020 | Msa0317510 | 0.853108 | 2.971462e-61 | -8.615850e-47 |
| Msa0187020 | Msa0321080 | 0.802490 | 5.472352e-49 | -8.615850e-47 |
| Msa0187020 | Msa0340450 | 0.808888 | 2.481826e-50 | -8.615850e-47 |
| Msa0187020 | Msa0357760 | 0.805209 | 1.491081e-49 | -8.615850e-47 |
| Msa0187020 | Msa0357830 | 0.820102 | 8.189158e-53 | -8.615850e-47 |
| Msa0187020 | Msa0357840 | 0.809906 | 1.500876e-50 | -8.615850e-47 |
| Msa0187020 | Msa0365780 | 0.804714 | 1.891510e-49 | -8.615850e-47 |
| Msa0187020 | Msa0398380 | 0.826995 | 1.997130e-54 | -8.615850e-47 |
| Msa0187020 | Msa0484780 | 0.837772 | 4.268551e-57 | -8.615850e-47 |
| Msa0187020 | Msa0541040 | 0.806030 | 1.002429e-49 | -8.615850e-47 |
| Msa0187020 | Msa0558690 | 0.804813 | 1.804313e-49 | -8.615850e-47 |
| Msa0187020 | Msa0559160 | 0.804327 | 2.278155e-49 | -8.615850e-47 |
| Msa0187020 | Msa0620620 | 0.806232 | 9.090866e-50 | -8.615850e-47 |
| Msa0187020 | Msa0623080 | 0.811698 | 6.145161e-51 | -8.615850e-47 |
| Msa0187020 | Msa0633840 | 0.810579 | 1.074703e-50 | -8.615850e-47 |
| Msa0187020 | Msa0658990 | 0.813012 | 3.174970e-51 | -8.615850e-47 |
| Msa0187020 | Msa0689010 | 0.803146 | 4.007465e-49 | -8.615850e-47 |
| Msa0187020 | Msa0693380 | 0.827261 | 1.725450e-54 | -8.615850e-47 |
| Msa0187020 | Msa0731180 | 0.812522 | 4.064101e-51 | -8.615850e-47 |
| Msa0187020 | Msa0766630 | 0.808076 | 3.698356e-50 | -8.615850e-47 |
| Msa0187020 | Msa0780400 | 0.801230 | 9.932732e-49 | -8.615850e-47 |
| Msa0187020 | Msa0795080 | 0.828897 | 6.962556e-55 | -8.615850e-47 |
| Msa0187020 | Msa0826760 | 0.805982 | 1.026139e-49 | -8.615850e-47 |
| Msa0187020 | Msa0932100 | 0.810126 | 1.345554e-50 | -8.615850e-47 |
| Msa0187020 | Msa0964130 | 0.807105 | 5.944966e-50 | -8.615850e-47 |
| Msa0187020 | Msa0970230 | 0.810511 | 1.111436e-50 | -8.615850e-47 |
| Msa0187020 | Msa1027290 | 0.817311 | 3.521796e-52 | -8.615850e-47 |
| Msa0187020 | Msa1033410 | -0.801862 | 7.371224e-49 | -8.615850e-47 |
| Msa0187020 | Msa1073070 | -0.822104 | 2.831669e-53 | -8.615850e-47 |
| Msa0187020 | Msa1082500 | 0.852898 | 3.411841e-61 | -8.615850e-47 |
| Msa0187020 | Msa1111750 | 0.806163 | 9.398647e-50 | -8.615850e-47 |
| Msa0187020 | Msa1173170 | 0.809086 | 2.251147e-50 | -8.615850e-47 |
| Msa0187020 | Msa1199220 | 0.808210 | 3.463887e-50 | -8.615850e-47 |
| Msa0187020 | Msa1240180 | 0.805748 | 1.149206e-49 | -8.615850e-47 |
| Msa0187020 | Msa1249490 | 0.812152 | 4.895121e-51 | -8.615850e-47 |
| Msa0187020 | Msa1306750 | 0.802689 | 4.980441e-49 | -8.615850e-47 |
| Msa0187020 | Msa1308620 | 0.809814 | 1.571232e-50 | -8.615850e-47 |
| Msa0187020 | Msa1314170 | 0.810410 | 1.168960e-50 | -8.615850e-47 |
| Msa0187020 | Msa1314340 | 0.803385 | 3.574838e-49 | -8.615850e-47 |
| Msa0187020 | Msa1333410 | 0.818355 | 2.046821e-52 | -8.615850e-47 |
| Msa0187020 | Msa1340270 | 0.800696 | 1.276775e-48 | -8.615850e-47 |
| Msa0187020 | Msa1381960 | 0.832284 | 1.032042e-55 | -8.615850e-47 |
| Msa0187020 | Msa1420140 | 0.806894 | 6.590284e-50 | -8.615850e-47 |
| Msa0187020 | Msa1463670 | 0.811839 | 5.727314e-51 | -8.615850e-47 |
| Msa0187020 | Msa1466540 | 0.810348 | 1.205374e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187020 | MtrunA17_Chr5g0394631 | 92.818 | 181 | 13 | 0 | 1 | 181 | 1 | 181 | 7.10e-123 | 352 |
| Msa0187020 | MtrunA17_Chr5g0394631 | 68.557 | 194 | 51 | 5 | 1 | 190 | 214 | 401 | 4.28e-82 | 248 |
| Msa0187020 | MtrunA17_Chr5g0394621 | 78.421 | 190 | 41 | 0 | 1 | 190 | 1 | 190 | 1.18e-107 | 306 |
| Msa0187020 | MtrunA17_Chr1g0204951 | 61.458 | 192 | 70 | 2 | 1 | 190 | 1 | 190 | 4.66e-83 | 244 |
| Msa0187020 | MtrunA17_Chr1g0204971 | 59.375 | 192 | 74 | 2 | 1 | 190 | 1 | 190 | 4.91e-80 | 236 |
| Msa0187020 | MtrunA17_Chr7g0273661 | 41.667 | 156 | 88 | 1 | 17 | 172 | 4 | 156 | 2.59e-42 | 139 |
| Msa0187020 | MtrunA17_Chr7g0223361 | 39.080 | 174 | 96 | 3 | 17 | 187 | 4 | 170 | 2.65e-37 | 127 |
| Msa0187020 | MtrunA17_Chr7g0223351 | 39.286 | 168 | 97 | 3 | 20 | 187 | 7 | 169 | 5.08e-36 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187020 | AT2G32030.1 | 51.190 | 168 | 75 | 3 | 21 | 187 | 24 | 185 | 2.54e-58 | 181 |
| Msa0187020 | AT2G32020.1 | 46.561 | 189 | 84 | 4 | 2 | 187 | 6 | 180 | 3.26e-54 | 171 |
| Msa0187020 | AT3G22560.1 | 40.237 | 169 | 96 | 2 | 21 | 187 | 7 | 172 | 3.12e-37 | 127 |
Find 38 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTAAGAATTCCTTCCTTC+TGG | 0.242611 | 2_1:+1757873 | None:intergenic |
| ACAGAACTTGCCTATGTTCT+AGG | 0.250597 | 2_1:-1758046 | Msa0187020:CDS |
| GTTGATGCCTTGTTCTTTGC+TGG | 0.260002 | 2_1:+1758189 | None:intergenic |
| ATGTTCTAGGATCTAAATAT+TGG | 0.302360 | 2_1:-1758033 | Msa0187020:CDS |
| CCTTGTTCTTTGCTGGTGTA+TGG | 0.318147 | 2_1:+1758196 | None:intergenic |
| TGTTCTAGGATCTAAATATT+GGG | 0.318462 | 2_1:-1758032 | Msa0187020:CDS |
| TGCCTTAATGATCGTGCTAT+TGG | 0.357294 | 2_1:-1758121 | Msa0187020:CDS |
| ATATACCAAACAAATTTCTA+TGG | 0.388477 | 2_1:-1758156 | Msa0187020:CDS |
| TCCAGAAGGAAGGAATTCTT+AGG | 0.397920 | 2_1:-1757874 | Msa0187020:CDS |
| GGCCAATAGCACGATCATTA+AGG | 0.403869 | 2_1:+1758119 | None:intergenic |
| TTGCACCATAGAAATTTGTT+TGG | 0.404833 | 2_1:+1758151 | None:intergenic |
| TTGTTGATGTTGAAAATGTT+GGG | 0.408191 | 2_1:-1757925 | Msa0187020:CDS |
| GAAAAGGTCGGAGTGCGATT+TGG | 0.410859 | 2_1:+1758290 | None:intergenic |
| CCAAACAAATAAATCATAGT+TGG | 0.419913 | 2_1:+1757786 | None:intergenic |
| TTCTGACCTTGATGAGCTCC+TGG | 0.433077 | 2_1:-1758263 | Msa0187020:CDS |
| TTTGTTGATGTTGAAAATGT+TGG | 0.442167 | 2_1:-1757926 | Msa0187020:CDS |
| AGTGGCCAAGTTCTGCTCTT+GGG | 0.462852 | 2_1:-1758221 | Msa0187020:CDS |
| AAGTGGCCAAGTTCTGCTCT+TGG | 0.474319 | 2_1:-1758222 | Msa0187020:CDS |
| GGATCTAAATATTGGGGTAA+AGG | 0.475846 | 2_1:-1758025 | Msa0187020:CDS |
| AGGAAGTATTTGTTCATGAA+AGG | 0.475944 | 2_1:-1757854 | Msa0187020:CDS |
| TTTCATCAGCTCTCCATACC+AGG | 0.488476 | 2_1:+1758245 | None:intergenic |
| CAAAGAGTGTTGGAGAAAGC+TGG | 0.497277 | 2_1:-1757899 | Msa0187020:CDS |
| TCAAGGTCAGAAAGATGAAA+AGG | 0.513299 | 2_1:+1758274 | None:intergenic |
| ATATTTAGATCCTAGAACAT+AGG | 0.519203 | 2_1:+1758036 | None:intergenic |
| ACCTTGATGAGCTCCTGGTA+TGG | 0.539184 | 2_1:-1758258 | Msa0187020:CDS |
| GATCACCTCATGATAAAAGC+AGG | 0.555612 | 2_1:-1758078 | Msa0187020:CDS |
| TCCATACCAGGAGCTCATCA+AGG | 0.558283 | 2_1:+1758257 | None:intergenic |
| TGTTGGGTCTCAAAGAGTGT+TGG | 0.566749 | 2_1:-1757909 | Msa0187020:CDS |
| TGGTTCCCAAGAGCAGAACT+TGG | 0.574822 | 2_1:+1758216 | None:intergenic |
| GTTCTAGGATCTAAATATTG+GGG | 0.601221 | 2_1:-1758031 | Msa0187020:CDS |
| CCATACACCAGCAAAGAACA+AGG | 0.601334 | 2_1:-1758196 | Msa0187020:CDS |
| GGAGAAAGCTGGTTTCCAGA+AGG | 0.617484 | 2_1:-1757888 | Msa0187020:CDS |
| AACTTGTTTCACAACATACG+TGG | 0.623050 | 2_1:+1757997 | None:intergenic |
| AAAGCTGGTTTCCAGAAGGA+AGG | 0.623258 | 2_1:-1757884 | Msa0187020:CDS |
| GGTCAGAAAGATGAAAAGGT+CGG | 0.638104 | 2_1:+1758278 | None:intergenic |
| TGTTGTGAAACAAGTTGTCA+AGG | 0.644645 | 2_1:-1757990 | Msa0187020:CDS |
| TTTATTTCTTCCAAACCAGG+TGG | 0.661410 | 2_1:-1758337 | Msa0187020:CDS |
| ATCTTGATTTCAGAGAAACA+CGG | 0.706701 | 2_1:+1758098 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATACCAAACAAATTTCTA+TGG | - | chr2_1:1757992-1758011 | Msa0187020:CDS | 20.0% |
| ! | ATATTTAGATCCTAGAACAT+AGG | + | chr2_1:1758115-1758134 | None:intergenic | 25.0% |
| !!! | ATGTTCTAGGATCTAAATAT+TGG | - | chr2_1:1758115-1758134 | Msa0187020:CDS | 25.0% |
| !!! | TGTTCTAGGATCTAAATATT+GGG | - | chr2_1:1758116-1758135 | Msa0187020:CDS | 25.0% |
| ! | TTTGTTGATGTTGAAAATGT+TGG | - | chr2_1:1758222-1758241 | Msa0187020:CDS | 25.0% |
| ! | TTGTTGATGTTGAAAATGTT+GGG | - | chr2_1:1758223-1758242 | Msa0187020:CDS | 25.0% |
| !! | ACTTTTATTTCTTCCAAACC+AGG | - | chr2_1:1757808-1757827 | Msa0187020:CDS | 30.0% |
| ! | TTGCACCATAGAAATTTGTT+TGG | + | chr2_1:1758000-1758019 | None:intergenic | 30.0% |
| ATCTTGATTTCAGAGAAACA+CGG | + | chr2_1:1758053-1758072 | None:intergenic | 30.0% | |
| !! | GTTCTAGGATCTAAATATTG+GGG | - | chr2_1:1758117-1758136 | Msa0187020:CDS | 30.0% |
| !! | AGGAAGTATTTGTTCATGAA+AGG | - | chr2_1:1758294-1758313 | Msa0187020:CDS | 30.0% |
| ! | TTTATTTCTTCCAAACCAGG+TGG | - | chr2_1:1757811-1757830 | Msa0187020:CDS | 35.0% |
| TCAAGGTCAGAAAGATGAAA+AGG | + | chr2_1:1757877-1757896 | None:intergenic | 35.0% | |
| !! | TTGTTCCTGCTTTTATCATG+AGG | + | chr2_1:1758078-1758097 | None:intergenic | 35.0% |
| GGATCTAAATATTGGGGTAA+AGG | - | chr2_1:1758123-1758142 | Msa0187020:CDS | 35.0% | |
| ! | AACTTGTTTCACAACATACG+TGG | + | chr2_1:1758154-1758173 | None:intergenic | 35.0% |
| TGTTGTGAAACAAGTTGTCA+AGG | - | chr2_1:1758158-1758177 | Msa0187020:CDS | 35.0% | |
| GGTCAGAAAGATGAAAAGGT+CGG | + | chr2_1:1757873-1757892 | None:intergenic | 40.0% | |
| ATGGAGAGCTGATGAAAAAG+TGG | - | chr2_1:1757909-1757928 | Msa0187020:CDS | 40.0% | |
| TGCCTTAATGATCGTGCTAT+TGG | - | chr2_1:1758027-1758046 | Msa0187020:CDS | 40.0% | |
| GATCACCTCATGATAAAAGC+AGG | - | chr2_1:1758070-1758089 | Msa0187020:CDS | 40.0% | |
| ACAGAACTTGCCTATGTTCT+AGG | - | chr2_1:1758102-1758121 | Msa0187020:CDS | 40.0% | |
| TCCAGAAGGAAGGAATTCTT+AGG | - | chr2_1:1758274-1758293 | Msa0187020:CDS | 40.0% | |
| TCCTAAGAATTCCTTCCTTC+TGG | + | chr2_1:1758278-1758297 | None:intergenic | 40.0% | |
| ! | CTTTTCATTGCCACCTGGTT+TGG | + | chr2_1:1757824-1757843 | None:intergenic | 45.0% |
| ! | ATGCTCTTTTCATTGCCACC+TGG | + | chr2_1:1757829-1757848 | None:intergenic | 45.0% |
| TTTCATCAGCTCTCCATACC+AGG | + | chr2_1:1757906-1757925 | None:intergenic | 45.0% | |
| CCTTGTTCTTTGCTGGTGTA+TGG | + | chr2_1:1757955-1757974 | None:intergenic | 45.0% | |
| CCATACACCAGCAAAGAACA+AGG | - | chr2_1:1757952-1757971 | Msa0187020:CDS | 45.0% | |
| ! | GTTGATGCCTTGTTCTTTGC+TGG | + | chr2_1:1757962-1757981 | None:intergenic | 45.0% |
| GGCCAATAGCACGATCATTA+AGG | + | chr2_1:1758032-1758051 | None:intergenic | 45.0% | |
| ! | TGTTGGGTCTCAAAGAGTGT+TGG | - | chr2_1:1758239-1758258 | Msa0187020:CDS | 45.0% |
| !! | CAAAGAGTGTTGGAGAAAGC+TGG | - | chr2_1:1758249-1758268 | Msa0187020:CDS | 45.0% |
| ! | AAAGCTGGTTTCCAGAAGGA+AGG | - | chr2_1:1758264-1758283 | Msa0187020:CDS | 45.0% |
| GAAAAGGTCGGAGTGCGATT+TGG | + | chr2_1:1757861-1757880 | None:intergenic | 50.0% | |
| TTCTGACCTTGATGAGCTCC+TGG | - | chr2_1:1757885-1757904 | Msa0187020:CDS | 50.0% | |
| ACCTTGATGAGCTCCTGGTA+TGG | - | chr2_1:1757890-1757909 | Msa0187020:CDS | 50.0% | |
| TCCATACCAGGAGCTCATCA+AGG | + | chr2_1:1757894-1757913 | None:intergenic | 50.0% | |
| AAGTGGCCAAGTTCTGCTCT+TGG | - | chr2_1:1757926-1757945 | Msa0187020:CDS | 50.0% | |
| AGTGGCCAAGTTCTGCTCTT+GGG | - | chr2_1:1757927-1757946 | Msa0187020:CDS | 50.0% | |
| TGGTTCCCAAGAGCAGAACT+TGG | + | chr2_1:1757935-1757954 | None:intergenic | 50.0% | |
| ! | GGAGAAAGCTGGTTTCCAGA+AGG | - | chr2_1:1758260-1758279 | Msa0187020:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 1757799 | 1758371 | 1757799 | ID=Msa0187020;Name=Msa0187020 |
| chr2_1 | mRNA | 1757799 | 1758371 | 1757799 | ID=Msa0187020-mRNA-1;Parent=Msa0187020;Name=Msa0187020-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|190 |
| chr2_1 | exon | 1757799 | 1758371 | 1757799 | ID=Msa0187020-mRNA-1:exon:775;Parent=Msa0187020-mRNA-1 |
| chr2_1 | CDS | 1757799 | 1758371 | 1757799 | ID=Msa0187020-mRNA-1:cds;Parent=Msa0187020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
