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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018238.01.T01 | XP_013454569.1 | 96.203 | 237 | 9 | 0 | 1 | 237 | 1 | 237 | 5.18E-167 | 478 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018238.01.T01 | Q8S8P3 | 50.279 | 179 | 87 | 1 | 59 | 237 | 57 | 233 | 4.69E-54 | 182 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018238.01.T01 | A0A072URV1 | 96.203 | 237 | 9 | 0 | 1 | 237 | 1 | 237 | 2.47e-167 | 478 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048058.01 | MsG0480018238.01 | 0.800090 | 1.696177e-48 | 7.828491e-46 |
| MsG0180005188.01 | MsG0480018238.01 | 0.804749 | 1.860802e-49 | 9.672241e-47 |
| MsG0280011293.01 | MsG0480018238.01 | 0.800399 | 1.467831e-48 | 6.827896e-46 |
| MsG0480018238.01 | MsG0480022738.01 | 0.816619 | 5.038359e-52 | 3.587785e-49 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018238.01.T01 | MTR_4g008010 | 96.203 | 237 | 9 | 0 | 1 | 237 | 1 | 237 | 6.27e-171 | 478 |
| MsG0480018238.01.T01 | MTR_4g022240 | 49.721 | 179 | 90 | 0 | 59 | 237 | 71 | 249 | 1.69e-55 | 184 |
| MsG0480018238.01.T01 | MTR_1g108280 | 47.917 | 192 | 100 | 0 | 46 | 237 | 35 | 226 | 3.25e-55 | 182 |
| MsG0480018238.01.T01 | MTR_1g046740 | 45.556 | 180 | 98 | 0 | 58 | 237 | 93 | 272 | 9.09e-52 | 174 |
| MsG0480018238.01.T01 | MTR_4g114140 | 43.575 | 179 | 101 | 0 | 59 | 237 | 73 | 251 | 3.76e-50 | 169 |
| MsG0480018238.01.T01 | MTR_6g011080 | 44.444 | 180 | 100 | 0 | 58 | 237 | 84 | 263 | 2.79e-49 | 168 |
| MsG0480018238.01.T01 | MTR_0072s0020 | 45.251 | 179 | 98 | 0 | 59 | 237 | 87 | 265 | 5.71e-48 | 164 |
| MsG0480018238.01.T01 | MTR_2g085300 | 40.933 | 193 | 112 | 1 | 47 | 237 | 67 | 259 | 2.53e-45 | 157 |
| MsG0480018238.01.T01 | MTR_7g086720 | 40.331 | 181 | 107 | 1 | 57 | 237 | 50 | 229 | 5.74e-41 | 145 |
| MsG0480018238.01.T01 | MTR_0662s0030 | 42.336 | 137 | 79 | 0 | 101 | 237 | 16 | 152 | 3.57e-36 | 130 |
| MsG0480018238.01.T01 | MTR_6g027550 | 39.310 | 145 | 87 | 1 | 93 | 237 | 1 | 144 | 2.10e-31 | 118 |
| MsG0480018238.01.T01 | MTR_4g036245 | 59.322 | 59 | 24 | 0 | 68 | 126 | 6 | 64 | 1.87e-13 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480018238.01.T01 | AT2G37585 | 50.279 | 179 | 87 | 1 | 59 | 237 | 57 | 233 | 4.78e-55 | 182 |
| MsG0480018238.01.T01 | AT1G71070 | 45.455 | 187 | 102 | 0 | 51 | 237 | 39 | 225 | 1.59e-54 | 181 |
| MsG0480018238.01.T01 | AT3G24040 | 43.333 | 180 | 102 | 0 | 58 | 237 | 66 | 245 | 3.28e-51 | 172 |
| MsG0480018238.01.T01 | AT3G15350 | 41.026 | 195 | 113 | 1 | 59 | 251 | 79 | 273 | 1.59e-49 | 168 |
| MsG0480018238.01.T01 | AT3G15350 | 41.026 | 195 | 113 | 1 | 59 | 251 | 79 | 273 | 1.59e-49 | 168 |
| MsG0480018238.01.T01 | AT5G15050 | 43.503 | 177 | 100 | 0 | 61 | 237 | 88 | 264 | 2.08e-49 | 168 |
| MsG0480018238.01.T01 | AT4G27480 | 34.231 | 260 | 159 | 4 | 1 | 251 | 16 | 272 | 2.15e-47 | 163 |
| MsG0480018238.01.T01 | AT4G27480 | 34.231 | 260 | 159 | 4 | 1 | 251 | 16 | 272 | 2.15e-47 | 163 |
| MsG0480018238.01.T01 | AT4G27480 | 34.231 | 260 | 159 | 4 | 1 | 251 | 16 | 272 | 2.15e-47 | 163 |
| MsG0480018238.01.T01 | AT1G03520 | 42.222 | 180 | 104 | 0 | 58 | 237 | 11 | 190 | 5.08e-47 | 160 |
| MsG0480018238.01.T01 | AT4G03340 | 36.929 | 241 | 143 | 1 | 6 | 237 | 40 | 280 | 3.28e-46 | 160 |
| MsG0480018238.01.T01 | AT1G03520 | 42.222 | 180 | 104 | 0 | 58 | 237 | 100 | 279 | 3.65e-46 | 160 |
| MsG0480018238.01.T01 | AT1G53100 | 39.378 | 193 | 117 | 0 | 59 | 251 | 81 | 273 | 8.95e-46 | 158 |
| MsG0480018238.01.T01 | AT1G53100 | 39.378 | 193 | 117 | 0 | 59 | 251 | 81 | 273 | 1.05e-45 | 158 |
| MsG0480018238.01.T01 | AT5G39990 | 42.541 | 181 | 104 | 0 | 58 | 238 | 98 | 278 | 1.69e-45 | 158 |
| MsG0480018238.01.T01 | AT3G03690 | 40.782 | 179 | 105 | 1 | 59 | 237 | 52 | 229 | 3.82e-45 | 156 |
| MsG0480018238.01.T01 | AT3G03690 | 45.926 | 135 | 72 | 1 | 59 | 193 | 52 | 185 | 4.39e-39 | 135 |
| MsG0480018238.01.T01 | AT4G03340 | 34.855 | 241 | 125 | 2 | 6 | 237 | 40 | 257 | 2.37e-38 | 139 |
Find 29 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAAGTAGGTATTGATTTCT+TGG | 0.237260 | 4:-2042463 | None:intergenic |
| TTTGATACAAGAACTTTCTT+AGG | 0.243250 | 4:-2042346 | None:intergenic |
| ACCCTCCTGTGTTTGCATAT+TGG | 0.270362 | 4:+2042380 | MsG0480018238.01.T01:CDS |
| TCTTTATGTTAAATCTCATA+TGG | 0.362139 | 4:+2042528 | MsG0480018238.01.T01:CDS |
| TTCTTAAAGTGAACTCAGAT+TGG | 0.364880 | 4:+2042653 | MsG0480018238.01.T01:CDS |
| CGAAATATCTTAAAAGCATC+AGG | 0.395787 | 4:-2043437 | None:intergenic |
| TTCATCTGACTCTGAAAGAA+TGG | 0.396026 | 4:+2042498 | MsG0480018238.01.T01:CDS |
| GTTCTTGTATCAAAAGGAAA+AGG | 0.410019 | 4:+2042355 | MsG0480018238.01.T01:CDS |
| TTTGGAAATGTGAATGTTGT+TGG | 0.420114 | 4:+2042562 | MsG0480018238.01.T01:CDS |
| TTCACTTTACTTTGCTGTTG+AGG | 0.427499 | 4:+2043403 | MsG0480018238.01.T01:CDS |
| AGGATAATCAGAAGCACTTA+AGG | 0.432512 | 4:-2042689 | None:intergenic |
| TCTTAAAGTGAACTCAGATT+GGG | 0.446945 | 4:+2042654 | MsG0480018238.01.T01:CDS |
| GTGGCATAATAAGAGACATT+AGG | 0.454806 | 4:-2042292 | None:intergenic |
| AAGAAAGTTCTTGTATCAAA+AGG | 0.456719 | 4:+2042349 | MsG0480018238.01.T01:CDS |
| AAAAGCATCAGGAGTATCTC+TGG | 0.483957 | 4:-2043426 | None:intergenic |
| GAGTTATGCTATAAATAAGA+TGG | 0.488641 | 4:+2042588 | MsG0480018238.01.T01:CDS |
| AAGTGAACTCAGATTGGGAT+TGG | 0.490417 | 4:+2042659 | MsG0480018238.01.T01:CDS |
| TTGGAAATGTGAATGTTGTT+GGG | 0.500679 | 4:+2042563 | MsG0480018238.01.T01:CDS |
| ACGAAACATGAATCAAATAG+TGG | 0.530778 | 4:+2043349 | MsG0480018238.01.T01:CDS |
| TTCTTGTATCAAAAGGAAAA+GGG | 0.548049 | 4:+2042356 | MsG0480018238.01.T01:CDS |
| AACAATCATCAAGTTGAAGT+AGG | 0.561168 | 4:-2042477 | None:intergenic |
| TATCCTCTCATGACTCAAGA+TGG | 0.577861 | 4:+2042706 | MsG0480018238.01.T01:CDS |
| AGTTATGCTATAAATAAGAT+GGG | 0.580674 | 4:+2042589 | MsG0480018238.01.T01:CDS |
| TCCAATATGCAAACACAGGA+GGG | 0.581232 | 4:-2042381 | None:intergenic |
| TTGTTGTAAATTTGTGACTG+TGG | 0.611883 | 4:-2042311 | None:intergenic |
| ATCCAATATGCAAACACAGG+AGG | 0.613366 | 4:-2042382 | None:intergenic |
| AAAATCCAATATGCAAACAC+AGG | 0.629532 | 4:-2042385 | None:intergenic |
| GTAGGGATGTGAAAGCATGA+AGG | 0.648655 | 4:-2043108 | None:intergenic |
| ATACCATCTTGAGTCATGAG+AGG | 0.674036 | 4:-2042709 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCATATTTTTGTTTTTTAGT+CGG | + | Chr4:2042865-2042884 | MsG0480018238.01.T01:intron | 15.0% |
| !! | AGTTATGCTATAAATAAGAT+GGG | + | Chr4:2042589-2042608 | MsG0480018238.01.T01:CDS | 20.0% |
| !! | ATAGTGAATGTTGTAAAAAT+GGG | + | Chr4:2043263-2043282 | MsG0480018238.01.T01:intron | 20.0% |
| !! | TAAGTAATTTCCAAGTTATA+AGG | + | Chr4:2043181-2043200 | MsG0480018238.01.T01:intron | 20.0% |
| !! | TCTTTATGTTAAATCTCATA+TGG | + | Chr4:2042528-2042547 | MsG0480018238.01.T01:CDS | 20.0% |
| !!! | ATGAATAAAGTTGAGATTTT+TGG | - | Chr4:2043134-2043153 | None:intergenic | 20.0% |
| !!! | CATATGGTTTTTGAAAAATT+TGG | + | Chr4:2042544-2042563 | MsG0480018238.01.T01:CDS | 20.0% |
| !!! | TGAATAAAGTTGAGATTTTT+GGG | - | Chr4:2043133-2043152 | None:intergenic | 20.0% |
| !!! | TTTTGAGTTGATAAAGTAAA+TGG | + | Chr4:2042836-2042855 | MsG0480018238.01.T01:intron | 20.0% |
| ! | AAGAAAGTTCTTGTATCAAA+AGG | + | Chr4:2042349-2042368 | MsG0480018238.01.T01:CDS | 25.0% |
| ! | AATTTCGTTTCTTATCTCAT+AGG | - | Chr4:2043009-2043028 | None:intergenic | 25.0% |
| ! | ATAATCGAAACCTTATAACT+TGG | - | Chr4:2043194-2043213 | None:intergenic | 25.0% |
| ! | ATTTCGTTTCTTATCTCATA+GGG | - | Chr4:2043008-2043027 | None:intergenic | 25.0% |
| ! | CATAGTGAATGTTGTAAAAA+TGG | + | Chr4:2043262-2043281 | MsG0480018238.01.T01:intron | 25.0% |
| ! | GAGTTATGCTATAAATAAGA+TGG | + | Chr4:2042588-2042607 | MsG0480018238.01.T01:CDS | 25.0% |
| ! | GTAACATGGGATTATAATTA+AGG | - | Chr4:2043219-2043238 | None:intergenic | 25.0% |
| ! | TAAAACTGTGTTTGTAACAT+GGG | - | Chr4:2043232-2043251 | None:intergenic | 25.0% |
| ! | TTAAAACTGTGTTTGTAACA+TGG | - | Chr4:2043233-2043252 | None:intergenic | 25.0% |
| ! | TTCTTGTATCAAAAGGAAAA+GGG | + | Chr4:2042356-2042375 | MsG0480018238.01.T01:CDS | 25.0% |
| ! | TTTGATACAAGAACTTTCTT+AGG | - | Chr4:2042349-2042368 | None:intergenic | 25.0% |
| !! | TCTTTTCTTCATGTAAACTT+GGG | - | Chr4:2043379-2043398 | None:intergenic | 25.0% |
| !!! | AATGTGATCACTATCTTTTT+TGG | - | Chr4:2043060-2043079 | None:intergenic | 25.0% |
| AAAATCCAATATGCAAACAC+AGG | - | Chr4:2042388-2042407 | None:intergenic | 30.0% | |
| ACGAAACATGAATCAAATAG+TGG | + | Chr4:2043349-2043368 | MsG0480018238.01.T01:CDS | 30.0% | |
| GTTCTTGTATCAAAAGGAAA+AGG | + | Chr4:2042355-2042374 | MsG0480018238.01.T01:CDS | 30.0% | |
| TCTTAAAGTGAACTCAGATT+GGG | + | Chr4:2042654-2042673 | MsG0480018238.01.T01:CDS | 30.0% | |
| TTCTTAAAGTGAACTCAGAT+TGG | + | Chr4:2042653-2042672 | MsG0480018238.01.T01:CDS | 30.0% | |
| TTGGAAATGTGAATGTTGTT+GGG | + | Chr4:2042563-2042582 | MsG0480018238.01.T01:CDS | 30.0% | |
| TTGTTGTAAATTTGTGACTG+TGG | - | Chr4:2042314-2042333 | None:intergenic | 30.0% | |
| TTTGGAAATGTGAATGTTGT+TGG | + | Chr4:2042562-2042581 | MsG0480018238.01.T01:CDS | 30.0% | |
| ! | AGTCATCTTAAATTTTCCGT+CGG | + | Chr4:2042909-2042928 | MsG0480018238.01.T01:intron | 30.0% |
| ! | CTCTTTTCTTCATGTAAACT+TGG | - | Chr4:2043380-2043399 | None:intergenic | 30.0% |
| ! | GTGTTTGCATATTGGATTTT+CGG | + | Chr4:2042388-2042407 | MsG0480018238.01.T01:CDS | 30.0% |
| !! | AACAATCATCAAGTTGAAGT+AGG | - | Chr4:2042480-2042499 | None:intergenic | 30.0% |
| !! | AATAGTTGATGACATTATGC+AGG | + | Chr4:2043324-2043343 | MsG0480018238.01.T01:intron | 30.0% |
| !! | CGAAATATCTTAAAAGCATC+AGG | - | Chr4:2043440-2043459 | None:intergenic | 30.0% |
| !! | TGAAGTAGGTATTGATTTCT+TGG | - | Chr4:2042466-2042485 | None:intergenic | 30.0% |
| !!! | AAAGTTGAGATTTTTGGGTA+GGG | - | Chr4:2043128-2043147 | None:intergenic | 30.0% |
| !!! | GATGCTTTTAAGATATTTCG+AGG | + | Chr4:2043440-2043459 | MsG0480018238.01.T01:CDS | 30.0% |
| !!! | TAAAGTTGAGATTTTTGGGT+AGG | - | Chr4:2043129-2043148 | None:intergenic | 30.0% |
| ACACAAACTAAAAATGCCGA+CGG | - | Chr4:2042928-2042947 | None:intergenic | 35.0% | |
| GTGGCATAATAAGAGACATT+AGG | - | Chr4:2042295-2042314 | None:intergenic | 35.0% | |
| TCAATCTGTGACAAAACTCA+TGG | - | Chr4:2042803-2042822 | None:intergenic | 35.0% | |
| ! | TTCATCTGACTCTGAAAGAA+TGG | + | Chr4:2042498-2042517 | MsG0480018238.01.T01:CDS | 35.0% |
| !! | AGGATAATCAGAAGCACTTA+AGG | - | Chr4:2042692-2042711 | None:intergenic | 35.0% |
| !! | TTCACTTTACTTTGCTGTTG+AGG | + | Chr4:2043403-2043422 | MsG0480018238.01.T01:CDS | 35.0% |
| AAGTGAACTCAGATTGGGAT+TGG | + | Chr4:2042659-2042678 | MsG0480018238.01.T01:CDS | 40.0% | |
| ATACCATCTTGAGTCATGAG+AGG | - | Chr4:2042712-2042731 | None:intergenic | 40.0% | |
| ATCCAATATGCAAACACAGG+AGG | - | Chr4:2042385-2042404 | None:intergenic | 40.0% | |
| TATCCTCTCATGACTCAAGA+TGG | + | Chr4:2042706-2042725 | MsG0480018238.01.T01:CDS | 40.0% | |
| TCCAATATGCAAACACAGGA+GGG | - | Chr4:2042384-2042403 | None:intergenic | 40.0% | |
| ! | TATTGGATTTTCGGCACGAA+AGG | + | Chr4:2042397-2042416 | MsG0480018238.01.T01:CDS | 40.0% |
| !! | AAAAGCATCAGGAGTATCTC+TGG | - | Chr4:2043429-2043448 | None:intergenic | 40.0% |
| ACCCTCCTGTGTTTGCATAT+TGG | + | Chr4:2042380-2042399 | MsG0480018238.01.T01:CDS | 45.0% | |
| ! | GTAGGGATGTGAAAGCATGA+AGG | - | Chr4:2043111-2043130 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr4 | gene | 2042211 | 2043535 | 2042211 | ID=MsG0480018238.01;Name=MsG0480018238.01 |
| Chr4 | mRNA | 2042211 | 2043535 | 2042211 | ID=MsG0480018238.01.T01;Parent=MsG0480018238.01;Name=MsG0480018238.01.T01;_AED=0.47;_eAED=0.51;_QI=0|0|0|1|1|1|3|0|260 |
| Chr4 | exon | 2042211 | 2042727 | 2042211 | ID=MsG0480018238.01.T01:exon:650;Parent=MsG0480018238.01.T01 |
| Chr4 | exon | 2043104 | 2043179 | 2043104 | ID=MsG0480018238.01.T01:exon:651;Parent=MsG0480018238.01.T01 |
| Chr4 | exon | 2043346 | 2043535 | 2043346 | ID=MsG0480018238.01.T01:exon:652;Parent=MsG0480018238.01.T01 |
| Chr4 | CDS | 2042211 | 2042727 | 2042211 | ID=MsG0480018238.01.T01:cds;Parent=MsG0480018238.01.T01 |
| Chr4 | CDS | 2043104 | 2043179 | 2043104 | ID=MsG0480018238.01.T01:cds;Parent=MsG0480018238.01.T01 |
| Chr4 | CDS | 2043346 | 2043535 | 2043346 | ID=MsG0480018238.01.T01:cds;Parent=MsG0480018238.01.T01 |
| Gene Sequence |
| Protein sequence |
