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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344330 | YP_009141600.1 | 100.000 | 201 | 0 | 0 | 1 | 201 | 1 | 201 | 3.55e-143 | 407 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344330 | sp|Q9BBT5|RR4_LOTJA | 95.522 | 201 | 9 | 0 | 1 | 201 | 1 | 201 | 8.95e-140 | 391 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344330 | A0A0F6NLD0 | 100.000 | 201 | 0 | 0 | 1 | 201 | 1 | 201 | 1.70e-143 | 407 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0095210 | Msa0344330 | 0.807309 | 5.383280e-50 | -8.615850e-47 |
| Msa0173880 | Msa0344330 | 0.800069 | 1.713076e-48 | -8.615850e-47 |
| Msa0268170 | Msa0344330 | 0.806812 | 6.858653e-50 | -8.615850e-47 |
| Msa0268190 | Msa0344330 | 0.813365 | 2.655302e-51 | -8.615850e-47 |
| Msa0268390 | Msa0344330 | 0.808607 | 2.850888e-50 | -8.615850e-47 |
| Msa0268400 | Msa0344330 | 0.812606 | 3.894945e-51 | -8.615850e-47 |
| Msa0268410 | Msa0344330 | 0.812553 | 4.001191e-51 | -8.615850e-47 |
| Msa0268430 | Msa0344330 | 0.804204 | 2.417039e-49 | -8.615850e-47 |
| Msa0268550 | Msa0344330 | 0.811230 | 7.767826e-51 | -8.615850e-47 |
| Msa0268560 | Msa0344330 | 0.809139 | 2.192768e-50 | -8.615850e-47 |
| Msa0268630 | Msa0344330 | 0.802495 | 5.459261e-49 | -8.615850e-47 |
| Msa0268720 | Msa0344330 | 0.814350 | 1.611418e-51 | -8.615850e-47 |
| Msa0268740 | Msa0344330 | 0.802352 | 5.843120e-49 | -8.615850e-47 |
| Msa0268840 | Msa0344330 | 0.810797 | 9.638610e-51 | -8.615850e-47 |
| Msa0268860 | Msa0344330 | 0.800423 | 1.451059e-48 | -8.615850e-47 |
| Msa0268920 | Msa0344330 | 0.801146 | 1.033377e-48 | -8.615850e-47 |
| Msa0268940 | Msa0344330 | 0.815713 | 8.026974e-52 | -8.615850e-47 |
| Msa0269050 | Msa0344330 | 0.801632 | 8.215580e-49 | -8.615850e-47 |
| Msa0269070 | Msa0344330 | 0.800051 | 1.727436e-48 | -8.615850e-47 |
| Msa0344190 | Msa0344330 | 0.815481 | 9.041355e-52 | -8.615850e-47 |
| Msa0344280 | Msa0344330 | 0.802076 | 6.661299e-49 | -8.615850e-47 |
| Msa0344300 | Msa0344330 | 0.813545 | 2.424076e-51 | -8.615850e-47 |
| Msa0344330 | Msa0582520 | 0.808475 | 3.041665e-50 | -8.615850e-47 |
| Msa0344330 | Msa0582690 | 0.801807 | 7.565423e-49 | -8.615850e-47 |
| Msa0344330 | Msa0582700 | 0.813923 | 2.002226e-51 | -8.615850e-47 |
| Msa0344330 | Msa0582750 | 0.809453 | 1.878537e-50 | -8.615850e-47 |
| Msa0344330 | Msa0582820 | 0.816520 | 5.300878e-52 | -8.615850e-47 |
| Msa0344330 | Msa0582910 | 0.801618 | 8.271340e-49 | -8.615850e-47 |
| Msa0344330 | Msa0867640 | 0.812615 | 3.878975e-51 | -8.615850e-47 |
| Msa0344330 | Msa0867650 | 0.806900 | 6.570568e-50 | -8.615850e-47 |
| Msa0344330 | Msa0924990 | 0.817407 | 3.350711e-52 | -8.615850e-47 |
| Msa0344330 | Msa0931080 | 0.801529 | 8.624430e-49 | -8.615850e-47 |
| Msa0344330 | Msa0931100 | 0.815943 | 7.134556e-52 | -8.615850e-47 |
| Msa0344330 | Msa0931130 | 0.803755 | 2.996801e-49 | -8.615850e-47 |
| Msa0344330 | Msa0931140 | 0.816260 | 6.060784e-52 | -8.615850e-47 |
| Msa0344330 | Msa0931160 | 0.802420 | 5.658915e-49 | -8.615850e-47 |
| Msa0344330 | Msa0931190 | 0.808793 | 2.600726e-50 | -8.615850e-47 |
| Msa0344330 | Msa0983720 | 0.816041 | 6.783914e-52 | -8.615850e-47 |
| Msa0344330 | Msa1086070 | 0.801113 | 1.049516e-48 | -8.615850e-47 |
| Msa0344330 | Msa1086140 | 0.808751 | 2.655539e-50 | -8.615850e-47 |
| Msa0344330 | Msa1086150 | 0.811384 | 7.193738e-51 | -8.615850e-47 |
| Msa0344330 | Msa1086180 | 0.809829 | 1.559399e-50 | -8.615850e-47 |
| Msa0344330 | Msa1086280 | 0.813802 | 2.128816e-51 | -8.615850e-47 |
| Msa0344330 | Msa1086380 | 0.809550 | 1.789996e-50 | -8.615850e-47 |
| Msa0344330 | Msa1086450 | 0.819318 | 1.236583e-52 | -8.615850e-47 |
| Msa0344330 | Msa1086470 | 0.805830 | 1.104574e-49 | -8.615850e-47 |
| Msa0344330 | Msa1086880 | 0.811474 | 6.877684e-51 | -8.615850e-47 |
| Msa0344330 | Msa1143130 | 0.813133 | 2.985851e-51 | -8.615850e-47 |
| Msa0344330 | Msa1269420 | 0.823511 | 1.331758e-53 | -8.615850e-47 |
| Msa0344330 | Msa1354350 | 0.851407 | 9.055658e-61 | -8.615850e-47 |
| Msa0344330 | Msa1354380 | 0.836574 | 8.642709e-57 | -8.615850e-47 |
| Msa0344330 | Msa1354390 | 0.863052 | 3.277660e-64 | -8.615850e-47 |
| Msa0344330 | Msa1354900 | 0.805424 | 1.344255e-49 | -8.615850e-47 |
| Msa0344330 | Msa1354950 | 0.809543 | 1.796653e-50 | -8.615850e-47 |
| Msa0344330 | Msa1355070 | 0.821294 | 4.358113e-53 | -8.615850e-47 |
| Msa0344330 | Msa1355100 | 0.800295 | 1.541465e-48 | -8.615850e-47 |
| Msa0344330 | Msa1366010 | 0.814924 | 1.202365e-51 | -8.615850e-47 |
| Msa0344330 | Msa1366050 | 0.831461 | 1.647721e-55 | -8.615850e-47 |
| Msa0344330 | Msa1368270 | 0.805871 | 1.082602e-49 | -8.615850e-47 |
| Msa0344330 | Msa1368280 | 0.811743 | 6.011055e-51 | -8.615850e-47 |
| Msa0344330 | Msa1368290 | 0.840789 | 7.038483e-58 | -8.615850e-47 |
| Msa0344330 | Msa1368300 | 0.849865 | 2.457265e-60 | -8.615850e-47 |
| Msa0344330 | Msa1380570 | 0.800248 | 1.575344e-48 | -8.615850e-47 |
| Msa0344330 | Msa1380590 | 0.819840 | 9.399676e-53 | -8.615850e-47 |
| Msa0344330 | Msa1380640 | 0.841144 | 5.678967e-58 | -8.615850e-47 |
| Msa0344330 | Msa1380650 | 0.816253 | 6.082175e-52 | -8.615850e-47 |
| Msa0344330 | Msa1380710 | 0.830603 | 2.676553e-55 | -8.615850e-47 |
| Msa0344330 | Msa1394040 | 0.815183 | 1.053231e-51 | -8.615850e-47 |
| Msa0344330 | Msa1394060 | 0.809897 | 1.507871e-50 | -8.615850e-47 |
| Msa0344330 | Msa1394130 | 0.803979 | 2.691363e-49 | -8.615850e-47 |
| Msa0344330 | Msa1394150 | 0.808575 | 2.895802e-50 | -8.615850e-47 |
| Msa0344330 | Msa1394230 | 0.822506 | 2.283794e-53 | -8.615850e-47 |
| Msa0344330 | Msa1398720 | 0.803945 | 2.736171e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344330 | MtrunA17_Chr7g0229301 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0344330 | MtrunA17_Chr6g0454441 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0344330 | MtrunA17_Chr4g0016451 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0344330 | MtrunA17_Chr6g0466281 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0344330 | MtrunA17_CPg0493311 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0344330 | MtrunA17_Chr7g0229661 | 84.080 | 201 | 13 | 1 | 1 | 201 | 1 | 182 | 1.89e-115 | 327 |
| Msa0344330 | MtrunA17_Chr4g0015291 | 97.436 | 156 | 4 | 0 | 1 | 156 | 1 | 156 | 3.32e-108 | 307 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344330 | ATCG00380.1 | 88.060 | 201 | 24 | 0 | 1 | 201 | 1 | 201 | 2.12e-126 | 355 |
Find 33 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAATAATAGATAGTAAA+TGG | 0.189787 | 3_1:-2787089 | Msa0344330:CDS |
| GATTGACTAATCCTTTATAT+TGG | 0.284280 | 3_1:+2787109 | None:intergenic |
| CTTGATCCATTCCAATATAA+AGG | 0.291752 | 3_1:-2787120 | Msa0344330:CDS |
| CTTAAATACGTTCGTATCGC+TGG | 0.342652 | 3_1:-2787420 | Msa0344330:CDS |
| ACAATTACTTGAAATGCGTT+TGG | 0.359489 | 3_1:-2787364 | Msa0344330:CDS |
| TTTGAAAATTAATGAATTGC+TGG | 0.365999 | 3_1:-2787061 | Msa0344330:CDS |
| ATGGATTGGCAATTCTTCGC+GGG | 0.450528 | 3_1:+2787149 | None:intergenic |
| TACCAGGACTAACTAGTAAA+CGG | 0.463029 | 3_1:-2787563 | Msa0344330:CDS |
| TGAGGTTTGCAACGATAACT+TGG | 0.468099 | 3_1:+2787240 | None:intergenic |
| ACTAATCCTTTATATTGGAA+TGG | 0.475526 | 3_1:+2787114 | None:intergenic |
| GTCTGTGGTTAACTAATTGA+CGG | 0.477609 | 3_1:+2787295 | None:intergenic |
| TCAAATAATAGATAGTAAAT+GGG | 0.487910 | 3_1:-2787088 | Msa0344330:CDS |
| ATAATAGATAGTAAATGGGT+TGG | 0.504615 | 3_1:-2787084 | Msa0344330:CDS |
| CTAAGTTCGCTTCCAACTGT+AGG | 0.508663 | 3_1:+2787540 | None:intergenic |
| GGATCAAGAGTCAAATGGAT+TGG | 0.511159 | 3_1:+2787135 | None:intergenic |
| GGAAAAGCGAAAGGTTCAAC+CGG | 0.516182 | 3_1:-2787399 | Msa0344330:CDS |
| TCTGTGGTTAACTAATTGAC+GGG | 0.521261 | 3_1:+2787296 | None:intergenic |
| GGCCGTTTACTAGTTAGTCC+TGG | 0.527000 | 3_1:+2787561 | None:intergenic |
| AATGGATTGGCAATTCTTCG+CGG | 0.545268 | 3_1:+2787148 | None:intergenic |
| TCAAGATATTATTACAGCGA+AGG | 0.559737 | 3_1:-2787220 | Msa0344330:CDS |
| TTCGCTGTAATAATATCTTG+AGG | 0.560954 | 3_1:+2787222 | None:intergenic |
| TAATTGTAGTAAAACTTGAC+CGG | 0.568250 | 3_1:+2787380 | None:intergenic |
| ACTAGTAAACGGCCTACAGT+TGG | 0.568372 | 3_1:-2787552 | Msa0344330:CDS |
| CAAGATATTATTACAGCGAA+GGG | 0.569002 | 3_1:-2787219 | Msa0344330:CDS |
| TTAACTAATTGACGGGCTTG+AGG | 0.581554 | 3_1:+2787303 | None:intergenic |
| GGAATGGATCAAGAGTCAAA+TGG | 0.582974 | 3_1:+2787130 | None:intergenic |
| GATTGGCAATTCTTCGCGGG+GGG | 0.584547 | 3_1:+2787152 | None:intergenic |
| TGGATTGGCAATTCTTCGCG+GGG | 0.610754 | 3_1:+2787150 | None:intergenic |
| TGTTTATGTCACGTTACAGA+GGG | 0.632465 | 3_1:-2787620 | None:intergenic |
| GTGTTTATGTCACGTTACAG+AGG | 0.633128 | 3_1:-2787621 | None:intergenic |
| CGTATCGCTGGAAAAGCGAA+AGG | 0.633501 | 3_1:-2787408 | Msa0344330:CDS |
| CATTAACTAAAACATGTCTG+TGG | 0.663264 | 3_1:+2787280 | None:intergenic |
| GGATTGGCAATTCTTCGCGG+GGG | 0.681198 | 3_1:+2787151 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAAATAATAGATAGTAAA+TGG | - | chr3_1:2787558-2787577 | Msa0344330:CDS | 15.0% |
| !! | TCAAATAATAGATAGTAAAT+GGG | - | chr3_1:2787559-2787578 | Msa0344330:CDS | 15.0% |
| !! | TTTGAAAATTAATGAATTGC+TGG | - | chr3_1:2787586-2787605 | Msa0344330:CDS | 20.0% |
| !! | CAAAAATTGCGTTTTCATTA+TGG | - | chr3_1:2787185-2787204 | Msa0344330:CDS | 25.0% |
| ! | TAATTGTAGTAAAACTTGAC+CGG | + | chr3_1:2787270-2787289 | None:intergenic | 25.0% |
| !!! | GATAACATACTTTTTCGATT+GGG | - | chr3_1:2787305-2787324 | Msa0344330:CDS | 25.0% |
| ! | ACTAATCCTTTATATTGGAA+TGG | + | chr3_1:2787536-2787555 | None:intergenic | 25.0% |
| ! | GATTGACTAATCCTTTATAT+TGG | + | chr3_1:2787541-2787560 | None:intergenic | 25.0% |
| ! | ATAATAGATAGTAAATGGGT+TGG | - | chr3_1:2787563-2787582 | Msa0344330:CDS | 25.0% |
| TTTCAAAAAAATACGTCGTC+TGG | - | chr3_1:2787055-2787074 | Msa0344330:CDS | 30.0% | |
| TTCAAAAAAATACGTCGTCT+GGG | - | chr3_1:2787056-2787075 | Msa0344330:CDS | 30.0% | |
| ACAATTACTTGAAATGCGTT+TGG | - | chr3_1:2787283-2787302 | Msa0344330:CDS | 30.0% | |
| !!! | GGATAACATACTTTTTCGAT+TGG | - | chr3_1:2787304-2787323 | Msa0344330:CDS | 30.0% |
| CATTAACTAAAACATGTCTG+TGG | + | chr3_1:2787370-2787389 | None:intergenic | 30.0% | |
| !!! | CACAGACATGTTTTAGTTAA+TGG | - | chr3_1:2787368-2787387 | Msa0344330:CDS | 30.0% |
| TTCGCTGTAATAATATCTTG+AGG | + | chr3_1:2787428-2787447 | None:intergenic | 30.0% | |
| TCAAGATATTATTACAGCGA+AGG | - | chr3_1:2787427-2787446 | Msa0344330:CDS | 30.0% | |
| CAAGATATTATTACAGCGAA+GGG | - | chr3_1:2787428-2787447 | Msa0344330:CDS | 30.0% | |
| CTTGATCCATTCCAATATAA+AGG | - | chr3_1:2787527-2787546 | Msa0344330:CDS | 30.0% | |
| !!! | CGACGTATTTTTTTGAAACG+AGG | + | chr3_1:2787053-2787072 | None:intergenic | 35.0% |
| TCAAAAAAATACGTCGTCTG+GGG | - | chr3_1:2787057-2787076 | Msa0344330:CDS | 35.0% | |
| TACCAGGACTAACTAGTAAA+CGG | - | chr3_1:2787084-2787103 | Msa0344330:CDS | 35.0% | |
| !!! | CATACTTTTTCGATTGGGTA+TGG | - | chr3_1:2787310-2787329 | Msa0344330:CDS | 35.0% |
| TCTGTGGTTAACTAATTGAC+GGG | + | chr3_1:2787354-2787373 | None:intergenic | 35.0% | |
| GTCTGTGGTTAACTAATTGA+CGG | + | chr3_1:2787355-2787374 | None:intergenic | 35.0% | |
| CAAAAAAATACGTCGTCTGG+GGG | - | chr3_1:2787058-2787077 | Msa0344330:CDS | 40.0% | |
| !!! | ATTTTTTACTCGAGCGCGAT+TGG | + | chr3_1:2787136-2787155 | None:intergenic | 40.0% |
| CTTAAATACGTTCGTATCGC+TGG | - | chr3_1:2787227-2787246 | Msa0344330:CDS | 40.0% | |
| !! | TTAACTAATTGACGGGCTTG+AGG | + | chr3_1:2787347-2787366 | None:intergenic | 40.0% |
| TGAGGTTTGCAACGATAACT+TGG | + | chr3_1:2787410-2787429 | None:intergenic | 40.0% | |
| !! | AATGGATTGGCAATTCTTCG+CGG | + | chr3_1:2787502-2787521 | None:intergenic | 40.0% |
| GGATCAAGAGTCAAATGGAT+TGG | + | chr3_1:2787515-2787534 | None:intergenic | 40.0% | |
| GGAATGGATCAAGAGTCAAA+TGG | + | chr3_1:2787520-2787539 | None:intergenic | 40.0% | |
| ACTAGTAAACGGCCTACAGT+TGG | - | chr3_1:2787095-2787114 | Msa0344330:CDS | 45.0% | |
| CTAAGTTCGCTTCCAACTGT+AGG | + | chr3_1:2787110-2787129 | None:intergenic | 45.0% | |
| GGAAAAGCGAAAGGTTCAAC+CGG | - | chr3_1:2787248-2787267 | Msa0344330:CDS | 45.0% | |
| !! | ATGGATTGGCAATTCTTCGC+GGG | + | chr3_1:2787501-2787520 | None:intergenic | 45.0% |
| GGCCGTTTACTAGTTAGTCC+TGG | + | chr3_1:2787089-2787108 | None:intergenic | 50.0% | |
| CGTATCGCTGGAAAAGCGAA+AGG | - | chr3_1:2787239-2787258 | Msa0344330:CDS | 50.0% | |
| !! | TGGATTGGCAATTCTTCGCG+GGG | + | chr3_1:2787500-2787519 | None:intergenic | 50.0% |
| GATTGGCAATTCTTCGCGGG+GGG | + | chr3_1:2787498-2787517 | None:intergenic | 55.0% | |
| ! | GGATTGGCAATTCTTCGCGG+GGG | + | chr3_1:2787499-2787518 | None:intergenic | 55.0% |
| CGTCGTCTGGGGGCTTTACC+AGG | - | chr3_1:2787068-2787087 | Msa0344330:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 2787032 | 2787637 | 2787032 | ID=Msa0344330;Name=Msa0344330 |
| chr3_1 | mRNA | 2787032 | 2787637 | 2787032 | ID=Msa0344330-mRNA-1;Parent=Msa0344330;Name=Msa0344330-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|201 |
| chr3_1 | exon | 2787032 | 2787637 | 2787032 | ID=Msa0344330-mRNA-1:exon:860;Parent=Msa0344330-mRNA-1 |
| chr3_1 | CDS | 2787032 | 2787637 | 2787032 | ID=Msa0344330-mRNA-1:cds;Parent=Msa0344330-mRNA-1 |
| Gene Sequence |
| Protein sequence |
