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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0313400 | XP_003593663.1 | 98.958 | 96 | 1 | 0 | 1 | 96 | 32 | 127 | 4.74e-63 | 197 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0313400 | sp|Q9SGP6|GRXC9_ARATH | 64.000 | 100 | 32 | 1 | 1 | 96 | 38 | 137 | 1.40e-40 | 133 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0234590 | Msa0313400 | 0.901878 | 1.716063e-78 | -8.615850e-47 |
| Msa0313400 | Msa0490380 | 0.800839 | 1.193950e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0313400 | MtrunA17_Chr2g0282951 | 98.958 | 96 | 1 | 0 | 1 | 96 | 32 | 127 | 4.36e-67 | 197 |
| Msa0313400 | MtrunA17_Chr2g0325001 | 68.041 | 97 | 30 | 1 | 1 | 96 | 44 | 140 | 8.54e-44 | 139 |
| Msa0313400 | MtrunA17_Chr4g0040601 | 68.041 | 97 | 30 | 1 | 1 | 96 | 59 | 155 | 6.92e-43 | 137 |
| Msa0313400 | MtrunA17_Chr7g0224091 | 51.485 | 101 | 40 | 2 | 1 | 96 | 28 | 124 | 1.84e-30 | 104 |
| Msa0313400 | MtrunA17_Chr7g0222541 | 47.368 | 95 | 49 | 1 | 3 | 96 | 38 | 132 | 6.08e-28 | 98.6 |
| Msa0313400 | MtrunA17_Chr7g0222491 | 47.368 | 95 | 49 | 1 | 3 | 96 | 38 | 132 | 1.01e-27 | 97.8 |
| Msa0313400 | MtrunA17_Chr7g0222551 | 45.263 | 95 | 51 | 1 | 3 | 96 | 38 | 132 | 4.33e-27 | 96.3 |
| Msa0313400 | MtrunA17_Chr4g0066791 | 42.574 | 101 | 49 | 2 | 1 | 96 | 7 | 103 | 2.90e-24 | 88.2 |
| Msa0313400 | MtrunA17_Chr4g0066801 | 42.574 | 101 | 49 | 2 | 1 | 96 | 7 | 103 | 2.90e-24 | 88.2 |
| Msa0313400 | MtrunA17_Chr4g0066811 | 42.574 | 101 | 49 | 2 | 1 | 96 | 7 | 103 | 2.90e-24 | 88.2 |
| Msa0313400 | MtrunA17_Chr2g0303741 | 41.000 | 100 | 55 | 1 | 1 | 96 | 45 | 144 | 1.89e-22 | 84.7 |
| Msa0313400 | MtrunA17_Chr2g0286251 | 40.594 | 101 | 50 | 3 | 1 | 96 | 7 | 102 | 2.06e-22 | 83.6 |
| Msa0313400 | MtrunA17_Chr7g0268751 | 39.175 | 97 | 57 | 2 | 1 | 96 | 7 | 102 | 2.59e-21 | 80.9 |
| Msa0313400 | MtrunA17_Chr1g0195951 | 37.500 | 96 | 60 | 0 | 1 | 96 | 7 | 102 | 3.15e-21 | 80.5 |
| Msa0313400 | MtrunA17_Chr1g0151231 | 44.444 | 99 | 51 | 2 | 1 | 96 | 52 | 149 | 4.45e-21 | 81.3 |
| Msa0313400 | MtrunA17_Chr1g0195981 | 40.449 | 89 | 53 | 0 | 1 | 89 | 7 | 95 | 1.17e-19 | 76.3 |
| Msa0313400 | MtrunA17_Chr3g0135811 | 41.667 | 96 | 50 | 2 | 1 | 95 | 27 | 117 | 1.53e-19 | 76.6 |
| Msa0313400 | MtrunA17_Chr5g0434201 | 50.000 | 84 | 40 | 2 | 15 | 96 | 40 | 123 | 1.77e-19 | 76.6 |
| Msa0313400 | MtrunA17_Chr2g0286271 | 36.458 | 96 | 61 | 0 | 1 | 96 | 7 | 102 | 2.14e-19 | 75.9 |
| Msa0313400 | MtrunA17_Chr1g0195991 | 38.202 | 89 | 55 | 0 | 1 | 89 | 7 | 95 | 2.18e-19 | 75.9 |
| Msa0313400 | MtrunA17_Chr7g0268711 | 39.326 | 89 | 54 | 0 | 1 | 89 | 7 | 95 | 5.71e-19 | 74.7 |
| Msa0313400 | MtrunA17_Chr7g0268731 | 36.082 | 97 | 61 | 1 | 1 | 96 | 7 | 103 | 7.53e-19 | 74.3 |
| Msa0313400 | MtrunA17_Chr7g0268721 | 35.052 | 97 | 62 | 1 | 1 | 96 | 7 | 103 | 4.69e-18 | 72.4 |
| Msa0313400 | MtrunA17_Chr8g0376641 | 47.619 | 84 | 42 | 2 | 15 | 96 | 40 | 123 | 7.15e-17 | 70.1 |
| Msa0313400 | MtrunA17_Chr1g0195971 | 30.208 | 96 | 67 | 0 | 1 | 96 | 7 | 102 | 6.94e-14 | 61.6 |
| Msa0313400 | MtrunA17_Chr3g0117411 | 36.082 | 97 | 60 | 2 | 1 | 96 | 24 | 119 | 3.24e-13 | 60.5 |
| Msa0313400 | MtrunA17_Chr3g0117391 | 33.684 | 95 | 61 | 2 | 1 | 94 | 27 | 120 | 3.28e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0313400 | AT1G28480.1 | 64.000 | 100 | 32 | 1 | 1 | 96 | 38 | 137 | 1.42e-41 | 133 |
| Msa0313400 | AT5G14070.1 | 47.115 | 104 | 47 | 2 | 1 | 96 | 37 | 140 | 1.77e-29 | 102 |
| Msa0313400 | AT1G03850.2 | 48.958 | 96 | 45 | 1 | 1 | 96 | 59 | 150 | 1.53e-26 | 95.9 |
| Msa0313400 | AT3G02000.1 | 45.098 | 102 | 50 | 1 | 1 | 96 | 35 | 136 | 9.50e-26 | 93.2 |
| Msa0313400 | AT4G15700.1 | 41.667 | 96 | 56 | 0 | 1 | 96 | 7 | 102 | 9.53e-24 | 87.0 |
| Msa0313400 | AT4G15690.1 | 41.667 | 96 | 56 | 0 | 1 | 96 | 7 | 102 | 9.95e-24 | 87.0 |
| Msa0313400 | AT4G15680.1 | 40.625 | 96 | 57 | 0 | 1 | 96 | 7 | 102 | 1.38e-23 | 86.7 |
| Msa0313400 | AT4G15670.1 | 39.583 | 96 | 58 | 0 | 1 | 96 | 7 | 102 | 3.57e-23 | 85.9 |
| Msa0313400 | AT4G33040.1 | 46.535 | 101 | 48 | 2 | 1 | 96 | 45 | 144 | 3.98e-23 | 87.0 |
| Msa0313400 | AT4G15660.1 | 39.583 | 96 | 58 | 0 | 1 | 96 | 7 | 102 | 5.29e-23 | 85.5 |
| Msa0313400 | AT5G18600.1 | 41.667 | 96 | 56 | 0 | 1 | 96 | 7 | 102 | 1.68e-22 | 84.0 |
| Msa0313400 | AT3G62950.1 | 38.614 | 101 | 53 | 2 | 1 | 96 | 7 | 103 | 8.41e-21 | 79.7 |
| Msa0313400 | AT3G21460.1 | 40.625 | 96 | 57 | 0 | 1 | 96 | 7 | 102 | 2.28e-20 | 78.6 |
| Msa0313400 | AT2G30540.1 | 41.573 | 89 | 52 | 0 | 1 | 89 | 7 | 95 | 3.45e-20 | 78.2 |
| Msa0313400 | AT1G06830.1 | 41.573 | 89 | 52 | 0 | 1 | 89 | 7 | 95 | 5.04e-20 | 77.8 |
| Msa0313400 | AT1G03850.1 | 41.935 | 93 | 50 | 1 | 1 | 93 | 59 | 147 | 3.06e-19 | 77.4 |
| Msa0313400 | AT2G47880.1 | 40.449 | 89 | 53 | 0 | 1 | 89 | 7 | 95 | 3.16e-19 | 75.9 |
| Msa0313400 | AT5G11930.1 | 41.237 | 97 | 45 | 3 | 1 | 95 | 61 | 147 | 5.28e-19 | 76.3 |
| Msa0313400 | AT2G47870.1 | 36.634 | 101 | 55 | 2 | 1 | 96 | 7 | 103 | 5.90e-19 | 75.1 |
| Msa0313400 | AT3G62960.1 | 39.326 | 89 | 54 | 0 | 1 | 89 | 7 | 95 | 1.12e-17 | 71.6 |
| Msa0313400 | AT1G03020.1 | 30.208 | 96 | 67 | 0 | 1 | 96 | 7 | 102 | 2.64e-15 | 65.9 |
| Msa0313400 | AT3G62930.1 | 30.208 | 96 | 67 | 0 | 1 | 96 | 7 | 102 | 4.64e-15 | 65.1 |
| Msa0313400 | AT5G63030.1 | 37.895 | 95 | 57 | 2 | 1 | 94 | 25 | 118 | 7.27e-13 | 60.1 |
Find 31 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGCCGAAACCGTTCAGTTTC+CGG | 0.203449 | 2_4:-8737607 | Msa0313400:CDS |
| GAAAACGCAGTTATTATCAT+TGG | 0.318460 | 2_4:-8737756 | Msa0313400:CDS |
| CGCCGGAAACTGAACGGTTT+CGG | 0.354624 | 2_4:+8737605 | None:intergenic |
| TGGGAAGTTGCTTGGTGGGT+TGG | 0.357470 | 2_4:-8737571 | Msa0313400:CDS |
| TACTCATATCTCAGGTGAAT+TGG | 0.360053 | 2_4:-8737535 | Msa0313400:CDS |
| GTGCAGCAACGGCAGTTTCA+TGG | 0.410626 | 2_4:+8737646 | None:intergenic |
| TTCGTTGGTGGGAAGTTGCT+TGG | 0.411854 | 2_4:-8737579 | Msa0313400:CDS |
| CAGTTTCCGGCGGTGTTCGT+TGG | 0.424655 | 2_4:-8737594 | Msa0313400:CDS |
| AACGGTTTCGGCGGTGTTGG+TGG | 0.446358 | 2_4:+8737617 | None:intergenic |
| TTTCCGGCGGTGTTCGTTGG+TGG | 0.452461 | 2_4:-8737591 | Msa0313400:CDS |
| TTGGTGGGAAGTTGCTTGGT+GGG | 0.461042 | 2_4:-8737575 | Msa0313400:CDS |
| GTTATGGCTACTCATATCTC+AGG | 0.469774 | 2_4:-8737543 | Msa0313400:CDS |
| CTGAACGGTTTCGGCGGTGT+TGG | 0.477660 | 2_4:+8737614 | None:intergenic |
| TTCCGGCGGTGTTCGTTGGT+GGG | 0.487798 | 2_4:-8737590 | Msa0313400:CDS |
| TGGTGGGTTGGAAAGAGTTA+TGG | 0.489715 | 2_4:-8737559 | Msa0313400:CDS |
| GTTCCTATATTAAAAGATGC+TGG | 0.501499 | 2_4:-8737513 | Msa0313400:CDS |
| AAAAGATTGTTACAAGGTCT+AGG | 0.503022 | 2_4:-8737702 | Msa0313400:CDS |
| GTTGGTGGGAAGTTGCTTGG+TGG | 0.513182 | 2_4:-8737576 | Msa0313400:CDS |
| TCTTGATCAACCTCGTAGAC+AGG | 0.528624 | 2_4:+8737669 | None:intergenic |
| TTCCCACCAACGAACACCGC+CGG | 0.567247 | 2_4:+8737588 | None:intergenic |
| GTTGTCAAAAGATTGTTACA+AGG | 0.611660 | 2_4:-8737708 | Msa0313400:CDS |
| GGTGGATAGTTGTGCAGCAA+CGG | 0.621850 | 2_4:+8737635 | None:intergenic |
| TGATCAACCTCGTAGACAGG+AGG | 0.639092 | 2_4:+8737672 | None:intergenic |
| GAACACCGCCGGAAACTGAA+CGG | 0.641793 | 2_4:+8737599 | None:intergenic |
| CGGAAACTGAACGGTTTCGG+CGG | 0.642915 | 2_4:+8737608 | None:intergenic |
| CGAAACCGTTCAGTTTCCGG+CGG | 0.644599 | 2_4:-8737604 | Msa0313400:CDS |
| GATCAACCTCGTAGACAGGA+GGG | 0.651727 | 2_4:+8737673 | None:intergenic |
| CATAACTAGTCAAAGCCACA+AGG | 0.660326 | 2_4:+8737488 | None:intergenic |
| TAAAAGATGCTGGTGCCTTG+TGG | 0.660431 | 2_4:-8737503 | Msa0313400:CDS |
| GTTATTATCATTGGAACACG+AGG | 0.684410 | 2_4:-8737747 | Msa0313400:CDS |
| AGTCAACCCTCCTGTCTACG+AGG | 0.688227 | 2_4:-8737679 | Msa0313400:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAAACGCAGTTATTATCAT+TGG | - | chr2_4:8737506-8737525 | Msa0313400:CDS | 30.0% | |
| ! | GTAACAATCTTTTGACAACA+TGG | + | chr2_4:8737553-8737572 | None:intergenic | 30.0% |
| GTTGTCAAAAGATTGTTACA+AGG | - | chr2_4:8737554-8737573 | Msa0313400:CDS | 30.0% | |
| AAAAGATTGTTACAAGGTCT+AGG | - | chr2_4:8737560-8737579 | Msa0313400:CDS | 30.0% | |
| GTTCCTATATTAAAAGATGC+TGG | - | chr2_4:8737749-8737768 | Msa0313400:CDS | 30.0% | |
| GTTATTATCATTGGAACACG+AGG | - | chr2_4:8737515-8737534 | Msa0313400:CDS | 35.0% | |
| TACTCATATCTCAGGTGAAT+TGG | - | chr2_4:8737727-8737746 | Msa0313400:CDS | 35.0% | |
| ! | GCACCAGCATCTTTTAATAT+AGG | + | chr2_4:8737755-8737774 | None:intergenic | 35.0% |
| GTTATGGCTACTCATATCTC+AGG | - | chr2_4:8737719-8737738 | Msa0313400:CDS | 40.0% | |
| TCTTGATCAACCTCGTAGAC+AGG | + | chr2_4:8737596-8737615 | None:intergenic | 45.0% | |
| !! | TGGTGGGTTGGAAAGAGTTA+TGG | - | chr2_4:8737703-8737722 | Msa0313400:CDS | 45.0% |
| TAAAAGATGCTGGTGCCTTG+TGG | - | chr2_4:8737759-8737778 | Msa0313400:CDS | 45.0% | |
| GATCAACCTCGTAGACAGGA+GGG | + | chr2_4:8737592-8737611 | None:intergenic | 50.0% | |
| TGATCAACCTCGTAGACAGG+AGG | + | chr2_4:8737593-8737612 | None:intergenic | 50.0% | |
| GGTGGATAGTTGTGCAGCAA+CGG | + | chr2_4:8737630-8737649 | None:intergenic | 50.0% | |
| ! | TTCGTTGGTGGGAAGTTGCT+TGG | - | chr2_4:8737683-8737702 | Msa0313400:CDS | 50.0% |
| TTGGTGGGAAGTTGCTTGGT+GGG | - | chr2_4:8737687-8737706 | Msa0313400:CDS | 50.0% | |
| AGTCAACCCTCCTGTCTACG+AGG | - | chr2_4:8737583-8737602 | Msa0313400:CDS | 55.0% | |
| GTGCAGCAACGGCAGTTTCA+TGG | + | chr2_4:8737619-8737638 | None:intergenic | 55.0% | |
| CGGAAACTGAACGGTTTCGG+CGG | + | chr2_4:8737657-8737676 | None:intergenic | 55.0% | |
| CGCCGAAACCGTTCAGTTTC+CGG | - | chr2_4:8737655-8737674 | Msa0313400:CDS | 55.0% | |
| CGCCGGAAACTGAACGGTTT+CGG | + | chr2_4:8737660-8737679 | None:intergenic | 55.0% | |
| CGAAACCGTTCAGTTTCCGG+CGG | - | chr2_4:8737658-8737677 | Msa0313400:CDS | 55.0% | |
| GAACACCGCCGGAAACTGAA+CGG | + | chr2_4:8737666-8737685 | None:intergenic | 55.0% | |
| ! | GTTGGTGGGAAGTTGCTTGG+TGG | - | chr2_4:8737686-8737705 | Msa0313400:CDS | 55.0% |
| ! | TGGGAAGTTGCTTGGTGGGT+TGG | - | chr2_4:8737691-8737710 | Msa0313400:CDS | 55.0% |
| ! | AACGGTTTCGGCGGTGTTGG+TGG | + | chr2_4:8737648-8737667 | None:intergenic | 60.0% |
| CTGAACGGTTTCGGCGGTGT+TGG | + | chr2_4:8737651-8737670 | None:intergenic | 60.0% | |
| CAGTTTCCGGCGGTGTTCGT+TGG | - | chr2_4:8737668-8737687 | Msa0313400:CDS | 60.0% | |
| TTTCCGGCGGTGTTCGTTGG+TGG | - | chr2_4:8737671-8737690 | Msa0313400:CDS | 60.0% | |
| TTCCGGCGGTGTTCGTTGGT+GGG | - | chr2_4:8737672-8737691 | Msa0313400:CDS | 60.0% | |
| TTCCCACCAACGAACACCGC+CGG | + | chr2_4:8737677-8737696 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 8737497 | 8737787 | 8737497 | ID=Msa0313400;Name=Msa0313400 |
| chr2_4 | mRNA | 8737497 | 8737787 | 8737497 | ID=Msa0313400-mRNA-1;Parent=Msa0313400;Name=Msa0313400-mRNA-1;_AED=0.13;_eAED=0.13;_QI=0|-1|0|1|-1|1|1|0|96 |
| chr2_4 | exon | 8737497 | 8737787 | 8737497 | ID=Msa0313400-mRNA-1:exon:3357;Parent=Msa0313400-mRNA-1 |
| chr2_4 | CDS | 8737497 | 8737787 | 8737497 | ID=Msa0313400-mRNA-1:cds;Parent=Msa0313400-mRNA-1 |
| Gene Sequence |
| Protein sequence |
