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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1035430 | RHN78214.1 | 73.856 | 153 | 37 | 1 | 17 | 169 | 4 | 153 | 1.79e-77 | 238 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1035430 | A0A396JLZ7 | 73.856 | 153 | 37 | 1 | 17 | 169 | 4 | 153 | 8.57e-78 | 238 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1035430 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1035430 | MtrunA17_Chr1g0163091 | 73.856 | 153 | 37 | 1 | 17 | 169 | 4 | 153 | 1.65e-81 | 238 |
| Msa1035430 | MtrunA17_Chr1g0162151 | 66.225 | 151 | 41 | 2 | 17 | 167 | 4 | 144 | 4.27e-60 | 186 |
| Msa1035430 | MtrunA17_Chr1g0163251 | 51.938 | 129 | 62 | 0 | 17 | 145 | 165 | 293 | 1.35e-39 | 138 |
| Msa1035430 | MtrunA17_Chr1g0163261 | 46.575 | 146 | 70 | 3 | 10 | 147 | 155 | 300 | 3.28e-35 | 124 |
| Msa1035430 | MtrunA17_Chr1g0163201 | 43.046 | 151 | 81 | 3 | 8 | 153 | 157 | 307 | 1.12e-32 | 120 |
| Msa1035430 | MtrunA17_Chr1g0163231 | 48.571 | 140 | 56 | 4 | 17 | 152 | 163 | 290 | 6.36e-31 | 113 |
| Msa1035430 | MtrunA17_Chr1g0171611 | 50.000 | 128 | 51 | 4 | 26 | 149 | 157 | 275 | 4.14e-30 | 111 |
| Msa1035430 | MtrunA17_Chr6g0476171 | 45.833 | 144 | 69 | 4 | 9 | 143 | 3 | 146 | 1.03e-29 | 108 |
| Msa1035430 | MtrunA17_Chr1g0163181 | 46.429 | 112 | 60 | 0 | 33 | 144 | 194 | 305 | 1.77e-29 | 112 |
| Msa1035430 | MtrunA17_Chr1g0163151 | 47.273 | 110 | 58 | 0 | 33 | 142 | 15 | 124 | 1.54e-28 | 105 |
| Msa1035430 | MtrunA17_Chr1g0163111 | 48.113 | 106 | 55 | 0 | 33 | 138 | 12 | 117 | 3.20e-28 | 104 |
| Msa1035430 | MtrunA17_Chr5g0419211 | 40.206 | 97 | 57 | 1 | 54 | 149 | 11 | 107 | 3.84e-19 | 78.2 |
| Msa1035430 | MtrunA17_Chr8g0390841 | 36.691 | 139 | 75 | 7 | 12 | 144 | 213 | 344 | 5.77e-14 | 68.6 |
| Msa1035430 | MtrunA17_Chr3g0131891 | 34.234 | 111 | 68 | 3 | 35 | 140 | 201 | 311 | 2.26e-13 | 66.6 |
| Msa1035430 | MtrunA17_Chr1g0208771 | 37.405 | 131 | 69 | 6 | 12 | 136 | 171 | 294 | 2.82e-12 | 63.5 |
| Msa1035430 | MtrunA17_Chr1g0163071 | 31.034 | 116 | 70 | 3 | 30 | 144 | 193 | 299 | 9.26e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTGGATTCTCATTAT+TGG | 0.211537 | 7_1:+71207855 | None:intergenic |
| TCAATTATTGAACATCTCTT+AGG | 0.278157 | 7_1:+71207895 | None:intergenic |
| AGAATATACATTAACTTTGC+AGG | 0.315856 | 7_1:-71207940 | Msa1035430:CDS |
| TTGACGGGATCGCAAGGATA+AGG | 0.384450 | 7_1:-71207676 | Msa1035430:CDS |
| CCTTGCAACTTGTTAGGGCT+TGG | 0.397107 | 7_1:+71207464 | None:intergenic |
| GGCTTGGTTCCTCACTAGCT+CGG | 0.456216 | 7_1:+71207480 | None:intergenic |
| TGACGGGATCGCAAGGATAA+GGG | 0.470585 | 7_1:-71207675 | Msa1035430:CDS |
| AATACTTGAACGAGTTTGAC+GGG | 0.492831 | 7_1:-71207691 | Msa1035430:CDS |
| GGGTTGATGCAGGTAGAACT+TGG | 0.542033 | 7_1:-71207655 | Msa1035430:CDS |
| GAATACTTGAACGAGTTTGA+CGG | 0.544212 | 7_1:-71207692 | Msa1035430:CDS |
| ATGACACAAACTTATGCTCA+TGG | 0.555807 | 7_1:-71207823 | Msa1035430:CDS |
| TTCTATTACCCGAGCTAGTG+AGG | 0.556254 | 7_1:-71207489 | Msa1035430:CDS |
| GCTTGGTTCCTCACTAGCTC+GGG | 0.557073 | 7_1:+71207481 | None:intergenic |
| AAGGAAAATAACTTGCAAGT+TGG | 0.562723 | 7_1:-71207563 | Msa1035430:CDS |
| ACGAGTTTGACGGGATCGCA+AGG | 0.567127 | 7_1:-71207682 | Msa1035430:CDS |
| GCAAGGATAAGGGTTGATGC+AGG | 0.581356 | 7_1:-71207665 | Msa1035430:CDS |
| AACTTTGCAGGTACTAACAA+AGG | 0.591292 | 7_1:-71207928 | Msa1035430:CDS |
| CCAAGCCCTAACAAGTTGCA+AGG | 0.593191 | 7_1:-71207464 | Msa1035430:CDS |
| GCAGGTACTAACAAAGGAGG+AGG | 0.600379 | 7_1:-71207922 | Msa1035430:CDS |
| ATAGAAATATTAAATGAAAG+CGG | 0.641791 | 7_1:+71207506 | None:intergenic |
| TTTGCAGGTACTAACAAAGG+AGG | 0.671084 | 7_1:-71207925 | Msa1035430:CDS |
| TGGTTGGTCTATATTCGACA+AGG | 0.682762 | 7_1:-71207582 | Msa1035430:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGAAAATGTTTACTAATTT+TGG | - | chr7_1:71207553-71207572 | Msa1035430:CDS | 15.0% |
| !!! | TATTCTTTTGAAAACTTATT+TGG | + | chr7_1:71207624-71207643 | None:intergenic | 15.0% |
| !! | ATAGAAATATTAAATGAAAG+CGG | + | chr7_1:71207828-71207847 | None:intergenic | 15.0% |
| ! | AGAATATACATTAACTTTGC+AGG | - | chr7_1:71207391-71207410 | Msa1035430:CDS | 25.0% |
| ! | TCAATTATTGAACATCTCTT+AGG | + | chr7_1:71207439-71207458 | None:intergenic | 25.0% |
| ! | AAAACTTGGATTCTCATTAT+TGG | + | chr7_1:71207479-71207498 | None:intergenic | 25.0% |
| !!! | GTCATTTTAAGTTCAAAACT+TGG | + | chr7_1:71207493-71207512 | None:intergenic | 25.0% |
| ! | AAAGCAAACTTACACAAAAA+TGG | + | chr7_1:71207534-71207553 | None:intergenic | 25.0% |
| TATACCATGAATTGAAACAG+AGG | - | chr7_1:71207595-71207614 | Msa1035430:CDS | 30.0% | |
| !!! | AGATGTTCTTTTTTGCAAGT+TGG | - | chr7_1:71207729-71207748 | Msa1035430:intron | 30.0% |
| ! | AAGGAAAATAACTTGCAAGT+TGG | - | chr7_1:71207768-71207787 | Msa1035430:intron | 30.0% |
| !! | AAAAACCTTGCAACTTGTTA+GGG | + | chr7_1:71207875-71207894 | None:intergenic | 30.0% |
| AACTTTGCAGGTACTAACAA+AGG | - | chr7_1:71207403-71207422 | Msa1035430:CDS | 35.0% | |
| ATGACACAAACTTATGCTCA+TGG | - | chr7_1:71207508-71207527 | Msa1035430:CDS | 35.0% | |
| GTATCCTCTGTTTCAATTCA+TGG | + | chr7_1:71207602-71207621 | None:intergenic | 35.0% | |
| GAATACTTGAACGAGTTTGA+CGG | - | chr7_1:71207639-71207658 | Msa1035430:CDS | 35.0% | |
| AATACTTGAACGAGTTTGAC+GGG | - | chr7_1:71207640-71207659 | Msa1035430:CDS | 35.0% | |
| !!! | GTTCTTTTTTGCAAGTTGGT+TGG | - | chr7_1:71207733-71207752 | Msa1035430:intron | 35.0% |
| ! | GAAAAACCTTGCAACTTGTT+AGG | + | chr7_1:71207876-71207895 | None:intergenic | 35.0% |
| TTTGCAGGTACTAACAAAGG+AGG | - | chr7_1:71207406-71207425 | Msa1035430:CDS | 40.0% | |
| !! | TGGTTGGTCTATATTCGACA+AGG | - | chr7_1:71207749-71207768 | Msa1035430:intron | 40.0% |
| TTCTATTACCCGAGCTAGTG+AGG | - | chr7_1:71207842-71207861 | Msa1035430:CDS | 45.0% | |
| GCAGGTACTAACAAAGGAGG+AGG | - | chr7_1:71207409-71207428 | Msa1035430:CDS | 50.0% | |
| TTGACGGGATCGCAAGGATA+AGG | - | chr7_1:71207655-71207674 | Msa1035430:CDS | 50.0% | |
| TGACGGGATCGCAAGGATAA+GGG | - | chr7_1:71207656-71207675 | Msa1035430:CDS | 50.0% | |
| !! | GCAAGGATAAGGGTTGATGC+AGG | - | chr7_1:71207666-71207685 | Msa1035430:CDS | 50.0% |
| !! | GGGTTGATGCAGGTAGAACT+TGG | - | chr7_1:71207676-71207695 | Msa1035430:CDS | 50.0% |
| !! | CCTTGCAACTTGTTAGGGCT+TGG | + | chr7_1:71207870-71207889 | None:intergenic | 50.0% |
| CCAAGCCCTAACAAGTTGCA+AGG | - | chr7_1:71207867-71207886 | Msa1035430:CDS | 50.0% | |
| ACGAGTTTGACGGGATCGCA+AGG | - | chr7_1:71207649-71207668 | Msa1035430:CDS | 55.0% | |
| GCTTGGTTCCTCACTAGCTC+GGG | + | chr7_1:71207853-71207872 | None:intergenic | 55.0% | |
| ! | GGCTTGGTTCCTCACTAGCT+CGG | + | chr7_1:71207854-71207873 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 71207385 | 71207968 | 71207385 | ID=Msa1035430;Name=Msa1035430 |
| chr7_1 | mRNA | 71207385 | 71207968 | 71207385 | ID=Msa1035430-mRNA-1;Parent=Msa1035430;Name=Msa1035430-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|0|0|1|1|1|2|0|169 |
| chr7_1 | exon | 71207813 | 71207968 | 71207813 | ID=Msa1035430-mRNA-1:exon:17206;Parent=Msa1035430-mRNA-1 |
| chr7_1 | exon | 71207385 | 71207738 | 71207385 | ID=Msa1035430-mRNA-1:exon:17205;Parent=Msa1035430-mRNA-1 |
| chr7_1 | CDS | 71207813 | 71207968 | 71207813 | ID=Msa1035430-mRNA-1:cds;Parent=Msa1035430-mRNA-1 |
| chr7_1 | CDS | 71207385 | 71207738 | 71207385 | ID=Msa1035430-mRNA-1:cds;Parent=Msa1035430-mRNA-1 |
| Gene Sequence |
| Protein sequence |
