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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1387340 | XP_024629909.1 | 70.677 | 133 | 26 | 2 | 6 | 131 | 5 | 131 | 3.16e-53 | 174 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1387340 | A0A396IS69 | 70.677 | 133 | 26 | 2 | 6 | 131 | 5 | 131 | 1.51e-53 | 174 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1387280 | Msa1387340 | 0.921316 | 4.185314e-88 | -8.615850e-47 |
| Msa1387340 | Msa1387350 | 0.888158 | 7.567038e-73 | -8.615850e-47 |
| Msa0768290 | Msa1387340 | 0.836506 | 8.991324e-57 | -8.615850e-47 |
| Msa0768370 | Msa1387340 | 0.822383 | 2.439199e-53 | -8.615850e-47 |
| Msa0824590 | Msa1387340 | 0.823868 | 1.098724e-53 | -8.615850e-47 |
| Msa1248310 | Msa1387340 | 0.800681 | 1.285866e-48 | -8.615850e-47 |
| Msa0411330 | Msa1387340 | 0.852692 | 3.906470e-61 | -8.615850e-47 |
| Msa0450000 | Msa1387340 | 0.802874 | 4.559650e-49 | -8.615850e-47 |
| Msa0455810 | Msa1387340 | 0.858433 | 8.264285e-63 | -8.615850e-47 |
| Msa1120610 | Msa1387340 | 0.821982 | 3.021991e-53 | -8.615850e-47 |
| Msa0864070 | Msa1387340 | 0.818308 | 2.097746e-52 | -8.615850e-47 |
| Msa0899430 | Msa1387340 | 0.815539 | 8.778738e-52 | -8.615850e-47 |
| Msa0966750 | Msa1387340 | 0.806590 | 7.638717e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1387340 | MtrunA17_Chr3g0103901 | 70.677 | 133 | 26 | 2 | 6 | 131 | 5 | 131 | 2.91e-57 | 174 |
| Msa1387340 | MtrunA17_Chr3g0103651 | 72.222 | 126 | 25 | 2 | 6 | 131 | 5 | 120 | 1.44e-55 | 169 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 54 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCGCCTGCTTTCTACAATA+TGG | 0.246148 | tig0020883:+105239 | Msa1387340:CDS |
| GTAAAGGTCTCCCTCAATTC+TGG | 0.339441 | tig0020883:-105170 | None:intergenic |
| GGAGTTCGTGATCTCGTGTT+AGG | 0.342593 | tig0020883:+105017 | Msa1387340:CDS |
| ATTTCCAGATGGGGTTGATC+AGG | 0.345391 | tig0020883:+104970 | None:intergenic |
| AACATGACTGGATGCAGAAT+TGG | 0.372606 | tig0020883:-105324 | None:intergenic |
| TGCCACTACTGATTGAATAA+TGG | 0.383537 | tig0020883:+105378 | Msa1387340:CDS |
| GGTGATCCTGTGGGTGGGGA+TGG | 0.412104 | tig0020883:+105071 | Msa1387340:CDS |
| GAGTTCGTGATCTCGTGTTA+GGG | 0.419998 | tig0020883:+105018 | Msa1387340:CDS |
| TGGATGCAGAATTGGAGGTT+TGG | 0.458114 | tig0020883:-105316 | None:intergenic |
| AGTTGGTGATCCTGTGGGTG+GGG | 0.466475 | tig0020883:+105067 | Msa1387340:CDS |
| CGTATTCTCACCAGAATTGA+GGG | 0.471759 | tig0020883:+105160 | Msa1387340:CDS |
| TGCTTTCTACAATATGGACT+TGG | 0.475892 | tig0020883:+105245 | Msa1387340:CDS |
| CTCGAACCAACGACGAGTAA+AGG | 0.476388 | tig0020883:-105186 | None:intergenic |
| TTAGGGGACGTCGAGAATAG+AGG | 0.481029 | tig0020883:+105035 | Msa1387340:CDS |
| AGTAGAAGCACCAACATGAC+TGG | 0.491047 | tig0020883:-105336 | None:intergenic |
| ATTTCTCGTGTGATTACAAA+GGG | 0.491932 | tig0020883:-105113 | None:intergenic |
| GAGTTGGTGATCCTGTGGGT+GGG | 0.492123 | tig0020883:+105066 | Msa1387340:CDS |
| GGAGTTGGTGATCCTGTGGG+TGG | 0.499218 | tig0020883:+105065 | Msa1387340:CDS |
| AATAGAGGTGGGAATGGAGT+TGG | 0.503425 | tig0020883:+105050 | Msa1387340:CDS |
| TCGTATTCTCACCAGAATTG+AGG | 0.505001 | tig0020883:+105159 | Msa1387340:CDS |
| GGAGTTGGTGATATCGAGGA+TGG | 0.511833 | tig0020883:+104996 | Msa1387340:CDS |
| ACTCGTCGTTGGTTCGAGAA+GGG | 0.512022 | tig0020883:+105191 | Msa1387340:CDS |
| GTCGAGAATAGAGGTGGGAA+TGG | 0.515982 | tig0020883:+105044 | Msa1387340:CDS |
| TACTCGTCGTTGGTTCGAGA+AGG | 0.523814 | tig0020883:+105190 | Msa1387340:CDS |
| TGTGGGTGGGGATGGAGTCA+AGG | 0.524533 | tig0020883:+105079 | Msa1387340:CDS |
| GAATGGAGTTGGTGATCCTG+TGG | 0.526513 | tig0020883:+105061 | Msa1387340:CDS |
| CAGATGGGGTTGATCAGGGA+TGG | 0.526606 | tig0020883:+104975 | None:intergenic |
| TGTAGAAAGCAGGCGAATGA+AGG | 0.529310 | tig0020883:-105233 | None:intergenic |
| ATGACTGGATGCAGAATTGG+AGG | 0.532457 | tig0020883:-105321 | None:intergenic |
| AATGGAGTTGGTGATCCTGT+GGG | 0.538298 | tig0020883:+105062 | Msa1387340:CDS |
| GGGAGACCTTTACTCGTCGT+TGG | 0.542180 | tig0020883:+105180 | Msa1387340:CDS |
| TTTCCAGATGGGGTTGATCA+GGG | 0.545091 | tig0020883:+104971 | None:intergenic |
| TTTCTACAATATGGACTTGG+TGG | 0.551626 | tig0020883:+105248 | Msa1387340:CDS |
| AAGTCCATATTGTAGAAAGC+AGG | 0.561840 | tig0020883:-105243 | None:intergenic |
| TTGTAATCACACGAGAAATG+AGG | 0.564368 | tig0020883:+105117 | Msa1387340:CDS |
| CATTTCTCGTGTGATTACAA+AGG | 0.568855 | tig0020883:-105114 | None:intergenic |
| AATTCTGCATCCAGTCATGT+TGG | 0.571897 | tig0020883:+105326 | Msa1387340:CDS |
| TTGACTCCATCCCCACCCAC+AGG | 0.577668 | tig0020883:-105077 | None:intergenic |
| TTCGAGAAGGGAATGGAAGG+TGG | 0.586763 | tig0020883:+105203 | Msa1387340:CDS |
| GGGTTGATCAGGGATGGAGT+TGG | 0.589298 | tig0020883:+104981 | Msa1387340:CDS |
| TGTAATCACACGAGAAATGA+GGG | 0.592115 | tig0020883:+105118 | Msa1387340:CDS |
| TGGTTCGAGAAGGGAATGGA+AGG | 0.592500 | tig0020883:+105200 | Msa1387340:CDS |
| GTCCATTATTCAATCAGTAG+TGG | 0.597077 | tig0020883:-105380 | None:intergenic |
| TCAATTCTGGTGAGAATACG+AGG | 0.598570 | tig0020883:-105157 | None:intergenic |
| AGAAAGCAGGCGAATGAAGG+TGG | 0.603444 | tig0020883:-105230 | None:intergenic |
| TCGTTGGTTCGAGAAGGGAA+TGG | 0.610158 | tig0020883:+105196 | Msa1387340:CDS |
| TCACACGAGAAATGAGGGTG+AGG | 0.612130 | tig0020883:+105123 | Msa1387340:CDS |
| GGGGACGTCGAGAATAGAGG+TGG | 0.627330 | tig0020883:+105038 | Msa1387340:CDS |
| GGATGGAGTTGGTGATATCG+AGG | 0.651118 | tig0020883:+104992 | Msa1387340:CDS |
| TCTGGTGAGAATACGAGGGG+AGG | 0.658186 | tig0020883:-105152 | None:intergenic |
| AGTTCGTGATCTCGTGTTAG+GGG | 0.674252 | tig0020883:+105019 | Msa1387340:CDS |
| CAATTCTGGTGAGAATACGA+GGG | 0.682451 | tig0020883:-105156 | None:intergenic |
| GGGACGTCGAGAATAGAGGT+GGG | 0.689525 | tig0020883:+105039 | Msa1387340:CDS |
| AATTCTGGTGAGAATACGAG+GGG | 0.704615 | tig0020883:-105155 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATTTCTCGTGTGATTACAAA+GGG | - | tig0020883:105116-105135 | None:intergenic | 30.0% | |
| CATTTCTCGTGTGATTACAA+AGG | - | tig0020883:105117-105136 | None:intergenic | 35.0% | |
| TTGTAATCACACGAGAAATG+AGG | + | tig0020883:105117-105136 | Msa1387340:CDS | 35.0% | |
| TGTAATCACACGAGAAATGA+GGG | + | tig0020883:105118-105137 | Msa1387340:CDS | 35.0% | |
| AAGTCCATATTGTAGAAAGC+AGG | - | tig0020883:105246-105265 | None:intergenic | 35.0% | |
| TGCTTTCTACAATATGGACT+TGG | + | tig0020883:105245-105264 | Msa1387340:CDS | 35.0% | |
| TTTCTACAATATGGACTTGG+TGG | + | tig0020883:105248-105267 | Msa1387340:CDS | 35.0% | |
| !!! | GCTCTAGATTGTTTTAATCG+AGG | + | tig0020883:105284-105303 | Msa1387340:CDS | 35.0% |
| AATTCTGGTGAGAATACGAG+GGG | - | tig0020883:105158-105177 | None:intergenic | 40.0% | |
| CAATTCTGGTGAGAATACGA+GGG | - | tig0020883:105159-105178 | None:intergenic | 40.0% | |
| TCAATTCTGGTGAGAATACG+AGG | - | tig0020883:105160-105179 | None:intergenic | 40.0% | |
| TCGTATTCTCACCAGAATTG+AGG | + | tig0020883:105159-105178 | Msa1387340:CDS | 40.0% | |
| CGTATTCTCACCAGAATTGA+GGG | + | tig0020883:105160-105179 | Msa1387340:CDS | 40.0% | |
| TTCGCCTGCTTTCTACAATA+TGG | + | tig0020883:105239-105258 | Msa1387340:CDS | 40.0% | |
| AACATGACTGGATGCAGAAT+TGG | - | tig0020883:105327-105346 | None:intergenic | 40.0% | |
| AATTCTGCATCCAGTCATGT+TGG | + | tig0020883:105326-105345 | Msa1387340:CDS | 40.0% | |
| GAGTTCGTGATCTCGTGTTA+GGG | + | tig0020883:105018-105037 | Msa1387340:CDS | 45.0% | |
| AGTTCGTGATCTCGTGTTAG+GGG | + | tig0020883:105019-105038 | Msa1387340:CDS | 45.0% | |
| AATAGAGGTGGGAATGGAGT+TGG | + | tig0020883:105050-105069 | Msa1387340:CDS | 45.0% | |
| !! | AATGGAGTTGGTGATCCTGT+GGG | + | tig0020883:105062-105081 | Msa1387340:CDS | 45.0% |
| GTAAAGGTCTCCCTCAATTC+TGG | - | tig0020883:105173-105192 | None:intergenic | 45.0% | |
| TGTAGAAAGCAGGCGAATGA+AGG | - | tig0020883:105236-105255 | None:intergenic | 45.0% | |
| TGGATGCAGAATTGGAGGTT+TGG | - | tig0020883:105319-105338 | None:intergenic | 45.0% | |
| ATGACTGGATGCAGAATTGG+AGG | - | tig0020883:105324-105343 | None:intergenic | 45.0% | |
| !! | AGTAGAAGCACCAACATGAC+TGG | - | tig0020883:105339-105358 | None:intergenic | 45.0% |
| !! | GGATGGAGTTGGTGATATCG+AGG | + | tig0020883:104992-105011 | Msa1387340:CDS | 50.0% |
| !! | GGAGTTGGTGATATCGAGGA+TGG | + | tig0020883:104996-105015 | Msa1387340:CDS | 50.0% |
| GGAGTTCGTGATCTCGTGTT+AGG | + | tig0020883:105017-105036 | Msa1387340:CDS | 50.0% | |
| TTAGGGGACGTCGAGAATAG+AGG | + | tig0020883:105035-105054 | Msa1387340:CDS | 50.0% | |
| GTCGAGAATAGAGGTGGGAA+TGG | + | tig0020883:105044-105063 | Msa1387340:CDS | 50.0% | |
| !! | GAATGGAGTTGGTGATCCTG+TGG | + | tig0020883:105061-105080 | Msa1387340:CDS | 50.0% |
| TCACACGAGAAATGAGGGTG+AGG | + | tig0020883:105123-105142 | Msa1387340:CDS | 50.0% | |
| CTCGAACCAACGACGAGTAA+AGG | - | tig0020883:105189-105208 | None:intergenic | 50.0% | |
| !! | TACTCGTCGTTGGTTCGAGA+AGG | + | tig0020883:105190-105209 | Msa1387340:CDS | 50.0% |
| !! | ACTCGTCGTTGGTTCGAGAA+GGG | + | tig0020883:105191-105210 | Msa1387340:CDS | 50.0% |
| !! | TCGTTGGTTCGAGAAGGGAA+TGG | + | tig0020883:105196-105215 | Msa1387340:CDS | 50.0% |
| TGGTTCGAGAAGGGAATGGA+AGG | + | tig0020883:105200-105219 | Msa1387340:CDS | 50.0% | |
| TTCGAGAAGGGAATGGAAGG+TGG | + | tig0020883:105203-105222 | Msa1387340:CDS | 50.0% | |
| AGAAAGCAGGCGAATGAAGG+TGG | - | tig0020883:105233-105252 | None:intergenic | 50.0% | |
| ! | GGGTTGATCAGGGATGGAGT+TGG | + | tig0020883:104981-105000 | Msa1387340:CDS | 55.0% |
| GGGACGTCGAGAATAGAGGT+GGG | + | tig0020883:105039-105058 | Msa1387340:CDS | 55.0% | |
| !! | GAGTTGGTGATCCTGTGGGT+GGG | + | tig0020883:105066-105085 | Msa1387340:CDS | 55.0% |
| !! | AGTTGGTGATCCTGTGGGTG+GGG | + | tig0020883:105067-105086 | Msa1387340:CDS | 55.0% |
| TCTGGTGAGAATACGAGGGG+AGG | - | tig0020883:105155-105174 | None:intergenic | 55.0% | |
| GGGAGACCTTTACTCGTCGT+TGG | + | tig0020883:105180-105199 | Msa1387340:CDS | 55.0% | |
| GGGGACGTCGAGAATAGAGG+TGG | + | tig0020883:105038-105057 | Msa1387340:CDS | 60.0% | |
| !! | GGAGTTGGTGATCCTGTGGG+TGG | + | tig0020883:105065-105084 | Msa1387340:CDS | 60.0% |
| TTGACTCCATCCCCACCCAC+AGG | - | tig0020883:105080-105099 | None:intergenic | 60.0% | |
| TGTGGGTGGGGATGGAGTCA+AGG | + | tig0020883:105079-105098 | Msa1387340:CDS | 60.0% | |
| GGTGATCCTGTGGGTGGGGA+TGG | + | tig0020883:105071-105090 | Msa1387340:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020883 | gene | 104978 | 105397 | 104978 | ID=Msa1387340;Name=Msa1387340 |
| tig0020883 | mRNA | 104978 | 105397 | 104978 | ID=Msa1387340-mRNA-1;Parent=Msa1387340;Name=Msa1387340-mRNA-1;_AED=0.05;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|139 |
| tig0020883 | exon | 104978 | 105397 | 104978 | ID=Msa1387340-mRNA-1:exon:10523;Parent=Msa1387340-mRNA-1 |
| tig0020883 | CDS | 104978 | 105397 | 104978 | ID=Msa1387340-mRNA-1:cds;Parent=Msa1387340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
