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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0800230 | XP_024639353.1 | 58.779 | 131 | 52 | 1 | 74 | 202 | 1 | 131 | 1.10e-45 | 157 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0800230 | A0A2Z6MM48 | 31.980 | 197 | 130 | 3 | 2 | 197 | 17 | 210 | 6.04e-28 | 114 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0800230 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0800230 | MtrunA17_Chr5g0393501 | 30.500 | 200 | 132 | 3 | 2 | 197 | 43 | 239 | 4.57e-25 | 98.2 |
| Msa0800230 | MtrunA17_Chr4g0044671 | 31.156 | 199 | 126 | 8 | 4 | 198 | 28 | 219 | 3.77e-19 | 82.0 |
| Msa0800230 | MtrunA17_Chr4g0034781 | 30.653 | 199 | 127 | 8 | 4 | 198 | 22 | 213 | 2.71e-18 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 48 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAATTCATCAGTGAATT+TGG | 0.083082 | 5_3:-13625063 | None:intergenic |
| ACAATGTGTCTTTAGGAATT+TGG | 0.142567 | 5_3:+13625029 | None:intergenic |
| CTGATTTCAATGATTTCTTA+TGG | 0.239474 | 5_3:+13625520 | Msa0800230:CDS |
| TCAAATTCATCAGTGAATTT+GGG | 0.265368 | 5_3:-13625062 | None:intergenic |
| CCAACCCTTCGTTAGCTTGC+TGG | 0.293858 | 5_3:-13625631 | None:intergenic |
| GCACATCTCCAGCCTGATAT+TGG | 0.349705 | 5_3:-13625674 | None:intergenic |
| CACATTGACCCCTTTGCAAA+TGG | 0.355395 | 5_3:+13625361 | Msa0800230:CDS |
| CTGCGTTTCAAGTTCTTTGA+TGG | 0.370866 | 5_3:+13625696 | Msa0800230:CDS |
| CTGCACGACCAGCCAATATC+AGG | 0.371998 | 5_3:+13625662 | Msa0800230:CDS |
| CTGATTCTGTTTAGCTATGT+TGG | 0.402336 | 5_3:+13625224 | Msa0800230:CDS |
| GATTATTTGACCATTGTCAT+TGG | 0.404983 | 5_3:-13625571 | None:intergenic |
| CATAAGAAATCATTGAAATC+AGG | 0.427387 | 5_3:-13625519 | None:intergenic |
| TTGATGACGTGGGTCCAGTC+TGG | 0.455683 | 5_3:+13625081 | Msa0800230:CDS |
| GAAGTCTTGTGCTTCTGCTA+TGG | 0.476473 | 5_3:-13625310 | None:intergenic |
| TCAGCTTCATGCCTTCAAAC+TGG | 0.481449 | 5_3:-13625205 | None:intergenic |
| AGTAGATTTGTTATCACACT+TGG | 0.481808 | 5_3:+13625251 | Msa0800230:CDS |
| ACTCTGCCACGGTTAACTAA+TGG | 0.484622 | 5_3:+13625158 | Msa0800230:CDS |
| AATTCGCATCCATTTGCAAA+GGG | 0.485601 | 5_3:-13625370 | None:intergenic |
| CAGCAAGCTAACGAAGGGTT+GGG | 0.497952 | 5_3:+13625632 | Msa0800230:CDS |
| CACACTTGGGAATACAATTG+AGG | 0.504352 | 5_3:+13625265 | Msa0800230:CDS |
| ATCTCCAGCCTGATATTGGC+TGG | 0.512753 | 5_3:-13625670 | None:intergenic |
| CCAGCAAGCTAACGAAGGGT+TGG | 0.517788 | 5_3:+13625631 | Msa0800230:CDS |
| TGCGTTTCAAGTTCTTTGAT+GGG | 0.523138 | 5_3:+13625697 | Msa0800230:CDS |
| TTCAATGATTTCTTATGGAA+TGG | 0.526065 | 5_3:+13625525 | Msa0800230:CDS |
| CAAATTCATCAGTGAATTTG+GGG | 0.528317 | 5_3:-13625061 | None:intergenic |
| AATGGATGCGAATTCTGAAC+TGG | 0.528366 | 5_3:+13625379 | Msa0800230:CDS |
| TGCCACGGTTAACTAATGGC+TGG | 0.531042 | 5_3:+13625162 | Msa0800230:CDS |
| CACTGATGAATTTGATGACG+TGG | 0.540972 | 5_3:+13625070 | Msa0800230:CDS |
| ACTGCTATTCATTACCAAGT+TGG | 0.542667 | 5_3:+13625597 | Msa0800230:CDS |
| TGGAATTTAATTGACGCTGA+AGG | 0.570875 | 5_3:+13625101 | Msa0800230:CDS |
| GAATTCGCATCCATTTGCAA+AGG | 0.571229 | 5_3:-13625371 | None:intergenic |
| AAGAAATCATTGAAATCAGG+TGG | 0.573987 | 5_3:-13625516 | None:intergenic |
| GCGTCAATTAAATTCCAGAC+TGG | 0.579334 | 5_3:-13625095 | None:intergenic |
| AATCATTGAAATCAGGTGGA+AGG | 0.583795 | 5_3:-13625512 | None:intergenic |
| GTAGATTTGTTATCACACTT+GGG | 0.584740 | 5_3:+13625252 | Msa0800230:CDS |
| TTGTTCCTCTCCAATGACAA+TGG | 0.585814 | 5_3:+13625561 | Msa0800230:CDS |
| TTTGACCATTGTCATTGGAG+AGG | 0.597349 | 5_3:-13625566 | None:intergenic |
| ACAATTCAGCTACTCTGCCA+CGG | 0.617034 | 5_3:+13625147 | Msa0800230:CDS |
| ACTCACCAGCAAGCTAACGA+AGG | 0.624585 | 5_3:+13625626 | Msa0800230:CDS |
| CGCTGAAGGAAATTCTCATG+AGG | 0.625269 | 5_3:+13625115 | Msa0800230:CDS |
| GTGCTTCTGCTATGGTACGT+AGG | 0.636405 | 5_3:-13625302 | None:intergenic |
| CAAGCTAACGAAGGGTTGGG+AGG | 0.643100 | 5_3:+13625635 | Msa0800230:CDS |
| ACGACCAGCCAATATCAGGC+TGG | 0.644275 | 5_3:+13625666 | Msa0800230:CDS |
| CTCACCAGCAAGCTAACGAA+GGG | 0.650798 | 5_3:+13625627 | Msa0800230:CDS |
| ATTCGCATCCATTTGCAAAG+GGG | 0.653436 | 5_3:-13625369 | None:intergenic |
| TGGTGAGTGAGTCACCAACT+TGG | 0.680717 | 5_3:-13625611 | None:intergenic |
| GTCCAGCCATTAGTTAACCG+TGG | 0.698189 | 5_3:-13625164 | None:intergenic |
| ACTGATGAATTTGATGACGT+GGG | 0.707740 | 5_3:+13625071 | Msa0800230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTTTATTAAAATCTGCAAA+TGG | + | chr5_3:13625429-13625448 | Msa0800230:intron | 20.0% |
| !! | CAACAATGAAAATTAAGATT+AGG | - | chr5_3:13625479-13625498 | None:intergenic | 20.0% |
| ! | TCAAATTCATCAGTGAATTT+GGG | - | chr5_3:13625065-13625084 | None:intergenic | 25.0% |
| ! | ATCAAATTCATCAGTGAATT+TGG | - | chr5_3:13625066-13625085 | None:intergenic | 25.0% |
| !!! | TGCAGATTTTAATAAACACA+TGG | - | chr5_3:13625427-13625446 | None:intergenic | 25.0% |
| ! | CATAAGAAATCATTGAAATC+AGG | - | chr5_3:13625522-13625541 | None:intergenic | 25.0% |
| ! | CTGATTTCAATGATTTCTTA+TGG | + | chr5_3:13625520-13625539 | Msa0800230:CDS | 25.0% |
| ! | TTCAATGATTTCTTATGGAA+TGG | + | chr5_3:13625525-13625544 | Msa0800230:CDS | 25.0% |
| CAAATTCATCAGTGAATTTG+GGG | - | chr5_3:13625064-13625083 | None:intergenic | 30.0% | |
| ! | AGACAATTTTACCAGTTTGA+AGG | + | chr5_3:13625194-13625213 | Msa0800230:CDS | 30.0% |
| !! | AGTAGATTTGTTATCACACT+TGG | + | chr5_3:13625251-13625270 | Msa0800230:CDS | 30.0% |
| !! | GTAGATTTGTTATCACACTT+GGG | + | chr5_3:13625252-13625271 | Msa0800230:CDS | 30.0% |
| TTTCATTGTTGTCTAAATGC+AGG | + | chr5_3:13625488-13625507 | Msa0800230:intron | 30.0% | |
| AAGAAATCATTGAAATCAGG+TGG | - | chr5_3:13625519-13625538 | None:intergenic | 30.0% | |
| GATTATTTGACCATTGTCAT+TGG | - | chr5_3:13625574-13625593 | None:intergenic | 30.0% | |
| !! | ACTGATGAATTTGATGACGT+GGG | + | chr5_3:13625071-13625090 | Msa0800230:CDS | 35.0% |
| TGGAATTTAATTGACGCTGA+AGG | + | chr5_3:13625101-13625120 | Msa0800230:CDS | 35.0% | |
| CTGATTCTGTTTAGCTATGT+TGG | + | chr5_3:13625224-13625243 | Msa0800230:CDS | 35.0% | |
| AATTCGCATCCATTTGCAAA+GGG | - | chr5_3:13625373-13625392 | None:intergenic | 35.0% | |
| AATCATTGAAATCAGGTGGA+AGG | - | chr5_3:13625515-13625534 | None:intergenic | 35.0% | |
| ACTGCTATTCATTACCAAGT+TGG | + | chr5_3:13625597-13625616 | Msa0800230:CDS | 35.0% | |
| !! | TGCGTTTCAAGTTCTTTGAT+GGG | + | chr5_3:13625697-13625716 | Msa0800230:CDS | 35.0% |
| !! | CACTGATGAATTTGATGACG+TGG | + | chr5_3:13625070-13625089 | Msa0800230:CDS | 40.0% |
| GCGTCAATTAAATTCCAGAC+TGG | - | chr5_3:13625098-13625117 | None:intergenic | 40.0% | |
| CACACTTGGGAATACAATTG+AGG | + | chr5_3:13625265-13625284 | Msa0800230:CDS | 40.0% | |
| ATTCGCATCCATTTGCAAAG+GGG | - | chr5_3:13625372-13625391 | None:intergenic | 40.0% | |
| GAATTCGCATCCATTTGCAA+AGG | - | chr5_3:13625374-13625393 | None:intergenic | 40.0% | |
| AATGGATGCGAATTCTGAAC+TGG | + | chr5_3:13625379-13625398 | Msa0800230:CDS | 40.0% | |
| TTGTTCCTCTCCAATGACAA+TGG | + | chr5_3:13625561-13625580 | Msa0800230:CDS | 40.0% | |
| TTTGACCATTGTCATTGGAG+AGG | - | chr5_3:13625569-13625588 | None:intergenic | 40.0% | |
| !! | CTGCGTTTCAAGTTCTTTGA+TGG | + | chr5_3:13625696-13625715 | Msa0800230:CDS | 40.0% |
| CGCTGAAGGAAATTCTCATG+AGG | + | chr5_3:13625115-13625134 | Msa0800230:CDS | 45.0% | |
| ACAATTCAGCTACTCTGCCA+CGG | + | chr5_3:13625147-13625166 | Msa0800230:CDS | 45.0% | |
| ACTCTGCCACGGTTAACTAA+TGG | + | chr5_3:13625158-13625177 | Msa0800230:CDS | 45.0% | |
| TCAGCTTCATGCCTTCAAAC+TGG | - | chr5_3:13625208-13625227 | None:intergenic | 45.0% | |
| ! | GAAGTCTTGTGCTTCTGCTA+TGG | - | chr5_3:13625313-13625332 | None:intergenic | 45.0% |
| CACATTGACCCCTTTGCAAA+TGG | + | chr5_3:13625361-13625380 | Msa0800230:CDS | 45.0% | |
| TGCCACGGTTAACTAATGGC+TGG | + | chr5_3:13625162-13625181 | Msa0800230:CDS | 50.0% | |
| GTCCAGCCATTAGTTAACCG+TGG | - | chr5_3:13625167-13625186 | None:intergenic | 50.0% | |
| GTGCTTCTGCTATGGTACGT+AGG | - | chr5_3:13625305-13625324 | None:intergenic | 50.0% | |
| TGGTGAGTGAGTCACCAACT+TGG | - | chr5_3:13625614-13625633 | None:intergenic | 50.0% | |
| ACTCACCAGCAAGCTAACGA+AGG | + | chr5_3:13625626-13625645 | Msa0800230:CDS | 50.0% | |
| CTCACCAGCAAGCTAACGAA+GGG | + | chr5_3:13625627-13625646 | Msa0800230:CDS | 50.0% | |
| CAGCAAGCTAACGAAGGGTT+GGG | + | chr5_3:13625632-13625651 | Msa0800230:CDS | 50.0% | |
| ATCTCCAGCCTGATATTGGC+TGG | - | chr5_3:13625673-13625692 | None:intergenic | 50.0% | |
| GCACATCTCCAGCCTGATAT+TGG | - | chr5_3:13625677-13625696 | None:intergenic | 50.0% | |
| !! | TTGATGACGTGGGTCCAGTC+TGG | + | chr5_3:13625081-13625100 | Msa0800230:CDS | 55.0% |
| !! | CCAACCCTTCGTTAGCTTGC+TGG | - | chr5_3:13625634-13625653 | None:intergenic | 55.0% |
| CCAGCAAGCTAACGAAGGGT+TGG | + | chr5_3:13625631-13625650 | Msa0800230:CDS | 55.0% | |
| CAAGCTAACGAAGGGTTGGG+AGG | + | chr5_3:13625635-13625654 | Msa0800230:CDS | 55.0% | |
| CTGCACGACCAGCCAATATC+AGG | + | chr5_3:13625662-13625681 | Msa0800230:CDS | 55.0% | |
| ACGACCAGCCAATATCAGGC+TGG | + | chr5_3:13625666-13625685 | Msa0800230:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 13625044 | 13625761 | 13625044 | ID=Msa0800230;Name=Msa0800230 |
| chr5_3 | mRNA | 13625044 | 13625761 | 13625044 | ID=Msa0800230-mRNA-1;Parent=Msa0800230;Name=Msa0800230-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|0|1|1|1|2|0|202 |
| chr5_3 | exon | 13625044 | 13625400 | 13625044 | ID=Msa0800230-mRNA-1:exon:5613;Parent=Msa0800230-mRNA-1 |
| chr5_3 | exon | 13625510 | 13625761 | 13625510 | ID=Msa0800230-mRNA-1:exon:5614;Parent=Msa0800230-mRNA-1 |
| chr5_3 | CDS | 13625044 | 13625400 | 13625044 | ID=Msa0800230-mRNA-1:cds;Parent=Msa0800230-mRNA-1 |
| chr5_3 | CDS | 13625510 | 13625761 | 13625510 | ID=Msa0800230-mRNA-1:cds;Parent=Msa0800230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
