Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70401.t1 | RHN62754.1 | 94.6 | 224 | 12 | 0 | 1 | 224 | 1 | 224 | 6.10E-95 | 357.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70401.t1 | Q9M2C0 | 59.0 | 200 | 73 | 2 | 26 | 224 | 7 | 198 | 6.0e-59 | 228.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70401.t1 | A0A396IER6 | 94.6 | 224 | 12 | 0 | 1 | 224 | 1 | 224 | 4.4e-95 | 357.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051325 | MS.gene70401 | 0.918058 | 2.49E-86 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene70401 | MS.gene67394 | PPI |
| MS.gene70401 | MS.gene066222 | PPI |
| MS.gene70401 | MS.gene006180 | PPI |
| MS.gene70401 | MS.gene60673 | PPI |
| MS.gene70401 | MS.gene59206 | PPI |
| MS.gene70401 | MS.gene000219 | PPI |
| MS.gene48173 | MS.gene70401 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70401.t1 | MTR_4g094332 | 95.982 | 224 | 9 | 0 | 1 | 224 | 1 | 224 | 4.60e-138 | 386 |
| MS.gene70401.t1 | MTR_4g094328 | 94.196 | 224 | 13 | 0 | 1 | 224 | 1 | 224 | 7.53e-134 | 375 |
| MS.gene70401.t1 | MTR_4g094330 | 94.196 | 224 | 13 | 0 | 1 | 224 | 1 | 224 | 7.53e-134 | 375 |
| MS.gene70401.t1 | MTR_1g099010 | 66.667 | 201 | 63 | 1 | 24 | 224 | 21 | 217 | 1.33e-91 | 268 |
| MS.gene70401.t1 | MTR_6g034975 | 66.986 | 209 | 66 | 2 | 16 | 224 | 5 | 210 | 8.67e-89 | 261 |
| MS.gene70401.t1 | MTR_4g094325 | 61.792 | 212 | 77 | 2 | 13 | 224 | 32 | 239 | 1.07e-84 | 251 |
| MS.gene70401.t1 | MTR_2g008110 | 61.053 | 190 | 65 | 1 | 30 | 219 | 27 | 207 | 6.11e-73 | 221 |
| MS.gene70401.t1 | MTR_0119s0010 | 61.053 | 190 | 65 | 1 | 30 | 219 | 27 | 207 | 6.60e-73 | 220 |
| MS.gene70401.t1 | MTR_0119s0020 | 61.053 | 190 | 65 | 1 | 30 | 219 | 27 | 207 | 6.60e-73 | 220 |
| MS.gene70401.t1 | MTR_4g094335 | 57.073 | 205 | 79 | 2 | 18 | 219 | 27 | 225 | 5.73e-70 | 214 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70401.t1 | AT3G43660 | 63.000 | 200 | 65 | 2 | 26 | 224 | 7 | 198 | 5.39e-92 | 268 |
| MS.gene70401.t1 | AT1G21140 | 62.312 | 199 | 66 | 2 | 26 | 224 | 11 | 200 | 4.37e-82 | 243 |
| MS.gene70401.t1 | AT3G43630 | 61.809 | 199 | 67 | 2 | 24 | 221 | 4 | 194 | 5.52e-81 | 241 |
| MS.gene70401.t1 | AT1G76800 | 62.000 | 200 | 67 | 1 | 25 | 224 | 6 | 196 | 4.65e-80 | 238 |
| MS.gene70401.t1 | AT3G25190 | 63.033 | 211 | 72 | 2 | 18 | 224 | 9 | 217 | 5.31e-74 | 223 |
Find 51 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGGCTATGGCCATTACTTT+TGG | 0.296297 | 4.3:-19961665 | MS.gene70401:CDS |
| ACCAAATTGATTGGCACTAC+TGG | 0.296615 | 4.3:-19961638 | MS.gene70401:CDS |
| TCTTGTGTTAGAGTTCTTAT+TGG | 0.297338 | 4.3:-19961695 | MS.gene70401:CDS |
| TGTGGTTAGCTTTGCTTTGT+TGG | 0.303507 | 4.3:-19961765 | MS.gene70401:CDS |
| TTCAACTTTGAGAGTACTAT+TGG | 0.313072 | 4.3:+19962210 | None:intergenic |
| TCCAGTAGTGCCAATCAATT+TGG | 0.330163 | 4.3:+19961637 | None:intergenic |
| TTTGGTTTCACCAAATTGAT+TGG | 0.341339 | 4.3:-19961647 | MS.gene70401:CDS |
| AGCTTTGCTTTGTTGGTGTT+CGG | 0.375879 | 4.3:-19961758 | MS.gene70401:CDS |
| CTGCATTTATAAAGAATCAT+AGG | 0.383563 | 4.3:-19961811 | MS.gene70401:CDS |
| ATCTCAACCTCAAAATTGTT+TGG | 0.384795 | 4.3:+19962244 | None:intergenic |
| ATCAAAGTAATGCTCCTTGC+TGG | 0.393708 | 4.3:-19962061 | MS.gene70401:CDS |
| AATGCTGCTTGAAATGGATT+TGG | 0.394757 | 4.3:+19961884 | None:intergenic |
| TCCTTCATGGCCTCACAACT+TGG | 0.407619 | 4.3:-19962289 | None:intergenic |
| GAAGCTAATGCTGCTTGAAA+TGG | 0.414506 | 4.3:+19961878 | None:intergenic |
| ATGCTCCTTGCTGGTTTCGC+TGG | 0.425505 | 4.3:-19962052 | MS.gene70401:CDS |
| TGGCTTAGAGCAGCAATGTT+AGG | 0.431906 | 4.3:-19962148 | MS.gene70401:CDS |
| TATTGGAGGTTGGATGGCTA+TGG | 0.439649 | 4.3:-19961678 | MS.gene70401:CDS |
| TGTGTTAGAGTTCTTATTGG+AGG | 0.446628 | 4.3:-19961692 | MS.gene70401:CDS |
| TTAGAGTTCTTATTGGAGGT+TGG | 0.455085 | 4.3:-19961688 | MS.gene70401:CDS |
| AAAGAATCATAGGATTAGAA+TGG | 0.457336 | 4.3:-19961801 | MS.gene70401:CDS |
| AACAGTGATTAGTCCATCAT+TGG | 0.469248 | 4.3:+19962123 | None:intergenic |
| GGTTTCGCTGGTTTAGTAGC+CGG | 0.470478 | 4.3:-19962040 | MS.gene70401:CDS |
| CAGCATTGATTACTTTCAAA+GGG | 0.487104 | 4.3:-19962176 | MS.gene70401:CDS |
| TGATGATGAAAGTACTGAAA+AGG | 0.488855 | 4.3:-19961915 | MS.gene70401:CDS |
| ACAGCATTGATTACTTTCAA+AGG | 0.499048 | 4.3:-19962177 | MS.gene70401:CDS |
| AAGAATCATAGGATTAGAAT+GGG | 0.503124 | 4.3:-19961800 | MS.gene70401:CDS |
| GGAGGAGTGGGTGCATTGGT+TGG | 0.503269 | 4.3:-19961737 | MS.gene70401:CDS |
| AGAGTACTATTGGCATGGAT+AGG | 0.503952 | 4.3:+19962220 | None:intergenic |
| AGTTCTTATTGGAGGTTGGA+TGG | 0.512108 | 4.3:-19961684 | MS.gene70401:CDS |
| GTTCGGAGGAGTGGGTGCAT+TGG | 0.514286 | 4.3:-19961741 | MS.gene70401:CDS |
| GCCTCATTGATGATCGGCGT+TGG | 0.515998 | 4.3:-19962100 | MS.gene70401:CDS |
| AATGGGAGTTGTTGCTGCTG+TGG | 0.525549 | 4.3:-19961783 | MS.gene70401:CDS |
| GAGTACTATTGGCATGGATA+GGG | 0.527712 | 4.3:+19962221 | None:intergenic |
| AACCTCAAAATTGTTTGGTG+AGG | 0.527938 | 4.3:+19962249 | None:intergenic |
| CTTTGAGAGTACTATTGGCA+TGG | 0.540482 | 4.3:+19962215 | None:intergenic |
| TTGTTGGTGTTCGGAGGAGT+GGG | 0.540620 | 4.3:-19961749 | MS.gene70401:CDS |
| TTTGGTGAAACCAAAAGTAA+TGG | 0.542621 | 4.3:+19961655 | None:intergenic |
| AGCAGCATTAGCTTCCGCAC+TGG | 0.542923 | 4.3:-19961870 | MS.gene70401:CDS |
| ATAAATGCAGCTGCTAGTAA+TGG | 0.554872 | 4.3:+19961824 | None:intergenic |
| TTTGTTGGTGTTCGGAGGAG+TGG | 0.555153 | 4.3:-19961750 | MS.gene70401:CDS |
| GGTGCTTGTAGCATGGCAAT+TGG | 0.557712 | 4.3:-19962019 | MS.gene70401:CDS |
| AATTGCCATGCTACAAGCAC+CGG | 0.567135 | 4.3:+19962021 | None:intergenic |
| AGTAGCCGGTGCTTGTAGCA+TGG | 0.572629 | 4.3:-19962026 | MS.gene70401:CDS |
| TTTGCTTTGTTGGTGTTCGG+AGG | 0.573531 | 4.3:-19961755 | MS.gene70401:CDS |
| GCAATGTTAGGAGCCAATGA+TGG | 0.586770 | 4.3:-19962136 | MS.gene70401:CDS |
| ACTGTTGCCTCATTGATGAT+CGG | 0.595345 | 4.3:-19962106 | MS.gene70401:CDS |
| CTAACACAAGACCTCATCAA+AGG | 0.604425 | 4.3:+19961707 | None:intergenic |
| ATTACTTTCAAAGGGCACAA+TGG | 0.615521 | 4.3:-19962168 | MS.gene70401:CDS |
| CTAAACCAGCGAAACCAGCA+AGG | 0.672858 | 4.3:+19962047 | None:intergenic |
| TCCAACGCCGATCATCAATG+AGG | 0.683388 | 4.3:+19962099 | None:intergenic |
| TCCAATAGAAAATGCCAGTG+CGG | 0.690209 | 4.3:+19961856 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAGAATCATAGGATTAGAA+TGG | - | chr4.3:19962113-19962132 | MS.gene70401:CDS | 25.0% |
| ! | AAGAATCATAGGATTAGAAT+GGG | - | chr4.3:19962114-19962133 | MS.gene70401:CDS | 25.0% |
| ! | CTGCATTTATAAAGAATCAT+AGG | - | chr4.3:19962103-19962122 | MS.gene70401:CDS | 25.0% |
| ATCTCAACCTCAAAATTGTT+TGG | + | chr4.3:19961673-19961692 | None:intergenic | 30.0% | |
| TCTTGTGTTAGAGTTCTTAT+TGG | - | chr4.3:19962219-19962238 | MS.gene70401:CDS | 30.0% | |
| TTTGGTGAAACCAAAAGTAA+TGG | + | chr4.3:19962262-19962281 | None:intergenic | 30.0% | |
| ! | TTTGGTTTCACCAAATTGAT+TGG | - | chr4.3:19962267-19962286 | MS.gene70401:CDS | 30.0% |
| !! | ACAGCATTGATTACTTTCAA+AGG | - | chr4.3:19961737-19961756 | MS.gene70401:CDS | 30.0% |
| !! | CAGCATTGATTACTTTCAAA+GGG | - | chr4.3:19961738-19961757 | MS.gene70401:CDS | 30.0% |
| !! | TGATGATGAAAGTACTGAAA+AGG | - | chr4.3:19961999-19962018 | MS.gene70401:CDS | 30.0% |
| !! | TTCAACTTTGAGAGTACTAT+TGG | + | chr4.3:19961707-19961726 | None:intergenic | 30.0% |
| ATAAATGCAGCTGCTAGTAA+TGG | + | chr4.3:19962093-19962112 | None:intergenic | 35.0% | |
| CAACTTGGAGCAAAAACTAA+TGG | - | chr4.3:19961640-19961659 | MS.gene70401:CDS | 35.0% | |
| TGTGTTAGAGTTCTTATTGG+AGG | - | chr4.3:19962222-19962241 | MS.gene70401:CDS | 35.0% | |
| TTAGAGTTCTTATTGGAGGT+TGG | - | chr4.3:19962226-19962245 | MS.gene70401:CDS | 35.0% | |
| TTGGAAAAACTCCTTTGATG+AGG | - | chr4.3:19962196-19962215 | MS.gene70401:CDS | 35.0% | |
| ! | AACAGTGATTAGTCCATCAT+TGG | + | chr4.3:19961794-19961813 | None:intergenic | 35.0% |
| ! | AACCTCAAAATTGTTTGGTG+AGG | + | chr4.3:19961668-19961687 | None:intergenic | 35.0% |
| ! | AACCTCACCAAACAATTTTG+AGG | - | chr4.3:19961663-19961682 | MS.gene70401:CDS | 35.0% |
| ! | AATGCTGCTTGAAATGGATT+TGG | + | chr4.3:19962033-19962052 | None:intergenic | 35.0% |
| ! | ATTACTTTCAAAGGGCACAA+TGG | - | chr4.3:19961746-19961765 | MS.gene70401:CDS | 35.0% |
| ACCAAATTGATTGGCACTAC+TGG | - | chr4.3:19962276-19962295 | MS.gene70401:CDS | 40.0% | |
| AGTTCTTATTGGAGGTTGGA+TGG | - | chr4.3:19962230-19962249 | MS.gene70401:CDS | 40.0% | |
| ATCAAAGTAATGCTCCTTGC+TGG | - | chr4.3:19961853-19961872 | MS.gene70401:CDS | 40.0% | |
| CTAACACAAGACCTCATCAA+AGG | + | chr4.3:19962210-19962229 | None:intergenic | 40.0% | |
| GAGTACTATTGGCATGGATA+GGG | + | chr4.3:19961696-19961715 | None:intergenic | 40.0% | |
| TCCAATAGAAAATGCCAGTG+CGG | + | chr4.3:19962061-19962080 | None:intergenic | 40.0% | |
| TCCAGTAGTGCCAATCAATT+TGG | + | chr4.3:19962280-19962299 | None:intergenic | 40.0% | |
| ! | ACTGTTGCCTCATTGATGAT+CGG | - | chr4.3:19961808-19961827 | MS.gene70401:CDS | 40.0% |
| ! | AGAGTACTATTGGCATGGAT+AGG | + | chr4.3:19961697-19961716 | None:intergenic | 40.0% |
| ! | AGCTTTGCTTTGTTGGTGTT+CGG | - | chr4.3:19962156-19962175 | MS.gene70401:CDS | 40.0% |
| ! | AGTTTTTGCTCCAAGTTGTG+AGG | + | chr4.3:19961638-19961657 | None:intergenic | 40.0% |
| ! | ATGGCTATGGCCATTACTTT+TGG | - | chr4.3:19962249-19962268 | MS.gene70401:CDS | 40.0% |
| ! | GAAGCTAATGCTGCTTGAAA+TGG | + | chr4.3:19962039-19962058 | None:intergenic | 40.0% |
| !! | CTTTGAGAGTACTATTGGCA+TGG | + | chr4.3:19961702-19961721 | None:intergenic | 40.0% |
| !! | TGTGGTTAGCTTTGCTTTGT+TGG | - | chr4.3:19962149-19962168 | MS.gene70401:CDS | 40.0% |
| AATTGCCATGCTACAAGCAC+CGG | + | chr4.3:19961896-19961915 | None:intergenic | 45.0% | |
| GCAATGTTAGGAGCCAATGA+TGG | - | chr4.3:19961778-19961797 | MS.gene70401:CDS | 45.0% | |
| TATTGGAGGTTGGATGGCTA+TGG | - | chr4.3:19962236-19962255 | MS.gene70401:CDS | 45.0% | |
| TGGCTTAGAGCAGCAATGTT+AGG | - | chr4.3:19961766-19961785 | MS.gene70401:CDS | 45.0% | |
| ! | TTTGCTTTGTTGGTGTTCGG+AGG | - | chr4.3:19962159-19962178 | MS.gene70401:CDS | 45.0% |
| !! | TCCGCACTGGCATTTTCTAT+TGG | - | chr4.3:19962057-19962076 | MS.gene70401:CDS | 45.0% |
| AATGGGAGTTGTTGCTGCTG+TGG | - | chr4.3:19962131-19962150 | MS.gene70401:CDS | 50.0% | |
| CTAAACCAGCGAAACCAGCA+AGG | + | chr4.3:19961870-19961889 | None:intergenic | 50.0% | |
| GGTGCTTGTAGCATGGCAAT+TGG | - | chr4.3:19961895-19961914 | MS.gene70401:CDS | 50.0% | |
| TCCAACGCCGATCATCAATG+AGG | + | chr4.3:19961818-19961837 | None:intergenic | 50.0% | |
| ! | TTGTTGGTGTTCGGAGGAGT+GGG | - | chr4.3:19962165-19962184 | MS.gene70401:CDS | 50.0% |
| ! | TTTGTTGGTGTTCGGAGGAG+TGG | - | chr4.3:19962164-19962183 | MS.gene70401:CDS | 50.0% |
| !! | GGTTTCGCTGGTTTAGTAGC+CGG | - | chr4.3:19961874-19961893 | MS.gene70401:CDS | 50.0% |
| AGTAGCCGGTGCTTGTAGCA+TGG | - | chr4.3:19961888-19961907 | MS.gene70401:CDS | 55.0% | |
| ! | AGCAGCATTAGCTTCCGCAC+TGG | - | chr4.3:19962044-19962063 | MS.gene70401:CDS | 55.0% |
| ! | GCCTCATTGATGATCGGCGT+TGG | - | chr4.3:19961814-19961833 | MS.gene70401:CDS | 55.0% |
| !! | ATGCTCCTTGCTGGTTTCGC+TGG | - | chr4.3:19961862-19961881 | MS.gene70401:CDS | 55.0% |
| GTTCGGAGGAGTGGGTGCAT+TGG | - | chr4.3:19962173-19962192 | MS.gene70401:CDS | 60.0% | |
| ! | GGAGGAGTGGGTGCATTGGT+TGG | - | chr4.3:19962177-19962196 | MS.gene70401:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 19961631 | 19962305 | 19961631 | ID=MS.gene70401 |
| chr4.3 | mRNA | 19961631 | 19962305 | 19961631 | ID=MS.gene70401.t1;Parent=MS.gene70401 |
| chr4.3 | exon | 19961631 | 19962305 | 19961631 | ID=MS.gene70401.t1.exon1;Parent=MS.gene70401.t1 |
| chr4.3 | CDS | 19961631 | 19962305 | 19961631 | ID=cds.MS.gene70401.t1;Parent=MS.gene70401.t1 |
| Gene Sequence |
| Protein sequence |
