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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266260 | RHN64587.1 | 86.697 | 218 | 25 | 1 | 20 | 237 | 1 | 214 | 1.18e-123 | 360 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266260 | sp|Q9SIP1|UP3_ARATH | 38.991 | 218 | 114 | 6 | 23 | 232 | 48 | 254 | 7.21e-47 | 159 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266260 | A0A396INV6 | 86.697 | 218 | 25 | 1 | 20 | 237 | 1 | 214 | 5.66e-124 | 360 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1266260 | Msa1334440 | 0.881266 | 2.768663e-70 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266260 | MtrunA17_Chr4g0070671 | 86.697 | 218 | 25 | 1 | 20 | 237 | 1 | 214 | 1.09e-127 | 360 |
| Msa1266260 | MtrunA17_Chr4g0070621 | 45.854 | 205 | 99 | 6 | 24 | 224 | 52 | 248 | 1.79e-58 | 186 |
| Msa1266260 | MtrunA17_Chr4g0070651 | 45.854 | 205 | 99 | 6 | 24 | 224 | 52 | 248 | 1.79e-58 | 186 |
| Msa1266260 | MtrunA17_Chr2g0300451 | 38.356 | 219 | 116 | 7 | 24 | 232 | 52 | 261 | 2.27e-44 | 149 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266260 | AT2G31670.1 | 38.991 | 218 | 114 | 6 | 23 | 232 | 48 | 254 | 7.33e-48 | 159 |
| Msa1266260 | AT1G51360.1 | 41.038 | 212 | 116 | 4 | 20 | 230 | 1 | 204 | 1.20e-47 | 157 |
Find 60 sgRNAs with CRISPR-Local
Find 65 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTGATTCTGATGAGAAATT+TGG | 0.119057 | 8_2:+71054266 | Msa1266260:CDS |
| ACATCCTTTCTTTCTGTTGT+TGG | 0.285441 | 8_2:-71053698 | None:intergenic |
| TCACATGAATGATAAGATTA+AGG | 0.311885 | 8_2:+71054295 | Msa1266260:CDS |
| CTTCAAGTTGAAGGAGGGTT+TGG | 0.321534 | 8_2:+71054085 | Msa1266260:CDS |
| AGAGCCACTTCACTTAACTA+TGG | 0.332780 | 8_2:+71053824 | Msa1266260:CDS |
| CTGATTCTGATGAGAAATTT+GGG | 0.334720 | 8_2:+71054267 | Msa1266260:CDS |
| TCGAGCATGTGGTGTTGTTC+AGG | 0.352637 | 8_2:+71053730 | Msa1266260:CDS |
| TGATAAGATTAAGGAAAATC+TGG | 0.365828 | 8_2:+71054304 | Msa1266260:CDS |
| TCCAGGTTTAACCGAATTGC+AGG | 0.367963 | 8_2:+71054241 | Msa1266260:CDS |
| TTCAAGTTGAAGGAGGGTTT+GGG | 0.376642 | 8_2:+71054086 | Msa1266260:CDS |
| TTCTCTCCTGGTAGAGCTAA+AGG | 0.386910 | 8_2:+71054191 | Msa1266260:CDS |
| ATGAAACCATGGCTCTTGAT+TGG | 0.394542 | 8_2:+71054000 | Msa1266260:CDS |
| ACTGAAAGATGAAAGGGAAT+TGG | 0.400879 | 8_2:-71053871 | None:intergenic |
| CTGGACACTGTACTGGTCCT+TGG | 0.413853 | 8_2:+71054323 | Msa1266260:CDS |
| AGAGCTAAAGGATTCTCTAT+TGG | 0.420200 | 8_2:+71054203 | Msa1266260:CDS |
| AGAATCAGCTTCCTGCAATT+CGG | 0.430055 | 8_2:-71054252 | None:intergenic |
| GCCATGGTTTCATCAACTAT+AGG | 0.450016 | 8_2:-71053990 | None:intergenic |
| AAGGAAAGTATTGAATATGC+AGG | 0.456887 | 8_2:+71053663 | Msa1266260:CDS |
| TGGACACTGTACTGGTCCTT+GGG | 0.463405 | 8_2:+71054324 | Msa1266260:CDS |
| ATATCTCATCAGAATGATGT+TGG | 0.470355 | 8_2:-71054362 | None:intergenic |
| AGTTGTGTTCTTCAAGTTGA+AGG | 0.472243 | 8_2:+71054076 | Msa1266260:CDS |
| GGAAAATCTGGACACTGTAC+TGG | 0.477993 | 8_2:+71054316 | Msa1266260:CDS |
| TCCTGCAATTCGGTTAAACC+TGG | 0.483602 | 8_2:-71054242 | None:intergenic |
| CGAGGTTCACGGTAAGGACT+TGG | 0.489470 | 8_2:+71054028 | Msa1266260:CDS |
| GAAAGATGAAAGGGAATTGG+AGG | 0.496529 | 8_2:-71053868 | None:intergenic |
| TGAAACCATGGCTCTTGATT+GGG | 0.498755 | 8_2:+71054001 | Msa1266260:CDS |
| GATTGGGTCACCGAGGTTCA+CGG | 0.504028 | 8_2:+71054017 | Msa1266260:CDS |
| AGAACCAACAACAGAAAGAA+AGG | 0.506793 | 8_2:+71053694 | Msa1266260:CDS |
| TATCTCATCAGAATGATGTT+GGG | 0.526285 | 8_2:-71054361 | None:intergenic |
| TGCAGTGCACCCTACACACT+TGG | 0.533139 | 8_2:+71053947 | Msa1266260:CDS |
| ACAATCAGCGATTGATTCCA+TGG | 0.534420 | 8_2:+71053770 | Msa1266260:CDS |
| GTGTGTAGGGTGCACTGCAT+AGG | 0.548626 | 8_2:-71053943 | None:intergenic |
| GAGCCACTTCACTTAACTAT+GGG | 0.556132 | 8_2:+71053825 | Msa1266260:CDS |
| GGTCACCGAGGTTCACGGTA+AGG | 0.556416 | 8_2:+71054022 | Msa1266260:CDS |
| TGATGACAGCCAAGTGTGTA+GGG | 0.562820 | 8_2:-71053956 | None:intergenic |
| AGTGAAACTGAAAGATGAAA+GGG | 0.568571 | 8_2:-71053877 | None:intergenic |
| AAGCTGTTCAGTTTAACTGT+GGG | 0.568912 | 8_2:+71054162 | Msa1266260:CDS |
| GTGTTCTTCAAGTTGAAGGA+GGG | 0.573144 | 8_2:+71054080 | Msa1266260:CDS |
| ATGGAATCAATCGCTGATTG+TGG | 0.574412 | 8_2:-71053768 | None:intergenic |
| TCACTTAACTATGGGTCCGT+TGG | 0.580187 | 8_2:+71053833 | Msa1266260:CDS |
| GGAATTCACTTGCTTCACCA+TGG | 0.585437 | 8_2:-71053787 | None:intergenic |
| GAGAATCCTTTAGCTCTACC+AGG | 0.585556 | 8_2:-71054197 | None:intergenic |
| TGTGTTCTTCAAGTTGAAGG+AGG | 0.590785 | 8_2:+71054079 | Msa1266260:CDS |
| AAAGCTGTTCAGTTTAACTG+TGG | 0.598480 | 8_2:+71054161 | Msa1266260:CDS |
| GAGTGAAACTGAAAGATGAA+AGG | 0.600199 | 8_2:-71053878 | None:intergenic |
| GTTATCAATAATCGAGCATG+TGG | 0.614479 | 8_2:+71053719 | Msa1266260:CDS |
| ATAGGCATGGAGATCTTCGT+TGG | 0.619096 | 8_2:-71053925 | None:intergenic |
| AGGAAAGTATTGAATATGCA+GGG | 0.623624 | 8_2:+71053664 | Msa1266260:CDS |
| TTGATGACAGCCAAGTGTGT+AGG | 0.625608 | 8_2:-71053957 | None:intergenic |
| GCCTATAGTTGATGAAACCA+TGG | 0.626475 | 8_2:+71053989 | Msa1266260:CDS |
| GGACCCATAGTTAAGTGAAG+TGG | 0.629855 | 8_2:-71053828 | None:intergenic |
| GGCTATGCATCACATACCCA+AGG | 0.633264 | 8_2:-71054340 | None:intergenic |
| TAGGGTGCACTGCATAGGCA+TGG | 0.636624 | 8_2:-71053938 | None:intergenic |
| GAGGATTGAATACTTACCAA+CGG | 0.640198 | 8_2:-71053849 | None:intergenic |
| GGTGACCCAATCAAGAGCCA+TGG | 0.645022 | 8_2:-71054006 | None:intergenic |
| GGCTCTTGATTGGGTCACCG+AGG | 0.651959 | 8_2:+71054010 | Msa1266260:CDS |
| CAAGTCCTTACCGTGAACCT+CGG | 0.655186 | 8_2:-71054027 | None:intergenic |
| AAGGACTTGGTTCTACAACA+TGG | 0.659065 | 8_2:+71054041 | Msa1266260:CDS |
| TGGCTCTTCAAGAGAGACAA+GGG | 0.659348 | 8_2:-71053808 | None:intergenic |
| GTGGCTCTTCAAGAGAGACA+AGG | 0.665275 | 8_2:-71053809 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TCACATGAATGATAAGATTA+AGG | + | chr8_2:71054295-71054314 | Msa1266260:CDS | 25.0% |
| ! | TGATAAGATTAAGGAAAATC+TGG | + | chr8_2:71054304-71054323 | Msa1266260:CDS | 25.0% |
| !! | AAGGAAAGTATTGAATATGC+AGG | + | chr8_2:71053663-71053682 | Msa1266260:CDS | 30.0% |
| !! | AGGAAAGTATTGAATATGCA+GGG | + | chr8_2:71053664-71053683 | Msa1266260:CDS | 30.0% |
| AGTGAAACTGAAAGATGAAA+GGG | - | chr8_2:71053880-71053899 | None:intergenic | 30.0% | |
| !! | AGTGAAAAATGAGGTTTTGA+AGG | + | chr8_2:71054115-71054134 | Msa1266260:CDS | 30.0% |
| !!! | GTGAAAAATGAGGTTTTGAA+GGG | + | chr8_2:71054116-71054135 | Msa1266260:CDS | 30.0% |
| CTGATTCTGATGAGAAATTT+GGG | + | chr8_2:71054267-71054286 | Msa1266260:CDS | 30.0% | |
| AGAACCAACAACAGAAAGAA+AGG | + | chr8_2:71053694-71053713 | Msa1266260:CDS | 35.0% | |
| ACATCCTTTCTTTCTGTTGT+TGG | - | chr8_2:71053701-71053720 | None:intergenic | 35.0% | |
| GTTATCAATAATCGAGCATG+TGG | + | chr8_2:71053719-71053738 | Msa1266260:CDS | 35.0% | |
| GAGGATTGAATACTTACCAA+CGG | - | chr8_2:71053852-71053871 | None:intergenic | 35.0% | |
| ACTGAAAGATGAAAGGGAAT+TGG | - | chr8_2:71053874-71053893 | None:intergenic | 35.0% | |
| GAGTGAAACTGAAAGATGAA+AGG | - | chr8_2:71053881-71053900 | None:intergenic | 35.0% | |
| !! | AGTTGTGTTCTTCAAGTTGA+AGG | + | chr8_2:71054076-71054095 | Msa1266260:CDS | 35.0% |
| AAAGCTGTTCAGTTTAACTG+TGG | + | chr8_2:71054161-71054180 | Msa1266260:CDS | 35.0% | |
| AAGCTGTTCAGTTTAACTGT+GGG | + | chr8_2:71054162-71054181 | Msa1266260:CDS | 35.0% | |
| AGAGCTAAAGGATTCTCTAT+TGG | + | chr8_2:71054203-71054222 | Msa1266260:CDS | 35.0% | |
| TAAACCTGGAAAAACTGCAA+CGG | - | chr8_2:71054231-71054250 | None:intergenic | 35.0% | |
| ! | GCTGATTCTGATGAGAAATT+TGG | + | chr8_2:71054266-71054285 | Msa1266260:CDS | 35.0% |
| ! | ATGGAATCAATCGCTGATTG+TGG | - | chr8_2:71053771-71053790 | None:intergenic | 40.0% |
| ! | ACAATCAGCGATTGATTCCA+TGG | + | chr8_2:71053770-71053789 | Msa1266260:CDS | 40.0% |
| AGAGCCACTTCACTTAACTA+TGG | + | chr8_2:71053824-71053843 | Msa1266260:CDS | 40.0% | |
| GAGCCACTTCACTTAACTAT+GGG | + | chr8_2:71053825-71053844 | Msa1266260:CDS | 40.0% | |
| GAAAGATGAAAGGGAATTGG+AGG | - | chr8_2:71053871-71053890 | None:intergenic | 40.0% | |
| !! | GCCTATAGTTGATGAAACCA+TGG | + | chr8_2:71053989-71054008 | Msa1266260:CDS | 40.0% |
| GCCATGGTTTCATCAACTAT+AGG | - | chr8_2:71053993-71054012 | None:intergenic | 40.0% | |
| ATGAAACCATGGCTCTTGAT+TGG | + | chr8_2:71054000-71054019 | Msa1266260:CDS | 40.0% | |
| TGAAACCATGGCTCTTGATT+GGG | + | chr8_2:71054001-71054020 | Msa1266260:CDS | 40.0% | |
| !! | AAGGACTTGGTTCTACAACA+TGG | + | chr8_2:71054041-71054060 | Msa1266260:CDS | 40.0% |
| !! | TGTGTTCTTCAAGTTGAAGG+AGG | + | chr8_2:71054079-71054098 | Msa1266260:CDS | 40.0% |
| !! | GTGTTCTTCAAGTTGAAGGA+GGG | + | chr8_2:71054080-71054099 | Msa1266260:CDS | 40.0% |
| !! | TTCAAGTTGAAGGAGGGTTT+GGG | + | chr8_2:71054086-71054105 | Msa1266260:CDS | 40.0% |
| GGGAGAAGAAGTGAAAAATG+AGG | + | chr8_2:71054106-71054125 | Msa1266260:CDS | 40.0% | |
| !!! | GAGGTTTTGAAGGGTATAAG+TGG | + | chr8_2:71054125-71054144 | Msa1266260:CDS | 40.0% |
| TGTGGGAAAAATTTCTCTCC+TGG | + | chr8_2:71054179-71054198 | Msa1266260:CDS | 40.0% | |
| AGAATCAGCTTCCTGCAATT+CGG | - | chr8_2:71054255-71054274 | None:intergenic | 40.0% | |
| GGAATTCACTTGCTTCACCA+TGG | - | chr8_2:71053790-71053809 | None:intergenic | 45.0% | |
| TGGCTCTTCAAGAGAGACAA+GGG | - | chr8_2:71053811-71053830 | None:intergenic | 45.0% | |
| GGACCCATAGTTAAGTGAAG+TGG | - | chr8_2:71053831-71053850 | None:intergenic | 45.0% | |
| TCACTTAACTATGGGTCCGT+TGG | + | chr8_2:71053833-71053852 | Msa1266260:CDS | 45.0% | |
| ATAGGCATGGAGATCTTCGT+TGG | - | chr8_2:71053928-71053947 | None:intergenic | 45.0% | |
| TGATGACAGCCAAGTGTGTA+GGG | - | chr8_2:71053959-71053978 | None:intergenic | 45.0% | |
| ! | TTGATGACAGCCAAGTGTGT+AGG | - | chr8_2:71053960-71053979 | None:intergenic | 45.0% |
| !! | CTTCAAGTTGAAGGAGGGTT+TGG | + | chr8_2:71054085-71054104 | Msa1266260:CDS | 45.0% |
| TTCTCTCCTGGTAGAGCTAA+AGG | + | chr8_2:71054191-71054210 | Msa1266260:CDS | 45.0% | |
| !! | GAGAATCCTTTAGCTCTACC+AGG | - | chr8_2:71054200-71054219 | None:intergenic | 45.0% |
| TCCAGGTTTAACCGAATTGC+AGG | + | chr8_2:71054241-71054260 | Msa1266260:CDS | 45.0% | |
| TCCTGCAATTCGGTTAAACC+TGG | - | chr8_2:71054245-71054264 | None:intergenic | 45.0% | |
| GGAAAATCTGGACACTGTAC+TGG | + | chr8_2:71054316-71054335 | Msa1266260:CDS | 45.0% | |
| !! | TCGAGCATGTGGTGTTGTTC+AGG | + | chr8_2:71053730-71053749 | Msa1266260:CDS | 50.0% |
| GTGGCTCTTCAAGAGAGACA+AGG | - | chr8_2:71053812-71053831 | None:intergenic | 50.0% | |
| CAAGTCCTTACCGTGAACCT+CGG | - | chr8_2:71054030-71054049 | None:intergenic | 50.0% | |
| ! | GGTTCCGTTGCAGTTTTTCC+AGG | + | chr8_2:71054224-71054243 | Msa1266260:CDS | 50.0% |
| ! | TGGACACTGTACTGGTCCTT+GGG | + | chr8_2:71054324-71054343 | Msa1266260:CDS | 50.0% |
| GGCTATGCATCACATACCCA+AGG | - | chr8_2:71054343-71054362 | None:intergenic | 50.0% | |
| TAGGGTGCACTGCATAGGCA+TGG | - | chr8_2:71053941-71053960 | None:intergenic | 55.0% | |
| GTGTGTAGGGTGCACTGCAT+AGG | - | chr8_2:71053946-71053965 | None:intergenic | 55.0% | |
| TGCAGTGCACCCTACACACT+TGG | + | chr8_2:71053947-71053966 | Msa1266260:CDS | 55.0% | |
| GGTGACCCAATCAAGAGCCA+TGG | - | chr8_2:71054009-71054028 | None:intergenic | 55.0% | |
| GATTGGGTCACCGAGGTTCA+CGG | + | chr8_2:71054017-71054036 | Msa1266260:CDS | 55.0% | |
| CGAGGTTCACGGTAAGGACT+TGG | + | chr8_2:71054028-71054047 | Msa1266260:CDS | 55.0% | |
| ! | CTGGACACTGTACTGGTCCT+TGG | + | chr8_2:71054323-71054342 | Msa1266260:CDS | 55.0% |
| GGCTCTTGATTGGGTCACCG+AGG | + | chr8_2:71054010-71054029 | Msa1266260:CDS | 60.0% | |
| GGTCACCGAGGTTCACGGTA+AGG | + | chr8_2:71054022-71054041 | Msa1266260:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 71053660 | 71054376 | 71053660 | ID=Msa1266260;Name=Msa1266260 |
| chr8_2 | mRNA | 71053660 | 71054376 | 71053660 | ID=Msa1266260-mRNA-1;Parent=Msa1266260;Name=Msa1266260-mRNA-1;_AED=0.33;_eAED=0.36;_QI=0|-1|0|1|-1|1|1|0|238 |
| chr8_2 | exon | 71053660 | 71054376 | 71053660 | ID=Msa1266260-mRNA-1:exon:23710;Parent=Msa1266260-mRNA-1 |
| chr8_2 | CDS | 71053660 | 71054376 | 71053660 | ID=Msa1266260-mRNA-1:cds;Parent=Msa1266260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
