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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015615.01.T01 | XP_003601128.1 | 97.664 | 214 | 5 | 0 | 1 | 214 | 1 | 214 | 1.69E-149 | 424 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015615.01.T01 | G7J3P5 | 97.664 | 214 | 5 | 0 | 1 | 214 | 1 | 214 | 8.05e-150 | 424 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0380015615.01 | MsG0380017859.01 | 0.801970 | 7.003904e-49 | 3.389991e-46 |
| MsG0380015615.01 | MsG0780040181.01 | 0.805829 | 1.105189e-49 | 5.906126e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015615.01.T01 | MTR_3g073330 | 97.664 | 214 | 5 | 0 | 1 | 214 | 1 | 214 | 2.04e-153 | 424 |
| MsG0380015615.01.T01 | MTR_5g060450 | 44.385 | 187 | 74 | 6 | 1 | 186 | 1 | 158 | 3.03e-34 | 120 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015615.01.T01 | AT1G36940 | 44.751 | 181 | 73 | 6 | 20 | 198 | 15 | 170 | 4.33e-27 | 102 |
| MsG0380015615.01.T01 | AT1G36940 | 44.751 | 181 | 73 | 6 | 20 | 198 | 15 | 170 | 1.82e-26 | 101 |
Find 40 sgRNAs with CRISPR-Local
Find 56 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGCTCCATTGAGAAGTTTAC+AGG | 0.278499 | 3:-72548973 | MsG0380015615.01.T01:CDS |
| TGGAAGATTCACATCTTTGA+TGG | 0.351741 | 3:+72549451 | None:intergenic |
| AAGAAGATCAGGTTCAAGTT+TGG | 0.370983 | 3:-72548994 | MsG0380015615.01.T01:CDS |
| AAAATATTGAAAGGTGTGTT+AGG | 0.377390 | 3:-72549130 | MsG0380015615.01.T01:CDS |
| CCCACCTATCAAACAGTTGT+AGG | 0.391421 | 3:+72548909 | None:intergenic |
| ACAAAGGTGAGAATAGTCTT+TGG | 0.416105 | 3:-72549019 | MsG0380015615.01.T01:CDS |
| ATTACCTACCACCCTTTGCT+TGG | 0.424400 | 3:+72549178 | None:intergenic |
| GTAGGTTCAATACAAAGCTT+TGG | 0.425356 | 3:+72548927 | None:intergenic |
| AGTTTGGAGTATTTCACAAC+TGG | 0.431775 | 3:+72549266 | None:intergenic |
| GTGGTGGTAGAAGTAGTTGA+GGG | 0.444768 | 3:+72549206 | None:intergenic |
| CACAACTGGTGAAATAATTG+AGG | 0.453929 | 3:+72549280 | None:intergenic |
| TTATTCACCTTCTTGATCAC+TGG | 0.454303 | 3:+72549056 | None:intergenic |
| AAAAGAAACAACAAAATAGC+TGG | 0.469594 | 3:-72549356 | MsG0380015615.01.T01:CDS |
| TGTGGTGGTAGAAGTAGTTG+AGG | 0.480732 | 3:+72549205 | None:intergenic |
| AGCAACTTGTATTGTGAAGT+TGG | 0.482175 | 3:+72549329 | None:intergenic |
| GATCAAGAAGGTGAATAAGT+TGG | 0.487535 | 3:-72549051 | MsG0380015615.01.T01:CDS |
| AGTCTTTGGAAAAGAAGATC+AGG | 0.490717 | 3:-72549005 | MsG0380015615.01.T01:CDS |
| GGTTGTTGTAAAATTGATGA+TGG | 0.513912 | 3:+72549516 | None:intergenic |
| AAGGTGAATAAGTTGGAAGA+AGG | 0.519260 | 3:-72549044 | MsG0380015615.01.T01:CDS |
| ACAACTGGTGAAATAATTGA+GGG | 0.527104 | 3:+72549281 | None:intergenic |
| GGGTCATTGCAAGAAGAAGA+TGG | 0.528931 | 3:+72549413 | None:intergenic |
| GCAACTTGTATTGTGAAGTT+GGG | 0.530930 | 3:+72549330 | None:intergenic |
| ACCTTCTTGATCACTGGCAA+AGG | 0.533644 | 3:+72549062 | None:intergenic |
| TTCTTGATCACTGGCAAAGG+AGG | 0.534231 | 3:+72549065 | None:intergenic |
| TGAACCTGTAAACTTCTCAA+TGG | 0.553341 | 3:+72548969 | None:intergenic |
| TGGTGGTAGAAGTAGTTGAG+GGG | 0.570376 | 3:+72549207 | None:intergenic |
| AAGATTCACATCTTTGATGG+AGG | 0.576141 | 3:+72549454 | None:intergenic |
| GATGGATTGATTCTACACCT+TGG | 0.577453 | 3:+72549431 | None:intergenic |
| AGATTCACATCTTTGATGGA+GGG | 0.581017 | 3:+72549455 | None:intergenic |
| GAGGGTCTTGAGCATAACAT+TGG | 0.589405 | 3:+72549473 | None:intergenic |
| AGGAATGAAAATGTTGCTGT+TGG | 0.597063 | 3:-72549110 | MsG0380015615.01.T01:CDS |
| TCAAAGATGTGAATCTTCCA+AGG | 0.598882 | 3:-72549448 | MsG0380015615.01.T01:CDS |
| GGTGGTAGAAGTAGTTGAGG+GGG | 0.601357 | 3:+72549208 | None:intergenic |
| AAAACCAAGCAAAGGGTGGT+AGG | 0.608722 | 3:-72549182 | MsG0380015615.01.T01:CDS |
| AAGTTGGAAGAAGGAAACAA+AGG | 0.615021 | 3:-72549035 | MsG0380015615.01.T01:CDS |
| GTCTTGAGCATAACATTGGA+AGG | 0.615578 | 3:+72549477 | None:intergenic |
| TCCTTTGCCAGTGATCAAGA+AGG | 0.623313 | 3:-72549063 | MsG0380015615.01.T01:CDS |
| TAATAGTACTAATATTGTGA+AGG | 0.637312 | 3:-72549159 | MsG0380015615.01.T01:CDS |
| AACTGGTGAAATAATTGAGG+GGG | 0.659140 | 3:+72549283 | None:intergenic |
| CAACTGGTGAAATAATTGAG+GGG | 0.702235 | 3:+72549282 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATAGTACTAATATTGTGA+AGG | - | Chr3:72549297-72549316 | MsG0380015615.01.T01:CDS | 20.0% |
| !! | TGGTATAAAAATTGATGAAA+TGG | - | Chr3:72549366-72549385 | MsG0380015615.01.T01:CDS | 20.0% |
| ! | AAAAGAAACAACAAAATAGC+TGG | - | Chr3:72549100-72549119 | MsG0380015615.01.T01:CDS | 25.0% |
| !! | AAAATATTGAAAGGTGTGTT+AGG | - | Chr3:72549326-72549345 | MsG0380015615.01.T01:CDS | 25.0% |
| !! | AACACACCTTTCAATATTTT+TGG | + | Chr3:72549326-72549345 | None:intergenic | 25.0% |
| !! | ACACACCTTTCAATATTTTT+GGG | + | Chr3:72549325-72549344 | None:intergenic | 25.0% |
| !!! | AACCTATTTTTGGTGATAAA+GGG | + | Chr3:72549066-72549085 | None:intergenic | 25.0% |
| !!! | AGAGAAAAGTTTTTTGAGTT+TGG | + | Chr3:72549209-72549228 | None:intergenic | 25.0% |
| ACAACTGGTGAAATAATTGA+GGG | + | Chr3:72549178-72549197 | None:intergenic | 30.0% | |
| GGTTGTTGTAAAATTGATGA+TGG | + | Chr3:72548943-72548962 | None:intergenic | 30.0% | |
| !!! | CAACCTATTTTTGGTGATAA+AGG | + | Chr3:72549067-72549086 | None:intergenic | 30.0% |
| AACTGGTGAAATAATTGAGG+GGG | + | Chr3:72549176-72549195 | None:intergenic | 35.0% | |
| AAGATTCACATCTTTGATGG+AGG | + | Chr3:72549005-72549024 | None:intergenic | 35.0% | |
| AAGTTGGAAGAAGGAAACAA+AGG | - | Chr3:72549421-72549440 | MsG0380015615.01.T01:CDS | 35.0% | |
| ACAAAGGTGAGAATAGTCTT+TGG | - | Chr3:72549437-72549456 | MsG0380015615.01.T01:CDS | 35.0% | |
| AGATTCACATCTTTGATGGA+GGG | + | Chr3:72549004-72549023 | None:intergenic | 35.0% | |
| AGCAACTTGTATTGTGAAGT+TGG | + | Chr3:72549130-72549149 | None:intergenic | 35.0% | |
| AGGAATGAAAATGTTGCTGT+TGG | - | Chr3:72549346-72549365 | MsG0380015615.01.T01:CDS | 35.0% | |
| AGGTGCCCAAAAATATTGAA+AGG | - | Chr3:72549317-72549336 | MsG0380015615.01.T01:CDS | 35.0% | |
| ATCACCAAAAATAGGTTGCA+TGG | - | Chr3:72549069-72549088 | MsG0380015615.01.T01:CDS | 35.0% | |
| CAACTGGTGAAATAATTGAG+GGG | + | Chr3:72549177-72549196 | None:intergenic | 35.0% | |
| CACAACTGGTGAAATAATTG+AGG | + | Chr3:72549179-72549198 | None:intergenic | 35.0% | |
| GACCCTTTATCACCAAAAAT+AGG | - | Chr3:72549061-72549080 | MsG0380015615.01.T01:CDS | 35.0% | |
| GATCAAGAAGGTGAATAAGT+TGG | - | Chr3:72549405-72549424 | MsG0380015615.01.T01:CDS | 35.0% | |
| GCAACTTGTATTGTGAAGTT+GGG | + | Chr3:72549129-72549148 | None:intergenic | 35.0% | |
| GTAGGTTCAATACAAAGCTT+TGG | + | Chr3:72549532-72549551 | None:intergenic | 35.0% | |
| TCAAAGATGTGAATCTTCCA+AGG | - | Chr3:72549008-72549027 | MsG0380015615.01.T01:CDS | 35.0% | |
| TCACCAAAAATAGGTTGCAT+GGG | - | Chr3:72549070-72549089 | MsG0380015615.01.T01:CDS | 35.0% | |
| TGAACCTGTAAACTTCTCAA+TGG | + | Chr3:72549490-72549509 | None:intergenic | 35.0% | |
| TGGAAGATTCACATCTTTGA+TGG | + | Chr3:72549008-72549027 | None:intergenic | 35.0% | |
| TTATTCACCTTCTTGATCAC+TGG | + | Chr3:72549403-72549422 | None:intergenic | 35.0% | |
| ! | AAGAAGATCAGGTTCAAGTT+TGG | - | Chr3:72549462-72549481 | MsG0380015615.01.T01:CDS | 35.0% |
| ! | AAGGTGAATAAGTTGGAAGA+AGG | - | Chr3:72549412-72549431 | MsG0380015615.01.T01:CDS | 35.0% |
| ! | AGTCTTTGGAAAAGAAGATC+AGG | - | Chr3:72549451-72549470 | MsG0380015615.01.T01:CDS | 35.0% |
| ! | AGTTTGGAGTATTTCACAAC+TGG | + | Chr3:72549193-72549212 | None:intergenic | 35.0% |
| !! | GAAGGAATGTGTTTTTGTGA+TGG | + | Chr3:72548964-72548983 | None:intergenic | 35.0% |
| CACCACAAAAACCAAGCAAA+GGG | - | Chr3:72549267-72549286 | MsG0380015615.01.T01:CDS | 40.0% | |
| GTCTTGAGCATAACATTGGA+AGG | + | Chr3:72548982-72549001 | None:intergenic | 40.0% | |
| ! | TGACCCATGCAACCTATTTT+TGG | + | Chr3:72549076-72549095 | None:intergenic | 40.0% |
| !! | GATGGATTGATTCTACACCT+TGG | + | Chr3:72549028-72549047 | None:intergenic | 40.0% |
| AAAACCAAGCAAAGGGTGGT+AGG | - | Chr3:72549274-72549293 | MsG0380015615.01.T01:CDS | 45.0% | |
| ACCTTCTTGATCACTGGCAA+AGG | + | Chr3:72549397-72549416 | None:intergenic | 45.0% | |
| ATTACCTACCACCCTTTGCT+TGG | + | Chr3:72549281-72549300 | None:intergenic | 45.0% | |
| CACAAAAACCAAGCAAAGGG+TGG | - | Chr3:72549270-72549289 | MsG0380015615.01.T01:CDS | 45.0% | |
| CCACCACAAAAACCAAGCAA+AGG | - | Chr3:72549266-72549285 | MsG0380015615.01.T01:CDS | 45.0% | |
| GAGGGTCTTGAGCATAACAT+TGG | + | Chr3:72548986-72549005 | None:intergenic | 45.0% | |
| GGCTCCATTGAGAAGTTTAC+AGG | - | Chr3:72549483-72549502 | MsG0380015615.01.T01:CDS | 45.0% | |
| GGGTCATTGCAAGAAGAAGA+TGG | + | Chr3:72549046-72549065 | None:intergenic | 45.0% | |
| GTGGTGGTAGAAGTAGTTGA+GGG | + | Chr3:72549253-72549272 | None:intergenic | 45.0% | |
| TCCTTTGCCAGTGATCAAGA+AGG | - | Chr3:72549393-72549412 | MsG0380015615.01.T01:CDS | 45.0% | |
| TGGTGGTAGAAGTAGTTGAG+GGG | + | Chr3:72549252-72549271 | None:intergenic | 45.0% | |
| TGTGGTGGTAGAAGTAGTTG+AGG | + | Chr3:72549254-72549273 | None:intergenic | 45.0% | |
| TTCTTGATCACTGGCAAAGG+AGG | + | Chr3:72549394-72549413 | None:intergenic | 45.0% | |
| !! | CACCCTTTGCTTGGTTTTTG+TGG | + | Chr3:72549272-72549291 | None:intergenic | 45.0% |
| !! | CCTTTGCTTGGTTTTTGTGG+TGG | + | Chr3:72549269-72549288 | None:intergenic | 45.0% |
| GGTGGTAGAAGTAGTTGAGG+GGG | + | Chr3:72549251-72549270 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 72548917 | 72549561 | 72548917 | ID=MsG0380015615.01;Name=MsG0380015615.01 |
| Chr3 | mRNA | 72548917 | 72549561 | 72548917 | ID=MsG0380015615.01.T01;Parent=MsG0380015615.01;Name=MsG0380015615.01.T01;_AED=0.22;_eAED=0.22;_QI=0|-1|0|1|-1|1|1|0|214 |
| Chr3 | exon | 72548917 | 72549561 | 72548917 | ID=MsG0380015615.01.T01:exon:14048;Parent=MsG0380015615.01.T01 |
| Chr3 | CDS | 72548917 | 72549561 | 72548917 | ID=MsG0380015615.01.T01:cds;Parent=MsG0380015615.01.T01 |
| Gene Sequence |
| Protein sequence |
