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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503280 | XP_024635373.1 | 89.032 | 155 | 1 | 1 | 1 | 139 | 75 | 229 | 2.94e-88 | 266 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503280 | sp|Q9SA23|SYP51_ARATH | 67.949 | 156 | 33 | 2 | 1 | 139 | 77 | 232 | 1.59e-69 | 211 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503280 | I3S333 | 89.032 | 155 | 1 | 1 | 1 | 139 | 75 | 229 | 1.40e-88 | 266 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0086020 | Msa0503280 | 0.801600 | 8.340137e-49 | -8.615850e-47 |
| Msa0503280 | Msa1126120 | 0.812876 | 3.399777e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503280 | MtrunA17_Chr3g0100211 | 89.032 | 155 | 1 | 1 | 1 | 139 | 75 | 229 | 2.70e-92 | 266 |
| Msa0503280 | MtrunA17_Chr8g0349161 | 88.387 | 155 | 2 | 1 | 1 | 139 | 75 | 229 | 3.26e-92 | 266 |
| Msa0503280 | MtrunA17_Chr5g0445021 | 83.871 | 62 | 10 | 0 | 2 | 63 | 78 | 139 | 2.42e-32 | 112 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0503280 | AT1G16240.2 | 67.949 | 156 | 33 | 2 | 1 | 139 | 77 | 232 | 1.61e-70 | 211 |
| Msa0503280 | AT1G16240.1 | 67.949 | 156 | 33 | 2 | 1 | 139 | 77 | 232 | 1.61e-70 | 211 |
| Msa0503280 | AT1G16240.4 | 67.949 | 156 | 33 | 2 | 1 | 139 | 77 | 232 | 1.61e-70 | 211 |
| Msa0503280 | AT1G79590.1 | 68.590 | 156 | 32 | 2 | 1 | 139 | 78 | 233 | 3.71e-68 | 206 |
| Msa0503280 | AT1G79590.2 | 68.590 | 156 | 32 | 2 | 1 | 139 | 78 | 233 | 3.71e-68 | 206 |
| Msa0503280 | AT1G79590.3 | 68.590 | 156 | 32 | 2 | 1 | 139 | 109 | 264 | 6.33e-68 | 206 |
| Msa0503280 | AT1G16240.3 | 68.613 | 137 | 42 | 1 | 1 | 136 | 77 | 213 | 5.23e-60 | 185 |
| Msa0503280 | AT1G16230.1 | 60.870 | 115 | 44 | 1 | 1 | 115 | 77 | 190 | 5.21e-41 | 135 |
| Msa0503280 | AT1G16225.1 | 50.000 | 118 | 56 | 1 | 1 | 118 | 53 | 167 | 3.34e-29 | 105 |
| Msa0503280 | AT1G16225.2 | 50.000 | 118 | 56 | 1 | 1 | 118 | 77 | 191 | 7.84e-29 | 105 |
| Msa0503280 | AT1G16225.3 | 49.206 | 63 | 29 | 1 | 1 | 63 | 77 | 136 | 3.74e-11 | 57.4 |
Find 29 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGCATCTGGTTTAATTTC+TGG | 0.179304 | 3_4:-46235961 | None:intergenic |
| ACATGTCAAACTTTGCAAAT+AGG | 0.204618 | 3_4:+46235923 | Msa0503280:CDS |
| GGTTCTTGTCATATGGCTTC+TGG | 0.253840 | 3_4:+46236571 | Msa0503280:CDS |
| AGATGAGGGCCTTGAGAAAT+TGG | 0.280110 | 3_4:+46236133 | Msa0503280:CDS |
| CATGTCAAACTTTGCAAATA+GGG | 0.294997 | 3_4:+46235924 | Msa0503280:CDS |
| CTGCAACGACAAGTTATAAA+AGG | 0.317852 | 3_4:+46236024 | Msa0503280:CDS |
| ACAGTTCTGCTCATTGCATC+TGG | 0.359258 | 3_4:-46235973 | None:intergenic |
| AGGGTTTGGTTCTTGTCATA+TGG | 0.381788 | 3_4:+46236564 | Msa0503280:CDS |
| AAACAAACGTACTAAGGGTT+TGG | 0.400325 | 3_4:+46236550 | Msa0503280:CDS |
| TGTTCAAAGTTGAAGCCATT+TGG | 0.405777 | 3_4:-46235903 | None:intergenic |
| ATGTAGATGTCACTGATTCT+CGG | 0.409480 | 3_4:+46236339 | Msa0503280:CDS |
| TTGGATAACAATGGACTTGT+TGG | 0.440074 | 3_4:+46236000 | Msa0503280:CDS |
| GAGGTCAAAGGTTAACCAAA+TGG | 0.450048 | 3_4:+46235888 | Msa0503280:CDS |
| AGGACAACCTTGCAAATTTG+AGG | 0.487031 | 3_4:+46235869 | Msa0503280:CDS |
| CCTTGCAAATTTGAGGTCAA+AGG | 0.488877 | 3_4:+46235876 | Msa0503280:CDS |
| GCAAATAGGGATAGTTTGCT+CGG | 0.495730 | 3_4:+46235937 | Msa0503280:CDS |
| ACAGAGAGTGCAGAAGAACT+TGG | 0.545697 | 3_4:+46236520 | Msa0503280:intron |
| CAAATAGGGATAGTTTGCTC+GGG | 0.550659 | 3_4:+46235938 | Msa0503280:CDS |
| ATGTCACTGATTCTCGGCTG+AGG | 0.553165 | 3_4:+46236345 | Msa0503280:CDS |
| CGGTCTCCTCCAATTTCTCA+AGG | 0.568939 | 3_4:-46236142 | None:intergenic |
| CCTTTGACCTCAAATTTGCA+AGG | 0.577028 | 3_4:-46235876 | None:intergenic |
| TTTCTAACAGAGCAAGATGA+GGG | 0.582199 | 3_4:+46236119 | Msa0503280:intron |
| TGTCACTGATTCTCGGCTGA+GGG | 0.592367 | 3_4:+46236346 | Msa0503280:CDS |
| TGAGGGCCTTGAGAAATTGG+AGG | 0.594430 | 3_4:+46236136 | Msa0503280:CDS |
| AAGTACAAAACATATTGCGT+TGG | 0.595524 | 3_4:+46236169 | Msa0503280:CDS |
| GATGCAATGAGCAGAACTGT+TGG | 0.597248 | 3_4:+46235976 | Msa0503280:CDS |
| AATGAGCAGAACTGTTGGCT+TGG | 0.609524 | 3_4:+46235981 | Msa0503280:CDS |
| ACTGTTGGCTTGGATAACAA+TGG | 0.640180 | 3_4:+46235991 | Msa0503280:CDS |
| GAAGGAGATGAATCGTCGCA+AGG | 0.666742 | 3_4:+46235849 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAAAAAAAATATATATAT+TGG | - | chr3_4:46236383-46236402 | None:intergenic | 0.0% |
| !! | TTTAAAAAAAATATATATAT+TGG | - | chr3_4:46236383-46236402 | None:intergenic | 0.0% |
| !!! | AATATGTTTTGTACTTAATA+CGG | - | chr3_4:46236165-46236184 | None:intergenic | 15.0% |
| !!! | AATATGTTTTGTACTTAATA+CGG | - | chr3_4:46236165-46236184 | None:intergenic | 15.0% |
| !! | AAAGAAAATTAACATAGGAT+GGG | - | chr3_4:46236240-46236259 | None:intergenic | 20.0% |
| !! | TTAGCAAAGAAAATTAACAT+AGG | - | chr3_4:46236245-46236264 | None:intergenic | 20.0% |
| !!! | TTTGAGATCTATTTTTCTAT+CGG | + | chr3_4:46236268-46236287 | Msa0503280:intron | 20.0% |
| !! | TCAAGGATTAAAAACTTAAA+GGG | - | chr3_4:46236433-46236452 | None:intergenic | 20.0% |
| !! | TTCAAGGATTAAAAACTTAA+AGG | - | chr3_4:46236434-46236453 | None:intergenic | 20.0% |
| !! | TATTAACATATCTCAATTCA+AGG | - | chr3_4:46236450-46236469 | None:intergenic | 20.0% |
| !!! | AATTTTAAACAAACGTACTA+AGG | + | chr3_4:46236544-46236563 | Msa0503280:CDS | 20.0% |
| !!! | ATTTTAAACAAACGTACTAA+GGG | + | chr3_4:46236545-46236564 | Msa0503280:CDS | 20.0% |
| !! | AAAGAAAATTAACATAGGAT+GGG | - | chr3_4:46236240-46236259 | None:intergenic | 20.0% |
| !! | TTAGCAAAGAAAATTAACAT+AGG | - | chr3_4:46236245-46236264 | None:intergenic | 20.0% |
| !!! | TTTGAGATCTATTTTTCTAT+CGG | + | chr3_4:46236268-46236287 | Msa0503280:intron | 20.0% |
| !! | TCAAGGATTAAAAACTTAAA+GGG | - | chr3_4:46236433-46236452 | None:intergenic | 20.0% |
| !! | TTCAAGGATTAAAAACTTAA+AGG | - | chr3_4:46236434-46236453 | None:intergenic | 20.0% |
| !! | TATTAACATATCTCAATTCA+AGG | - | chr3_4:46236450-46236469 | None:intergenic | 20.0% |
| !!! | AATTTTAAACAAACGTACTA+AGG | + | chr3_4:46236544-46236563 | Msa0503280:CDS | 20.0% |
| !!! | ATTTTAAACAAACGTACTAA+GGG | + | chr3_4:46236545-46236564 | Msa0503280:CDS | 20.0% |
| !! | GAAATACATAATTTGTGCTT+TGG | + | chr3_4:46236075-46236094 | Msa0503280:intron | 25.0% |
| ! | CAAAGAAAATTAACATAGGA+TGG | - | chr3_4:46236241-46236260 | None:intergenic | 25.0% |
| ! | ATTAAAAACTTAAAGGGCAA+AGG | - | chr3_4:46236427-46236446 | None:intergenic | 25.0% |
| !! | GAAATACATAATTTGTGCTT+TGG | + | chr3_4:46236075-46236094 | Msa0503280:intron | 25.0% |
| ! | CAAAGAAAATTAACATAGGA+TGG | - | chr3_4:46236241-46236260 | None:intergenic | 25.0% |
| ! | ATTAAAAACTTAAAGGGCAA+AGG | - | chr3_4:46236427-46236446 | None:intergenic | 25.0% |
| ACATGTCAAACTTTGCAAAT+AGG | + | chr3_4:46235923-46235942 | Msa0503280:CDS | 30.0% | |
| CATGTCAAACTTTGCAAATA+GGG | + | chr3_4:46235924-46235943 | Msa0503280:CDS | 30.0% | |
| ! | ATTGCATCTGGTTTAATTTC+TGG | - | chr3_4:46235964-46235983 | None:intergenic | 30.0% |
| !! | TGTGCTTTGGATATTGATTT+CGG | + | chr3_4:46236088-46236107 | Msa0503280:intron | 30.0% |
| AAGTACAAAACATATTGCGT+TGG | + | chr3_4:46236169-46236188 | Msa0503280:CDS | 30.0% | |
| !!! | GATTCTCTTTATTTTCTGCT+AGG | + | chr3_4:46236301-46236320 | Msa0503280:intron | 30.0% |
| ACATGTCAAACTTTGCAAAT+AGG | + | chr3_4:46235923-46235942 | Msa0503280:CDS | 30.0% | |
| CATGTCAAACTTTGCAAATA+GGG | + | chr3_4:46235924-46235943 | Msa0503280:CDS | 30.0% | |
| ! | ATTGCATCTGGTTTAATTTC+TGG | - | chr3_4:46235964-46235983 | None:intergenic | 30.0% |
| !! | TGTGCTTTGGATATTGATTT+CGG | + | chr3_4:46236088-46236107 | Msa0503280:intron | 30.0% |
| AAGTACAAAACATATTGCGT+TGG | + | chr3_4:46236169-46236188 | Msa0503280:CDS | 30.0% | |
| !!! | GATTCTCTTTATTTTCTGCT+AGG | + | chr3_4:46236301-46236320 | Msa0503280:intron | 30.0% |
| TGTTCAAAGTTGAAGCCATT+TGG | - | chr3_4:46235906-46235925 | None:intergenic | 35.0% | |
| ! | TTGGATAACAATGGACTTGT+TGG | + | chr3_4:46236000-46236019 | Msa0503280:CDS | 35.0% |
| CTGCAACGACAAGTTATAAA+AGG | + | chr3_4:46236024-46236043 | Msa0503280:CDS | 35.0% | |
| ! | TTTTCTAACAGAGCAAGATG+AGG | + | chr3_4:46236118-46236137 | Msa0503280:intron | 35.0% |
| TTTCTAACAGAGCAAGATGA+GGG | + | chr3_4:46236119-46236138 | Msa0503280:intron | 35.0% | |
| ! | TATTTTCTGCTAGGATGACT+TGG | + | chr3_4:46236310-46236329 | Msa0503280:intron | 35.0% |
| !! | ATGTAGATGTCACTGATTCT+CGG | + | chr3_4:46236339-46236358 | Msa0503280:CDS | 35.0% |
| AAACAAACGTACTAAGGGTT+TGG | + | chr3_4:46236550-46236569 | Msa0503280:CDS | 35.0% | |
| TGTTCAAAGTTGAAGCCATT+TGG | - | chr3_4:46235906-46235925 | None:intergenic | 35.0% | |
| ! | TTGGATAACAATGGACTTGT+TGG | + | chr3_4:46236000-46236019 | Msa0503280:CDS | 35.0% |
| CTGCAACGACAAGTTATAAA+AGG | + | chr3_4:46236024-46236043 | Msa0503280:CDS | 35.0% | |
| ! | TTTTCTAACAGAGCAAGATG+AGG | + | chr3_4:46236118-46236137 | Msa0503280:intron | 35.0% |
| TTTCTAACAGAGCAAGATGA+GGG | + | chr3_4:46236119-46236138 | Msa0503280:intron | 35.0% | |
| ! | TATTTTCTGCTAGGATGACT+TGG | + | chr3_4:46236310-46236329 | Msa0503280:intron | 35.0% |
| !! | ATGTAGATGTCACTGATTCT+CGG | + | chr3_4:46236339-46236358 | Msa0503280:CDS | 35.0% |
| AAACAAACGTACTAAGGGTT+TGG | + | chr3_4:46236550-46236569 | Msa0503280:CDS | 35.0% | |
| AGGACAACCTTGCAAATTTG+AGG | + | chr3_4:46235869-46235888 | Msa0503280:CDS | 40.0% | |
| CCTTTGACCTCAAATTTGCA+AGG | - | chr3_4:46235879-46235898 | None:intergenic | 40.0% | |
| ! | CCTTGCAAATTTGAGGTCAA+AGG | + | chr3_4:46235876-46235895 | Msa0503280:CDS | 40.0% |
| GAGGTCAAAGGTTAACCAAA+TGG | + | chr3_4:46235888-46235907 | Msa0503280:CDS | 40.0% | |
| !! | GCAAATAGGGATAGTTTGCT+CGG | + | chr3_4:46235937-46235956 | Msa0503280:CDS | 40.0% |
| !! | CAAATAGGGATAGTTTGCTC+GGG | + | chr3_4:46235938-46235957 | Msa0503280:CDS | 40.0% |
| !! | ACTGTTGGCTTGGATAACAA+TGG | + | chr3_4:46235991-46236010 | Msa0503280:CDS | 40.0% |
| !! | GCTTTGGATATTGATTTCGG+AGG | + | chr3_4:46236091-46236110 | Msa0503280:intron | 40.0% |
| !! | AGGGTTTGGTTCTTGTCATA+TGG | + | chr3_4:46236564-46236583 | Msa0503280:CDS | 40.0% |
| AGGACAACCTTGCAAATTTG+AGG | + | chr3_4:46235869-46235888 | Msa0503280:CDS | 40.0% | |
| CCTTTGACCTCAAATTTGCA+AGG | - | chr3_4:46235879-46235898 | None:intergenic | 40.0% | |
| ! | CCTTGCAAATTTGAGGTCAA+AGG | + | chr3_4:46235876-46235895 | Msa0503280:CDS | 40.0% |
| GAGGTCAAAGGTTAACCAAA+TGG | + | chr3_4:46235888-46235907 | Msa0503280:CDS | 40.0% | |
| !! | GCAAATAGGGATAGTTTGCT+CGG | + | chr3_4:46235937-46235956 | Msa0503280:CDS | 40.0% |
| !! | CAAATAGGGATAGTTTGCTC+GGG | + | chr3_4:46235938-46235957 | Msa0503280:CDS | 40.0% |
| !! | ACTGTTGGCTTGGATAACAA+TGG | + | chr3_4:46235991-46236010 | Msa0503280:CDS | 40.0% |
| !! | GCTTTGGATATTGATTTCGG+AGG | + | chr3_4:46236091-46236110 | Msa0503280:intron | 40.0% |
| !! | AGGGTTTGGTTCTTGTCATA+TGG | + | chr3_4:46236564-46236583 | Msa0503280:CDS | 40.0% |
| ACAGTTCTGCTCATTGCATC+TGG | - | chr3_4:46235976-46235995 | None:intergenic | 45.0% | |
| GATGCAATGAGCAGAACTGT+TGG | + | chr3_4:46235976-46235995 | Msa0503280:CDS | 45.0% | |
| ! | AATGAGCAGAACTGTTGGCT+TGG | + | chr3_4:46235981-46236000 | Msa0503280:CDS | 45.0% |
| AGATGAGGGCCTTGAGAAAT+TGG | + | chr3_4:46236133-46236152 | Msa0503280:CDS | 45.0% | |
| ! | ACAGAGAGTGCAGAAGAACT+TGG | + | chr3_4:46236520-46236539 | Msa0503280:intron | 45.0% |
| GGTTCTTGTCATATGGCTTC+TGG | + | chr3_4:46236571-46236590 | Msa0503280:CDS | 45.0% | |
| ACAGTTCTGCTCATTGCATC+TGG | - | chr3_4:46235976-46235995 | None:intergenic | 45.0% | |
| GATGCAATGAGCAGAACTGT+TGG | + | chr3_4:46235976-46235995 | Msa0503280:CDS | 45.0% | |
| ! | AATGAGCAGAACTGTTGGCT+TGG | + | chr3_4:46235981-46236000 | Msa0503280:CDS | 45.0% |
| AGATGAGGGCCTTGAGAAAT+TGG | + | chr3_4:46236133-46236152 | Msa0503280:CDS | 45.0% | |
| ! | ACAGAGAGTGCAGAAGAACT+TGG | + | chr3_4:46236520-46236539 | Msa0503280:intron | 45.0% |
| GGTTCTTGTCATATGGCTTC+TGG | + | chr3_4:46236571-46236590 | Msa0503280:CDS | 45.0% | |
| TGAGGGCCTTGAGAAATTGG+AGG | + | chr3_4:46236136-46236155 | Msa0503280:CDS | 50.0% | |
| CGGTCTCCTCCAATTTCTCA+AGG | - | chr3_4:46236145-46236164 | None:intergenic | 50.0% | |
| !! | ATGTCACTGATTCTCGGCTG+AGG | + | chr3_4:46236345-46236364 | Msa0503280:CDS | 50.0% |
| !! | TGTCACTGATTCTCGGCTGA+GGG | + | chr3_4:46236346-46236365 | Msa0503280:CDS | 50.0% |
| TGAGGGCCTTGAGAAATTGG+AGG | + | chr3_4:46236136-46236155 | Msa0503280:CDS | 50.0% | |
| CGGTCTCCTCCAATTTCTCA+AGG | - | chr3_4:46236145-46236164 | None:intergenic | 50.0% | |
| !! | ATGTCACTGATTCTCGGCTG+AGG | + | chr3_4:46236345-46236364 | Msa0503280:CDS | 50.0% |
| !! | TGTCACTGATTCTCGGCTGA+GGG | + | chr3_4:46236346-46236365 | Msa0503280:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 46235856 | 46236607 | 46235856 | ID=Msa0503280;Name=Msa0503280 |
| chr3_4 | mRNA | 46235856 | 46236607 | 46235856 | ID=Msa0503280-mRNA-1;Parent=Msa0503280;Name=Msa0503280-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0|0|0|1|1|1|4|0|139 |
| chr3_4 | exon | 46235856 | 46236045 | 46235856 | ID=Msa0503280-mRNA-1:exon:9903;Parent=Msa0503280-mRNA-1 |
| chr3_4 | exon | 46236129 | 46236229 | 46236129 | ID=Msa0503280-mRNA-1:exon:9904;Parent=Msa0503280-mRNA-1 |
| chr3_4 | exon | 46236323 | 46236367 | 46236323 | ID=Msa0503280-mRNA-1:exon:9905;Parent=Msa0503280-mRNA-1 |
| chr3_4 | exon | 46236524 | 46236607 | 46236524 | ID=Msa0503280-mRNA-1:exon:9906;Parent=Msa0503280-mRNA-1 |
| chr3_4 | CDS | 46235856 | 46236045 | 46235856 | ID=Msa0503280-mRNA-1:cds;Parent=Msa0503280-mRNA-1 |
| chr3_4 | CDS | 46236129 | 46236229 | 46236129 | ID=Msa0503280-mRNA-1:cds;Parent=Msa0503280-mRNA-1 |
| chr3_4 | CDS | 46236323 | 46236367 | 46236323 | ID=Msa0503280-mRNA-1:cds;Parent=Msa0503280-mRNA-1 |
| chr3_4 | CDS | 46236524 | 46236607 | 46236524 | ID=Msa0503280-mRNA-1:cds;Parent=Msa0503280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
