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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1271970 | sp|Q40089|ATP4_IPOBA | 84.956 | 113 | 17 | 0 | 4 | 116 | 87 | 199 | 3.64e-66 | 201 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1271970 | G7LCJ4 | 99.123 | 114 | 1 | 0 | 4 | 117 | 84 | 197 | 1.65e-74 | 228 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0140510 | Msa1271970 | 0.815066 | 1.118077e-51 | -8.615850e-47 |
| Msa0178860 | Msa1271970 | 0.813393 | 2.619110e-51 | -8.615850e-47 |
| Msa0183010 | Msa1271970 | 0.819938 | 8.929114e-53 | -8.615850e-47 |
| Msa0230640 | Msa1271970 | 0.815536 | 8.791052e-52 | -8.615850e-47 |
| Msa1229520 | Msa1271970 | 0.829512 | 4.937816e-55 | -8.615850e-47 |
| Msa1257800 | Msa1271970 | 0.817836 | 2.682052e-52 | -8.615850e-47 |
| Msa1263290 | Msa1271970 | 0.819281 | 1.261448e-52 | -8.615850e-47 |
| Msa1271970 | Msa1295540 | 0.810537 | 1.097078e-50 | -8.615850e-47 |
| Msa1271970 | Msa1393770 | 0.805042 | 1.615448e-49 | -8.615850e-47 |
| Msa1271970 | Msa1417810 | 0.806233 | 9.088212e-50 | -8.615850e-47 |
| Msa1271970 | Msa1444250 | 0.802284 | 6.034715e-49 | -8.615850e-47 |
| Msa1271970 | Msa1445400 | 0.809767 | 1.608305e-50 | -8.615850e-47 |
| Msa1271970 | Msa1449350 | 0.814852 | 1.247294e-51 | -8.615850e-47 |
| Msa0433410 | Msa1271970 | 0.803532 | 3.332595e-49 | -8.615850e-47 |
| Msa0457510 | Msa1271970 | -0.812268 | 4.618168e-51 | -8.615850e-47 |
| Msa0469940 | Msa1271970 | 0.804722 | 1.884278e-49 | -8.615850e-47 |
| Msa1029080 | Msa1271970 | 0.829663 | 4.537131e-55 | -8.615850e-47 |
| Msa0302580 | Msa1271970 | 0.809942 | 1.474696e-50 | -8.615850e-47 |
| Msa1144720 | Msa1271970 | 0.811770 | 5.927804e-51 | -8.615850e-47 |
| Msa1156170 | Msa1271970 | 0.829004 | 6.561557e-55 | -8.615850e-47 |
| Msa1168040 | Msa1271970 | 0.805557 | 1.260040e-49 | -8.615850e-47 |
| Msa1183100 | Msa1271970 | 0.884030 | 2.714055e-71 | -8.615850e-47 |
| Msa1188600 | Msa1271970 | 0.804921 | 1.712278e-49 | -8.615850e-47 |
| Msa1202770 | Msa1271970 | 0.826970 | 2.025564e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1271970 | MtrunA17_Chr8g0336611 | 99.123 | 114 | 1 | 0 | 4 | 117 | 84 | 197 | 3.17e-78 | 228 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1271970 | AT5G47030.1 | 80.531 | 113 | 22 | 0 | 4 | 116 | 90 | 202 | 7.94e-63 | 190 |
Find 27 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCCACTGCTTACAAAATATT+TGG | 0.143612 | 8_3:-5455264 | None:intergenic |
| TTGTCGCTGAACTGAGCTTC+TGG | 0.214226 | 8_3:-5455394 | None:intergenic |
| CAGTTCAGCGACAACTGATT+TGG | 0.280457 | 8_3:+5455403 | Msa1271970:CDS |
| CCCATCTGGCCTGTTGTAGC+TGG | 0.367328 | 8_3:-5455164 | None:intergenic |
| GCAATTGTTGCAACATGTCC+TGG | 0.384614 | 8_3:-5455194 | None:intergenic |
| CGCTGTTGAGGCTGTTCCAC+TGG | 0.397290 | 8_3:+5455325 | Msa1271970:CDS |
| GAGAAAGCTGAAGCTCAGAT+TGG | 0.456466 | 8_3:+5455425 | Msa1271970:CDS |
| TGTCGCTGAACTGAGCTTCT+GGG | 0.464302 | 8_3:-5455393 | None:intergenic |
| GTTATAATCCCAGCTACAAC+AGG | 0.464443 | 8_3:+5455155 | Msa1271970:CDS |
| ACAATTGCAGAGTTGAAACC+TGG | 0.489060 | 8_3:+5455209 | Msa1271970:CDS |
| CCATCTGGCCTGTTGTAGCT+GGG | 0.501802 | 8_3:-5455163 | None:intergenic |
| CCCAGCTACAACAGGCCAGA+TGG | 0.507781 | 8_3:+5455163 | Msa1271970:CDS |
| TGATGCAAGCCTTGTGCAGA+AGG | 0.512823 | 8_3:+5455355 | Msa1271970:CDS |
| GTCCTGGGAGAATACCCATC+TGG | 0.526235 | 8_3:-5455178 | None:intergenic |
| CTTGAAGACCCTTCTGCACA+AGG | 0.528902 | 8_3:-5455364 | None:intergenic |
| GGCCAGATGGGTATTCTCCC+AGG | 0.530017 | 8_3:+5455176 | Msa1271970:CDS |
| TATCAGCAACAGAGTTTGCA+TGG | 0.530676 | 8_3:-5455298 | None:intergenic |
| TCTTGTACAATCATGACCCC+AGG | 0.535453 | 8_3:-5455227 | None:intergenic |
| CCAGCTACAACAGGCCAGAT+GGG | 0.564262 | 8_3:+5455164 | Msa1271970:CDS |
| CTTGCATCAATTTGATCCAG+TGG | 0.565593 | 8_3:-5455341 | None:intergenic |
| GGGGTCATGATTGTACAAGA+AGG | 0.576614 | 8_3:+5455230 | Msa1271970:CDS |
| GGGTCATGATTGTACAAGAA+GGG | 0.590188 | 8_3:+5455231 | Msa1271970:CDS |
| CAATTGCAGAGTTGAAACCT+GGG | 0.627022 | 8_3:+5455210 | Msa1271970:CDS |
| CAATTGTTGCAACATGTCCT+GGG | 0.627841 | 8_3:-5455193 | None:intergenic |
| TGCTGATATAATCGCTGTTG+AGG | 0.643815 | 8_3:+5455313 | Msa1271970:CDS |
| GATGCAAGCCTTGTGCAGAA+GGG | 0.670616 | 8_3:+5455356 | Msa1271970:CDS |
| AATTGCAGAGTTGAAACCTG+GGG | 0.727229 | 8_3:+5455211 | Msa1271970:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACCTAATAGAATATTTTACT+AGG | + | chr8_3:5454951-5454970 | Msa1271970:intron | 20.0% |
| !!! | CCTAATAGAATATTTTACTA+GGG | + | chr8_3:5454952-5454971 | Msa1271970:intron | 20.0% |
| !! | TGTCAGTTTAATTATCTATA+TGG | + | chr8_3:5454988-5455007 | Msa1271970:intron | 20.0% |
| !! | AAAAGAAAAAAATAACCACA+GGG | - | chr8_3:5455060-5455079 | None:intergenic | 20.0% |
| !!! | ATGACACAATTTAGTTTTAT+AGG | + | chr8_3:5455124-5455143 | Msa1271970:intron | 20.0% |
| ! | CCCTAGTAAAATATTCTATT+AGG | - | chr8_3:5454955-5454974 | None:intergenic | 25.0% |
| ! | AATAAATTAGATCACCAACT+TGG | - | chr8_3:5455015-5455034 | None:intergenic | 25.0% |
| ! | GAAAAGAAAAAAATAACCAC+AGG | - | chr8_3:5455061-5455080 | None:intergenic | 25.0% |
| !!! | TAAATTGTGTCATTTTCCAA+GGG | - | chr8_3:5455117-5455136 | None:intergenic | 25.0% |
| !!! | TTTAGTTTTATAGGTTGATC+TGG | + | chr8_3:5455133-5455152 | Msa1271970:intron | 25.0% |
| ATTATCTATATGGACCAAGT+TGG | + | chr8_3:5454998-5455017 | Msa1271970:intron | 30.0% | |
| !!! | CTAAATTGTGTCATTTTCCA+AGG | - | chr8_3:5455118-5455137 | None:intergenic | 30.0% |
| ! | ACCAAATATTTTGTAAGCAG+TGG | + | chr8_3:5455263-5455282 | Msa1271970:CDS | 30.0% |
| AAAAAAATAACCACAGGGCA+GGG | - | chr8_3:5455055-5455074 | None:intergenic | 35.0% | |
| TTCCTTAATTCTTCTTCCCT+TGG | + | chr8_3:5455098-5455117 | Msa1271970:intron | 35.0% | |
| TTCCAAGGGAAGAAGAATTA+AGG | - | chr8_3:5455103-5455122 | None:intergenic | 35.0% | |
| GCCACTGCTTACAAAATATT+TGG | - | chr8_3:5455267-5455286 | None:intergenic | 35.0% | |
| GAAAAAAATAACCACAGGGC+AGG | - | chr8_3:5455056-5455075 | None:intergenic | 40.0% | |
| GTTATAATCCCAGCTACAAC+AGG | + | chr8_3:5455155-5455174 | Msa1271970:CDS | 40.0% | |
| CAATTGTTGCAACATGTCCT+GGG | - | chr8_3:5455196-5455215 | None:intergenic | 40.0% | |
| ACAATTGCAGAGTTGAAACC+TGG | + | chr8_3:5455209-5455228 | Msa1271970:CDS | 40.0% | |
| CAATTGCAGAGTTGAAACCT+GGG | + | chr8_3:5455210-5455229 | Msa1271970:CDS | 40.0% | |
| AATTGCAGAGTTGAAACCTG+GGG | + | chr8_3:5455211-5455230 | Msa1271970:CDS | 40.0% | |
| GGGTCATGATTGTACAAGAA+GGG | + | chr8_3:5455231-5455250 | Msa1271970:CDS | 40.0% | |
| TATCAGCAACAGAGTTTGCA+TGG | - | chr8_3:5455301-5455320 | None:intergenic | 40.0% | |
| TGCTGATATAATCGCTGTTG+AGG | + | chr8_3:5455313-5455332 | Msa1271970:CDS | 40.0% | |
| CTTGCATCAATTTGATCCAG+TGG | - | chr8_3:5455344-5455363 | None:intergenic | 40.0% | |
| GCAATTGTTGCAACATGTCC+TGG | - | chr8_3:5455197-5455216 | None:intergenic | 45.0% | |
| TCTTGTACAATCATGACCCC+AGG | - | chr8_3:5455230-5455249 | None:intergenic | 45.0% | |
| GGGGTCATGATTGTACAAGA+AGG | + | chr8_3:5455230-5455249 | Msa1271970:CDS | 45.0% | |
| CAGTTCAGCGACAACTGATT+TGG | + | chr8_3:5455403-5455422 | Msa1271970:CDS | 45.0% | |
| GAGAAAGCTGAAGCTCAGAT+TGG | + | chr8_3:5455425-5455444 | Msa1271970:CDS | 45.0% | |
| ! | TGATGCAAGCCTTGTGCAGA+AGG | + | chr8_3:5455355-5455374 | Msa1271970:CDS | 50.0% |
| ! | GATGCAAGCCTTGTGCAGAA+GGG | + | chr8_3:5455356-5455375 | Msa1271970:CDS | 50.0% |
| CTTGAAGACCCTTCTGCACA+AGG | - | chr8_3:5455367-5455386 | None:intergenic | 50.0% | |
| TGTCGCTGAACTGAGCTTCT+GGG | - | chr8_3:5455396-5455415 | None:intergenic | 50.0% | |
| TTGTCGCTGAACTGAGCTTC+TGG | - | chr8_3:5455397-5455416 | None:intergenic | 50.0% | |
| CCATCTGGCCTGTTGTAGCT+GGG | - | chr8_3:5455166-5455185 | None:intergenic | 55.0% | |
| CCAGCTACAACAGGCCAGAT+GGG | + | chr8_3:5455164-5455183 | Msa1271970:CDS | 55.0% | |
| GTCCTGGGAGAATACCCATC+TGG | - | chr8_3:5455181-5455200 | None:intergenic | 55.0% | |
| CCCAGCTACAACAGGCCAGA+TGG | + | chr8_3:5455163-5455182 | Msa1271970:CDS | 60.0% | |
| CCCATCTGGCCTGTTGTAGC+TGG | - | chr8_3:5455167-5455186 | None:intergenic | 60.0% | |
| GGCCAGATGGGTATTCTCCC+AGG | + | chr8_3:5455176-5455195 | Msa1271970:CDS | 60.0% | |
| CGCTGTTGAGGCTGTTCCAC+TGG | + | chr8_3:5455325-5455344 | Msa1271970:CDS | 60.0% | |
| GCTGCTATCTCCCTGCCCTG+TGG | + | chr8_3:5455042-5455061 | Msa1271970:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 5454936 | 5455490 | 5454936 | ID=Msa1271970;Name=Msa1271970 |
| chr8_3 | mRNA | 5454936 | 5455490 | 5454936 | ID=Msa1271970-mRNA-1;Parent=Msa1271970;Name=Msa1271970-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|0|0|0.5|1|1|2|0|117 |
| chr8_3 | exon | 5454936 | 5454944 | 5454936 | ID=Msa1271970-mRNA-1:exon:1953;Parent=Msa1271970-mRNA-1 |
| chr8_3 | exon | 5455146 | 5455490 | 5455146 | ID=Msa1271970-mRNA-1:exon:1954;Parent=Msa1271970-mRNA-1 |
| chr8_3 | CDS | 5454936 | 5454944 | 5454936 | ID=Msa1271970-mRNA-1:cds;Parent=Msa1271970-mRNA-1 |
| chr8_3 | CDS | 5455146 | 5455490 | 5455146 | ID=Msa1271970-mRNA-1:cds;Parent=Msa1271970-mRNA-1 |
| Gene Sequence |
| Protein sequence |
