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.gene055887.t1 | XP_024627831.1 | 98.9 | 92 | 1 | 0 | 1 | 92 | 1 | 92 | 5.70E-39 | 169.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene055887.t1 | Q8GW32 | 78.5 | 93 | 17 | 3 | 1 | 91 | 1 | 92 | 4.3e-27 | 121.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene055887.t1 | A0A396GKL5 | 98.9 | 92 | 1 | 0 | 1 | 92 | 1 | 92 | 4.1e-39 | 169.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene055887.t1 | TF | bHLH |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene055887.t1 | MTR_5g039180 | 82.051 | 78 | 13 | 1 | 16 | 92 | 16 | 93 | 2.07e-39 | 126 |
| MS.gene055887.t1 | MTR_7g010120 | 76.087 | 92 | 20 | 2 | 1 | 91 | 1 | 91 | 5.88e-38 | 122 |
| MS.gene055887.t1 | MTR_6g011670 | 75.000 | 76 | 18 | 1 | 17 | 91 | 15 | 90 | 8.53e-32 | 107 |
| MS.gene055887.t1 | MTR_3g438070 | 71.429 | 77 | 19 | 2 | 17 | 92 | 17 | 91 | 3.78e-30 | 102 |
| MS.gene055887.t1 | MTR_7g059260 | 50.617 | 81 | 34 | 3 | 1 | 80 | 1 | 76 | 5.67e-13 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene055887.t1 | AT3G47710 | 69.149 | 94 | 24 | 3 | 1 | 92 | 1 | 91 | 3.17e-36 | 118 |
| MS.gene055887.t1 | AT3G28857 | 65.957 | 94 | 28 | 2 | 1 | 92 | 1 | 92 | 7.86e-36 | 117 |
| MS.gene055887.t1 | AT1G26945 | 78.378 | 74 | 15 | 1 | 19 | 91 | 19 | 92 | 1.23e-33 | 111 |
| MS.gene055887.t1 | AT5G15160 | 68.000 | 75 | 22 | 1 | 19 | 91 | 18 | 92 | 1.45e-31 | 106 |
| MS.gene055887.t1 | AT1G74500 | 74.026 | 77 | 16 | 2 | 17 | 91 | 17 | 91 | 6.53e-31 | 104 |
| MS.gene055887.t1 | AT5G39860 | 66.667 | 78 | 24 | 1 | 17 | 92 | 15 | 92 | 8.17e-31 | 104 |
Find 15 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGACCGATTGTCACAACTTT+TGG | 0.247784 | 8.3:+42438443 | MS.gene055887:CDS |
| TTGAGCACTGTTAGGGTCTA+TGG | 0.329793 | 8.3:-42438469 | None:intergenic |
| TGGGAACGCCTTGAGAGTTC+AGG | 0.344117 | 8.3:-42437215 | None:intergenic |
| ATAGCTGCTTGAGCACTGTT+AGG | 0.352323 | 8.3:-42438477 | None:intergenic |
| GTGCTCAAGCAGCTATCATT+AGG | 0.423047 | 8.3:+42438484 | MS.gene055887:CDS |
| AAGAAAATAATATACCTTAT+GGG | 0.448117 | 8.3:-42437234 | None:intergenic |
| AGGGACAAGTTGTTGTAACT+TGG | 0.474947 | 8.3:-42437195 | None:intergenic |
| ATTGTAGGTTTCAGCTGCTA+AGG | 0.479345 | 8.3:+42438362 | MS.gene055887:intron |
| AGATCTCGTTCAAGACAATC+TGG | 0.480776 | 8.3:+42437128 | MS.gene055887:CDS |
| ACTCTCAAGGCGTTCCCATA+AGG | 0.483554 | 8.3:+42437220 | MS.gene055887:CDS |
| TAGCTGCTTGAGCACTGTTA+GGG | 0.522205 | 8.3:-42438476 | None:intergenic |
| GGGAACGCCTTGAGAGTTCA+GGG | 0.523374 | 8.3:-42437214 | None:intergenic |
| TGTCCAAAAGTTGTGACAAT+CGG | 0.545364 | 8.3:-42438446 | None:intergenic |
| AACTTGTCCCTGAACTCTCA+AGG | 0.593758 | 8.3:+42437207 | MS.gene055887:CDS |
| TTGAGCATCAGAGATCTCAG+TGG | 0.738554 | 8.3:-42437156 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATTGAAAACTAAAAAAAAA+AGG | - | chr8.3:42437869-42437888 | None:intergenic | 10.0% |
| !! | AAAGAAAATAATATACCTTA+TGG | - | chr8.3:42437238-42437257 | None:intergenic | 15.0% |
| !! | AACTTCATATTATAATCAAT+TGG | - | chr8.3:42437385-42437404 | None:intergenic | 15.0% |
| !! | AAGAAAATAATATACCTTAT+GGG | - | chr8.3:42437237-42437256 | None:intergenic | 15.0% |
| !! | TATAATGTTTATTGTATTGT+AGG | + | chr8.3:42438347-42438366 | MS.gene055887:intron | 15.0% |
| !!! | AAAATTGATTTTAAGTGATA+TGG | + | chr8.3:42437338-42437357 | MS.gene055887:intron | 15.0% |
| !!! | AAATGATCTTTAATTTTTTC+TGG | + | chr8.3:42437659-42437678 | MS.gene055887:intron | 15.0% |
| !!! | ATCACTTAAAATCAATTTTA+GGG | - | chr8.3:42437337-42437356 | None:intergenic | 15.0% |
| !!! | TATCACTTAAAATCAATTTT+AGG | - | chr8.3:42437338-42437357 | None:intergenic | 15.0% |
| !!! | TTTGTTTCTTTCAAAATTAA+TGG | + | chr8.3:42437566-42437585 | MS.gene055887:intron | 15.0% |
| !!! | AGTTTTCAATAGTTCATTAA+AGG | + | chr8.3:42437878-42437897 | MS.gene055887:intron | 20.0% |
| ! | AGTTCCTGAAATTATTATGT+AGG | - | chr8.3:42437687-42437706 | None:intergenic | 25.0% |
| ! | TAAAAGAGAGAATACAGAAA+AGG | - | chr8.3:42437261-42437280 | None:intergenic | 25.0% |
| !!! | AAATTTGTTGTGTTCAAGAA+AGG | + | chr8.3:42438047-42438066 | MS.gene055887:intron | 25.0% |
| !!! | AATTTGTTGTGTTCAAGAAA+GGG | + | chr8.3:42438048-42438067 | MS.gene055887:intron | 25.0% |
| AATGATATATGCATTGCAAG+TGG | - | chr8.3:42438256-42438275 | None:intergenic | 30.0% | |
| ATGATATATGCATTGCAAGT+GGG | - | chr8.3:42438255-42438274 | None:intergenic | 30.0% | |
| GAGTTAAGGATTCAATTTCA+GGG | - | chr8.3:42438192-42438211 | None:intergenic | 30.0% | |
| GGTTCCTACATAATAATTTC+AGG | + | chr8.3:42437680-42437699 | MS.gene055887:intron | 30.0% | |
| TCCAATGTTAGAAACAAAAC+TGG | + | chr8.3:42437790-42437809 | MS.gene055887:intron | 30.0% | |
| ! | ACATATTTTATGTGTGGCTT+TGG | + | chr8.3:42438134-42438153 | MS.gene055887:intron | 30.0% |
| ! | CAACAAATTTTCAGTTGCTA+TGG | - | chr8.3:42438293-42438312 | None:intergenic | 30.0% |
| ! | CTACACACATATTTTATGTG+TGG | + | chr8.3:42438128-42438147 | MS.gene055887:intron | 30.0% |
| !!! | TCCAGTTTTGTTTCTAACAT+TGG | - | chr8.3:42437794-42437813 | None:intergenic | 30.0% |
| CATCAAAAACTTGCATAGAG+AGG | + | chr8.3:42438407-42438426 | MS.gene055887:CDS | 35.0% | |
| CGAGTTAAGGATTCAATTTC+AGG | - | chr8.3:42438193-42438212 | None:intergenic | 35.0% | |
| GTCAACAACAAACTTTAGCT+TGG | - | chr8.3:42438000-42438019 | None:intergenic | 35.0% | |
| TGTCCAAAAGTTGTGACAAT+CGG | - | chr8.3:42438449-42438468 | None:intergenic | 35.0% | |
| !! | AGTGTGTGTTTAGTTCTACA+AGG | - | chr8.3:42437596-42437615 | None:intergenic | 35.0% |
| !!! | ATTTTATGTGTGGCTTTGGT+TGG | + | chr8.3:42438138-42438157 | MS.gene055887:intron | 35.0% |
| AGATCTCGTTCAAGACAATC+TGG | + | chr8.3:42437128-42437147 | MS.gene055887:CDS | 40.0% | |
| AGGGACAAGTTGTTGTAACT+TGG | - | chr8.3:42437198-42437217 | None:intergenic | 40.0% | |
| ATTGTAGGTTTCAGCTGCTA+AGG | + | chr8.3:42438362-42438381 | MS.gene055887:intron | 40.0% | |
| CGTTTACCCACAAACTTGTA+GGG | + | chr8.3:42438211-42438230 | MS.gene055887:intron | 40.0% | |
| GTTTGTGGGTAAACGAGTTA+AGG | - | chr8.3:42438206-42438225 | None:intergenic | 40.0% | |
| TCGTTTACCCACAAACTTGT+AGG | + | chr8.3:42438210-42438229 | MS.gene055887:intron | 40.0% | |
| ! | TGACCGATTGTCACAACTTT+TGG | + | chr8.3:42438443-42438462 | MS.gene055887:CDS | 40.0% |
| AACTTGTCCCTGAACTCTCA+AGG | + | chr8.3:42437207-42437226 | MS.gene055887:CDS | 45.0% | |
| GTGCTCAAGCAGCTATCATT+AGG | + | chr8.3:42438484-42438503 | MS.gene055887:CDS | 45.0% | |
| TTGAGCATCAGAGATCTCAG+TGG | - | chr8.3:42437159-42437178 | None:intergenic | 45.0% | |
| ! | ATAGCTGCTTGAGCACTGTT+AGG | - | chr8.3:42438480-42438499 | None:intergenic | 45.0% |
| ! | TAGCTGCTTGAGCACTGTTA+GGG | - | chr8.3:42438479-42438498 | None:intergenic | 45.0% |
| ! | TTGAGCACTGTTAGGGTCTA+TGG | - | chr8.3:42438472-42438491 | None:intergenic | 45.0% |
| !! | TTAAAATTTAATTAATTCTA+AGG | - | chr8.3:42437640-42437659 | None:intergenic | 5.0% |
| ACTTGTAGGGCTGAGGGATT+CGG | + | chr8.3:42438224-42438243 | MS.gene055887:intron | 50.0% | |
| CCACAAACTTGTAGGGCTGA+GGG | + | chr8.3:42438218-42438237 | MS.gene055887:intron | 50.0% | |
| CCTCAGCCCTACAAGTTTGT+GGG | - | chr8.3:42438220-42438239 | None:intergenic | 50.0% | |
| ! | ACTCTCAAGGCGTTCCCATA+AGG | + | chr8.3:42437220-42437239 | MS.gene055887:CDS | 50.0% |
| CCCACAAACTTGTAGGGCTG+AGG | + | chr8.3:42438217-42438236 | MS.gene055887:intron | 55.0% | |
| CCCTCAGCCCTACAAGTTTG+TGG | - | chr8.3:42438221-42438240 | None:intergenic | 55.0% | |
| GGGAACGCCTTGAGAGTTCA+GGG | - | chr8.3:42437217-42437236 | None:intergenic | 55.0% | |
| TGGGAACGCCTTGAGAGTTC+AGG | - | chr8.3:42437218-42437237 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.3 | gene | 42437116 | 42438521 | 42437116 | ID=MS.gene055887 |
| chr8.3 | mRNA | 42437116 | 42438521 | 42437116 | ID=MS.gene055887.t1;Parent=MS.gene055887 |
| chr8.3 | exon | 42437116 | 42437241 | 42437116 | ID=MS.gene055887.t1.exon1;Parent=MS.gene055887.t1 |
| chr8.3 | CDS | 42437116 | 42437241 | 42437116 | ID=cds.MS.gene055887.t1;Parent=MS.gene055887.t1 |
| chr8.3 | exon | 42438369 | 42438521 | 42438369 | ID=MS.gene055887.t1.exon2;Parent=MS.gene055887.t1 |
| chr8.3 | CDS | 42438369 | 42438521 | 42438369 | ID=cds.MS.gene055887.t1;Parent=MS.gene055887.t1 |
| Gene Sequence |
| Protein sequence |
