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.gene006365.t1 | XP_003592389.1 | 95.2 | 167 | 8 | 0 | 1 | 167 | 1 | 167 | 2.50E-80 | 308.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006365.t1 | Q9FLI1 | 35.3 | 156 | 90 | 3 | 19 | 167 | 2 | 153 | 3.3e-17 | 89.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006365.t1 | G7ID50 | 95.2 | 167 | 8 | 0 | 1 | 167 | 1 | 167 | 1.8e-80 | 308.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene006365.t1 | TF | bHLH |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene006365 | MS.gene37668 | PPI |
| MS.gene006365 | MS.gene006366 | PPI |
| MS.gene070992 | MS.gene006365 | PPI |
| MS.gene34422 | MS.gene006365 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006365.t1 | MTR_1g102380 | 95.210 | 167 | 8 | 0 | 1 | 167 | 1 | 167 | 8.29e-114 | 321 |
| MS.gene006365.t1 | MTR_0007s0330 | 38.816 | 152 | 90 | 2 | 17 | 167 | 4 | 153 | 9.09e-36 | 122 |
| MS.gene006365.t1 | MTR_0007s0330 | 39.474 | 152 | 89 | 2 | 17 | 167 | 16 | 165 | 2.13e-35 | 122 |
| MS.gene006365.t1 | MTR_1g102370 | 41.060 | 151 | 83 | 2 | 17 | 167 | 73 | 217 | 1.25e-31 | 114 |
| MS.gene006365.t1 | MTR_0007s0380 | 37.748 | 151 | 84 | 3 | 19 | 167 | 71 | 213 | 2.16e-29 | 108 |
| MS.gene006365.t1 | MTR_2g013920 | 27.703 | 148 | 103 | 2 | 23 | 170 | 12 | 155 | 1.29e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006365.t1 | AT5G51780 | 35.802 | 162 | 93 | 3 | 13 | 167 | 19 | 176 | 1.54e-25 | 97.4 |
| MS.gene006365.t1 | AT5G51780 | 35.256 | 156 | 90 | 3 | 19 | 167 | 2 | 153 | 1.66e-23 | 91.3 |
| MS.gene006365.t1 | AT1G12540 | 38.125 | 160 | 86 | 7 | 18 | 167 | 74 | 230 | 4.80e-22 | 89.7 |
| MS.gene006365.t1 | AT5G51790 | 31.875 | 160 | 91 | 5 | 18 | 167 | 26 | 177 | 5.99e-22 | 87.8 |
| MS.gene006365.t1 | AT5G51790 | 31.875 | 160 | 91 | 5 | 18 | 167 | 26 | 177 | 7.09e-22 | 87.8 |
| MS.gene006365.t1 | AT4G25410 | 32.258 | 155 | 87 | 3 | 24 | 167 | 48 | 195 | 8.68e-22 | 88.2 |
| MS.gene006365.t1 | AT5G51790 | 31.875 | 160 | 91 | 5 | 18 | 167 | 91 | 242 | 2.04e-21 | 87.8 |
| MS.gene006365.t1 | AT5G51790 | 31.875 | 160 | 91 | 5 | 18 | 167 | 91 | 242 | 2.43e-21 | 87.8 |
| MS.gene006365.t1 | AT4G25400 | 32.215 | 149 | 94 | 3 | 19 | 167 | 25 | 166 | 8.64e-21 | 84.7 |
| MS.gene006365.t1 | AT4G25400 | 32.215 | 149 | 94 | 3 | 19 | 167 | 25 | 166 | 1.02e-20 | 84.7 |
| MS.gene006365.t1 | AT1G62975 | 34.503 | 171 | 94 | 4 | 15 | 167 | 70 | 240 | 1.18e-20 | 85.9 |
| MS.gene006365.t1 | AT1G62975 | 34.503 | 171 | 94 | 4 | 15 | 167 | 70 | 240 | 1.41e-20 | 85.9 |
Find 29 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCACGTTTATCAGATTTAA+TGG | 0.200332 | 1.3:-70210609 | MS.gene006365:CDS |
| ACACACTTCACTACACTTGT+AGG | 0.335290 | 1.3:+70210695 | None:intergenic |
| TGTGTTACCAACCAAGTAAA+TGG | 0.368730 | 1.3:-70210551 | MS.gene006365:CDS |
| GTCAAGATTGATCTAATTCC+AGG | 0.380052 | 1.3:-70210674 | MS.gene006365:CDS |
| GAGAGATAAGATCAAAGAAA+TGG | 0.392291 | 1.3:-70210762 | MS.gene006365:CDS |
| AGTTCAAGTAGGGTTGAAAC+TGG | 0.407760 | 1.3:-70210737 | MS.gene006365:CDS |
| AAGACCTTGATGAGCTCAAA+AGG | 0.412689 | 1.3:+70210977 | None:intergenic |
| GAAATATCTTGCCATTTACT+TGG | 0.419250 | 1.3:+70210540 | None:intergenic |
| TATCTTGCCATTTACTTGGT+TGG | 0.419948 | 1.3:+70210544 | None:intergenic |
| TTTATGCTGATTCAGATCTT+CGG | 0.455944 | 1.3:+70211108 | None:intergenic |
| AAGAAATGGTTAGTTCAAGT+AGG | 0.512409 | 1.3:-70210748 | MS.gene006365:CDS |
| AGAAATGGTTAGTTCAAGTA+GGG | 0.521680 | 1.3:-70210747 | MS.gene006365:CDS |
| ATAACAATTTCCACCCCACC+TGG | 0.524411 | 1.3:+70210656 | None:intergenic |
| GTGGAAATTGTTATATGTAG+TGG | 0.547521 | 1.3:-70210647 | MS.gene006365:CDS |
| ATGGAAATAATACTTCAAGA+AGG | 0.552508 | 1.3:-70210590 | MS.gene006365:CDS |
| TGATCTAATTCCAGGTGGGG+TGG | 0.577334 | 1.3:-70210666 | MS.gene006365:CDS |
| AGACCTTGATGAGCTCAAAA+GGG | 0.578199 | 1.3:+70210978 | None:intergenic |
| GCATAAAATATTAACTACAT+CGG | 0.611900 | 1.3:-70211092 | MS.gene006365:CDS |
| ATTTCATACTATTAAATCTG+AGG | 0.612912 | 1.3:-70210522 | MS.gene006365:intron |
| GATTGATCTAATTCCAGGTG+GGG | 0.621637 | 1.3:-70210669 | MS.gene006365:CDS |
| AGATTGATCTAATTCCAGGT+GGG | 0.625836 | 1.3:-70210670 | MS.gene006365:CDS |
| GCTCAAAAGGGAGTGAAGAA+CGG | 0.633531 | 1.3:+70210990 | None:intergenic |
| GTAGGGAAGTTGAAAAGCAA+AGG | 0.634358 | 1.3:-70211045 | MS.gene006365:CDS |
| AAAAGGGAGTGAAGAACGGA+GGG | 0.640895 | 1.3:+70210994 | None:intergenic |
| CGTTCAGTATCAGATCACAT+AGG | 0.655166 | 1.3:-70210842 | MS.gene006365:CDS |
| AGTATCAGATCACATAGGTG+AGG | 0.667408 | 1.3:-70210837 | MS.gene006365:CDS |
| CAAAAGGGAGTGAAGAACGG+AGG | 0.674543 | 1.3:+70210993 | None:intergenic |
| GGGAAGTTGAAAAGCAAAGG+AGG | 0.678696 | 1.3:-70211042 | MS.gene006365:CDS |
| AAGATTGATCTAATTCCAGG+TGG | 0.682027 | 1.3:-70210671 | MS.gene006365:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAATTTTGTAATTTTTTTTT+AGG | - | chr1.3:70211101-70211120 | MS.gene006365:CDS | 10.0% |
| !! | AACTTAATAATTAATTAGCT+AGG | + | chr1.3:70210153-70210172 | None:intergenic | 15.0% |
| !! | AATCATATATATATGTTATG+AGG | - | chr1.3:70210381-70210400 | MS.gene006365:intron | 15.0% |
| !!! | ATTATTGTTGTTGAATATAT+AGG | - | chr1.3:70210286-70210305 | MS.gene006365:intron | 15.0% |
| !! | ATTTCATACTATTAAATCTG+AGG | - | chr1.3:70210125-70210144 | MS.gene006365:intron | 20.0% |
| !! | GCATAAAATATTAACTACAT+CGG | - | chr1.3:70209555-70209574 | MS.gene006365:intron | 20.0% |
| !! | TTAAAGATATAGAGAACAAA+TGG | - | chr1.3:70210743-70210762 | MS.gene006365:CDS | 20.0% |
| !!! | TAATTTTCTGCTTCAAAATT+TGG | + | chr1.3:70209849-70209868 | None:intergenic | 20.0% |
| !!! | TCATAACATCTTTGATTTTA+GGG | - | chr1.3:70209778-70209797 | MS.gene006365:intron | 20.0% |
| !!! | TCATGTTGATAAATAATAAG+AGG | + | chr1.3:70209718-70209737 | None:intergenic | 20.0% |
| !!! | TTCATAACATCTTTGATTTT+AGG | - | chr1.3:70209777-70209796 | MS.gene006365:intron | 20.0% |
| !!! | TTTGTAATTTTTTTTTAGGG+AGG | - | chr1.3:70211105-70211124 | MS.gene006365:CDS | 20.0% |
| ! | AATTCAAATCTACTCAGATA+CGG | + | chr1.3:70210873-70210892 | None:intergenic | 25.0% |
| ! | ATGATAAAAAGATGATTCGT+AGG | - | chr1.3:70209584-70209603 | MS.gene006365:intron | 25.0% |
| ! | ATGGAAATAATACTTCAAGA+AGG | - | chr1.3:70210057-70210076 | MS.gene006365:intron | 25.0% |
| ! | CAAGATAAAATCAAGATTTG+TGG | - | chr1.3:70210961-70210980 | MS.gene006365:intron | 25.0% |
| ! | TAATGGTATATAACATAGAC+TGG | + | chr1.3:70210691-70210710 | None:intergenic | 25.0% |
| ! | TGATAAAAAGATGATTCGTA+GGG | - | chr1.3:70209585-70209604 | MS.gene006365:intron | 25.0% |
| ! | TGCAAATTAAGACAGTTTAA+TGG | + | chr1.3:70210708-70210727 | None:intergenic | 25.0% |
| ! | TTCACGTTTATCAGATTTAA+TGG | - | chr1.3:70210038-70210057 | MS.gene006365:intron | 25.0% |
| !! | ATCACGCAATTTTATTGTAA+AGG | - | chr1.3:70210357-70210376 | MS.gene006365:intron | 25.0% |
| !! | ATTGTTGTTGAATATATAGG+TGG | - | chr1.3:70210289-70210308 | MS.gene006365:intron | 25.0% |
| AATTACATTCAGATCAACCA+AGG | + | chr1.3:70210542-70210561 | None:intergenic | 30.0% | |
| CTCTATATCTTTAAGCAACA+AGG | + | chr1.3:70210737-70210756 | None:intergenic | 30.0% | |
| GAGAGATAAGATCAAAGAAA+TGG | - | chr1.3:70209885-70209904 | MS.gene006365:intron | 30.0% | |
| GTAGTTGCATGTAAATCTAA+TGG | + | chr1.3:70210627-70210646 | None:intergenic | 30.0% | |
| GTGGAAATTGTTATATGTAG+TGG | - | chr1.3:70210000-70210019 | MS.gene006365:intron | 30.0% | |
| TAGAGAACAAATGGATAGAA+TGG | - | chr1.3:70210752-70210771 | MS.gene006365:CDS | 30.0% | |
| ! | AAGAAATGGTTAGTTCAAGT+AGG | - | chr1.3:70209899-70209918 | MS.gene006365:intron | 30.0% |
| ! | AGAAATGGTTAGTTCAAGTA+GGG | - | chr1.3:70209900-70209919 | MS.gene006365:intron | 30.0% |
| ! | GAAATATCTTGCCATTTACT+TGG | + | chr1.3:70210110-70210129 | None:intergenic | 30.0% |
| !! | TGTTATATGTAGTGGTTTTG+AGG | - | chr1.3:70210008-70210027 | MS.gene006365:intron | 30.0% |
| !! | TTTATGCTGATTCAGATCTT+CGG | + | chr1.3:70209542-70209561 | None:intergenic | 30.0% |
| AACATTGGAAGTCAGTTTAG+TGG | + | chr1.3:70210928-70210947 | None:intergenic | 35.0% | |
| AAGATTGATCTAATTCCAGG+TGG | - | chr1.3:70209976-70209995 | MS.gene006365:intron | 35.0% | |
| ACTCAGATACGGTTGTAAAA+TGG | + | chr1.3:70210862-70210881 | None:intergenic | 35.0% | |
| AGATTGATCTAATTCCAGGT+GGG | - | chr1.3:70209977-70209996 | MS.gene006365:intron | 35.0% | |
| GTCAAGATTGATCTAATTCC+AGG | - | chr1.3:70209973-70209992 | MS.gene006365:intron | 35.0% | |
| TACCTTCGTTCATCAGATTA+AGG | + | chr1.3:70210600-70210619 | None:intergenic | 35.0% | |
| TGTCTCAAGTTTGACAACAT+TGG | + | chr1.3:70210943-70210962 | None:intergenic | 35.0% | |
| TGTGTTACCAACCAAGTAAA+TGG | - | chr1.3:70210096-70210115 | MS.gene006365:intron | 35.0% | |
| ! | GTATATAACATAGACTGGTC+AGG | + | chr1.3:70210686-70210705 | None:intergenic | 35.0% |
| ! | TATCTTGCCATTTACTTGGT+TGG | + | chr1.3:70210106-70210125 | None:intergenic | 35.0% |
| ! | TGAGGATTCTCAATTTTCCT+TGG | - | chr1.3:70210522-70210541 | MS.gene006365:intron | 35.0% |
| !! | TCTAGGGTATTTCTGAGTTT+TGG | - | chr1.3:70210225-70210244 | MS.gene006365:intron | 35.0% |
| AAGACCTTGATGAGCTCAAA+AGG | + | chr1.3:70209673-70209692 | None:intergenic | 40.0% | |
| ACACACTTCACTACACTTGT+AGG | + | chr1.3:70209955-70209974 | None:intergenic | 40.0% | |
| AGACCTTGATGAGCTCAAAA+GGG | + | chr1.3:70209672-70209691 | None:intergenic | 40.0% | |
| AGTATCAGATCACATAGGTG+AGG | - | chr1.3:70209810-70209829 | MS.gene006365:intron | 40.0% | |
| AGTTCAAGTAGGGTTGAAAC+TGG | - | chr1.3:70209910-70209929 | MS.gene006365:intron | 40.0% | |
| CGTTCAGTATCAGATCACAT+AGG | - | chr1.3:70209805-70209824 | MS.gene006365:intron | 40.0% | |
| CTACTAACTCATCCACAACT+TGG | - | chr1.3:70210660-70210679 | MS.gene006365:CDS | 40.0% | |
| GATTGATCTAATTCCAGGTG+GGG | - | chr1.3:70209978-70209997 | MS.gene006365:intron | 40.0% | |
| GTAAATGTGTGACTGTGATG+AGG | - | chr1.3:70210504-70210523 | MS.gene006365:intron | 40.0% | |
| GTAGGGAAGTTGAAAAGCAA+AGG | - | chr1.3:70209602-70209621 | MS.gene006365:intron | 40.0% | |
| TACGATCTAGCTAGAGTCTA+GGG | - | chr1.3:70210209-70210228 | MS.gene006365:intron | 40.0% | |
| TGCCTTAATCTGATGAACGA+AGG | - | chr1.3:70210595-70210614 | MS.gene006365:CDS | 40.0% | |
| TGCTCAGCTGCAAAATAAAC+TGG | - | chr1.3:70210334-70210353 | MS.gene006365:intron | 40.0% | |
| TTACGATCTAGCTAGAGTCT+AGG | - | chr1.3:70210208-70210227 | MS.gene006365:intron | 40.0% | |
| TTTGCAGCTGAGCAAGATTA+AGG | + | chr1.3:70210328-70210347 | None:intergenic | 40.0% | |
| !! | AATTAACTTGTACCTGTGCG+TGG | - | chr1.3:70210459-70210478 | MS.gene006365:intron | 40.0% |
| !!! | ATTTTTTTGTCTCCACGCAC+AGG | + | chr1.3:70210474-70210493 | None:intergenic | 40.0% |
| AAAAGGGAGTGAAGAACGGA+GGG | + | chr1.3:70209656-70209675 | None:intergenic | 45.0% | |
| ATAACAATTTCCACCCCACC+TGG | + | chr1.3:70209994-70210013 | None:intergenic | 45.0% | |
| GCTCAAAAGGGAGTGAAGAA+CGG | + | chr1.3:70209660-70209679 | None:intergenic | 45.0% | |
| GGGAAGTTGAAAAGCAAAGG+AGG | - | chr1.3:70209605-70209624 | MS.gene006365:intron | 45.0% | |
| ! | ACTCCCTTTTGAGCTCATCA+AGG | - | chr1.3:70209666-70209685 | MS.gene006365:intron | 45.0% |
| ! | GTGGCATTCACGTTAGTTTG+TGG | - | chr1.3:70210980-70210999 | MS.gene006365:intron | 45.0% |
| !!! | AATTTTGTAATTTTTTTTTA+GGG | - | chr1.3:70211102-70211121 | MS.gene006365:CDS | 5.0% |
| CAAAAGGGAGTGAAGAACGG+AGG | + | chr1.3:70209657-70209676 | None:intergenic | 50.0% | |
| TGATCTAATTCCAGGTGGGG+TGG | - | chr1.3:70209981-70210000 | MS.gene006365:intron | 50.0% | |
| ! | AGACTGGTCAGGCCAAGTTG+TGG | + | chr1.3:70210675-70210694 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 70209535 | 70211134 | 70209535 | ID=MS.gene006365 |
| chr1.3 | mRNA | 70209535 | 70211134 | 70209535 | ID=MS.gene006365.t1;Parent=MS.gene006365 |
| chr1.3 | exon | 70210982 | 70211134 | 70210982 | ID=MS.gene006365.t1.exon1;Parent=MS.gene006365.t1 |
| chr1.3 | CDS | 70210982 | 70211134 | 70210982 | ID=cds.MS.gene006365.t1;Parent=MS.gene006365.t1 |
| chr1.3 | exon | 70210523 | 70210870 | 70210523 | ID=MS.gene006365.t1.exon2;Parent=MS.gene006365.t1 |
| chr1.3 | CDS | 70210523 | 70210870 | 70210523 | ID=cds.MS.gene006365.t1;Parent=MS.gene006365.t1 |
| chr1.3 | exon | 70209535 | 70209546 | 70209535 | ID=MS.gene006365.t1.exon3;Parent=MS.gene006365.t1 |
| chr1.3 | CDS | 70209535 | 70209546 | 70209535 | ID=cds.MS.gene006365.t1;Parent=MS.gene006365.t1 |
| Gene Sequence |
| Protein sequence |
