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.gene75729.t1 | RHN49639.1 | 67.9 | 159 | 28 | 4 | 54 | 190 | 10 | 167 | 3.60E-48 | 201.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75729.t1 | A0A396H8N5 | 67.9 | 159 | 28 | 4 | 54 | 190 | 10 | 167 | 2.6e-48 | 201.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene75729.t1 | TF | B3 |
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.gene75729.t1 | MTR_7g117590 | 68.590 | 156 | 27 | 4 | 56 | 190 | 18 | 172 | 1.55e-64 | 196 |
| MS.gene75729.t1 | MTR_1g054470 | 48.108 | 185 | 36 | 6 | 1 | 179 | 3 | 133 | 1.58e-45 | 147 |
| MS.gene75729.t1 | MTR_2g012700 | 36.364 | 110 | 69 | 1 | 82 | 190 | 11 | 120 | 9.50e-27 | 99.0 |
| MS.gene75729.t1 | MTR_2g062330 | 38.462 | 117 | 67 | 3 | 75 | 190 | 27 | 139 | 1.93e-25 | 96.3 |
| MS.gene75729.t1 | MTR_0010s0310 | 33.333 | 90 | 57 | 1 | 94 | 180 | 151 | 240 | 3.95e-13 | 66.2 |
| MS.gene75729.t1 | MTR_5g071400 | 68.085 | 47 | 8 | 3 | 56 | 96 | 14 | 59 | 7.00e-12 | 59.3 |
| MS.gene75729.t1 | MTR_6g477950 | 36.275 | 102 | 61 | 3 | 89 | 189 | 46 | 144 | 8.84e-12 | 62.8 |
| MS.gene75729.t1 | MTR_6g087720 | 32.039 | 103 | 66 | 3 | 79 | 177 | 196 | 298 | 5.21e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGGATGGTTTGAGTTTGTT+AGG | 0.273672 | 3.3:-70033957 | MS.gene75729:CDS |
| TGAAGATCGGGTCATTTGAT+TGG | 0.369943 | 3.3:-70034639 | MS.gene75729:CDS |
| CGAATTGTTGATGATGAAAC+TGG | 0.373851 | 3.3:-70034039 | MS.gene75729:CDS |
| GAATGTGAAGTTCGTGATAA+AGG | 0.381874 | 3.3:-70034006 | MS.gene75729:CDS |
| GGCTGCTGGACGGAGAGTTC+TGG | 0.386406 | 3.3:-70034224 | MS.gene75729:intron |
| TGGCCATCGACTTCTTCATT+TGG | 0.387700 | 3.3:+70034319 | None:intergenic |
| AAGTTCGTGATAAAGGAAAT+TGG | 0.388847 | 3.3:-70033999 | MS.gene75729:CDS |
| TTTGAAATTGTGCAAATACT+TGG | 0.402550 | 3.3:+70034299 | None:intergenic |
| ATTAGTTCTGCTACGGCTGC+TGG | 0.408831 | 3.3:-70034238 | MS.gene75729:CDS |
| GAAGATCGGGTCATTTGATT+GGG | 0.425740 | 3.3:-70034638 | MS.gene75729:CDS |
| CGAAGAAGAAGTTGAAGATC+GGG | 0.445939 | 3.3:-70034651 | MS.gene75729:CDS |
| ATGAAATGTGCGGCGGATGC+AGG | 0.449012 | 3.3:-70034702 | MS.gene75729:CDS |
| TGGATGGTTTGAGTTTGTTA+GGG | 0.484898 | 3.3:-70033956 | MS.gene75729:CDS |
| CTGCAGCGATGTAATTGATC+CGG | 0.509939 | 3.3:-70034374 | MS.gene75729:intron |
| CTTCTTCGTCCATCTCAAAA+CGG | 0.535091 | 3.3:+70034666 | None:intergenic |
| ACGAAGAAGAAGTTGAAGAT+CGG | 0.540825 | 3.3:-70034652 | MS.gene75729:CDS |
| CGATGTAATTGATCCGGAGT+TGG | 0.544205 | 3.3:-70034368 | MS.gene75729:CDS |
| CAATCTTATTGCCGTCAAAA+CGG | 0.544280 | 3.3:+70034606 | None:intergenic |
| TTATTGCCGTCAAAACGGTT+CGG | 0.545486 | 3.3:+70034611 | None:intergenic |
| CTTTGAATTGCAATCTTCCG+AGG | 0.557056 | 3.3:+70034087 | None:intergenic |
| TCGTGATAAAGGAAATTGGA+TGG | 0.565929 | 3.3:-70033995 | MS.gene75729:CDS |
| GGTTTCAATTCGTCCAACTC+CGG | 0.567151 | 3.3:+70034355 | None:intergenic |
| AGAAATACGTTGGAAGTGGA+TGG | 0.575514 | 3.3:-70033972 | MS.gene75729:CDS |
| ATGGAGAAATACGTTGGAAG+TGG | 0.576439 | 3.3:-70033976 | MS.gene75729:CDS |
| GCATAGTATTAGTTCTGCTA+CGG | 0.580120 | 3.3:-70034245 | MS.gene75729:CDS |
| AATTGGATGGAGAAATACGT+TGG | 0.583531 | 3.3:-70033982 | MS.gene75729:CDS |
| CCATCTCAAAACGGCGACGA+TGG | 0.584489 | 3.3:+70034675 | None:intergenic |
| AGGGCAAAAGAACTCAAAGA+AGG | 0.584629 | 3.3:-70033937 | MS.gene75729:CDS |
| TTAATGTGTAGCGTATTCCT+CGG | 0.586314 | 3.3:-70034104 | MS.gene75729:intron |
| GCATCCGCCGCACATTTCAT+CGG | 0.590420 | 3.3:+70034705 | None:intergenic |
| GATACAAATAATTTGTGTGG+AGG | 0.593345 | 3.3:+70033886 | None:intergenic |
| ACTGATACAAATAATTTGTG+TGG | 0.607437 | 3.3:+70033883 | None:intergenic |
| GTTCTGCTACGGCTGCTGGA+CGG | 0.628877 | 3.3:-70034234 | MS.gene75729:CDS |
| AATCCAAATGAAGAAGTCGA+TGG | 0.671453 | 3.3:-70034322 | MS.gene75729:CDS |
| ATGGCGACCGATGAAATGTG+CGG | 0.726557 | 3.3:-70034712 | MS.gene75729:CDS |
| GCGACCGATGAAATGTGCGG+CGG | 0.753822 | 3.3:-70034709 | MS.gene75729:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAATTTCAAAATTTTCAAAA+CGG | - | chr3.3:70034299-70034318 | MS.gene75729:CDS | 15.0% |
| !!! | GTTTTTTATTTTATTTTTGC+TGG | - | chr3.3:70034405-70034424 | MS.gene75729:intron | 15.0% |
| !!! | TTGTTTTTTTTTTAATCATC+TGG | - | chr3.3:70034165-70034184 | MS.gene75729:intron | 15.0% |
| ! | CTTAAAATAGCCTTCTAAAT+GGG | + | chr3.3:70034047-70034066 | None:intergenic | 25.0% |
| !! | ACTGATACAAATAATTTGTG+TGG | + | chr3.3:70034705-70034724 | None:intergenic | 25.0% |
| !! | TTTGAAATTGTGCAAATACT+TGG | + | chr3.3:70034289-70034308 | None:intergenic | 25.0% |
| !!! | CATTTAGAAGGCTATTTTAA+GGG | - | chr3.3:70034046-70034065 | MS.gene75729:CDS | 25.0% |
| AAGTTCGTGATAAAGGAAAT+TGG | - | chr3.3:70034586-70034605 | MS.gene75729:CDS | 30.0% | |
| CCTTAAAATAGCCTTCTAAA+TGG | + | chr3.3:70034048-70034067 | None:intergenic | 30.0% | |
| ! | AAAACGGTGATCATACTTTT+TGG | - | chr3.3:70034315-70034334 | MS.gene75729:CDS | 30.0% |
| ! | GATACAAATAATTTGTGTGG+AGG | + | chr3.3:70034702-70034721 | None:intergenic | 30.0% |
| !! | CCATTTAGAAGGCTATTTTA+AGG | - | chr3.3:70034045-70034064 | MS.gene75729:CDS | 30.0% |
| !!! | AAGATTGGGCTTTTTAGTTA+TGG | - | chr3.3:70033995-70034014 | MS.gene75729:CDS | 30.0% |
| AATCCAAATGAAGAAGTCGA+TGG | - | chr3.3:70034263-70034282 | MS.gene75729:CDS | 35.0% | |
| AATTGGATGGAGAAATACGT+TGG | - | chr3.3:70034603-70034622 | MS.gene75729:CDS | 35.0% | |
| ACGAAGAAGAAGTTGAAGAT+CGG | - | chr3.3:70033933-70033952 | MS.gene75729:CDS | 35.0% | |
| ACGTCTGAGAAGAAAATTCT+AGG | - | chr3.3:70034093-70034112 | MS.gene75729:CDS | 35.0% | |
| CAATCTTATTGCCGTCAAAA+CGG | + | chr3.3:70033982-70034001 | None:intergenic | 35.0% | |
| CGTCTGAGAAGAAAATTCTA+GGG | - | chr3.3:70034094-70034113 | MS.gene75729:CDS | 35.0% | |
| GAATGTGAAGTTCGTGATAA+AGG | - | chr3.3:70034579-70034598 | MS.gene75729:CDS | 35.0% | |
| TCGTGATAAAGGAAATTGGA+TGG | - | chr3.3:70034590-70034609 | MS.gene75729:CDS | 35.0% | |
| TGAAAATGTCTTCTTCTAGC+AGG | - | chr3.3:70034125-70034144 | MS.gene75729:intron | 35.0% | |
| TTAAGGGTTGTTGTGAATCT+TGG | - | chr3.3:70034062-70034081 | MS.gene75729:CDS | 35.0% | |
| TTAATGTGTAGCGTATTCCT+CGG | - | chr3.3:70034481-70034500 | MS.gene75729:intron | 35.0% | |
| ! | TCATTTGGATTTTCGTCTAC+AGG | + | chr3.3:70034254-70034273 | None:intergenic | 35.0% |
| !! | CGAATTGTTGATGATGAAAC+TGG | - | chr3.3:70034546-70034565 | MS.gene75729:intron | 35.0% |
| !! | GCATAGTATTAGTTCTGCTA+CGG | - | chr3.3:70034340-70034359 | MS.gene75729:CDS | 35.0% |
| !! | GTTTTGACGGCAATAAGATT+GGG | - | chr3.3:70033981-70034000 | MS.gene75729:CDS | 35.0% |
| !! | TGGATGGTTTGAGTTTGTTA+GGG | - | chr3.3:70034629-70034648 | MS.gene75729:CDS | 35.0% |
| AGAAATACGTTGGAAGTGGA+TGG | - | chr3.3:70034613-70034632 | MS.gene75729:CDS | 40.0% | |
| AGGGCAAAAGAACTCAAAGA+AGG | - | chr3.3:70034648-70034667 | MS.gene75729:CDS | 40.0% | |
| ATGGAGAAATACGTTGGAAG+TGG | - | chr3.3:70034609-70034628 | MS.gene75729:CDS | 40.0% | |
| CGAAGAAGAAGTTGAAGATC+GGG | - | chr3.3:70033934-70033953 | MS.gene75729:CDS | 40.0% | |
| CTTCTTCGTCCATCTCAAAA+CGG | + | chr3.3:70033922-70033941 | None:intergenic | 40.0% | |
| CTTTGAATTGCAATCTTCCG+AGG | + | chr3.3:70034501-70034520 | None:intergenic | 40.0% | |
| GAAGATCGGGTCATTTGATT+GGG | - | chr3.3:70033947-70033966 | MS.gene75729:CDS | 40.0% | |
| TGAAGATCGGGTCATTTGAT+TGG | - | chr3.3:70033946-70033965 | MS.gene75729:CDS | 40.0% | |
| TTATTGCCGTCAAAACGGTT+CGG | + | chr3.3:70033977-70033996 | None:intergenic | 40.0% | |
| ! | GTGGATGGTTTGAGTTTGTT+AGG | - | chr3.3:70034628-70034647 | MS.gene75729:CDS | 40.0% |
| ! | TTGCTGGAGTATTTGCACAT+GGG | - | chr3.3:70034421-70034440 | MS.gene75729:intron | 40.0% |
| ! | TTTGCTGGAGTATTTGCACA+TGG | - | chr3.3:70034420-70034439 | MS.gene75729:intron | 40.0% |
| !! | CGTTTTGACGGCAATAAGAT+TGG | - | chr3.3:70033980-70033999 | MS.gene75729:CDS | 40.0% |
| !!! | TGGGCTTTTTAGTTATGGAC+CGG | - | chr3.3:70034000-70034019 | MS.gene75729:CDS | 40.0% |
| ATGGACCGGGCAAAAATGAA+TGG | - | chr3.3:70034014-70034033 | MS.gene75729:CDS | 45.0% | |
| CGATGTAATTGATCCGGAGT+TGG | - | chr3.3:70034217-70034236 | MS.gene75729:intron | 45.0% | |
| CTGCAGCGATGTAATTGATC+CGG | - | chr3.3:70034211-70034230 | MS.gene75729:intron | 45.0% | |
| GGGCAAAAATGAATGGGTCA+CGG | - | chr3.3:70034021-70034040 | MS.gene75729:CDS | 45.0% | |
| GGTTTCAATTCGTCCAACTC+CGG | + | chr3.3:70034233-70034252 | None:intergenic | 45.0% | |
| TGGACCGGGCAAAAATGAAT+GGG | - | chr3.3:70034015-70034034 | MS.gene75729:CDS | 45.0% | |
| ! | GGTTTTCCGAACCGTTTTGA+CGG | - | chr3.3:70033968-70033987 | MS.gene75729:CDS | 45.0% |
| !! | GTGACCCATTCATTTTTGCC+CGG | + | chr3.3:70034022-70034041 | None:intergenic | 45.0% |
| !! | TGGCCATCGACTTCTTCATT+TGG | + | chr3.3:70034269-70034288 | None:intergenic | 45.0% |
| !!! | GGGCTTTTTAGTTATGGACC+GGG | - | chr3.3:70034001-70034020 | MS.gene75729:CDS | 45.0% |
| ATGGCGACCGATGAAATGTG+CGG | - | chr3.3:70033873-70033892 | MS.gene75729:CDS | 50.0% | |
| GAGTATTTGCACATGGGTGG+TGG | - | chr3.3:70034427-70034446 | MS.gene75729:intron | 50.0% | |
| ! | CTGGAGTATTTGCACATGGG+TGG | - | chr3.3:70034424-70034443 | MS.gene75729:intron | 50.0% |
| !! | ATTAGTTCTGCTACGGCTGC+TGG | - | chr3.3:70034347-70034366 | MS.gene75729:CDS | 50.0% |
| ATGAAATGTGCGGCGGATGC+AGG | - | chr3.3:70033883-70033902 | MS.gene75729:CDS | 55.0% | |
| CCATCTCAAAACGGCGACGA+TGG | + | chr3.3:70033913-70033932 | None:intergenic | 55.0% | |
| GCATCCGCCGCACATTTCAT+CGG | + | chr3.3:70033883-70033902 | None:intergenic | 55.0% | |
| TGGGTCACGGCCCATTTAGA+AGG | - | chr3.3:70034034-70034053 | MS.gene75729:CDS | 55.0% | |
| !!! | CCATCGTCGCCGTTTTGAGA+TGG | - | chr3.3:70033910-70033929 | MS.gene75729:CDS | 55.0% |
| GCGACCGATGAAATGTGCGG+CGG | - | chr3.3:70033876-70033895 | MS.gene75729:CDS | 60.0% | |
| GTTCTGCTACGGCTGCTGGA+CGG | - | chr3.3:70034351-70034370 | MS.gene75729:CDS | 60.0% | |
| ! | GCACATGGGTGGTGGCTTTC+TGG | - | chr3.3:70034435-70034454 | MS.gene75729:intron | 60.0% |
| ! | GCTGGACGGAGAGTTCTGGT+TGG | - | chr3.3:70034365-70034384 | MS.gene75729:CDS | 60.0% |
| GGCTGCTGGACGGAGAGTTC+TGG | - | chr3.3:70034361-70034380 | MS.gene75729:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 70033873 | 70034734 | 70033873 | ID=MS.gene75729 |
| chr3.3 | mRNA | 70033873 | 70034734 | 70033873 | ID=MS.gene75729.t1;Parent=MS.gene75729 |
| chr3.3 | exon | 70034571 | 70034734 | 70034571 | ID=MS.gene75729.t1.exon1;Parent=MS.gene75729.t1 |
| chr3.3 | CDS | 70034571 | 70034734 | 70034571 | ID=cds.MS.gene75729.t1;Parent=MS.gene75729.t1 |
| chr3.3 | exon | 70034225 | 70034390 | 70034225 | ID=MS.gene75729.t1.exon2;Parent=MS.gene75729.t1 |
| chr3.3 | CDS | 70034225 | 70034390 | 70034225 | ID=cds.MS.gene75729.t1;Parent=MS.gene75729.t1 |
| chr3.3 | exon | 70033873 | 70034115 | 70033873 | ID=MS.gene75729.t1.exon3;Parent=MS.gene75729.t1 |
| chr3.3 | CDS | 70033873 | 70034115 | 70033873 | ID=cds.MS.gene75729.t1;Parent=MS.gene75729.t1 |
| Gene Sequence |
| Protein sequence |
