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.gene08646.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.gene08646.t1 | A0A396H8N5 | 67.9 | 159 | 28 | 4 | 54 | 190 | 10 | 167 | 2.6e-48 | 201.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene08646.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.gene08646.t1 | MTR_7g117590 | 68.590 | 156 | 27 | 4 | 56 | 190 | 18 | 172 | 1.55e-64 | 196 |
| MS.gene08646.t1 | MTR_1g054470 | 48.108 | 185 | 36 | 6 | 1 | 179 | 3 | 133 | 1.58e-45 | 147 |
| MS.gene08646.t1 | MTR_2g012700 | 36.364 | 110 | 69 | 1 | 82 | 190 | 11 | 120 | 9.50e-27 | 99.0 |
| MS.gene08646.t1 | MTR_2g062330 | 38.462 | 117 | 67 | 3 | 75 | 190 | 27 | 139 | 1.93e-25 | 96.3 |
| MS.gene08646.t1 | MTR_0010s0310 | 33.333 | 90 | 57 | 1 | 94 | 180 | 151 | 240 | 3.95e-13 | 66.2 |
| MS.gene08646.t1 | MTR_5g071400 | 68.085 | 47 | 8 | 3 | 56 | 96 | 14 | 59 | 7.00e-12 | 59.3 |
| MS.gene08646.t1 | MTR_6g477950 | 36.275 | 102 | 61 | 3 | 89 | 189 | 46 | 144 | 8.84e-12 | 62.8 |
| MS.gene08646.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 68 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGGATGGTTTGAGTTTGTT+AGG | 0.273672 | 4.1:-39319047 | MS.gene08646:CDS |
| TGAAGATCGGGTCATTTGAT+TGG | 0.369943 | 4.1:-39319729 | MS.gene08646:CDS |
| CGAATTGTTGATGATGAAAC+TGG | 0.373851 | 4.1:-39319129 | MS.gene08646:CDS |
| GAATGTGAAGTTCGTGATAA+AGG | 0.381874 | 4.1:-39319096 | MS.gene08646:CDS |
| GGCTGCTGGACGGAGAGTTC+TGG | 0.386406 | 4.1:-39319314 | MS.gene08646:intron |
| TGGCCATCGACTTCTTCATT+TGG | 0.387700 | 4.1:+39319409 | None:intergenic |
| AAGTTCGTGATAAAGGAAAT+TGG | 0.388847 | 4.1:-39319089 | MS.gene08646:CDS |
| TTTGAAATTGTGCAAATACT+TGG | 0.402550 | 4.1:+39319389 | None:intergenic |
| ATTAGTTCTGCTACGGCTGC+TGG | 0.408831 | 4.1:-39319328 | MS.gene08646:CDS |
| GAAGATCGGGTCATTTGATT+GGG | 0.425740 | 4.1:-39319728 | MS.gene08646:CDS |
| CGAAGAAGAAGTTGAAGATC+GGG | 0.445939 | 4.1:-39319741 | MS.gene08646:CDS |
| ATGAAATGTGCGGCGGATGC+AGG | 0.449012 | 4.1:-39319792 | MS.gene08646:CDS |
| TGGATGGTTTGAGTTTGTTA+GGG | 0.484898 | 4.1:-39319046 | MS.gene08646:CDS |
| CTGCAGCGATGTAATTGATC+CGG | 0.509939 | 4.1:-39319464 | MS.gene08646:intron |
| CTTCTTCGTCCATCTCAAAA+CGG | 0.535091 | 4.1:+39319756 | None:intergenic |
| ACGAAGAAGAAGTTGAAGAT+CGG | 0.540825 | 4.1:-39319742 | MS.gene08646:CDS |
| CGATGTAATTGATCCGGAGT+TGG | 0.544205 | 4.1:-39319458 | MS.gene08646:CDS |
| CAATCTTATTGCCGTCAAAA+CGG | 0.544280 | 4.1:+39319696 | None:intergenic |
| TTATTGCCGTCAAAACGGTT+CGG | 0.545486 | 4.1:+39319701 | None:intergenic |
| CTTTGAATTGCAATCTTCCG+AGG | 0.557056 | 4.1:+39319177 | None:intergenic |
| TCGTGATAAAGGAAATTGGA+TGG | 0.565929 | 4.1:-39319085 | MS.gene08646:CDS |
| GGTTTCAATTCGTCCAACTC+CGG | 0.567151 | 4.1:+39319445 | None:intergenic |
| AGAAATACGTTGGAAGTGGA+TGG | 0.575514 | 4.1:-39319062 | MS.gene08646:CDS |
| ATGGAGAAATACGTTGGAAG+TGG | 0.576439 | 4.1:-39319066 | MS.gene08646:CDS |
| GCATAGTATTAGTTCTGCTA+CGG | 0.580120 | 4.1:-39319335 | MS.gene08646:CDS |
| AATTGGATGGAGAAATACGT+TGG | 0.583531 | 4.1:-39319072 | MS.gene08646:CDS |
| CCATCTCAAAACGGCGACGA+TGG | 0.584489 | 4.1:+39319765 | None:intergenic |
| AGGGCAAAAGAACTCAAAGA+AGG | 0.584629 | 4.1:-39319027 | MS.gene08646:CDS |
| TTAATGTGTAGCGTATTCCT+CGG | 0.586314 | 4.1:-39319194 | MS.gene08646:intron |
| GCATCCGCCGCACATTTCAT+CGG | 0.590420 | 4.1:+39319795 | None:intergenic |
| GATACAAATAATTTGTGTGG+AGG | 0.593345 | 4.1:+39318976 | None:intergenic |
| ACTGATACAAATAATTTGTG+TGG | 0.607437 | 4.1:+39318973 | None:intergenic |
| GTTCTGCTACGGCTGCTGGA+CGG | 0.628877 | 4.1:-39319324 | MS.gene08646:CDS |
| AATCCAAATGAAGAAGTCGA+TGG | 0.671453 | 4.1:-39319412 | MS.gene08646:CDS |
| ATGGCGACCGATGAAATGTG+CGG | 0.726557 | 4.1:-39319802 | MS.gene08646:CDS |
| GCGACCGATGAAATGTGCGG+CGG | 0.753822 | 4.1:-39319799 | MS.gene08646:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAATTTCAAAATTTTCAAAA+CGG | - | chr4.1:39319389-39319408 | MS.gene08646:CDS | 15.0% |
| !!! | GTTTTTTATTTTATTTTTGC+TGG | - | chr4.1:39319495-39319514 | MS.gene08646:intron | 15.0% |
| !!! | TTGTTTTTTTTTTAATCATC+TGG | - | chr4.1:39319255-39319274 | MS.gene08646:intron | 15.0% |
| !! | TTAATCATCTGGTTATTTAT+TGG | - | chr4.1:39319266-39319285 | MS.gene08646:intron | 20.0% |
| ! | CTTAAAATAGCCTTCTAAAT+GGG | + | chr4.1:39319137-39319156 | None:intergenic | 25.0% |
| !! | ACTGATACAAATAATTTGTG+TGG | + | chr4.1:39319795-39319814 | None:intergenic | 25.0% |
| !! | TTTGAAATTGTGCAAATACT+TGG | + | chr4.1:39319379-39319398 | None:intergenic | 25.0% |
| !!! | CATTTAGAAGGCTATTTTAA+GGG | - | chr4.1:39319136-39319155 | MS.gene08646:CDS | 25.0% |
| AAGTTCGTGATAAAGGAAAT+TGG | - | chr4.1:39319676-39319695 | MS.gene08646:CDS | 30.0% | |
| CCTTAAAATAGCCTTCTAAA+TGG | + | chr4.1:39319138-39319157 | None:intergenic | 30.0% | |
| ! | AAAACGGTGATCATACTTTT+TGG | - | chr4.1:39319405-39319424 | MS.gene08646:CDS | 30.0% |
| ! | GATACAAATAATTTGTGTGG+AGG | + | chr4.1:39319792-39319811 | None:intergenic | 30.0% |
| !! | CCATTTAGAAGGCTATTTTA+AGG | - | chr4.1:39319135-39319154 | MS.gene08646:CDS | 30.0% |
| !!! | AAGATTGGGCTTTTTAGTTA+TGG | - | chr4.1:39319085-39319104 | MS.gene08646:CDS | 30.0% |
| AATCCAAATGAAGAAGTCGA+TGG | - | chr4.1:39319353-39319372 | MS.gene08646:CDS | 35.0% | |
| AATTGGATGGAGAAATACGT+TGG | - | chr4.1:39319693-39319712 | MS.gene08646:CDS | 35.0% | |
| ACGAAGAAGAAGTTGAAGAT+CGG | - | chr4.1:39319023-39319042 | MS.gene08646:CDS | 35.0% | |
| ACGTCTGAGAAGAAAATTCT+AGG | - | chr4.1:39319183-39319202 | MS.gene08646:CDS | 35.0% | |
| CAATCTTATTGCCGTCAAAA+CGG | + | chr4.1:39319072-39319091 | None:intergenic | 35.0% | |
| CGTCTGAGAAGAAAATTCTA+GGG | - | chr4.1:39319184-39319203 | MS.gene08646:CDS | 35.0% | |
| GAATGTGAAGTTCGTGATAA+AGG | - | chr4.1:39319669-39319688 | MS.gene08646:CDS | 35.0% | |
| TCGTGATAAAGGAAATTGGA+TGG | - | chr4.1:39319680-39319699 | MS.gene08646:CDS | 35.0% | |
| TGAAAATGTCTTCTTCTAGC+AGG | - | chr4.1:39319215-39319234 | MS.gene08646:intron | 35.0% | |
| TTAAGGGTTGTTGTGAATCT+TGG | - | chr4.1:39319152-39319171 | MS.gene08646:CDS | 35.0% | |
| TTAATGTGTAGCGTATTCCT+CGG | - | chr4.1:39319571-39319590 | MS.gene08646:intron | 35.0% | |
| ! | TCATTTGGATTTTCGTCTAC+AGG | + | chr4.1:39319344-39319363 | None:intergenic | 35.0% |
| !! | CGAATTGTTGATGATGAAAC+TGG | - | chr4.1:39319636-39319655 | MS.gene08646:intron | 35.0% |
| !! | GCATAGTATTAGTTCTGCTA+CGG | - | chr4.1:39319430-39319449 | MS.gene08646:CDS | 35.0% |
| !! | GTTTTGACGGCAATAAGATT+GGG | - | chr4.1:39319071-39319090 | MS.gene08646:CDS | 35.0% |
| !! | TGGATGGTTTGAGTTTGTTA+GGG | - | chr4.1:39319719-39319738 | MS.gene08646:CDS | 35.0% |
| AGAAATACGTTGGAAGTGGA+TGG | - | chr4.1:39319703-39319722 | MS.gene08646:CDS | 40.0% | |
| AGGGCAAAAGAACTCAAAGA+AGG | - | chr4.1:39319738-39319757 | MS.gene08646:CDS | 40.0% | |
| ATGGAGAAATACGTTGGAAG+TGG | - | chr4.1:39319699-39319718 | MS.gene08646:CDS | 40.0% | |
| CGAAGAAGAAGTTGAAGATC+GGG | - | chr4.1:39319024-39319043 | MS.gene08646:CDS | 40.0% | |
| CTTCTTCGTCCATCTCAAAA+CGG | + | chr4.1:39319012-39319031 | None:intergenic | 40.0% | |
| CTTTGAATTGCAATCTTCCG+AGG | + | chr4.1:39319591-39319610 | None:intergenic | 40.0% | |
| GAAGATCGGGTCATTTGATT+GGG | - | chr4.1:39319037-39319056 | MS.gene08646:CDS | 40.0% | |
| TGAAGATCGGGTCATTTGAT+TGG | - | chr4.1:39319036-39319055 | MS.gene08646:CDS | 40.0% | |
| TTATTGCCGTCAAAACGGTT+CGG | + | chr4.1:39319067-39319086 | None:intergenic | 40.0% | |
| ! | GTGGATGGTTTGAGTTTGTT+AGG | - | chr4.1:39319718-39319737 | MS.gene08646:CDS | 40.0% |
| ! | TTGCTGGAGTATTTGCACAT+GGG | - | chr4.1:39319511-39319530 | MS.gene08646:intron | 40.0% |
| ! | TTTGCTGGAGTATTTGCACA+TGG | - | chr4.1:39319510-39319529 | MS.gene08646:intron | 40.0% |
| !! | CGTTTTGACGGCAATAAGAT+TGG | - | chr4.1:39319070-39319089 | MS.gene08646:CDS | 40.0% |
| !!! | TGGGCTTTTTAGTTATGGAC+CGG | - | chr4.1:39319090-39319109 | MS.gene08646:CDS | 40.0% |
| ATGGACCGGGCAAAAATGAA+TGG | - | chr4.1:39319104-39319123 | MS.gene08646:CDS | 45.0% | |
| CGATGTAATTGATCCGGAGT+TGG | - | chr4.1:39319307-39319326 | MS.gene08646:intron | 45.0% | |
| CTGCAGCGATGTAATTGATC+CGG | - | chr4.1:39319301-39319320 | MS.gene08646:intron | 45.0% | |
| GGGCAAAAATGAATGGGTCA+CGG | - | chr4.1:39319111-39319130 | MS.gene08646:CDS | 45.0% | |
| GGTTTCAATTCGTCCAACTC+CGG | + | chr4.1:39319323-39319342 | None:intergenic | 45.0% | |
| TGGACCGGGCAAAAATGAAT+GGG | - | chr4.1:39319105-39319124 | MS.gene08646:CDS | 45.0% | |
| ! | GGTTTTCCGAACCGTTTTGA+CGG | - | chr4.1:39319058-39319077 | MS.gene08646:CDS | 45.0% |
| !! | GTGACCCATTCATTTTTGCC+CGG | + | chr4.1:39319112-39319131 | None:intergenic | 45.0% |
| !! | TGGCCATCGACTTCTTCATT+TGG | + | chr4.1:39319359-39319378 | None:intergenic | 45.0% |
| !!! | GGGCTTTTTAGTTATGGACC+GGG | - | chr4.1:39319091-39319110 | MS.gene08646:CDS | 45.0% |
| ATGGCGACCGATGAAATGTG+CGG | - | chr4.1:39318963-39318982 | MS.gene08646:CDS | 50.0% | |
| GAGTATTTGCACATGGGTGG+TGG | - | chr4.1:39319517-39319536 | MS.gene08646:intron | 50.0% | |
| ! | CTGGAGTATTTGCACATGGG+TGG | - | chr4.1:39319514-39319533 | MS.gene08646:intron | 50.0% |
| !! | ATTAGTTCTGCTACGGCTGC+TGG | - | chr4.1:39319437-39319456 | MS.gene08646:CDS | 50.0% |
| ATGAAATGTGCGGCGGATGC+AGG | - | chr4.1:39318973-39318992 | MS.gene08646:CDS | 55.0% | |
| CCATCTCAAAACGGCGACGA+TGG | + | chr4.1:39319003-39319022 | None:intergenic | 55.0% | |
| GCATCCGCCGCACATTTCAT+CGG | + | chr4.1:39318973-39318992 | None:intergenic | 55.0% | |
| TGGGTCACGGCCCATTTAGA+AGG | - | chr4.1:39319124-39319143 | MS.gene08646:CDS | 55.0% | |
| !!! | CCATCGTCGCCGTTTTGAGA+TGG | - | chr4.1:39319000-39319019 | MS.gene08646:CDS | 55.0% |
| GCGACCGATGAAATGTGCGG+CGG | - | chr4.1:39318966-39318985 | MS.gene08646:CDS | 60.0% | |
| GTTCTGCTACGGCTGCTGGA+CGG | - | chr4.1:39319441-39319460 | MS.gene08646:CDS | 60.0% | |
| ! | GCACATGGGTGGTGGCTTTC+TGG | - | chr4.1:39319525-39319544 | MS.gene08646:intron | 60.0% |
| ! | GCTGGACGGAGAGTTCTGGT+TGG | - | chr4.1:39319455-39319474 | MS.gene08646:CDS | 60.0% |
| GGCTGCTGGACGGAGAGTTC+TGG | - | chr4.1:39319451-39319470 | MS.gene08646:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 39318963 | 39319824 | 39318963 | ID=MS.gene08646 |
| chr4.1 | mRNA | 39318963 | 39319824 | 39318963 | ID=MS.gene08646.t1;Parent=MS.gene08646 |
| chr4.1 | exon | 39319661 | 39319824 | 39319661 | ID=MS.gene08646.t1.exon1;Parent=MS.gene08646.t1 |
| chr4.1 | CDS | 39319661 | 39319824 | 39319661 | ID=cds.MS.gene08646.t1;Parent=MS.gene08646.t1 |
| chr4.1 | exon | 39319315 | 39319480 | 39319315 | ID=MS.gene08646.t1.exon2;Parent=MS.gene08646.t1 |
| chr4.1 | CDS | 39319315 | 39319480 | 39319315 | ID=cds.MS.gene08646.t1;Parent=MS.gene08646.t1 |
| chr4.1 | exon | 39318963 | 39319205 | 39318963 | ID=MS.gene08646.t1.exon3;Parent=MS.gene08646.t1 |
| chr4.1 | CDS | 39318963 | 39319205 | 39318963 | ID=cds.MS.gene08646.t1;Parent=MS.gene08646.t1 |
| Gene Sequence |
| Protein sequence |
