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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1465640 | XP_003592187.1 | 97.895 | 95 | 2 | 0 | 1 | 95 | 36 | 130 | 4.85e-62 | 194 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1465640 | G7IDY5 | 97.895 | 95 | 2 | 0 | 1 | 95 | 36 | 130 | 2.32e-62 | 194 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1146980 | Msa1465640 | 0.806273 | 8.913510e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1465640 | MtrunA17_Chr1g0202501 | 97.895 | 95 | 2 | 0 | 1 | 95 | 36 | 130 | 4.46e-66 | 194 |
| Msa1465640 | MtrunA17_Chr6g0469681 | 51.579 | 95 | 43 | 1 | 1 | 95 | 36 | 127 | 2.53e-19 | 76.3 |
| Msa1465640 | MtrunA17_Chr6g0469651 | 49.533 | 107 | 33 | 2 | 1 | 95 | 36 | 133 | 2.60e-19 | 76.3 |
| Msa1465640 | MtrunA17_Chr8g0387471 | 49.474 | 95 | 45 | 3 | 1 | 95 | 36 | 127 | 2.03e-18 | 73.9 |
| Msa1465640 | MtrunA17_Chr6g0469571 | 48.485 | 99 | 37 | 4 | 1 | 95 | 36 | 124 | 1.39e-17 | 71.6 |
| Msa1465640 | MtrunA17_Chr6g0469551 | 47.475 | 99 | 38 | 4 | 1 | 95 | 36 | 124 | 4.53e-17 | 70.5 |
| Msa1465640 | MtrunA17_Chr6g0469591 | 47.475 | 99 | 38 | 4 | 1 | 95 | 36 | 124 | 1.02e-16 | 69.7 |
| Msa1465640 | MtrunA17_Chr1g0202541 | 51.000 | 100 | 43 | 2 | 1 | 94 | 36 | 135 | 1.97e-14 | 63.9 |
| Msa1465640 | MtrunA17_Chr7g0233231 | 43.750 | 80 | 33 | 2 | 2 | 81 | 37 | 104 | 1.07e-13 | 61.6 |
| Msa1465640 | MtrunA17_Chr7g0233211 | 42.500 | 80 | 34 | 2 | 2 | 81 | 37 | 104 | 2.84e-13 | 60.5 |
| Msa1465640 | MtrunA17_Chr1g0202561 | 47.619 | 105 | 44 | 4 | 1 | 95 | 36 | 139 | 6.39e-12 | 57.8 |
| Msa1465640 | MtrunA17_Chr7g0233251 | 40.449 | 89 | 37 | 3 | 1 | 85 | 36 | 112 | 4.54e-11 | 54.7 |
| Msa1465640 | MtrunA17_Chr7g0233201 | 41.250 | 80 | 35 | 2 | 2 | 81 | 37 | 104 | 5.06e-11 | 54.7 |
| Msa1465640 | MtrunA17_Chr7g0233191 | 41.250 | 80 | 35 | 2 | 2 | 81 | 37 | 104 | 7.29e-11 | 54.3 |
| Msa1465640 | MtrunA17_Chr1g0202581 | 42.857 | 98 | 49 | 3 | 2 | 94 | 36 | 131 | 8.53e-11 | 54.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CACAAGATTGTTAGGAATTT+AGG | 0.129196 | tig0045381:-2842 | Msa1465640:intergenic |
| AAGGCAGTCTCTAATATTTC+AGG | 0.223869 | tig0045381:+2935 | Msa1465640:five_prime_UTR |
| CTCCTGTTAAGGTCAATTTC+TGG | 0.257650 | tig0045381:-3106 | Msa1465640:intergenic |
| CTCTTCTTTCTTAGGCTCCT+TGG | 0.291492 | tig0045381:-3201 | Msa1465640:intergenic |
| GAAGCCAGCAGAGGAGAAAA+AGG | 0.295344 | tig0045381:+3229 | Msa1465640:CDS |
| AGGGGTTGAGTCAGTTTCTT+TGG | 0.321514 | tig0045381:+3073 | Msa1465640:intron |
| GACCAGAAATTGACCTTAAC+AGG | 0.348770 | tig0045381:+3104 | Msa1465640:CDS |
| GAACAAATCACAAGATTGTT+AGG | 0.363143 | tig0045381:-2850 | Msa1465640:intergenic |
| GGTCCAACAGATAGTATCTT+AGG | 0.370404 | tig0045381:-3176 | Msa1465640:intergenic |
| GTCAGTTTCTTTGGATATGA+AGG | 0.403102 | tig0045381:+3082 | Msa1465640:exon |
| TGTGGTTGTGTCATCATCAT+AGG | 0.448817 | tig0045381:-3311 | Msa1465640:intergenic |
| TCTTTCTTAGGCTCCTTGGC+TGG | 0.455295 | tig0045381:-3197 | Msa1465640:intergenic |
| AACGTCTATGTCTCCTGTTA+AGG | 0.469452 | tig0045381:-3117 | Msa1465640:intergenic |
| CATCATCATAGGATAATGAT+AGG | 0.491712 | tig0045381:-3300 | Msa1465640:intergenic |
| AATAAGAATTCAGCAGCTCC+TGG | 0.507008 | tig0045381:+3257 | Msa1465640:CDS |
| TGCATGTAGTGGGAAAGTTA+AGG | 0.513637 | tig0045381:+3141 | Msa1465640:CDS |
| CATAGACGTTGTGCATGTAG+TGG | 0.552040 | tig0045381:+3130 | Msa1465640:CDS |
| CATCCTAAGATACTATCTGT+TGG | 0.572285 | tig0045381:+3173 | Msa1465640:CDS |
| TCACAAACCTTCACAAAACC+AGG | 0.572656 | tig0045381:-3275 | Msa1465640:intergenic |
| ACAGAAAATAGTGCTGCAAG+TGG | 0.586119 | tig0045381:+2877 | Msa1465640:five_prime_UTR |
| ACTATCTGTTGGACCAGCCA+AGG | 0.595856 | tig0045381:+3184 | Msa1465640:CDS |
| ATAGACGTTGTGCATGTAGT+GGG | 0.603550 | tig0045381:+3131 | Msa1465640:CDS |
| TAACAGATGACACATGCACT+AGG | 0.606912 | tig0045381:-3362 | Msa1465640:intergenic |
| ACATTACTATTACACTAGTG+TGG | 0.640232 | tig0045381:+3331 | Msa1465640:CDS |
| ACACTAGTGTAATAGTAATG+TGG | 0.647440 | tig0045381:-3329 | Msa1465630:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAGAGAATAAATTTAATCA+TGG | + | tig0045381:3043-3062 | Msa1465640:intron | 15.0% |
| !!! | TTAACTTTTAGATTATTTGA+AGG | + | tig0045381:3382-3401 | Msa1465640:exon | 15.0% |
| !!! | TAACTTTTAGATTATTTGAA+GGG | + | tig0045381:3383-3402 | Msa1465640:exon | 15.0% |
| !!! | GCTATTTTATTCATAAAATC+AGG | + | tig0045381:3006-3025 | Msa1465640:intron | 20.0% |
| !!! | ATTTTATTCATAAAATCAGG+AGG | + | tig0045381:3009-3028 | Msa1465640:intron | 20.0% |
| !!! | AACTTTTAGATTATTTGAAG+GGG | + | tig0045381:3384-3403 | Msa1465640:exon | 20.0% |
| !!! | AACAAAGAAAAAAGCATTGA+AGG | + | tig0045381:2916-2935 | Msa1465640:five_prime_UTR | 25.0% |
| !! | AATTTAATCATGGTTTTTGC+AGG | + | tig0045381:3053-3072 | Msa1465640:intron | 25.0% |
| !! | ATTTAATCATGGTTTTTGCA+GGG | + | tig0045381:3054-3073 | Msa1465640:intron | 25.0% |
| !! | TTCTTTTTCTCTTCTTTCTT+AGG | - | tig0045381:3212-3231 | Msa1465640:intergenic | 25.0% |
| CACAAGATTGTTAGGAATTT+AGG | - | tig0045381:2845-2864 | None:intergenic | 30.0% | |
| GAACAAATCACAAGATTGTT+AGG | - | tig0045381:2853-2872 | None:intergenic | 30.0% | |
| ! | TTTAATCATGGTTTTTGCAG+GGG | + | tig0045381:3055-3074 | Msa1465640:intron | 30.0% |
| CATCATCATAGGATAATGAT+AGG | - | tig0045381:3303-3322 | Msa1465640:intergenic | 30.0% | |
| ACACTAGTGTAATAGTAATG+TGG | - | tig0045381:3332-3351 | Msa1465640:intergenic | 30.0% | |
| ACATTACTATTACACTAGTG+TGG | + | tig0045381:3331-3350 | Msa1465640:CDS | 30.0% | |
| AAGGCAGTCTCTAATATTTC+AGG | + | tig0045381:2935-2954 | Msa1465640:five_prime_UTR | 35.0% | |
| GTCAGTTTCTTTGGATATGA+AGG | + | tig0045381:3082-3101 | Msa1465640:exon | 35.0% | |
| CATCCTAAGATACTATCTGT+TGG | + | tig0045381:3173-3192 | Msa1465640:CDS | 35.0% | |
| ! | TGCAGCACTATTTTCTGTCA+TGG | - | tig0045381:2875-2894 | None:intergenic | 40.0% |
| ACAGAAAATAGTGCTGCAAG+TGG | + | tig0045381:2877-2896 | Msa1465640:five_prime_UTR | 40.0% | |
| GACCAGAAATTGACCTTAAC+AGG | + | tig0045381:3104-3123 | Msa1465640:CDS | 40.0% | |
| CTCCTGTTAAGGTCAATTTC+TGG | - | tig0045381:3109-3128 | Msa1465640:intergenic | 40.0% | |
| AACGTCTATGTCTCCTGTTA+AGG | - | tig0045381:3120-3139 | Msa1465640:intergenic | 40.0% | |
| ATAGACGTTGTGCATGTAGT+GGG | + | tig0045381:3131-3150 | Msa1465640:CDS | 40.0% | |
| ! | TGCATGTAGTGGGAAAGTTA+AGG | + | tig0045381:3141-3160 | Msa1465640:CDS | 40.0% |
| GGTCCAACAGATAGTATCTT+AGG | - | tig0045381:3179-3198 | Msa1465640:intergenic | 40.0% | |
| AATAAGAATTCAGCAGCTCC+TGG | + | tig0045381:3257-3276 | Msa1465640:CDS | 40.0% | |
| TCACAAACCTTCACAAAACC+AGG | - | tig0045381:3278-3297 | Msa1465640:intergenic | 40.0% | |
| TGTGGTTGTGTCATCATCAT+AGG | - | tig0045381:3314-3333 | Msa1465640:intergenic | 40.0% | |
| TAACAGATGACACATGCACT+AGG | - | tig0045381:3365-3384 | Msa1465640:intergenic | 40.0% | |
| AGGGGTTGAGTCAGTTTCTT+TGG | + | tig0045381:3073-3092 | Msa1465640:intron | 45.0% | |
| CATAGACGTTGTGCATGTAG+TGG | + | tig0045381:3130-3149 | Msa1465640:CDS | 45.0% | |
| CTCTTCTTTCTTAGGCTCCT+TGG | - | tig0045381:3204-3223 | Msa1465640:intergenic | 45.0% | |
| AGAGAAAAAGAAGCCAGCAG+AGG | + | tig0045381:3220-3239 | Msa1465640:CDS | 45.0% | |
| ! | TGATCCTTTTTCTCCTCTGC+TGG | - | tig0045381:3236-3255 | Msa1465640:intergenic | 45.0% |
| ACTATCTGTTGGACCAGCCA+AGG | + | tig0045381:3184-3203 | Msa1465640:CDS | 50.0% | |
| TCTTTCTTAGGCTCCTTGGC+TGG | - | tig0045381:3200-3219 | Msa1465640:intergenic | 50.0% | |
| GAAGCCAGCAGAGGAGAAAA+AGG | + | tig0045381:3229-3248 | Msa1465640:CDS | 50.0% | |
| !!! | AGCAGCTCCTGGTTTTGTGA+AGG | + | tig0045381:3268-3287 | Msa1465640:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0045381 | gene | 2805 | 3479 | 2805 | ID=Msa1465640;Name=Msa1465640 |
| tig0045381 | mRNA | 2805 | 3479 | 2805 | ID=Msa1465640-mRNA-1;Parent=Msa1465640;Name=Msa1465640-mRNA-1;_AED=0.09;_eAED=0.09;_QI=175|1|1|1|1|1|2|94|95 |
| tig0045381 | exon | 2805 | 2956 | 2805 | ID=Msa1465640-mRNA-1:exon:24843;Parent=Msa1465640-mRNA-1 |
| tig0045381 | exon | 3075 | 3479 | 3075 | ID=Msa1465640-mRNA-1:exon:24844;Parent=Msa1465640-mRNA-1 |
| tig0045381 | five_prime_UTR | 2805 | 2956 | 2805 | ID=Msa1465640-mRNA-1:five_prime_utr;Parent=Msa1465640-mRNA-1 |
| tig0045381 | five_prime_UTR | 3075 | 3097 | 3075 | ID=Msa1465640-mRNA-1:five_prime_utr;Parent=Msa1465640-mRNA-1 |
| tig0045381 | CDS | 3098 | 3385 | 3098 | ID=Msa1465640-mRNA-1:cds;Parent=Msa1465640-mRNA-1 |
| tig0045381 | three_prime_UTR | 3386 | 3479 | 3386 | ID=Msa1465640-mRNA-1:three_prime_utr;Parent=Msa1465640-mRNA-1 |
| Gene Sequence |
| Protein sequence |
