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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1021540 | XP_024627238.1 | 91.971 | 274 | 15 | 1 | 1 | 274 | 1 | 267 | 5.99e-166 | 470 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1021540 | sp|Q99614|TTC1_HUMAN | 41.706 | 211 | 103 | 3 | 79 | 272 | 77 | 284 | 1.97e-40 | 144 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001790 | Msa1021540 | 0.803545 | 3.312115e-49 | -8.615850e-47 |
| Msa0003890 | Msa1021540 | 0.802170 | 6.369571e-49 | -8.615850e-47 |
| Msa0004860 | Msa1021540 | 0.812113 | 4.990552e-51 | -8.615850e-47 |
| Msa0004920 | Msa1021540 | 0.809511 | 1.825451e-50 | -8.615850e-47 |
| Msa0005270 | Msa1021540 | 0.803593 | 3.237809e-49 | -8.615850e-47 |
| Msa0006040 | Msa1021540 | 0.811962 | 5.385089e-51 | -8.615850e-47 |
| Msa0006070 | Msa1021540 | 0.812479 | 4.152299e-51 | -8.615850e-47 |
| Msa0006550 | Msa1021540 | 0.826031 | 3.389850e-54 | -8.615850e-47 |
| Msa0010820 | Msa1021540 | 0.826138 | 3.196895e-54 | -8.615850e-47 |
| Msa0011960 | Msa1021540 | 0.810944 | 8.961580e-51 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1021540 | MtrunA17_Chr7g0237741 | 91.971 | 274 | 15 | 1 | 1 | 274 | 1 | 267 | 5.51e-170 | 470 |
| Msa1021540 | MtrunA17_Chr2g0323971 | 72.085 | 283 | 57 | 5 | 1 | 274 | 1 | 270 | 5.48e-135 | 382 |
| Msa1021540 | MtrunA17_Chr4g0075481 | 37.097 | 124 | 73 | 2 | 99 | 220 | 36 | 156 | 7.11e-19 | 86.3 |
| Msa1021540 | MtrunA17_Chr4g0027201 | 40.000 | 120 | 64 | 2 | 99 | 210 | 399 | 518 | 2.08e-17 | 82.0 |
| Msa1021540 | MtrunA17_Chr2g0316221 | 35.252 | 139 | 79 | 4 | 105 | 243 | 465 | 592 | 6.94e-17 | 80.5 |
| Msa1021540 | MtrunA17_Chr8g0339141 | 33.171 | 205 | 120 | 4 | 23 | 210 | 314 | 518 | 5.35e-16 | 77.8 |
| Msa1021540 | MtrunA17_Chr2g0311461 | 35.849 | 106 | 63 | 2 | 106 | 210 | 5 | 106 | 1.68e-15 | 74.7 |
| Msa1021540 | MtrunA17_Chr8g0377771 | 37.956 | 137 | 71 | 3 | 87 | 210 | 379 | 514 | 5.29e-15 | 74.7 |
| Msa1021540 | MtrunA17_Chr8g0393041 | 32.075 | 159 | 85 | 3 | 66 | 223 | 457 | 593 | 1.11e-14 | 73.6 |
| Msa1021540 | MtrunA17_Chr2g0304261 | 35.043 | 117 | 71 | 2 | 99 | 213 | 37 | 150 | 1.43e-14 | 73.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1021540 | AT4G30480.2 | 56.446 | 287 | 100 | 4 | 1 | 273 | 1 | 276 | 1.73e-105 | 308 |
| Msa1021540 | AT4G30480.1 | 47.664 | 214 | 87 | 4 | 1 | 200 | 1 | 203 | 2.35e-57 | 182 |
| Msa1021540 | AT4G30480.3 | 40.000 | 170 | 77 | 4 | 1 | 156 | 1 | 159 | 1.43e-30 | 112 |
| Msa1021540 | AT1G62390.1 | 36.800 | 125 | 74 | 2 | 99 | 221 | 48 | 169 | 1.54e-18 | 85.9 |
| Msa1021540 | AT3G58620.2 | 31.081 | 148 | 89 | 3 | 78 | 219 | 419 | 559 | 1.15e-17 | 83.2 |
| Msa1021540 | AT3G58620.1 | 31.081 | 148 | 89 | 3 | 78 | 219 | 419 | 559 | 1.26e-17 | 82.8 |
| Msa1021540 | AT3G25230.1 | 38.411 | 151 | 78 | 3 | 102 | 244 | 400 | 543 | 7.56e-16 | 77.4 |
| Msa1021540 | AT3G25230.2 | 38.411 | 151 | 78 | 3 | 102 | 244 | 400 | 543 | 9.30e-16 | 77.4 |
| Msa1021540 | AT2G42580.1 | 32.174 | 115 | 71 | 1 | 105 | 219 | 461 | 568 | 1.44e-15 | 77.0 |
| Msa1021540 | AT1G53300.1 | 30.469 | 128 | 82 | 2 | 90 | 217 | 453 | 573 | 2.62e-15 | 76.3 |
Find 75 sgRNAs with CRISPR-Local
Find 278 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGAAAGAAGAAATGAT+TGG | 0.548679 | 7_1:-45942909 | Msa1021540:intron |
| AACATTGTTGGAACGACGTC+AGG | 0.356886 | 7_1:-45941129 | Msa1021540:three_prime_UTR |
| AAGGGGCTCTAGTCGGCGAA+TGG | 0.604837 | 7_1:+45942950 | None:intergenic |
| AATTCTGTATTGGGACGCTT+TGG | 0.332566 | 7_1:-45942102 | Msa1021540:CDS |
| ACACCGAACCTTCTCGAAGA+TGG | 0.536276 | 7_1:-45945566 | Msa1021540:exon |
| ACATTGTTGGAACGACGTCA+GGG | 0.656560 | 7_1:-45941128 | Msa1021540:three_prime_UTR |
| ACCAAAGCTTTAACATATGC+AGG | 0.443256 | 7_1:+45943577 | None:intergenic |
| ACCGTCGGAAGCGTCGTTGC+CGG | 0.458550 | 7_1:+45945483 | None:intergenic |
| ACGTGAGTTAACATTGTACG+TGG | 0.634133 | 7_1:-45940902 | Msa1021540:three_prime_UTR |
| ACTAGACATGCCTTCATCTG+TGG | 0.627350 | 7_1:-45943955 | Msa1021540:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAATGCTTTGATCAATGAAT+CGG | - | chr7_1:45941260-45941279 | Msa1021540:intron | 30.0% | |
| AGGTTCGATTTCCAAATTTA+GGG | - | chr7_1:45941292-45941311 | Msa1021540:intron | 30.0% | |
| ATTATCATTACTCTAGCTAG+CGG | + | chr7_1:45942320-45942339 | None:intergenic | 30.0% | |
| ACATATGTCAAATATACCTC+AGG | - | chr7_1:45942903-45942922 | Msa1021540:intron | 30.0% | |
| CATATGTCAAATATACCTCA+GGG | - | chr7_1:45942904-45942923 | Msa1021540:intron | 30.0% | |
| TTCAAGCTTAAAATAAGGCA+AGG | - | chr7_1:45943057-45943076 | Msa1021540:intron | 30.0% | |
| TAATATTTACATCAAGGGTG+TGG | - | chr7_1:45943145-45943164 | Msa1021540:intron | 30.0% | |
| TGTAAATAACATAGTAAGGG+AGG | - | chr7_1:45943316-45943335 | Msa1021540:intron | 30.0% | |
| TTAGAAATTGATCCCTCAAA+TGG | - | chr7_1:45943566-45943585 | Msa1021540:CDS | 30.0% | |
| GGAAATTAGGAATACTCTAA+TGG | + | chr7_1:45943793-45943812 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 45940868 | 45945707 | 45940868 | ID=Msa1021540;Name=Msa1021540 |
| chr7_1 | mRNA | 45940868 | 45945707 | 45940868 | ID=Msa1021540-mRNA-1;Parent=Msa1021540;Name=Msa1021540-mRNA-1;_AED=0.08;_eAED=0.08;_QI=138|1|1|1|0.8|0.66|6|454|274 |
| chr7_1 | exon | 45940868 | 45941193 | 45940868 | ID=Msa1021540-mRNA-1:exon:9097;Parent=Msa1021540-mRNA-1 |
| chr7_1 | exon | 45941901 | 45942144 | 45941901 | ID=Msa1021540-mRNA-1:exon:9096;Parent=Msa1021540-mRNA-1 |
| chr7_1 | exon | 45942910 | 45943023 | 45942910 | ID=Msa1021540-mRNA-1:exon:9095;Parent=Msa1021540-mRNA-1 |
| chr7_1 | exon | 45943524 | 45943650 | 45943524 | ID=Msa1021540-mRNA-1:exon:9094;Parent=Msa1021540-mRNA-1 |
| chr7_1 | exon | 45943905 | 45944084 | 45943905 | ID=Msa1021540-mRNA-1:exon:9093;Parent=Msa1021540-mRNA-1 |
| chr7_1 | exon | 45945282 | 45945707 | 45945282 | ID=Msa1021540-mRNA-1:exon:9092;Parent=Msa1021540-mRNA-1 |
| chr7_1 | five_prime_UTR | 45945570 | 45945707 | 45945570 | ID=Msa1021540-mRNA-1:five_prime_utr;Parent=Msa1021540-mRNA-1 |
| chr7_1 | CDS | 45945282 | 45945569 | 45945282 | ID=Msa1021540-mRNA-1:cds;Parent=Msa1021540-mRNA-1 |
| chr7_1 | CDS | 45943905 | 45944084 | 45943905 | ID=Msa1021540-mRNA-1:cds;Parent=Msa1021540-mRNA-1 |
| chr7_1 | CDS | 45943524 | 45943650 | 45943524 | ID=Msa1021540-mRNA-1:cds;Parent=Msa1021540-mRNA-1 |
| chr7_1 | CDS | 45942910 | 45943023 | 45942910 | ID=Msa1021540-mRNA-1:cds;Parent=Msa1021540-mRNA-1 |
| chr7_1 | CDS | 45942029 | 45942144 | 45942029 | ID=Msa1021540-mRNA-1:cds;Parent=Msa1021540-mRNA-1 |
| chr7_1 | three_prime_UTR | 45941901 | 45942028 | 45941901 | ID=Msa1021540-mRNA-1:three_prime_utr;Parent=Msa1021540-mRNA-1 |
| chr7_1 | three_prime_UTR | 45940868 | 45941193 | 45940868 | ID=Msa1021540-mRNA-1:three_prime_utr;Parent=Msa1021540-mRNA-1 |
| Gene Sequence |
>Msa1021540 ATGGTAGTGATAGAGCAAGAGAACACCGACGATCGAAACGCGATTCCATCCAACGCCACTGCCGCCGGCAACGACGCTTCCGACGGTTTCGAAACCGCCAGCGAAGCTGATCTCGATAGCGACGGCGATGACGGTGGAGATATCAGCCGAGAAAAACAAGAGATTCTTGAGCAAACGAAGGAGCAAGAGGGAGAACAGGAACAAGATGTTGCTCAGAGAAGTGTTTCGTCTGAGGATGCTTTGATCAATGAAGAGAATGCTTTGATCAATGAATCGGAATTGAAACAGAAAGCATTGAGTGAAGCAAATGAAGCAAAAGTAGAAGGTAACAAACTTTTTGTAGATGGGAAGTATGAGGAGGCTTTATCGCAATATCAACATGCTTTACAAGTTGCACTAGACATGCCTTCATCTGTGGAAATACGCTCAATATGCCATGCAAACCGTGCTGTGTGCTTTTTGAAACTGGGAAAATATGAAAATACAATTAAAGAATGCACAAAAGCATTGGAACTGAATCCTGCATATGTTAAAGCTTTGGTGAGAAGAGGAGAGGCTCATGAAAAGCTTGAACATTTTGAAGAGGCAATTGCCGATATGAAAAAGATCTTAGAAATTGATCCCTCAAATGGTCAAGCTGGGAAATCCATTCGCCGACTAGAGCCCCTTGCTACTGTAAAACGGGAAAAAATGAAAGAAGAAATGATTGAAAAATTGAAAGAAATGGGCAATTCTGTATTGGGACGCTTTGGGATGAGCCTTGACAACTTCAAAGCAGTCCAAGATCCAAACACTGGTTCCTATTCTATCTCAATGGAACGCTAA |
| Protein sequence |
>Msa1021540 MVVIEQENTDDRNAIPSNATAAGNDASDGFETASEADLDSDGDDGGDISREKQEILEQTKEQEGEQEQDVAQRSVSSEDALINEENALINESELKQKALSEANEAKVEGNKLFVDGKYEEALSQYQHALQVALDMPSSVEIRSICHANRAVCFLKLGKYENTIKECTKALELNPAYVKALVRRGEAHEKLEHFEEAIADMKKILEIDPSNGQAGKSIRRLEPLATVKREKMKEEMIEKLKEMGNSVLGRFGMSLDNFKAVQDPNTGSYSISMER* |
