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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0088960 | sp|Q8S9L6|CRK29_ARATH | 41.903 | 494 | 273 | 6 | 38 | 526 | 40 | 524 | 7.71e-123 | 378 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0088960 | A0A072VQM5 | 75.787 | 508 | 112 | 4 | 20 | 526 | 19 | 516 | 0.0 | 752 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0088960 | MtrunA17_Chr1g0206401 | 75.787 | 508 | 112 | 4 | 20 | 526 | 19 | 516 | 0.0 | 752 |
| Msa0088960 | MtrunA17_Chr1g0206531 | 50.000 | 520 | 230 | 7 | 9 | 526 | 12 | 503 | 7.21e-164 | 480 |
| Msa0088960 | MtrunA17_Chr1g0206461 | 48.000 | 525 | 241 | 7 | 3 | 526 | 6 | 499 | 3.79e-162 | 475 |
| Msa0088960 | MtrunA17_Chr1g0206451 | 48.190 | 525 | 234 | 9 | 8 | 526 | 46 | 538 | 6.98e-150 | 445 |
| Msa0088960 | MtrunA17_Chr1g0154351 | 45.709 | 536 | 260 | 8 | 7 | 526 | 4 | 524 | 1.88e-149 | 443 |
| Msa0088960 | MtrunA17_Chr1g0154321 | 46.545 | 550 | 245 | 11 | 7 | 526 | 4 | 534 | 2.46e-148 | 444 |
| Msa0088960 | MtrunA17_Chr5g0426941 | 47.495 | 499 | 242 | 7 | 32 | 526 | 23 | 505 | 1.76e-147 | 438 |
| Msa0088960 | MtrunA17_Chr1g0206521 | 47.115 | 520 | 244 | 5 | 8 | 526 | 654 | 1143 | 2.74e-145 | 449 |
| Msa0088960 | MtrunA17_Chr1g0206521 | 48.031 | 508 | 233 | 5 | 20 | 526 | 24 | 501 | 3.04e-143 | 444 |
| Msa0088960 | MtrunA17_Chr1g0206561 | 47.379 | 496 | 234 | 5 | 33 | 526 | 25 | 495 | 3.47e-139 | 416 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0088960 | AT4G21410.2 | 41.903 | 494 | 273 | 6 | 38 | 526 | 40 | 524 | 2.50e-125 | 377 |
| Msa0088960 | AT4G21410.3 | 41.903 | 494 | 273 | 6 | 38 | 526 | 40 | 524 | 7.84e-124 | 378 |
| Msa0088960 | AT4G38830.1 | 42.115 | 520 | 265 | 11 | 16 | 526 | 18 | 510 | 1.02e-123 | 377 |
| Msa0088960 | AT4G23180.3 | 41.916 | 501 | 261 | 10 | 29 | 526 | 40 | 513 | 4.28e-121 | 365 |
| Msa0088960 | AT4G23180.2 | 41.717 | 501 | 262 | 10 | 29 | 526 | 40 | 513 | 1.13e-120 | 367 |
| Msa0088960 | AT4G23180.1 | 41.717 | 501 | 262 | 10 | 29 | 526 | 40 | 513 | 6.22e-119 | 365 |
| Msa0088960 | AT4G23160.1 | 40.122 | 491 | 268 | 7 | 40 | 526 | 56 | 524 | 2.55e-116 | 358 |
| Msa0088960 | AT4G21400.3 | 39.171 | 531 | 291 | 9 | 6 | 526 | 8 | 516 | 2.77e-115 | 351 |
| Msa0088960 | AT4G23220.1 | 38.538 | 506 | 272 | 10 | 32 | 526 | 24 | 501 | 5.94e-115 | 354 |
| Msa0088960 | AT4G05200.1 | 40.891 | 494 | 264 | 8 | 40 | 526 | 40 | 512 | 1.88e-114 | 353 |
Find 84 sgRNAs with CRISPR-Local
Find 372 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCATCGTGAAGAAAGCA+TGG | 0.614263 | 1_2:+70259946 | None:intergenic |
| AAACTCGGAAACTTCACTGG+AGG | 0.691834 | 1_2:-70259839 | Msa0088960:CDS |
| AAAGTAATTGATGAATCAAG+TGG | 0.592976 | 1_2:-70259392 | Msa0088960:CDS |
| AACCGCTGCAACGATAGCGA+TGG | 0.635375 | 1_2:+70258787 | None:intergenic |
| AAGAACGAAGTGTTGCTGAC+AGG | 0.494716 | 1_2:-70253850 | Msa0088960:CDS |
| AATAGTAACGAGACTATATA+TGG | 0.398175 | 1_2:-70259365 | Msa0088960:CDS |
| AATGAAAGGTTGTTTGTTTC+TGG | 0.108689 | 1_2:-70259252 | Msa0088960:CDS |
| AATGCAATCGGACTCTGCAG+AGG | 0.657286 | 1_2:-70259707 | Msa0088960:CDS |
| ACAGGAGTAATTGCTTCTGA+AGG | 0.622971 | 1_2:+70259149 | None:intergenic |
| ACCAACCTGGACACCGTTCT+GGG | 0.458401 | 1_2:-70259803 | Msa0088960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GGTATATATATTTCCCAGAA+CGG | + | chr1_2:70253528-70253547 | None:intergenic | 30.0% | |
| ACCGACAAAAAAATAGACTA+TGG | - | chr1_2:70253545-70253564 | Msa0088960:CDS | 30.0% | |
| GGATTCTACAATTTCTCATA+TGG | - | chr1_2:70253566-70253585 | Msa0088960:CDS | 30.0% | |
| GCATTTAATGAAACACTTAG+TGG | - | chr1_2:70253830-70253849 | Msa0088960:CDS | 30.0% | |
| TAACGAGACTATATATGGTT+TGG | - | chr1_2:70253955-70253974 | Msa0088960:intron | 30.0% | |
| GATTGTTTGGATAATGCTTA+CGG | - | chr1_2:70254016-70254035 | Msa0088960:intron | 30.0% | |
| AATGAAAGGTTGTTTGTTTC+TGG | - | chr1_2:70254063-70254082 | Msa0088960:CDS | 30.0% | |
| TCCATTCTGATTTCTTGATT+AGG | - | chr1_2:70254482-70254501 | Msa0088960:intron | 30.0% | |
| TCCTAATCAAGAAATCAGAA+TGG | + | chr1_2:70254486-70254505 | None:intergenic | 30.0% | |
| AAAATACAATAGGCTACGAT+TGG | - | chr1_2:70254685-70254704 | Msa0088960:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 70253371 | 70259966 | 70253371 | ID=Msa0088960;Name=Msa0088960 |
| chr1_2 | mRNA | 70253371 | 70259966 | 70253371 | ID=Msa0088960-mRNA-1;Parent=Msa0088960;Name=Msa0088960-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|1|0.6|1|1|1|5|0|526 |
| chr1_2 | exon | 70259126 | 70259966 | 70259126 | ID=Msa0088960-mRNA-1:exon:24146;Parent=Msa0088960-mRNA-1 |
| chr1_2 | exon | 70258702 | 70258833 | 70258702 | ID=Msa0088960-mRNA-1:exon:24145;Parent=Msa0088960-mRNA-1 |
| chr1_2 | exon | 70254045 | 70254202 | 70254045 | ID=Msa0088960-mRNA-1:exon:24144;Parent=Msa0088960-mRNA-1 |
| chr1_2 | exon | 70253737 | 70253947 | 70253737 | ID=Msa0088960-mRNA-1:exon:24143;Parent=Msa0088960-mRNA-1 |
| chr1_2 | exon | 70253371 | 70253609 | 70253371 | ID=Msa0088960-mRNA-1:exon:24142;Parent=Msa0088960-mRNA-1 |
| chr1_2 | CDS | 70259126 | 70259966 | 70259126 | ID=Msa0088960-mRNA-1:cds;Parent=Msa0088960-mRNA-1 |
| chr1_2 | CDS | 70258702 | 70258833 | 70258702 | ID=Msa0088960-mRNA-1:cds;Parent=Msa0088960-mRNA-1 |
| chr1_2 | CDS | 70254045 | 70254202 | 70254045 | ID=Msa0088960-mRNA-1:cds;Parent=Msa0088960-mRNA-1 |
| chr1_2 | CDS | 70253737 | 70253947 | 70253737 | ID=Msa0088960-mRNA-1:cds;Parent=Msa0088960-mRNA-1 |
| chr1_2 | CDS | 70253371 | 70253609 | 70253371 | ID=Msa0088960-mRNA-1:cds;Parent=Msa0088960-mRNA-1 |
| Gene Sequence |
>Msa0088960 ATGCTTTCTTCACGATGGTTTCTGTTTTCACTTCTTGTTTTATTTTTCACACTAAATTCTGAAGCCAACCAGCAGCTAATTCCCATCTACTCCGAATGCAATGAAAAACTCGGAAACTTCACTGGAGGTAGTGCATACAAGACCAACCTGGACACCGTTCTGGGAAATATATATACCGACAAAAAAATAGACTATGGATTCTACAATTTCTCATATGGTGAAGACCCTGACCAAGTAAATGCAATCGGACTCTGCAGAGGAGACACTACTCCAGAGGAATGTCGTGATTGTCTGAAAACCTGCACAGCACTTCTCACAGATCGGTGTTCAACACAGAAAGAGGCAATTGGTTACTACGACTTGTGCACTTTACGCTATTCAAACGCTTCAATTTTTGGTGTGAATGAACCGGAAACCGCTAAAGTTTACAACATCCAGAAAAAAACAGTGGTGGATAAAGCATTTAATGAAACACTTAGTGGTTTATTGCAAGAACTTAAAAGCGCGGCTGCGGAAGGTGATTCACGCCACAAGTTTGCTGAAAAAAGTGCTAAAGTAATTGATGAATCAAGTGGTAGTAATAGTAACGAGACTATATATGGTTTGGTTCAGTGTACACCAGATTTGACAGACCAAAACTGTACTGATTGTTTGGATAATGCTTACGGACAGATTTCGTTTTGGTGTCGAGAAATGAAAGGTTGTTTGTTTCTGGGACCAAGTTGTTCTGTTAAATATGATATCACTCCATTTTTTAAATCCATAGTCAACAACACACACTCACCAGCACCACAGCCTTCAGAAGCAATTACTCCTGTAGTTCCTCCTAAACCTCCGAAAGGAACAAGCTGGAAATTAAAAACGGCCATCGCTATCGTTGCAGCGGTTGTTGTGGCTGGCATACTAGTTGTGGGTATATGCATTTATTTTGAAAGGAGGAAACCAAGACTCGAATATACGGCTGATTTTGAAGGCAAATATAAAAATGAAGATGAATTTGAAGCTGAAGCTGATAATGACCTTAAAGTTGGCGATTTGTTGCAATTTGACTTTGAAACCATCAGATTAGCTACAAACAACTTCTCTGATGAAAATATGATTGGTCAAGGTGGATTTGGAGCAGTTTATAAGGGTACACTCTCTGAGGGACATGATATTGCTATCAAAAGATTGGCTATCAATTCTAAGCAAGGAGAAACAGAATTTAAGAACGAAGTGTTGCTGACAGGGAAGCTTCAACATCGAAATTTAGTTAAGCTGCTAGGGTTCTGTTTACAAAAAAGAGAAAGACTACTAATTTATGAGTTTGTCTCCAATAAAAGTCTTGATTATATCATATTTGATCCAATCAAGCGTGCGAATCTGAATTGGGAAAGACGTCACAAAATCATAAGAGATATTGCTCGAGGTCTTCTTTATCTTCATGAAGATTCTCGATTGCAAATTGTTCACCGCGATCTTAAAACAAGTAACATTCTACTGGATGATGAACTAAACCCAAAAATTGCAGATTTTGGCATTGCAAAATTGTTTGATGCCAAACAAACTCATGGCATGACAAGCAACGTTATTGGAACTTAG |
| Protein sequence |
>Msa0088960 MLSSRWFLFSLLVLFFTLNSEANQQLIPIYSECNEKLGNFTGGSAYKTNLDTVLGNIYTDKKIDYGFYNFSYGEDPDQVNAIGLCRGDTTPEECRDCLKTCTALLTDRCSTQKEAIGYYDLCTLRYSNASIFGVNEPETAKVYNIQKKTVVDKAFNETLSGLLQELKSAAAEGDSRHKFAEKSAKVIDESSGSNSNETIYGLVQCTPDLTDQNCTDCLDNAYGQISFWCREMKGCLFLGPSCSVKYDITPFFKSIVNNTHSPAPQPSEAITPVVPPKPPKGTSWKLKTAIAIVAAVVVAGILVVGICIYFERRKPRLEYTADFEGKYKNEDEFEAEADNDLKVGDLLQFDFETIRLATNNFSDENMIGQGGFGAVYKGTLSEGHDIAIKRLAINSKQGETEFKNEVLLTGKLQHRNLVKLLGFCLQKRERLLIYEFVSNKSLDYIIFDPIKRANLNWERRHKIIRDIARGLLYLHEDSRLQIVHRDLKTSNILLDDELNPKIADFGIAKLFDAKQTHGMTSNVIGT* |
