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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0057300 | XP_003588544.1 | 97.912 | 431 | 8 | 1 | 1 | 431 | 1 | 430 | 0.0 | 865 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0057300 | sp|Q8VZ59|YUC6_ARATH | 66.667 | 420 | 125 | 4 | 6 | 423 | 7 | 413 | 0.0 | 570 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0008290 | Msa0057300 | 0.947200 | 1.068382e-105 | -8.615850e-47 |
| Msa0057300 | Msa0189950 | 0.812654 | 3.802827e-51 | -8.615850e-47 |
| Msa0057300 | Msa0222920 | 0.812767 | 3.591376e-51 | -8.615850e-47 |
| Msa0057300 | Msa0260820 | -0.815210 | 1.039136e-51 | -8.615850e-47 |
| Msa0057300 | Msa0264350 | 0.810261 | 1.258677e-50 | -8.615850e-47 |
| Msa0057300 | Msa0317270 | 0.806015 | 1.009647e-49 | -8.615850e-47 |
| Msa0057300 | Msa0343420 | 0.932638 | 6.309027e-95 | -8.615850e-47 |
| Msa0057300 | Msa0436370 | 0.809443 | 1.887234e-50 | -8.615850e-47 |
| Msa0057300 | Msa0648520 | 0.803803 | 2.928591e-49 | -8.615850e-47 |
| Msa0057300 | Msa0881480 | 0.813729 | 2.208967e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0057300 | MtrunA17_Chr1g0147221 | 97.912 | 431 | 8 | 1 | 1 | 431 | 1 | 430 | 0.0 | 865 |
| Msa0057300 | MtrunA17_Chr3g0139441 | 75.765 | 425 | 98 | 2 | 1 | 424 | 1 | 421 | 0.0 | 664 |
| Msa0057300 | MtrunA17_Chr6g0485621 | 65.176 | 425 | 131 | 5 | 4 | 423 | 5 | 417 | 0.0 | 569 |
| Msa0057300 | MtrunA17_Chr1g0182991 | 61.353 | 414 | 157 | 3 | 19 | 431 | 1 | 412 | 0.0 | 521 |
| Msa0057300 | MtrunA17_Chr1g0169111 | 60.051 | 393 | 153 | 2 | 35 | 424 | 94 | 485 | 2.65e-178 | 507 |
| Msa0057300 | MtrunA17_Chr1g0148801 | 61.658 | 386 | 142 | 3 | 36 | 420 | 9 | 389 | 4.81e-176 | 498 |
| Msa0057300 | MtrunA17_Chr7g0262591 | 58.396 | 399 | 159 | 3 | 34 | 431 | 15 | 407 | 1.56e-174 | 494 |
| Msa0057300 | MtrunA17_Chr7g0262471 | 56.832 | 322 | 132 | 3 | 111 | 431 | 213 | 528 | 2.31e-128 | 381 |
| Msa0057300 | MtrunA17_Chr7g0268611 | 45.040 | 373 | 198 | 3 | 44 | 414 | 9 | 376 | 3.34e-117 | 347 |
| Msa0057300 | MtrunA17_Chr7g0268621 | 47.059 | 374 | 189 | 5 | 44 | 414 | 7 | 374 | 1.58e-114 | 340 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0057300 | AT5G25620.2 | 66.667 | 420 | 125 | 4 | 6 | 423 | 7 | 413 | 0.0 | 570 |
| Msa0057300 | AT5G25620.1 | 66.667 | 420 | 125 | 4 | 6 | 423 | 7 | 413 | 0.0 | 570 |
| Msa0057300 | AT4G13260.1 | 65.860 | 413 | 126 | 3 | 4 | 415 | 3 | 401 | 0.0 | 557 |
| Msa0057300 | AT1G04610.1 | 60.000 | 395 | 153 | 2 | 34 | 424 | 28 | 421 | 1.17e-178 | 506 |
| Msa0057300 | AT4G28720.1 | 56.867 | 415 | 174 | 3 | 19 | 429 | 1 | 414 | 4.21e-177 | 501 |
| Msa0057300 | AT1G04180.1 | 58.354 | 413 | 169 | 3 | 19 | 430 | 1 | 411 | 6.76e-175 | 496 |
| Msa0057300 | AT5G43890.1 | 58.191 | 409 | 167 | 3 | 19 | 424 | 1 | 408 | 1.06e-174 | 495 |
| Msa0057300 | AT2G33230.1 | 58.753 | 417 | 156 | 3 | 22 | 424 | 1 | 415 | 3.26e-173 | 492 |
| Msa0057300 | AT5G11320.1 | 58.793 | 381 | 151 | 2 | 38 | 418 | 12 | 386 | 3.05e-165 | 471 |
| Msa0057300 | AT4G32540.1 | 56.313 | 396 | 167 | 3 | 29 | 423 | 7 | 397 | 2.37e-162 | 464 |
Find 150 sgRNAs with CRISPR-Local
Find 350 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGTCTGGAAAGACAC+CGG | 0.678715 | 1_2:+13278146 | Msa0057300:CDS |
| AAAAGTGGTGAAGAGTTTAG+AGG | 0.487823 | 1_2:+13275874 | Msa0057300:CDS |
| AAAATTTCGATATTAGGCCT+TGG | 0.488183 | 1_2:+13275650 | Msa0057300:CDS |
| AAAGACACCGGTCCTAGATG+TGG | 0.578940 | 1_2:+13278158 | Msa0057300:CDS |
| AAAGTGGTGAAGAGTTTAGA+GGG | 0.496476 | 1_2:+13275875 | Msa0057300:CDS |
| AAAGTGGTTACCCGTGCAAC+TGG | 0.496540 | 1_2:+13278029 | Msa0057300:CDS |
| AACAAGAAAATAGAGAGCAA+AGG | 0.559557 | 1_2:-13275185 | None:intergenic |
| AACATTATGCACATATGTAA+TGG | 0.486939 | 1_2:-13280145 | None:intergenic |
| AACCGCCTCAGCATTCTCTC+CGG | 0.535999 | 1_2:-13275791 | None:intergenic |
| AACCGGAGAGAATGCTGAGG+CGG | 0.661182 | 1_2:+13275789 | Msa0057300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTGGAGTTTAAGAATGAAT+TGG | - | chr1_2:13275153-13275172 | None:intergenic | 30.0% | |
| ACAAGAAAATAGAGAGCAAA+GGG | - | chr1_2:13275187-13275206 | None:intergenic | 30.0% | |
| AACAAGAAAATAGAGAGCAA+AGG | - | chr1_2:13275188-13275207 | None:intergenic | 30.0% | |
| CTTCAAGTGATAGATGTTTA+TGG | + | chr1_2:13275371-13275390 | Msa0057300:CDS | 30.0% | |
| CAAATTGTATAGCTTCACTA+TGG | + | chr1_2:13275491-13275510 | Msa0057300:CDS | 30.0% | |
| AAAATTTCGATATTAGGCCT+TGG | + | chr1_2:13275650-13275669 | Msa0057300:CDS | 30.0% | |
| AAGAAACATGGAAATTTGTC+GGG | + | chr1_2:13276361-13276380 | Msa0057300:intron | 30.0% | |
| GCTCTACTTGTAATAATACA+AGG | - | chr1_2:13276747-13276766 | None:intergenic | 30.0% | |
| GTATTATTACAAGTAGAGCA+TGG | + | chr1_2:13276748-13276767 | Msa0057300:intron | 30.0% | |
| AAAAAGGTAAGAGCTTATGT+GGG | - | chr1_2:13276813-13276832 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 13274871 | 13280500 | 13274871 | ID=Msa0057300;Name=Msa0057300 |
| chr1_2 | mRNA | 13274871 | 13280500 | 13274871 | ID=Msa0057300-mRNA-1;Parent=Msa0057300;Name=Msa0057300-mRNA-1;_AED=0.03;_eAED=0.03;_QI=406|1|1|1|1|1|4|423|431 |
| chr1_2 | exon | 13274871 | 13275996 | 13274871 | ID=Msa0057300-mRNA-1:exon:5162;Parent=Msa0057300-mRNA-1 |
| chr1_2 | exon | 13277967 | 13278215 | 13277967 | ID=Msa0057300-mRNA-1:exon:5163;Parent=Msa0057300-mRNA-1 |
| chr1_2 | exon | 13279069 | 13279191 | 13279069 | ID=Msa0057300-mRNA-1:exon:5164;Parent=Msa0057300-mRNA-1 |
| chr1_2 | exon | 13279874 | 13280500 | 13279874 | ID=Msa0057300-mRNA-1:exon:5165;Parent=Msa0057300-mRNA-1 |
| chr1_2 | five_prime_UTR | 13274871 | 13275276 | 13274871 | ID=Msa0057300-mRNA-1:five_prime_utr;Parent=Msa0057300-mRNA-1 |
| chr1_2 | CDS | 13275277 | 13275996 | 13275277 | ID=Msa0057300-mRNA-1:cds;Parent=Msa0057300-mRNA-1 |
| chr1_2 | CDS | 13277967 | 13278215 | 13277967 | ID=Msa0057300-mRNA-1:cds;Parent=Msa0057300-mRNA-1 |
| chr1_2 | CDS | 13279069 | 13279191 | 13279069 | ID=Msa0057300-mRNA-1:cds;Parent=Msa0057300-mRNA-1 |
| chr1_2 | CDS | 13279874 | 13280077 | 13279874 | ID=Msa0057300-mRNA-1:cds;Parent=Msa0057300-mRNA-1 |
| chr1_2 | three_prime_UTR | 13280078 | 13280500 | 13280078 | ID=Msa0057300-mRNA-1:three_prime_utr;Parent=Msa0057300-mRNA-1 |
| Gene Sequence |
>Msa0057300 ATGGACAGTTATCTAAGAGAATTAGAAGGAAAACAAGCACATGATCCTTTATTCATAGAAAAAATGATCAACAACAAGAACAAGAATTCAACTTCTTCAAGTGATAGATGTTTATGGATTCCAGGTCCATTGATAGTAGGAGCAGGACCTTCAGGACTAGCAGTAGCAGCATATCTAAAACAAAAAGGTGTTCCAAGTTTAATACTAGAAAGATCAAATTGTATAGCTTCACTATGGAAGCTAAAAACCTACGATCGTCTTCGTCTTCATTTACCAAAACAAGTTTGTGAGCTTCCTTTAATGGAATTCCCTAGTGGTTTTCCAACATATCCAACAAAGCAACAATTCATAGAGTATTTGGAAAGTTATTCCAAAAATTTCGATATTAGGCCTTGGTTCAATGAGACAGTTATGCATGCTGAGTTTGATGCTACACTTGGTTTTTGGAGGGTGAGGAGTGAGGGGAAGGCGGGAATGGTTACCGAGTTTGTTTGTCGGTGGTTGATCGTTGCAACCGGAGAGAATGCTGAGGCGGTTGTACCGGAGATTGAAGGAGTTGATGAATTTGGTGGTAGTATTAGGCATACTAGTTTGTATAAAAGTGGTGAAGAGTTTAGAGGGAAGAAAGTTTTGGTGGTTGGATGTGGAAATTCAGGTATGGAAGTTTGTTTGGATCTTTGTAATCATGATGCTGCTCCTTCTATTGTGGTTAGAGATTCAGTACACATCCTGCCAAGAGATATGCTGGGAAAATCAACTTTTGGGTTGTCCATGTGGTTGCTAAAGTGGTTACCCGTGCAACTGGTGGATTACATCCTTCTCACTGTGTCATGGTTAATGCTTGGCAATACAGAACGGTTCGGTTTGGTTCGGCCTCGGTTGGGTCCTCTAGAACTCAAAAAACTGTCTGGAAAGACACCGGTCCTAGATGTGGGTGCCCTTGCCAAGATTAAAAGAGGAGACATCAAGGTACGTCCAGGCATCAAGAGGTTAAAACGGTACAGAGTGGAATTTGCTGATGGAAGTACAGAGAATTTTGACGCCATCGTATTGGCAACTGGTTACAAAAGTAATGTACCCTATTGGTTAAAGGATAAGGGTATGTTCTCTAAGGAAGATGGATACCCTAGGAAGCCATTCCCTAATGGATGGAAAGGTGAAAATGGCCTCTTTGCTGTTGGTTTCACTAAACGTGGACTACTTGGTGCATCCATGGATGCAAAAAATATAGCTGAAGATATTGAACGGTGTTGGAAAGTTGAGGCAAAGCATATATTTCAACAATCAAATTCATGA |
| Protein sequence |
>Msa0057300 MDSYLRELEGKQAHDPLFIEKMINNKNKNSTSSSDRCLWIPGPLIVGAGPSGLAVAAYLKQKGVPSLILERSNCIASLWKLKTYDRLRLHLPKQVCELPLMEFPSGFPTYPTKQQFIEYLESYSKNFDIRPWFNETVMHAEFDATLGFWRVRSEGKAGMVTEFVCRWLIVATGENAEAVVPEIEGVDEFGGSIRHTSLYKSGEEFRGKKVLVVGCGNSGMEVCLDLCNHDAAPSIVVRDSVHILPRDMLGKSTFGLSMWLLKWLPVQLVDYILLTVSWLMLGNTERFGLVRPRLGPLELKKLSGKTPVLDVGALAKIKRGDIKVRPGIKRLKRYRVEFADGSTENFDAIVLATGYKSNVPYWLKDKGMFSKEDGYPRKPFPNGWKGENGLFAVGFTKRGLLGASMDAKNIAEDIERCWKVEAKHIFQQSNS* |
