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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131770 | XP_003616287.1 | 61.572 | 458 | 168 | 3 | 1 | 452 | 1 | 456 | 0.0 | 600 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131770 | sp|Q65XV7|RFA1C_ORYSJ | 21.205 | 415 | 288 | 15 | 11 | 400 | 313 | 713 | 2.05e-14 | 80.5 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002230 | Msa0131770 | 0.825523 | 4.474764e-54 | -8.615850e-47 |
| Msa0002240 | Msa0131770 | 0.837119 | 6.274682e-57 | -8.615850e-47 |
| Msa0003300 | Msa0131770 | 0.807753 | 4.333737e-50 | -8.615850e-47 |
| Msa0003890 | Msa0131770 | 0.840965 | 6.325889e-58 | -8.615850e-47 |
| Msa0006110 | Msa0131770 | 0.839414 | 1.607020e-57 | -8.615850e-47 |
| Msa0007990 | Msa0131770 | 0.821435 | 4.043183e-53 | -8.615850e-47 |
| Msa0009180 | Msa0131770 | 0.800925 | 1.146488e-48 | -8.615850e-47 |
| Msa0011170 | Msa0131770 | 0.831345 | 1.759193e-55 | -8.615850e-47 |
| Msa0011660 | Msa0131770 | -0.811687 | 6.182076e-51 | -8.615850e-47 |
| Msa0014710 | Msa0131770 | 0.846440 | 2.169151e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131770 | MtrunA17_Chr6g0469931 | 62.348 | 247 | 81 | 4 | 1 | 241 | 1 | 241 | 2.10e-96 | 309 |
| Msa0131770 | MtrunA17_Chr6g0469811 | 59.124 | 137 | 56 | 0 | 2 | 138 | 11 | 147 | 9.80e-55 | 183 |
| Msa0131770 | MtrunA17_Chr2g0279021 | 32.472 | 271 | 181 | 2 | 160 | 428 | 1 | 271 | 7.93e-48 | 172 |
| Msa0131770 | MtrunA17_Chr4g0077081 | 44.853 | 136 | 68 | 1 | 241 | 376 | 27 | 155 | 3.55e-35 | 130 |
| Msa0131770 | MtrunA17_Chr7g0259081 | 41.566 | 166 | 96 | 1 | 8 | 173 | 8 | 172 | 8.26e-35 | 129 |
| Msa0131770 | MtrunA17_Chr7g0234721 | 39.884 | 173 | 103 | 1 | 1 | 173 | 1 | 172 | 4.85e-33 | 127 |
| Msa0131770 | MtrunA17_Chr3g0093401 | 33.058 | 242 | 155 | 2 | 1 | 242 | 1 | 235 | 5.21e-33 | 126 |
| Msa0131770 | MtrunA17_Chr4g0010241 | 40.559 | 143 | 85 | 0 | 51 | 193 | 70 | 212 | 1.72e-28 | 113 |
| Msa0131770 | MtrunA17_Chr8g0374181 | 36.620 | 142 | 89 | 1 | 288 | 428 | 12 | 153 | 1.42e-27 | 112 |
| Msa0131770 | MtrunA17_Chr1g0206481 | 25.641 | 234 | 171 | 3 | 11 | 242 | 11 | 243 | 5.89e-24 | 102 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131770 | AT1G52950.1 | 26.330 | 376 | 249 | 9 | 7 | 365 | 9 | 373 | 1.09e-38 | 150 |
| Msa0131770 | AT2G05642.1 | 22.851 | 442 | 268 | 8 | 19 | 428 | 19 | 419 | 3.79e-29 | 122 |
| Msa0131770 | AT2G06510.2 | 22.546 | 377 | 254 | 13 | 13 | 365 | 182 | 544 | 1.38e-14 | 77.4 |
| Msa0131770 | AT2G06510.1 | 22.546 | 377 | 254 | 13 | 13 | 365 | 205 | 567 | 1.71e-14 | 77.4 |
| Msa0131770 | AT4G19130.1 | 21.410 | 383 | 265 | 13 | 11 | 371 | 234 | 602 | 2.81e-13 | 73.6 |
| Msa0131770 | AT4G19130.2 | 21.410 | 383 | 265 | 13 | 11 | 371 | 235 | 603 | 3.10e-13 | 73.6 |
Find 161 sgRNAs with CRISPR-Local
Find 309 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACATCACAAACACTGCAT+CGG | 0.613338 | 1_3:+62736053 | None:intergenic |
| AAACTTACGGCCTCACATCC+AGG | 0.504373 | 1_3:+62734760 | None:intergenic |
| AAATACTGCTCCATTTCATG+AGG | 0.667003 | 1_3:-62734938 | Msa0131770:intron |
| AAATGAAGACAAAGGTGGAG+AGG | 0.612097 | 1_3:-62737270 | Msa0131770:CDS |
| AAGAAATCCTCTTCAATCGA+AGG | 0.574744 | 1_3:+62736394 | None:intergenic |
| AAGCTATGTTGATTCTCTCC+AGG | 0.524177 | 1_3:-62736867 | Msa0131770:CDS |
| AAGGTTGAGTGTGCGTTGTT+TGG | 0.400585 | 1_3:-62736890 | Msa0131770:CDS |
| AAGTTGTGAAATTTAGAGAA+GGG | 0.495260 | 1_3:-62736582 | Msa0131770:intron |
| AATAAAACCTTGGAACCATA+TGG | 0.418853 | 1_3:+62736182 | None:intergenic |
| AATAATCATAATCAGCAGTG+TGG | 0.629057 | 1_3:+62737185 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TATATGGATGAATGGTAGTA+CGG | + | chr1_3:62734610-62734629 | None:intergenic | 30.0% | |
| TATCAGCTTATATGGATGAA+TGG | + | chr1_3:62734618-62734637 | None:intergenic | 30.0% | |
| ATTTCAAATGAAGACAAAGG+TGG | - | chr1_3:62734637-62734656 | Msa0131770:intron | 30.0% | |
| ATAATCATAATCAGCAGTGT+GGG | + | chr1_3:62734729-62734748 | None:intergenic | 30.0% | |
| AATAATCATAATCAGCAGTG+TGG | + | chr1_3:62734730-62734749 | None:intergenic | 30.0% | |
| GCTGATTATGATTATTTGGT+TGG | - | chr1_3:62734734-62734753 | Msa0131770:CDS | 30.0% | |
| GTTTAATGTCTTGACTGTTT+AGG | - | chr1_3:62734770-62734789 | Msa0131770:CDS | 30.0% | |
| GCGAAAATTAAAATATTCCG+AGG | - | chr1_3:62735118-62735137 | Msa0131770:intron | 30.0% | |
| AGGATGGAAAATTTATACCT+CGG | + | chr1_3:62735138-62735157 | None:intergenic | 30.0% | |
| TTATAGGAATAGGACAGAAA+TGG | + | chr1_3:62735219-62735238 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 62734202 | 62737732 | 62734202 | ID=Msa0131770;Name=Msa0131770 |
| chr1_3 | mRNA | 62734202 | 62737732 | 62734202 | ID=Msa0131770-mRNA-1;Parent=Msa0131770;Name=Msa0131770-mRNA-1;_AED=0.36;_eAED=0.36;_QI=0|0|0|0.83|0.81|0.66|12|0|611 |
| chr1_3 | exon | 62737583 | 62737732 | 62737583 | ID=Msa0131770-mRNA-1:exon:21002;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62737179 | 62737446 | 62737179 | ID=Msa0131770-mRNA-1:exon:21001;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62737002 | 62737098 | 62737002 | ID=Msa0131770-mRNA-1:exon:21000;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62736795 | 62736916 | 62736795 | ID=Msa0131770-mRNA-1:exon:20999;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62736583 | 62736667 | 62736583 | ID=Msa0131770-mRNA-1:exon:20998;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62736190 | 62736477 | 62736190 | ID=Msa0131770-mRNA-1:exon:20997;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62735993 | 62736110 | 62735993 | ID=Msa0131770-mRNA-1:exon:20996;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62735721 | 62735891 | 62735721 | ID=Msa0131770-mRNA-1:exon:20995;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62735511 | 62735590 | 62735511 | ID=Msa0131770-mRNA-1:exon:20994;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62734939 | 62735119 | 62734939 | ID=Msa0131770-mRNA-1:exon:20993;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62734648 | 62734800 | 62734648 | ID=Msa0131770-mRNA-1:exon:20992;Parent=Msa0131770-mRNA-1 |
| chr1_3 | exon | 62734202 | 62734324 | 62734202 | ID=Msa0131770-mRNA-1:exon:20991;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62737583 | 62737732 | 62737583 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62737179 | 62737446 | 62737179 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62737002 | 62737098 | 62737002 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62736795 | 62736916 | 62736795 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62736583 | 62736667 | 62736583 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62736190 | 62736477 | 62736190 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62735993 | 62736110 | 62735993 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62735721 | 62735891 | 62735721 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62735511 | 62735590 | 62735511 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62734939 | 62735119 | 62734939 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62734648 | 62734800 | 62734648 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| chr1_3 | CDS | 62734202 | 62734324 | 62734202 | ID=Msa0131770-mRNA-1:cds;Parent=Msa0131770-mRNA-1 |
| Gene Sequence |
>Msa0131770 ATGGATAAATCCATTGATTGTTTGCATGATATTGTTCCTGGTAGAGAGTCATGGAGGATCAAGGTGCGTGTGCTTAGAATGTGGGAGGTCCCAACCTTTTTGAAACCTGATCAGGCTAATTCTGTTGAGATGGTTTTGATTGATGAGAAGGGTGGGAAGATTCATGCTACCATTAGAAGGCAGTTGTTGTATGTTTTTCAGAAGAAGTTGGTAGAAGGAGGGGTGTACAAGATGTCATACTTTGCAGTTGCCCCTGGTGTTGGTTCATACCGTACTACCATTCATCCATATAAGCTGATATTTCAAATGAAGACAAAGGTGGAGAGGGTTGAGAGTTCACTTATCCCTGTGCATGGACTTTCTCTGATTAAGATCCAAGAAGTTTGTGCCCACACTGCTGATTATGATTATTTGGTTGATGTTGTTGGTTTGATGACGGGGATTTCTGCTGAGAGAGAGTATGTTAGGGATGGGAAGGTTACTAAGATGGTTGTTTTCGAGTTAACTGACGAAAGTGGTAAGGTTGAGTGTGCGTTGTTTGGAAGCTATGTTGATTCTCTCCAGGAGATGATGGGGAGAGCTGGGGAAGGATTGCCGGTTGTTGTGGTTCAATTTGCGAAAATTAAAATATTCCGAGAGAGGGTCTCTATCCAGAATGTTATGAACACAACTAGAATTTGGGTGAATCCTCCTTTCGAAGAAGTTGTGAAATTTAGAGAAGGTGTTGCAATCCATGGCATTGAACCTTCTGGTGTTGTTCCTTCGCTTGGTCCTCGCGTTAGGCCTTCGATTGAAGAGGATTTCTTGCGAAATCATCCCAAGAAAAATATCTATGAGTTGAATGCCATTGTGGAGGATGGGATTTATGTTGTTTGCGCTGTTGTGGAAGGTTTGGTTAAGGGGGAAGATTGGTGGTATCCTGCATGTCGTTGTCATAGGAGTGTTACTCCTGATTCTGGTGCATATTACTGCAAGGGATGTGTGAAGCATGTGTTCCATATGGTTCCAAGGTATAAGGTGAAGCTCAATGCGAGTGATTCTACATCCGATGCAGTGTTTGTGATGTTTGATGGTGATATGCAAATGTTGCTTGGTGAGCAGTGTAGCAACTTAGTTTCTGCAGCCAAGGCTGAAAATGCGGGATTTTATCCTCCTGAGATTGTTAGTCTGAAGGGAAGGATGATGTTGTTTAAGGTCGAGAAGACTGCATCTGCAGGGGTCATGTTTGATGGATCTTTTAGGGTGAAGAGGGTTTGCCTTGATCCATCTATTATTGAGGAATTCTGCACTTCTGCCAAGGTTTTCTCTGATGTTGTTGGTTCTGAGGTTAGTGGTTTGGTAGAGGATCCAGATGTTGCTGAAGAGACACCGGCCAAGGTATGGTATTTTAATGTGCAGTTTGTGTCTGATGGTGTGGATGCTGAGTTGAGTGAATTGGCTGAGGACCCTGAGGTTGTTGAGGAGACACAAATTGAGGATTTCGTGGCTAATGTTGTTGTTACTCCAGTTGGTCATGTGTCTGAGACATCTGGATATGAAAATACTGCTCCATTTCATGAGCAGAACCTGGATGTGGATCCTGGATGTGAGGCCGTAAGTTTGGGGGATGATGGTAGTGTCTTTAAAAGTCCAGACATGTCAGGAGCTGCAGCTGTGGAGAAAAATGGTGCTGTCAACAAAGCTAAGAGAAATTTGCGCAAGGCATTTGACGCATTATGCAGAGCACCTCTGAGTTGCCAATTAGTAGCTAAAGTTGAACTTGATAGAGTTCATTTAATTATTTCTGATGCCCCTCAAAATTTTGATGTGGATGGTTATGGGCAGAAACTAAACTAA |
| Protein sequence |
>Msa0131770 MDKSIDCLHDIVPGRESWRIKVRVLRMWEVPTFLKPDQANSVEMVLIDEKGGKIHATIRRQLLYVFQKKLVEGGVYKMSYFAVAPGVGSYRTTIHPYKLIFQMKTKVERVESSLIPVHGLSLIKIQEVCAHTADYDYLVDVVGLMTGISAEREYVRDGKVTKMVVFELTDESGKVECALFGSYVDSLQEMMGRAGEGLPVVVVQFAKIKIFRERVSIQNVMNTTRIWVNPPFEEVVKFREGVAIHGIEPSGVVPSLGPRVRPSIEEDFLRNHPKKNIYELNAIVEDGIYVVCAVVEGLVKGEDWWYPACRCHRSVTPDSGAYYCKGCVKHVFHMVPRYKVKLNASDSTSDAVFVMFDGDMQMLLGEQCSNLVSAAKAENAGFYPPEIVSLKGRMMLFKVEKTASAGVMFDGSFRVKRVCLDPSIIEEFCTSAKVFSDVVGSEVSGLVEDPDVAEETPAKVWYFNVQFVSDGVDAELSELAEDPEVVEETQIEDFVANVVVTPVGHVSETSGYENTAPFHEQNLDVDPGCEAVSLGDDGSVFKSPDMSGAAAVEKNGAVNKAKRNLRKAFDALCRAPLSCQLVAKVELDRVHLIISDAPQNFDVDGYGQKLN* |
