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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531020 | KEH28745.1 | 83.077 | 65 | 11 | 0 | 15 | 79 | 19 | 83 | 9.72e-32 | 116 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531020 | A0A072US92 | 83.077 | 65 | 11 | 0 | 15 | 79 | 19 | 83 | 4.64e-32 | 116 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0079070 | Msa0531020 | 0.800924 | 1.146914e-48 | -8.615850e-47 |
| Msa0087800 | Msa0531020 | 0.807299 | 5.409860e-50 | -8.615850e-47 |
| Msa0090360 | Msa0531020 | 0.804690 | 1.914185e-49 | -8.615850e-47 |
| Msa0090570 | Msa0531020 | 0.801880 | 7.308011e-49 | -8.615850e-47 |
| Msa0184040 | Msa0531020 | 0.802083 | 6.637930e-49 | -8.615850e-47 |
| Msa0204960 | Msa0531020 | 0.809187 | 2.141571e-50 | -8.615850e-47 |
| Msa0207040 | Msa0531020 | -0.801731 | 7.841620e-49 | -8.615850e-47 |
| Msa0207670 | Msa0531020 | 0.816781 | 4.632432e-52 | -8.615850e-47 |
| Msa0209350 | Msa0531020 | 0.808392 | 3.167817e-50 | -8.615850e-47 |
| Msa0219590 | Msa0531020 | 0.802832 | 4.653466e-49 | -8.615850e-47 |
| Msa0257490 | Msa0531020 | 0.816563 | 5.185148e-52 | -8.615850e-47 |
| Msa0281530 | Msa0531020 | 0.817032 | 4.068358e-52 | -8.615850e-47 |
| Msa0343850 | Msa0531020 | 0.808880 | 2.492203e-50 | -8.615850e-47 |
| Msa0527540 | Msa0531020 | 0.800997 | 1.108082e-48 | -8.615850e-47 |
| Msa0531020 | Msa0544840 | 0.802006 | 6.884350e-49 | -8.615850e-47 |
| Msa0531020 | Msa0547160 | 0.818162 | 2.263235e-52 | -8.615850e-47 |
| Msa0531020 | Msa0587910 | 0.836437 | 9.365440e-57 | -8.615850e-47 |
| Msa0531020 | Msa0665860 | 0.896203 | 4.622653e-76 | -8.615850e-47 |
| Msa0531020 | Msa0682680 | 0.831101 | 2.020415e-55 | -8.615850e-47 |
| Msa0531020 | Msa0698540 | 0.815758 | 7.847418e-52 | -8.615850e-47 |
| Msa0531020 | Msa0707250 | 0.803429 | 3.501121e-49 | -8.615850e-47 |
| Msa0531020 | Msa0796700 | 0.802131 | 6.488483e-49 | -8.615850e-47 |
| Msa0531020 | Msa0969810 | 0.800320 | 1.523285e-48 | -8.615850e-47 |
| Msa0531020 | Msa1043250 | -0.800866 | 1.178665e-48 | -8.615850e-47 |
| Msa0531020 | Msa1100130 | -0.805291 | 1.433313e-49 | -8.615850e-47 |
| Msa0531020 | Msa1168580 | 0.812985 | 3.218287e-51 | -8.615850e-47 |
| Msa0531020 | Msa1254730 | 0.816924 | 4.304109e-52 | -8.615850e-47 |
| Msa0531020 | Msa1305810 | 0.807871 | 4.090641e-50 | -8.615850e-47 |
| Msa0531020 | Msa1346840 | 0.803708 | 3.064805e-49 | -8.615850e-47 |
| Msa0531020 | Msa1368530 | 0.800468 | 1.420852e-48 | -8.615850e-47 |
| Msa0531020 | Msa1433390 | 0.806376 | 8.476648e-50 | -8.615850e-47 |
| Msa0531020 | Msa1437270 | 0.808527 | 2.964412e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531020 | MtrunA17_Chr3g0089751 | 49.057 | 53 | 25 | 1 | 32 | 82 | 1 | 53 | 1.31e-12 | 57.4 |
| Msa0531020 | MtrunA17_Chr4g0004031 | 78.125 | 32 | 7 | 0 | 48 | 79 | 1 | 32 | 2.53e-11 | 53.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGATGCTGCTTGCTTTAC+AGG | 0.073277 | 4_1:+5141231 | Msa0531020:CDS |
| TGCTTTACAGGTGGTTTATC+TGG | 0.203272 | 4_1:+5141243 | Msa0531020:CDS |
| TTATACAATATGATGTTAAT+AGG | 0.311578 | 4_1:+5141145 | Msa0531020:CDS |
| GAACAAAATGATTTATTTGT+TGG | 0.330787 | 4_1:-5141188 | None:intergenic |
| TGGTCAGAGAGAGCTGTTCT+AGG | 0.347152 | 4_1:-5141168 | None:intergenic |
| TACAGGTGGTTTATCTGGAT+GGG | 0.395118 | 4_1:+5141248 | Msa0531020:CDS |
| AAGGTAATATTAAATGCAAC+TGG | 0.412360 | 4_1:+5140600 | None:intergenic |
| GCGGAAGCACTTGGGTTAGA+TGG | 0.414835 | 4_1:+5141351 | Msa0531020:CDS |
| TTACAGGTGGTTTATCTGGA+TGG | 0.416352 | 4_1:+5141247 | Msa0531020:CDS |
| ATGGTTGTTTATAACCAATC+TGG | 0.418762 | 4_1:+5141273 | Msa0531020:CDS |
| CCAGTGTTGGCGGAAGCACT+TGG | 0.433243 | 4_1:+5141342 | Msa0531020:CDS |
| ACAGGTGGTTTATCTGGATG+GGG | 0.467915 | 4_1:+5141249 | Msa0531020:CDS |
| CAACACTGGATCAATTTCAA+TGG | 0.485295 | 4_1:-5141328 | None:intergenic |
| AAAATTGCACCACACCAGAT+TGG | 0.488889 | 4_1:-5141287 | None:intergenic |
| CCAAGTGCTTCCGCCAACAC+TGG | 0.527594 | 4_1:-5141342 | None:intergenic |
| TGAAATTGATCCAGTGTTGG+CGG | 0.576530 | 4_1:+5141332 | Msa0531020:CDS |
| CAGGTGGTTTATCTGGATGG+GGG | 0.578004 | 4_1:+5141250 | Msa0531020:CDS |
| CATTGAAATTGATCCAGTGT+TGG | 0.578009 | 4_1:+5141329 | Msa0531020:CDS |
| CAGTGTTGGCGGAAGCACTT+GGG | 0.592959 | 4_1:+5141343 | Msa0531020:CDS |
| GATGCTGCTTGCTTTACAGG+TGG | 0.593786 | 4_1:+5141234 | Msa0531020:CDS |
| TGTTTATAACCAATCTGGTG+TGG | 0.624829 | 4_1:+5141278 | Msa0531020:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACATCATGTTAAAAAAAAAA+AGG | - | chr4_1:5140960-5140979 | None:intergenic | 15.0% |
| !!! | TTCTATTTCATTAGTTTTTT+TGG | + | chr4_1:5141077-5141096 | Msa0531020:intron | 15.0% |
| !!! | TCTATTTCATTAGTTTTTTT+GGG | + | chr4_1:5141078-5141097 | Msa0531020:intron | 15.0% |
| !! | TTATACAATATGATGTTAAT+AGG | + | chr4_1:5141145-5141164 | Msa0531020:CDS | 15.0% |
| !! | ACATCATGTTAAAAAAAAAA+AGG | - | chr4_1:5140960-5140979 | None:intergenic | 15.0% |
| !!! | TTCTATTTCATTAGTTTTTT+TGG | + | chr4_1:5141077-5141096 | Msa0531020:intron | 15.0% |
| !!! | TCTATTTCATTAGTTTTTTT+GGG | + | chr4_1:5141078-5141097 | Msa0531020:intron | 15.0% |
| !! | TTATACAATATGATGTTAAT+AGG | + | chr4_1:5141145-5141164 | Msa0531020:CDS | 15.0% |
| !! | AGTTTATGAGAATGAATATT+TGG | + | chr4_1:5140650-5140669 | Msa0531020:intron | 20.0% |
| !! | CTAATTTATTTCATGTTATG+AGG | + | chr4_1:5140688-5140707 | Msa0531020:intron | 20.0% |
| !! | GAACAAAATGATTTATTTGT+TGG | - | chr4_1:5141191-5141210 | None:intergenic | 20.0% |
| !! | AGTTTATGAGAATGAATATT+TGG | + | chr4_1:5140650-5140669 | Msa0531020:intron | 20.0% |
| !! | CTAATTTATTTCATGTTATG+AGG | + | chr4_1:5140688-5140707 | Msa0531020:intron | 20.0% |
| !! | GAACAAAATGATTTATTTGT+TGG | - | chr4_1:5141191-5141210 | None:intergenic | 20.0% |
| ! | GTATATATAGCTAGAAAGAA+TGG | + | chr4_1:5140901-5140920 | Msa0531020:intron | 25.0% |
| ! | TTGACTAATTGCAATGTATA+AGG | - | chr4_1:5140990-5141009 | None:intergenic | 25.0% |
| ! | ATAGAAGAATCTTCAGTATA+AGG | - | chr4_1:5141063-5141082 | None:intergenic | 25.0% |
| ! | GTATATATAGCTAGAAAGAA+TGG | + | chr4_1:5140901-5140920 | Msa0531020:intron | 25.0% |
| ! | TTGACTAATTGCAATGTATA+AGG | - | chr4_1:5140990-5141009 | None:intergenic | 25.0% |
| ! | ATAGAAGAATCTTCAGTATA+AGG | - | chr4_1:5141063-5141082 | None:intergenic | 25.0% |
| GGATGCTATACTATTCAAAT+TGG | + | chr4_1:5140626-5140645 | Msa0531020:intron | 30.0% | |
| TATTTCATGTTATGAGGATG+AGG | + | chr4_1:5140694-5140713 | Msa0531020:intron | 30.0% | |
| GGATGAGGTTAATGAAATTA+TGG | + | chr4_1:5140709-5140728 | Msa0531020:intron | 30.0% | |
| TGAAATCTAGATGAAGTGAT+GGG | + | chr4_1:5140742-5140761 | Msa0531020:intron | 30.0% | |
| ACTGAACAAAGCTTAGATTT+AGG | + | chr4_1:5140793-5140812 | Msa0531020:intron | 30.0% | |
| ! | TTTGAACGTGCTAGAATTTT+AGG | + | chr4_1:5141012-5141031 | Msa0531020:intron | 30.0% |
| AAAGGTTCTTCTGTAGTTAA+AGG | + | chr4_1:5141036-5141055 | Msa0531020:intron | 30.0% | |
| TCATTGAAAAATAACTGTGC+AGG | + | chr4_1:5141119-5141138 | Msa0531020:intron | 30.0% | |
| ACAAAAAACAATTCAGCAGT+TGG | - | chr4_1:5141213-5141232 | None:intergenic | 30.0% | |
| ATGGTTGTTTATAACCAATC+TGG | + | chr4_1:5141273-5141292 | Msa0531020:CDS | 30.0% | |
| GGATGCTATACTATTCAAAT+TGG | + | chr4_1:5140626-5140645 | Msa0531020:intron | 30.0% | |
| TATTTCATGTTATGAGGATG+AGG | + | chr4_1:5140694-5140713 | Msa0531020:intron | 30.0% | |
| GGATGAGGTTAATGAAATTA+TGG | + | chr4_1:5140709-5140728 | Msa0531020:intron | 30.0% | |
| TGAAATCTAGATGAAGTGAT+GGG | + | chr4_1:5140742-5140761 | Msa0531020:intron | 30.0% | |
| ACTGAACAAAGCTTAGATTT+AGG | + | chr4_1:5140793-5140812 | Msa0531020:intron | 30.0% | |
| ! | TTTGAACGTGCTAGAATTTT+AGG | + | chr4_1:5141012-5141031 | Msa0531020:intron | 30.0% |
| AAAGGTTCTTCTGTAGTTAA+AGG | + | chr4_1:5141036-5141055 | Msa0531020:intron | 30.0% | |
| TCATTGAAAAATAACTGTGC+AGG | + | chr4_1:5141119-5141138 | Msa0531020:intron | 30.0% | |
| ACAAAAAACAATTCAGCAGT+TGG | - | chr4_1:5141213-5141232 | None:intergenic | 30.0% | |
| ATGGTTGTTTATAACCAATC+TGG | + | chr4_1:5141273-5141292 | Msa0531020:CDS | 30.0% | |
| CTGAAATCTAGATGAAGTGA+TGG | + | chr4_1:5140741-5140760 | Msa0531020:intron | 35.0% | |
| ! | GTTGGTAAGAGTTTCATCAT+TGG | + | chr4_1:5140852-5140871 | Msa0531020:intron | 35.0% |
| !! | GAGTTTCATCATTGGTTTCT+TGG | + | chr4_1:5140860-5140879 | Msa0531020:intron | 35.0% |
| CTAGAAAGAATGGACAAGTT+TGG | + | chr4_1:5140911-5140930 | Msa0531020:intron | 35.0% | |
| !! | CGTGCTAGAATTTTAGGTAA+AGG | + | chr4_1:5141018-5141037 | Msa0531020:intron | 35.0% |
| TGTTTATAACCAATCTGGTG+TGG | + | chr4_1:5141278-5141297 | Msa0531020:CDS | 35.0% | |
| CAACACTGGATCAATTTCAA+TGG | - | chr4_1:5141331-5141350 | None:intergenic | 35.0% | |
| CATTGAAATTGATCCAGTGT+TGG | + | chr4_1:5141329-5141348 | Msa0531020:CDS | 35.0% | |
| CTGAAATCTAGATGAAGTGA+TGG | + | chr4_1:5140741-5140760 | Msa0531020:intron | 35.0% | |
| ! | GTTGGTAAGAGTTTCATCAT+TGG | + | chr4_1:5140852-5140871 | Msa0531020:intron | 35.0% |
| !! | GAGTTTCATCATTGGTTTCT+TGG | + | chr4_1:5140860-5140879 | Msa0531020:intron | 35.0% |
| CTAGAAAGAATGGACAAGTT+TGG | + | chr4_1:5140911-5140930 | Msa0531020:intron | 35.0% | |
| !! | CGTGCTAGAATTTTAGGTAA+AGG | + | chr4_1:5141018-5141037 | Msa0531020:intron | 35.0% |
| TGTTTATAACCAATCTGGTG+TGG | + | chr4_1:5141278-5141297 | Msa0531020:CDS | 35.0% | |
| CAACACTGGATCAATTTCAA+TGG | - | chr4_1:5141331-5141350 | None:intergenic | 35.0% | |
| CATTGAAATTGATCCAGTGT+TGG | + | chr4_1:5141329-5141348 | Msa0531020:CDS | 35.0% | |
| GTACGCAATAATCTCGTAGT+TGG | + | chr4_1:5140834-5140853 | Msa0531020:intron | 40.0% | |
| TGCTTTACAGGTGGTTTATC+TGG | + | chr4_1:5141243-5141262 | Msa0531020:CDS | 40.0% | |
| TTACAGGTGGTTTATCTGGA+TGG | + | chr4_1:5141247-5141266 | Msa0531020:CDS | 40.0% | |
| TACAGGTGGTTTATCTGGAT+GGG | + | chr4_1:5141248-5141267 | Msa0531020:CDS | 40.0% | |
| AAAATTGCACCACACCAGAT+TGG | - | chr4_1:5141290-5141309 | None:intergenic | 40.0% | |
| ! | TGTGGTGCAATTTTCAGCTT+GGG | + | chr4_1:5141296-5141315 | Msa0531020:CDS | 40.0% |
| ! | TGAAATTGATCCAGTGTTGG+CGG | + | chr4_1:5141332-5141351 | Msa0531020:CDS | 40.0% |
| GTACGCAATAATCTCGTAGT+TGG | + | chr4_1:5140834-5140853 | Msa0531020:intron | 40.0% | |
| TGCTTTACAGGTGGTTTATC+TGG | + | chr4_1:5141243-5141262 | Msa0531020:CDS | 40.0% | |
| TTACAGGTGGTTTATCTGGA+TGG | + | chr4_1:5141247-5141266 | Msa0531020:CDS | 40.0% | |
| TACAGGTGGTTTATCTGGAT+GGG | + | chr4_1:5141248-5141267 | Msa0531020:CDS | 40.0% | |
| AAAATTGCACCACACCAGAT+TGG | - | chr4_1:5141290-5141309 | None:intergenic | 40.0% | |
| ! | TGTGGTGCAATTTTCAGCTT+GGG | + | chr4_1:5141296-5141315 | Msa0531020:CDS | 40.0% |
| ! | TGAAATTGATCCAGTGTTGG+CGG | + | chr4_1:5141332-5141351 | Msa0531020:CDS | 40.0% |
| ! | GTTGATGCTGCTTGCTTTAC+AGG | + | chr4_1:5141231-5141250 | Msa0531020:CDS | 45.0% |
| ACAGGTGGTTTATCTGGATG+GGG | + | chr4_1:5141249-5141268 | Msa0531020:CDS | 45.0% | |
| ! | GTGTGGTGCAATTTTCAGCT+TGG | + | chr4_1:5141295-5141314 | Msa0531020:CDS | 45.0% |
| ! | GTTGATGCTGCTTGCTTTAC+AGG | + | chr4_1:5141231-5141250 | Msa0531020:CDS | 45.0% |
| ACAGGTGGTTTATCTGGATG+GGG | + | chr4_1:5141249-5141268 | Msa0531020:CDS | 45.0% | |
| ! | GTGTGGTGCAATTTTCAGCT+TGG | + | chr4_1:5141295-5141314 | Msa0531020:CDS | 45.0% |
| TGGTCAGAGAGAGCTGTTCT+AGG | - | chr4_1:5141171-5141190 | None:intergenic | 50.0% | |
| ! | GATGCTGCTTGCTTTACAGG+TGG | + | chr4_1:5141234-5141253 | Msa0531020:CDS | 50.0% |
| CAGGTGGTTTATCTGGATGG+GGG | + | chr4_1:5141250-5141269 | Msa0531020:CDS | 50.0% | |
| TGGTTTATCTGGATGGGGGA+TGG | + | chr4_1:5141254-5141273 | Msa0531020:CDS | 50.0% | |
| TGGTCAGAGAGAGCTGTTCT+AGG | - | chr4_1:5141171-5141190 | None:intergenic | 50.0% | |
| ! | GATGCTGCTTGCTTTACAGG+TGG | + | chr4_1:5141234-5141253 | Msa0531020:CDS | 50.0% |
| CAGGTGGTTTATCTGGATGG+GGG | + | chr4_1:5141250-5141269 | Msa0531020:CDS | 50.0% | |
| TGGTTTATCTGGATGGGGGA+TGG | + | chr4_1:5141254-5141273 | Msa0531020:CDS | 50.0% | |
| !! | CAGTGTTGGCGGAAGCACTT+GGG | + | chr4_1:5141343-5141362 | Msa0531020:CDS | 55.0% |
| !! | GCGGAAGCACTTGGGTTAGA+TGG | + | chr4_1:5141351-5141370 | Msa0531020:CDS | 55.0% |
| !! | CAGTGTTGGCGGAAGCACTT+GGG | + | chr4_1:5141343-5141362 | Msa0531020:CDS | 55.0% |
| !! | GCGGAAGCACTTGGGTTAGA+TGG | + | chr4_1:5141351-5141370 | Msa0531020:CDS | 55.0% |
| CCAAGTGCTTCCGCCAACAC+TGG | - | chr4_1:5141345-5141364 | None:intergenic | 60.0% | |
| !! | CCAGTGTTGGCGGAAGCACT+TGG | + | chr4_1:5141342-5141361 | Msa0531020:CDS | 60.0% |
| CCAAGTGCTTCCGCCAACAC+TGG | - | chr4_1:5141345-5141364 | None:intergenic | 60.0% | |
| !! | CCAGTGTTGGCGGAAGCACT+TGG | + | chr4_1:5141342-5141361 | Msa0531020:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 5140613 | 5141398 | 5140613 | ID=Msa0531020;Name=Msa0531020 |
| chr4_1 | mRNA | 5140613 | 5141398 | 5140613 | ID=Msa0531020-mRNA-1;Parent=Msa0531020;Name=Msa0531020-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|0.5|1|1|2|0|88 |
| chr4_1 | exon | 5140613 | 5140621 | 5140613 | ID=Msa0531020-mRNA-1:exon:1548;Parent=Msa0531020-mRNA-1 |
| chr4_1 | exon | 5141141 | 5141398 | 5141141 | ID=Msa0531020-mRNA-1:exon:1549;Parent=Msa0531020-mRNA-1 |
| chr4_1 | CDS | 5140613 | 5140621 | 5140613 | ID=Msa0531020-mRNA-1:cds;Parent=Msa0531020-mRNA-1 |
| chr4_1 | CDS | 5141141 | 5141398 | 5141141 | ID=Msa0531020-mRNA-1:cds;Parent=Msa0531020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
