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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1353540 | XP_003623785.2 | 97.386 | 153 | 4 | 0 | 1 | 153 | 1566 | 1718 | 5.90e-93 | 306 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1353540 | sp|F4IG73|BCHC2_ARATH | 73.292 | 161 | 32 | 1 | 3 | 152 | 1626 | 1786 | 3.12e-74 | 244 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1353540 | G7L1D4 | 97.386 | 153 | 4 | 0 | 1 | 153 | 1566 | 1718 | 2.82e-93 | 306 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0089980 | Msa1353540 | 0.820539 | 6.501039e-53 | -8.615850e-47 |
| Msa0090010 | Msa1353540 | 0.817237 | 3.659711e-52 | -8.615850e-47 |
| Msa0091780 | Msa1353540 | 0.822371 | 2.455315e-53 | -8.615850e-47 |
| Msa1353540 | Msa1403710 | 0.815460 | 9.142505e-52 | -8.615850e-47 |
| Msa1353540 | Msa1435260 | 0.809604 | 1.743337e-50 | -8.615850e-47 |
| Msa1353540 | Msa1467000 | 0.801542 | 8.573258e-49 | -8.615850e-47 |
| Msa0615030 | Msa1353540 | 0.826804 | 2.218613e-54 | -8.615850e-47 |
| Msa0379610 | Msa1353540 | 0.810544 | 1.093599e-50 | -8.615850e-47 |
| Msa1065430 | Msa1353540 | 0.848045 | 7.872404e-60 | -8.615850e-47 |
| Msa0302890 | Msa1353540 | 0.819123 | 1.370211e-52 | -8.615850e-47 |
| Msa0358400 | Msa1353540 | 0.808770 | 2.630223e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1353540 | MtrunA17_Chr7g0246241 | 97.386 | 153 | 4 | 0 | 1 | 153 | 1566 | 1718 | 5.43e-97 | 306 |
| Msa1353540 | MtrunA17_Chr8g0351361 | 76.667 | 150 | 34 | 1 | 3 | 152 | 326 | 474 | 2.37e-74 | 239 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1353540 | AT2G45540.1 | 73.292 | 161 | 32 | 1 | 3 | 152 | 1571 | 1731 | 3.05e-75 | 244 |
| Msa1353540 | AT2G45540.3 | 73.292 | 161 | 32 | 1 | 3 | 152 | 1571 | 1731 | 3.05e-75 | 244 |
| Msa1353540 | AT2G45540.6 | 73.292 | 161 | 32 | 1 | 3 | 152 | 1571 | 1731 | 3.05e-75 | 244 |
| Msa1353540 | AT2G45540.5 | 73.292 | 161 | 32 | 1 | 3 | 152 | 1571 | 1731 | 3.05e-75 | 244 |
| Msa1353540 | AT2G45540.4 | 73.292 | 161 | 32 | 1 | 3 | 152 | 1571 | 1731 | 3.05e-75 | 244 |
| Msa1353540 | AT2G45540.2 | 73.292 | 161 | 32 | 1 | 3 | 152 | 1626 | 1786 | 3.17e-75 | 244 |
| Msa1353540 | AT3G60920.1 | 70.060 | 167 | 31 | 1 | 5 | 152 | 1149 | 1315 | 1.34e-72 | 236 |
| Msa1353540 | AT3G60920.2 | 70.060 | 167 | 31 | 1 | 5 | 152 | 1200 | 1366 | 1.40e-72 | 236 |
Find 38 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCCTCTTAGAATCTGAAAT+TGG | 0.254997 | tig0013664:+1657 | Msa1353540:intergenic |
| AAGGAGGTGGCGCCCGCTTT+TGG | 0.284707 | tig0013664:-1418 | Msa1353540:CDS |
| CACCATTTGTTGCTGTCTTA+AGG | 0.289224 | tig0013664:-1437 | Msa1353540:CDS |
| ACTGTTTGCGAAGAGGCTTT+TGG | 0.393881 | tig0013664:+1478 | Msa1353540:intergenic |
| ATTCTTATGCATGCTTAGAA+TGG | 0.431918 | tig0013664:-1985 | Msa1353540:CDS |
| GGACAGCAAAGCACCTCAAT+TGG | 0.447591 | tig0013664:+1315 | Msa1353540:intergenic |
| TGCCAATTTCAGATTCTAAG+AGG | 0.458884 | tig0013664:-1659 | Msa1353540:CDS |
| TTCTAAGAGGCAAAGAGTCT+TGG | 0.469652 | tig0013664:-1646 | Msa1353540:CDS |
| AGCAAAGCACCTCAATTGGC+AGG | 0.472794 | tig0013664:+1319 | None:intergenic |
| CAGGCACCGGAATGGGAGGA+TGG | 0.486818 | tig0013664:-2042 | None:intergenic |
| CATGAACTTGCTACTGGTGA+TGG | 0.487127 | tig0013664:-1387 | Msa1353540:CDS |
| TGCTGATTCCCTGCCAATTG+AGG | 0.503151 | tig0013664:-1328 | Msa1353540:CDS |
| TTGTTGCTGTCTTAAGGAGG+TGG | 0.507642 | tig0013664:-1431 | Msa1353540:CDS |
| CTCCTTAAGACAGCAACAAA+TGG | 0.509817 | tig0013664:+1435 | Msa1353540:intergenic |
| ATTCTAAGCATGCATAAGAA+TGG | 0.514481 | tig0013664:+1987 | Msa1353540:intergenic |
| AGCATTCATGAACTTGCTAC+TGG | 0.533239 | tig0013664:-1393 | Msa1353540:CDS |
| GAAATTGGCATGTTGAGTAC+AGG | 0.535624 | tig0013664:+1672 | Msa1353540:intergenic |
| TCGATGAGGGAAGACGATAA+TGG | 0.536210 | tig0013664:-1954 | Msa1353540:CDS |
| GTTGGTCACTGTCTAATAGC+TGG | 0.542487 | tig0013664:+2009 | Msa1353540:intergenic |
| CATTTGTTGCTGTCTTAAGG+AGG | 0.548456 | tig0013664:-1434 | Msa1353540:CDS |
| CATGAATGCTAGCCAAAAGC+GGG | 0.548954 | tig0013664:+1406 | Msa1353540:intergenic |
| GCACGGTCGTCGGCAACAAG+AGG | 0.556687 | tig0013664:+1357 | Msa1353540:intergenic |
| TAAGCATGCATAAGAATGGT+TGG | 0.559131 | tig0013664:+1991 | Msa1353540:intergenic |
| AGCAGCTAATGCACGGTCGT+CGG | 0.561699 | tig0013664:+1347 | Msa1353540:intergenic |
| AATGGTTCTTCTATCGATGA+GGG | 0.577968 | tig0013664:-1967 | Msa1353540:CDS |
| ATTGACGATGTGGCTTCTGA+AGG | 0.579916 | tig0013664:-1900 | Msa1353540:CDS |
| GAATGGTTCTTCTATCGATG+AGG | 0.600431 | tig0013664:-1968 | Msa1353540:CDS |
| TCAAGGTACTGTTTGCGAAG+AGG | 0.606067 | tig0013664:+1471 | Msa1353540:intergenic |
| CTTAAGACAGCAACAAATGG+TGG | 0.611466 | tig0013664:+1438 | Msa1353540:intergenic |
| ATCTTGCGTGCTATATGCTG+AGG | 0.618437 | tig0013664:-1619 | Msa1353540:intron |
| AAATTCAAGTATTGACGATG+TGG | 0.622163 | tig0013664:-1910 | Msa1353540:CDS |
| TTTGGTCTCTGCTAACAGCA+TGG | 0.624614 | tig0013664:+1496 | Msa1353540:intergenic |
| GGGAATCAGCAGCTAATGCA+CGG | 0.628490 | tig0013664:+1340 | Msa1353540:intergenic |
| GCAAAGCACCTCAATTGGCA+GGG | 0.644127 | tig0013664:+1320 | Msa1353540:intergenic |
| TCATGAATGCTAGCCAAAAG+CGG | 0.647053 | tig0013664:+1405 | Msa1353540:intergenic |
| CTCCATAAAAGAGCTGATCG+CGG | 0.667201 | tig0013664:+1870 | Msa1353540:intergenic |
| ATGGTGGTAATATAGCCTCA+AGG | 0.668051 | tig0013664:+1454 | Msa1353540:intergenic |
| TCTTCGCAAACAGTACCTTG+AGG | 0.729120 | tig0013664:-1469 | Msa1353540:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAGATAATGAAAATAAAATA+TGG | + | tig0013664:1596-1615 | Msa1353540:intergenic | 15.0% |
| !! | GTTAATGAAATTTATCTGTT+AGG | + | tig0013664:1549-1568 | Msa1353540:intergenic | 20.0% |
| ! | TTATGCAATTAACATGCTAT+AGG | + | tig0013664:1571-1590 | Msa1353540:intergenic | 25.0% |
| !!! | TCATTATCTGATGTTTTTGA+TGG | - | tig0013664:1606-1625 | Msa1353540:intron | 25.0% |
| !!! | CATTATCTGATGTTTTTGAT+GGG | - | tig0013664:1607-1626 | Msa1353540:intron | 25.0% |
| ATTCTAAGCATGCATAAGAA+TGG | + | tig0013664:1368-1387 | Msa1352420:intergenic | 30.0% | |
| ATTCTTATGCATGCTTAGAA+TGG | - | tig0013664:1367-1386 | Msa1353540:CDS | 30.0% | |
| !! | AAATTCAAGTATTGACGATG+TGG | - | tig0013664:1442-1461 | Msa1353540:CDS | 30.0% |
| TAAGCATGCATAAGAATGGT+TGG | + | tig0013664:1364-1383 | Msa1352420:intergenic | 35.0% | |
| AATGGTTCTTCTATCGATGA+GGG | - | tig0013664:1385-1404 | Msa1353540:CDS | 35.0% | |
| ! | ACGCGCAATTTTAGATTGAA+GGG | + | tig0013664:1518-1537 | Msa1353540:intergenic | 35.0% |
| TGCCAATTTCAGATTCTAAG+AGG | - | tig0013664:1693-1712 | Msa1353540:intron | 35.0% | |
| ! | TGCCTCTTAGAATCTGAAAT+TGG | + | tig0013664:1698-1717 | Msa1353540:intergenic | 35.0% |
| CCTGACAAAGAGTAGTATTA+TGG | + | tig0013664:1832-1851 | Msa1353540:intergenic | 35.0% | |
| CCATAATACTACTCTTTGTC+AGG | - | tig0013664:1829-1848 | Msa1353540:intron | 35.0% | |
| GAATGGTTCTTCTATCGATG+AGG | - | tig0013664:1384-1403 | Msa1353540:CDS | 40.0% | |
| ! | CACGCGCAATTTTAGATTGA+AGG | + | tig0013664:1519-1538 | Msa1353540:intergenic | 40.0% |
| GAAATTGGCATGTTGAGTAC+AGG | + | tig0013664:1683-1702 | Msa1353540:intergenic | 40.0% | |
| ! | TTCTAAGAGGCAAAGAGTCT+TGG | - | tig0013664:1706-1725 | Msa1353540:intron | 40.0% |
| ATGGTGGTAATATAGCCTCA+AGG | + | tig0013664:1901-1920 | Msa1353540:intergenic | 40.0% | |
| CTTAAGACAGCAACAAATGG+TGG | + | tig0013664:1917-1936 | Msa1353540:intergenic | 40.0% | |
| ! | CACCATTTGTTGCTGTCTTA+AGG | - | tig0013664:1915-1934 | Msa1353540:CDS | 40.0% |
| CTCCTTAAGACAGCAACAAA+TGG | + | tig0013664:1920-1939 | Msa1353540:intergenic | 40.0% | |
| ! | CATTTGTTGCTGTCTTAAGG+AGG | - | tig0013664:1918-1937 | Msa1353540:CDS | 40.0% |
| TCATGAATGCTAGCCAAAAG+CGG | + | tig0013664:1950-1969 | Msa1353540:intergenic | 40.0% | |
| !! | AGCATTCATGAACTTGCTAC+TGG | - | tig0013664:1959-1978 | Msa1353540:CDS | 40.0% |
| GTTGGTCACTGTCTAATAGC+TGG | + | tig0013664:1346-1365 | Msa1352420:intergenic | 45.0% | |
| TCGATGAGGGAAGACGATAA+TGG | - | tig0013664:1398-1417 | Msa1353540:CDS | 45.0% | |
| ATTGACGATGTGGCTTCTGA+AGG | - | tig0013664:1452-1471 | Msa1353540:CDS | 45.0% | |
| ! | AACCGCGATCAGCTCTTTTA+TGG | - | tig0013664:1480-1499 | Msa1353540:CDS | 45.0% |
| CTCCATAAAAGAGCTGATCG+CGG | + | tig0013664:1485-1504 | Msa1353540:intergenic | 45.0% | |
| ATCTTGCGTGCTATATGCTG+AGG | - | tig0013664:1733-1752 | Msa1353540:intron | 45.0% | |
| TTTGGTCTCTGCTAACAGCA+TGG | + | tig0013664:1859-1878 | Msa1353540:intergenic | 45.0% | |
| ! | ACTGTTTGCGAAGAGGCTTT+TGG | + | tig0013664:1877-1896 | Msa1353540:intergenic | 45.0% |
| !! | TCAAGGTACTGTTTGCGAAG+AGG | + | tig0013664:1884-1903 | Msa1353540:intergenic | 45.0% |
| TCTTCGCAAACAGTACCTTG+AGG | - | tig0013664:1883-1902 | Msa1353540:CDS | 45.0% | |
| TTGTTGCTGTCTTAAGGAGG+TGG | - | tig0013664:1921-1940 | Msa1353540:CDS | 45.0% | |
| CATGAATGCTAGCCAAAAGC+GGG | + | tig0013664:1949-1968 | Msa1353540:intergenic | 45.0% | |
| !! | CATGAACTTGCTACTGGTGA+TGG | - | tig0013664:1965-1984 | Msa1353540:CDS | 45.0% |
| ! | CGCGATCAGCTCTTTTATGG+AGG | - | tig0013664:1483-1502 | Msa1353540:CDS | 50.0% |
| GGGAATCAGCAGCTAATGCA+CGG | + | tig0013664:2015-2034 | Msa1353540:intergenic | 50.0% | |
| !! | TGCTGATTCCCTGCCAATTG+AGG | - | tig0013664:2024-2043 | Msa1353540:CDS | 50.0% |
| AGCAGCTAATGCACGGTCGT+CGG | + | tig0013664:2008-2027 | Msa1353540:intergenic | 55.0% | |
| ! | AAGGAGGTGGCGCCCGCTTT+TGG | - | tig0013664:1934-1953 | Msa1353540:CDS | 65.0% |
| GCACGGTCGTCGGCAACAAG+AGG | + | tig0013664:1998-2017 | Msa1353540:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0013664 | gene | 1323 | 2051 | 1323 | ID=Msa1353540;Name=Msa1353540 |
| tig0013664 | mRNA | 1323 | 2051 | 1323 | ID=Msa1353540-mRNA-1;Parent=Msa1353540;Name=Msa1353540-mRNA-1;_AED=0.00;_eAED=0.00;_QI=6|1|0.66|1|1|1|3|0|154 |
| tig0013664 | exon | 1323 | 1523 | 1323 | ID=Msa1353540-mRNA-1:exon:8724;Parent=Msa1353540-mRNA-1 |
| tig0013664 | exon | 1620 | 1704 | 1620 | ID=Msa1353540-mRNA-1:exon:8723;Parent=Msa1353540-mRNA-1 |
| tig0013664 | exon | 1870 | 2051 | 1870 | ID=Msa1353540-mRNA-1:exon:8722;Parent=Msa1353540-mRNA-1 |
| tig0013664 | five_prime_UTR | 2046 | 2051 | 2046 | ID=Msa1353540-mRNA-1:five_prime_utr;Parent=Msa1353540-mRNA-1 |
| tig0013664 | CDS | 1870 | 2045 | 1870 | ID=Msa1353540-mRNA-1:cds;Parent=Msa1353540-mRNA-1 |
| tig0013664 | CDS | 1620 | 1704 | 1620 | ID=Msa1353540-mRNA-1:cds;Parent=Msa1353540-mRNA-1 |
| tig0013664 | CDS | 1323 | 1523 | 1323 | ID=Msa1353540-mRNA-1:cds;Parent=Msa1353540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
