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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0574180 | AET05259.1 | 68.841 | 138 | 28 | 2 | 1 | 125 | 1 | 136 | 4.37e-53 | 174 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0574180 | G7L891 | 68.841 | 138 | 28 | 2 | 1 | 125 | 1 | 136 | 2.09e-53 | 174 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0574180 | Msa1171870 | 0.801415 | 9.103741e-49 | -8.615850e-47 |
| Msa0574180 | Msa1306430 | 0.800413 | 1.458028e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0574180 | MtrunA17_Chr3g0087691 | 37.143 | 70 | 44 | 0 | 1 | 70 | 200 | 269 | 6.29e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 120 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAAAGTGCGTAATTTAATA+TGG | 0.282373 | 4_1:+77545609 | Msa0574180:CDS |
| CGGGAGATTGGGGCAGTTTG+TGG | 0.311118 | 4_1:+77545570 | Msa0574180:CDS |
| CTTTAGATCGTGCACTGTTC+CGG | 0.318558 | 4_1:-77546062 | None:intergenic |
| GTGTCTTACGCCGGGAGATT+GGG | 0.325199 | 4_1:+77545559 | Msa0574180:CDS |
| TGTTCTGTCCACTAATGTTC+CGG | 0.368591 | 4_1:-77546115 | None:intergenic |
| GGTGTCTTACGCCGGGAGAT+TGG | 0.369480 | 4_1:+77545558 | Msa0574180:CDS |
| GGGCAGAATCAAACATGTTT+CGG | 0.393461 | 4_1:+77546176 | Msa0574180:CDS |
| GGGAGATTGGGGCAGTTTGT+GGG | 0.396607 | 4_1:+77545571 | Msa0574180:CDS |
| ATTTAATATGGAGAATTTGT+AGG | 0.404420 | 4_1:+77545621 | Msa0574180:CDS |
| AACTATTATGGATATTCCTC+TGG | 0.407253 | 4_1:+77545427 | None:intergenic |
| GGTTTGTACACTGTGCATTC+CGG | 0.416558 | 4_1:+77545497 | Msa0574180:CDS |
| TCGCATAATAAATCTATAAC+CGG | 0.426836 | 4_1:-77545516 | None:intergenic |
| ACCAACCTGATGCTTTCATA+TGG | 0.443089 | 4_1:+77545459 | Msa0574180:CDS |
| AGCAGAAGCCGGAACATTAG+TGG | 0.475752 | 4_1:+77546107 | Msa0574180:CDS |
| TCATTCCATATGAAAGCATC+AGG | 0.478628 | 4_1:-77545464 | None:intergenic |
| CACAAACTGCCCCAATCTCC+CGG | 0.486888 | 4_1:-77545569 | None:intergenic |
| AACAAAACAACAGCAGAAGC+CGG | 0.495870 | 4_1:+77546096 | Msa0574180:CDS |
| TATTATGCGAGGGTCTTTGA+AGG | 0.516650 | 4_1:+77545529 | Msa0574180:CDS |
| AACATGTTTGATTCTGCCCA+TGG | 0.520894 | 4_1:-77546172 | None:intergenic |
| GGAAGAGAGGTGTCTTACGC+CGG | 0.527460 | 4_1:+77545550 | Msa0574180:CDS |
| TGTCTTACGCCGGGAGATTG+GGG | 0.530422 | 4_1:+77545560 | Msa0574180:CDS |
| TTGTTCGAGCATTGATAGAG+TGG | 0.537743 | 4_1:+77546227 | Msa0574180:CDS |
| GAAGAGAGGTGTCTTACGCC+GGG | 0.542501 | 4_1:+77545551 | Msa0574180:CDS |
| GGAGATTGGGGCAGTTTGTG+GGG | 0.548025 | 4_1:+77545572 | Msa0574180:CDS |
| TCCATATGAAAGCATCAGGT+TGG | 0.570691 | 4_1:-77545460 | None:intergenic |
| GTTATAGATTTATTATGCGA+GGG | 0.575166 | 4_1:+77545519 | Msa0574180:CDS |
| TGATGCTTTCATATGGAATG+AGG | 0.590087 | 4_1:+77545466 | Msa0574180:CDS |
| CTTTCATATGGAATGAGGAG+TGG | 0.601032 | 4_1:+77545471 | Msa0574180:CDS |
| ATATGGAATGAGGAGTGGAA+CGG | 0.603991 | 4_1:+77545476 | Msa0574180:CDS |
| GGTTATAGATTTATTATGCG+AGG | 0.612842 | 4_1:+77545518 | Msa0574180:CDS |
| GGTTGGTCATCTATAACCAG+AGG | 0.668757 | 4_1:-77545443 | None:intergenic |
| GAGGGTCTTTGAAGGAAGAG+AGG | 0.673662 | 4_1:+77545537 | Msa0574180:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTAATATGGAGAATTTGT+AGG | + | chr4_1:77545621-77545640 | Msa0574180:CDS | 20.0% |
| !!! | TTAATCTCGTTTTAATTAAG+TGG | + | chr4_1:77545811-77545830 | Msa0574180:intron | 20.0% |
| !!! | TAATCTCGTTTTAATTAAGT+GGG | + | chr4_1:77545812-77545831 | Msa0574180:intron | 20.0% |
| !! | ATAATAGAAATGATTGGATT+TGG | + | chr4_1:77545915-77545934 | Msa0574180:intron | 20.0% |
| !! | ATTTAATATGGAGAATTTGT+AGG | + | chr4_1:77545621-77545640 | Msa0574180:CDS | 20.0% |
| !!! | TTAATCTCGTTTTAATTAAG+TGG | + | chr4_1:77545811-77545830 | Msa0574180:intron | 20.0% |
| !!! | TAATCTCGTTTTAATTAAGT+GGG | + | chr4_1:77545812-77545831 | Msa0574180:intron | 20.0% |
| !! | ATAATAGAAATGATTGGATT+TGG | + | chr4_1:77545915-77545934 | Msa0574180:intron | 20.0% |
| ! | TCGCATAATAAATCTATAAC+CGG | - | chr4_1:77545519-77545538 | None:intergenic | 25.0% |
| ! | GTTATAGATTTATTATGCGA+GGG | + | chr4_1:77545519-77545538 | Msa0574180:CDS | 25.0% |
| ! | CTAAAGTGCGTAATTTAATA+TGG | + | chr4_1:77545609-77545628 | Msa0574180:CDS | 25.0% |
| !! | ATTAGTATTGAATGTTAGAC+TGG | + | chr4_1:77545758-77545777 | Msa0574180:intron | 25.0% |
| ! | TTTGGCATAATAGAAATGAT+TGG | + | chr4_1:77545909-77545928 | Msa0574180:intron | 25.0% |
| ! | TCGCATAATAAATCTATAAC+CGG | - | chr4_1:77545519-77545538 | None:intergenic | 25.0% |
| ! | GTTATAGATTTATTATGCGA+GGG | + | chr4_1:77545519-77545538 | Msa0574180:CDS | 25.0% |
| ! | CTAAAGTGCGTAATTTAATA+TGG | + | chr4_1:77545609-77545628 | Msa0574180:CDS | 25.0% |
| !! | ATTAGTATTGAATGTTAGAC+TGG | + | chr4_1:77545758-77545777 | Msa0574180:intron | 25.0% |
| ! | TTTGGCATAATAGAAATGAT+TGG | + | chr4_1:77545909-77545928 | Msa0574180:intron | 25.0% |
| GGTTATAGATTTATTATGCG+AGG | + | chr4_1:77545518-77545537 | Msa0574180:CDS | 30.0% | |
| !!! | ATTGACACAAGTTTTTTCCA+TGG | + | chr4_1:77546155-77546174 | Msa0574180:CDS | 30.0% |
| !!! | TTGACACAAGTTTTTTCCAT+GGG | + | chr4_1:77546156-77546175 | Msa0574180:CDS | 30.0% |
| GGTTATAGATTTATTATGCG+AGG | + | chr4_1:77545518-77545537 | Msa0574180:CDS | 30.0% | |
| !!! | ATTGACACAAGTTTTTTCCA+TGG | + | chr4_1:77546155-77546174 | Msa0574180:CDS | 30.0% |
| !!! | TTGACACAAGTTTTTTCCAT+GGG | + | chr4_1:77546156-77546175 | Msa0574180:CDS | 30.0% |
| !! | TCATTCCATATGAAAGCATC+AGG | - | chr4_1:77545467-77545486 | None:intergenic | 35.0% |
| TGATGCTTTCATATGGAATG+AGG | + | chr4_1:77545466-77545485 | Msa0574180:CDS | 35.0% | |
| !!! | TCTCGTTTTAATTAAGTGGG+AGG | + | chr4_1:77545815-77545834 | Msa0574180:intron | 35.0% |
| !!! | CTCGTTTTAATTAAGTGGGA+GGG | + | chr4_1:77545816-77545835 | Msa0574180:intron | 35.0% |
| !!! | TCGTTTTAATTAAGTGGGAG+GGG | + | chr4_1:77545817-77545836 | Msa0574180:intron | 35.0% |
| TGTTAGTAGATTCTTGACGA+TGG | + | chr4_1:77545877-77545896 | Msa0574180:intron | 35.0% | |
| ! | GATTGCCAATTGATCTTTTG+CGG | - | chr4_1:77545943-77545962 | None:intergenic | 35.0% |
| !! | TCATTCCATATGAAAGCATC+AGG | - | chr4_1:77545467-77545486 | None:intergenic | 35.0% |
| TGATGCTTTCATATGGAATG+AGG | + | chr4_1:77545466-77545485 | Msa0574180:CDS | 35.0% | |
| !!! | TCTCGTTTTAATTAAGTGGG+AGG | + | chr4_1:77545815-77545834 | Msa0574180:intron | 35.0% |
| !!! | CTCGTTTTAATTAAGTGGGA+GGG | + | chr4_1:77545816-77545835 | Msa0574180:intron | 35.0% |
| !!! | TCGTTTTAATTAAGTGGGAG+GGG | + | chr4_1:77545817-77545836 | Msa0574180:intron | 35.0% |
| TGTTAGTAGATTCTTGACGA+TGG | + | chr4_1:77545877-77545896 | Msa0574180:intron | 35.0% | |
| ! | GATTGCCAATTGATCTTTTG+CGG | - | chr4_1:77545943-77545962 | None:intergenic | 35.0% |
| ACCAACCTGATGCTTTCATA+TGG | + | chr4_1:77545459-77545478 | Msa0574180:CDS | 40.0% | |
| !! | TCCATATGAAAGCATCAGGT+TGG | - | chr4_1:77545463-77545482 | None:intergenic | 40.0% |
| CTTTCATATGGAATGAGGAG+TGG | + | chr4_1:77545471-77545490 | Msa0574180:CDS | 40.0% | |
| ATATGGAATGAGGAGTGGAA+CGG | + | chr4_1:77545476-77545495 | Msa0574180:CDS | 40.0% | |
| TATTATGCGAGGGTCTTTGA+AGG | + | chr4_1:77545529-77545548 | Msa0574180:CDS | 40.0% | |
| CACATAATCCACAGTTTGTC+AGG | - | chr4_1:77545694-77545713 | None:intergenic | 40.0% | |
| TGGAACCGCAAAAGATCAAT+TGG | + | chr4_1:77545935-77545954 | Msa0574180:intron | 40.0% | |
| TGGCAATCAAATTCTGTGTC+TGG | + | chr4_1:77545955-77545974 | Msa0574180:intron | 40.0% | |
| TAAGTTTAGTGCAGTCTGAC+TGG | + | chr4_1:77545978-77545997 | Msa0574180:intron | 40.0% | |
| AACAAAACAACAGCAGAAGC+CGG | + | chr4_1:77546096-77546115 | Msa0574180:CDS | 40.0% | |
| TGTTCTGTCCACTAATGTTC+CGG | - | chr4_1:77546118-77546137 | None:intergenic | 40.0% | |
| AACATGTTTGATTCTGCCCA+TGG | - | chr4_1:77546175-77546194 | None:intergenic | 40.0% | |
| GGGCAGAATCAAACATGTTT+CGG | + | chr4_1:77546176-77546195 | Msa0574180:CDS | 40.0% | |
| ACCAACCTGATGCTTTCATA+TGG | + | chr4_1:77545459-77545478 | Msa0574180:CDS | 40.0% | |
| !! | TCCATATGAAAGCATCAGGT+TGG | - | chr4_1:77545463-77545482 | None:intergenic | 40.0% |
| CTTTCATATGGAATGAGGAG+TGG | + | chr4_1:77545471-77545490 | Msa0574180:CDS | 40.0% | |
| ATATGGAATGAGGAGTGGAA+CGG | + | chr4_1:77545476-77545495 | Msa0574180:CDS | 40.0% | |
| TATTATGCGAGGGTCTTTGA+AGG | + | chr4_1:77545529-77545548 | Msa0574180:CDS | 40.0% | |
| CACATAATCCACAGTTTGTC+AGG | - | chr4_1:77545694-77545713 | None:intergenic | 40.0% | |
| TGGAACCGCAAAAGATCAAT+TGG | + | chr4_1:77545935-77545954 | Msa0574180:intron | 40.0% | |
| TGGCAATCAAATTCTGTGTC+TGG | + | chr4_1:77545955-77545974 | Msa0574180:intron | 40.0% | |
| TAAGTTTAGTGCAGTCTGAC+TGG | + | chr4_1:77545978-77545997 | Msa0574180:intron | 40.0% | |
| AACAAAACAACAGCAGAAGC+CGG | + | chr4_1:77546096-77546115 | Msa0574180:CDS | 40.0% | |
| TGTTCTGTCCACTAATGTTC+CGG | - | chr4_1:77546118-77546137 | None:intergenic | 40.0% | |
| AACATGTTTGATTCTGCCCA+TGG | - | chr4_1:77546175-77546194 | None:intergenic | 40.0% | |
| GGGCAGAATCAAACATGTTT+CGG | + | chr4_1:77546176-77546195 | Msa0574180:CDS | 40.0% | |
| ! | GGTTGGTCATCTATAACCAG+AGG | - | chr4_1:77545446-77545465 | None:intergenic | 45.0% |
| GGTTTGTACACTGTGCATTC+CGG | + | chr4_1:77545497-77545516 | Msa0574180:CDS | 45.0% | |
| ACCAACACGAGACAAACTTC+AGG | + | chr4_1:77545652-77545671 | Msa0574180:intron | 45.0% | |
| TCCTGAAGTTTGTCTCGTGT+TGG | - | chr4_1:77545656-77545675 | None:intergenic | 45.0% | |
| AATCCACAGTTTGTCAGGCA+AGG | - | chr4_1:77545689-77545708 | None:intergenic | 45.0% | |
| TGGTGCAAGACTGCTTTCAA+TGG | + | chr4_1:77545778-77545797 | Msa0574180:intron | 45.0% | |
| TGTCTGTGTGCGTGAATCTA+AGG | + | chr4_1:77545850-77545869 | Msa0574180:intron | 45.0% | |
| ACCAAAACAACAGCAGAAGC+CGG | + | chr4_1:77546043-77546062 | Msa0574180:intron | 45.0% | |
| CTTTAGATCGTGCACTGTTC+CGG | - | chr4_1:77546065-77546084 | None:intergenic | 45.0% | |
| ! | GGTTGGTCATCTATAACCAG+AGG | - | chr4_1:77545446-77545465 | None:intergenic | 45.0% |
| GGTTTGTACACTGTGCATTC+CGG | + | chr4_1:77545497-77545516 | Msa0574180:CDS | 45.0% | |
| ACCAACACGAGACAAACTTC+AGG | + | chr4_1:77545652-77545671 | Msa0574180:intron | 45.0% | |
| TCCTGAAGTTTGTCTCGTGT+TGG | - | chr4_1:77545656-77545675 | None:intergenic | 45.0% | |
| AATCCACAGTTTGTCAGGCA+AGG | - | chr4_1:77545689-77545708 | None:intergenic | 45.0% | |
| TGGTGCAAGACTGCTTTCAA+TGG | + | chr4_1:77545778-77545797 | Msa0574180:intron | 45.0% | |
| TGTCTGTGTGCGTGAATCTA+AGG | + | chr4_1:77545850-77545869 | Msa0574180:intron | 45.0% | |
| ACCAAAACAACAGCAGAAGC+CGG | + | chr4_1:77546043-77546062 | Msa0574180:intron | 45.0% | |
| CTTTAGATCGTGCACTGTTC+CGG | - | chr4_1:77546065-77546084 | None:intergenic | 45.0% | |
| ! | GAGGGTCTTTGAAGGAAGAG+AGG | + | chr4_1:77545537-77545556 | Msa0574180:CDS | 50.0% |
| GTTCCTTGCCTGACAAACTG+TGG | + | chr4_1:77545683-77545702 | Msa0574180:intron | 50.0% | |
| TTAAGTGGGAGGGGTTCTGT+TGG | + | chr4_1:77545826-77545845 | Msa0574180:intron | 50.0% | |
| AGATTCTTGACGATGGTGCG+AGG | + | chr4_1:77545884-77545903 | Msa0574180:intron | 50.0% | |
| GATTCTTGACGATGGTGCGA+GGG | + | chr4_1:77545885-77545904 | Msa0574180:intron | 50.0% | |
| TTTAGTGCAGTCTGACTGGC+AGG | + | chr4_1:77545982-77546001 | Msa0574180:intron | 50.0% | |
| TTAGTGCAGTCTGACTGGCA+GGG | + | chr4_1:77545983-77546002 | Msa0574180:intron | 50.0% | |
| !! | TCCGGCTTCTGCTGTTGTTT+TGG | - | chr4_1:77546047-77546066 | None:intergenic | 50.0% |
| AGCAGAAGCCGGAACATTAG+TGG | + | chr4_1:77546107-77546126 | Msa0574180:CDS | 50.0% | |
| ! | GAGGGTCTTTGAAGGAAGAG+AGG | + | chr4_1:77545537-77545556 | Msa0574180:CDS | 50.0% |
| GTTCCTTGCCTGACAAACTG+TGG | + | chr4_1:77545683-77545702 | Msa0574180:intron | 50.0% | |
| TTAAGTGGGAGGGGTTCTGT+TGG | + | chr4_1:77545826-77545845 | Msa0574180:intron | 50.0% | |
| AGATTCTTGACGATGGTGCG+AGG | + | chr4_1:77545884-77545903 | Msa0574180:intron | 50.0% | |
| GATTCTTGACGATGGTGCGA+GGG | + | chr4_1:77545885-77545904 | Msa0574180:intron | 50.0% | |
| TTTAGTGCAGTCTGACTGGC+AGG | + | chr4_1:77545982-77546001 | Msa0574180:intron | 50.0% | |
| TTAGTGCAGTCTGACTGGCA+GGG | + | chr4_1:77545983-77546002 | Msa0574180:intron | 50.0% | |
| !! | TCCGGCTTCTGCTGTTGTTT+TGG | - | chr4_1:77546047-77546066 | None:intergenic | 50.0% |
| AGCAGAAGCCGGAACATTAG+TGG | + | chr4_1:77546107-77546126 | Msa0574180:CDS | 50.0% | |
| !! | GGAAGAGAGGTGTCTTACGC+CGG | + | chr4_1:77545550-77545569 | Msa0574180:CDS | 55.0% |
| !! | GAAGAGAGGTGTCTTACGCC+GGG | + | chr4_1:77545551-77545570 | Msa0574180:CDS | 55.0% |
| GTGTCTTACGCCGGGAGATT+GGG | + | chr4_1:77545559-77545578 | Msa0574180:CDS | 55.0% | |
| TGTCTTACGCCGGGAGATTG+GGG | + | chr4_1:77545560-77545579 | Msa0574180:CDS | 55.0% | |
| CACAAACTGCCCCAATCTCC+CGG | - | chr4_1:77545572-77545591 | None:intergenic | 55.0% | |
| GGGAGATTGGGGCAGTTTGT+GGG | + | chr4_1:77545571-77545590 | Msa0574180:CDS | 55.0% | |
| GGAGATTGGGGCAGTTTGTG+GGG | + | chr4_1:77545572-77545591 | Msa0574180:CDS | 55.0% | |
| TGACGATGGTGCGAGGGATT+TGG | + | chr4_1:77545891-77545910 | Msa0574180:intron | 55.0% | |
| !! | GGAAGAGAGGTGTCTTACGC+CGG | + | chr4_1:77545550-77545569 | Msa0574180:CDS | 55.0% |
| !! | GAAGAGAGGTGTCTTACGCC+GGG | + | chr4_1:77545551-77545570 | Msa0574180:CDS | 55.0% |
| GTGTCTTACGCCGGGAGATT+GGG | + | chr4_1:77545559-77545578 | Msa0574180:CDS | 55.0% | |
| TGTCTTACGCCGGGAGATTG+GGG | + | chr4_1:77545560-77545579 | Msa0574180:CDS | 55.0% | |
| CACAAACTGCCCCAATCTCC+CGG | - | chr4_1:77545572-77545591 | None:intergenic | 55.0% | |
| GGGAGATTGGGGCAGTTTGT+GGG | + | chr4_1:77545571-77545590 | Msa0574180:CDS | 55.0% | |
| GGAGATTGGGGCAGTTTGTG+GGG | + | chr4_1:77545572-77545591 | Msa0574180:CDS | 55.0% | |
| TGACGATGGTGCGAGGGATT+TGG | + | chr4_1:77545891-77545910 | Msa0574180:intron | 55.0% | |
| GGTGTCTTACGCCGGGAGAT+TGG | + | chr4_1:77545558-77545577 | Msa0574180:CDS | 60.0% | |
| CGGGAGATTGGGGCAGTTTG+TGG | + | chr4_1:77545570-77545589 | Msa0574180:CDS | 60.0% | |
| GGTGTCTTACGCCGGGAGAT+TGG | + | chr4_1:77545558-77545577 | Msa0574180:CDS | 60.0% | |
| CGGGAGATTGGGGCAGTTTG+TGG | + | chr4_1:77545570-77545589 | Msa0574180:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 77545434 | 77546248 | 77545434 | ID=Msa0574180;Name=Msa0574180 |
| chr4_1 | mRNA | 77545434 | 77546248 | 77545434 | ID=Msa0574180-mRNA-1;Parent=Msa0574180;Name=Msa0574180-mRNA-1;_AED=0.46;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|134 |
| chr4_1 | exon | 77545434 | 77545645 | 77545434 | ID=Msa0574180-mRNA-1:exon:27373;Parent=Msa0574180-mRNA-1 |
| chr4_1 | exon | 77546059 | 77546248 | 77546059 | ID=Msa0574180-mRNA-1:exon:27374;Parent=Msa0574180-mRNA-1 |
| chr4_1 | CDS | 77545434 | 77545645 | 77545434 | ID=Msa0574180-mRNA-1:cds;Parent=Msa0574180-mRNA-1 |
| chr4_1 | CDS | 77546059 | 77546248 | 77546059 | ID=Msa0574180-mRNA-1:cds;Parent=Msa0574180-mRNA-1 |
| Gene Sequence |
| Protein sequence |