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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1410630 | A0A396HKG4 | 78.378 | 259 | 55 | 1 | 10 | 268 | 4 | 261 | 3.53e-141 | 407 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1410610 | Msa1410630 | 0.821361 | 4.205210e-53 | -8.615850e-47 |
| Msa1410630 | Msa1423780 | 0.804932 | 1.703718e-49 | -8.615850e-47 |
| Msa0195100 | Msa1410630 | 0.815433 | 9.266506e-52 | -8.615850e-47 |
| Msa0202800 | Msa1410630 | 0.809709 | 1.655170e-50 | -8.615850e-47 |
| Msa0230320 | Msa1410630 | 0.810995 | 8.735087e-51 | -8.615850e-47 |
| Msa1315420 | Msa1410630 | 0.843820 | 1.107850e-58 | -8.615850e-47 |
| Msa0389770 | Msa1410630 | 0.817521 | 3.158255e-52 | -8.615850e-47 |
| Msa1000060 | Msa1410630 | 0.831339 | 1.765744e-55 | -8.615850e-47 |
| Msa0308630 | Msa1410630 | 0.813308 | 2.733783e-51 | -8.615850e-47 |
| Msa0870380 | Msa1410630 | 0.805422 | 1.345540e-49 | -8.615850e-47 |
| Msa0926980 | Msa1410630 | 0.813058 | 3.101548e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1410630 | MtrunA17_Chr6g0486171 | 78.378 | 259 | 55 | 1 | 10 | 268 | 4 | 261 | 6.80e-145 | 407 |
| Msa1410630 | MtrunA17_Chr6g0486181 | 34.529 | 223 | 135 | 6 | 1 | 215 | 1 | 220 | 2.35e-26 | 104 |
| Msa1410630 | MtrunA17_Chr6g0486131 | 47.500 | 120 | 47 | 3 | 70 | 175 | 1 | 118 | 2.02e-23 | 95.5 |
| Msa1410630 | MtrunA17_Chr6g0486151 | 35.955 | 178 | 98 | 7 | 101 | 268 | 124 | 295 | 2.43e-20 | 88.6 |
| Msa1410630 | MtrunA17_Chr6g0486141 | 37.405 | 131 | 80 | 2 | 103 | 232 | 109 | 238 | 6.03e-17 | 79.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 43 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCCTTCCTCTCTACTGAAAC+TGG | 0.273106 | tig0023681:+42984 | Msa1410620:intron |
| TTAAAATTTGTTTCATAAAG+TGG | 0.347789 | tig0023681:+42768 | Msa1410620:intron |
| TGAGAATAATGGTGAAGAAA+TGG | 0.366292 | tig0023681:-42367 | Msa1410630:CDS |
| TCCTATAGTCACACCTTGAT+TGG | 0.369054 | tig0023681:+42311 | Msa1410620:intron |
| TCACGAAGATGGTCTCATTA+AGG | 0.371609 | tig0023681:-42898 | Msa1410630:CDS |
| CAATTTGAGATTGAGAATAA+TGG | 0.399801 | tig0023681:-42378 | Msa1410630:CDS |
| TGAGGTTGGACTTTCAATAA+TGG | 0.411076 | tig0023681:-42559 | Msa1410630:CDS |
| AAGTATCTAGAACATGGATT+TGG | 0.414651 | tig0023681:-42446 | Msa1410630:CDS |
| TTTGACGCAATACTAAATAA+AGG | 0.415815 | tig0023681:+42478 | Msa1410620:intron |
| ACTAAATAAAGGTGTTCATA+AGG | 0.426981 | tig0023681:+42489 | Msa1410620:intron |
| TGATTTGAATGTTTCAATGA+AGG | 0.429012 | tig0023681:-42514 | Msa1410630:CDS |
| TCCAATCAAGGTGTGACTAT+AGG | 0.442635 | tig0023681:-42312 | Msa1410630:CDS |
| ATATGGACATCCTAGTTTGT+TGG | 0.452148 | tig0023681:+42234 | Msa1410620:intron |
| TAATGAGACTAAGAACCATT+GGG | 0.460274 | tig0023681:-42745 | Msa1410630:CDS |
| GTGAAGAAATGGAACGGTCT+AGG | 0.464145 | tig0023681:-42356 | Msa1410630:CDS |
| TAATAATATGCCAACAAACT+AGG | 0.470313 | tig0023681:-42244 | None:intergenic |
| TATAACGAAGAATGTAAATA+CGG | 0.485507 | tig0023681:+42842 | Msa1410620:intron |
| GGAAATAGTATTTCCAATCA+AGG | 0.493381 | tig0023681:-42324 | Msa1410630:CDS |
| ACACTACGTAGATGGTAAAT+CGG | 0.499784 | tig0023681:-42949 | Msa1410630:CDS |
| ACAGTGTCACACTACGTAGA+TGG | 0.500726 | tig0023681:-42957 | Msa1410630:CDS |
| ATAATGAGACTAAGAACCAT+TGG | 0.500792 | tig0023681:-42746 | Msa1410630:CDS |
| GTTCCCACGCTCTTCTCCGA+TGG | 0.501338 | tig0023681:+43032 | Msa1410620:intron |
| GTGACTATAGGAGATTATAA+TGG | 0.514750 | tig0023681:-42300 | Msa1410630:CDS |
| CTAGAACATGGATTTGGAAG+TGG | 0.528118 | tig0023681:-42440 | Msa1410630:CDS |
| GTTTCATAAAGTGGATCGAT+GGG | 0.528809 | tig0023681:+42777 | Msa1410620:intron |
| CCCAGTTTCAGTAGAGAGGA+AGG | 0.532361 | tig0023681:-42985 | Msa1410630:CDS |
| TTGATAATATATCACGAAGA+TGG | 0.534894 | tig0023681:-42909 | Msa1410630:CDS |
| CCTTCCTCTCTACTGAAACT+GGG | 0.546309 | tig0023681:+42985 | Msa1410620:intron |
| AACACCCAGTTTCAGTAGAG+AGG | 0.553775 | tig0023681:-42989 | Msa1410630:CDS |
| TGTTTCATAAAGTGGATCGA+TGG | 0.554991 | tig0023681:+42776 | Msa1410620:intron |
| AAAACTGATGTTGCATACCA+TGG | 0.598872 | tig0023681:-42711 | Msa1410630:CDS |
| TTCAACAAGTATCTAGAACA+TGG | 0.604325 | tig0023681:-42452 | Msa1410630:CDS |
| AATGTAAATACGGATCCAGT+AGG | 0.609266 | tig0023681:+42852 | Msa1410620:intron |
| TTTCCATCGGAGAAGAGCGT+GGG | 0.612805 | tig0023681:-43035 | Msa1410630:CDS |
| AGACTAAGAACCATTGGGGA+GGG | 0.620733 | tig0023681:-42740 | Msa1410630:CDS |
| GAGACTAAGAACCATTGGGG+AGG | 0.649630 | tig0023681:-42741 | Msa1410630:CDS |
| AAATGATGGGAATCTTCTTG+TGG | 0.669532 | tig0023681:-42682 | Msa1410630:CDS |
| ATAATGGTGAAGAAATGGAA+CGG | 0.671072 | tig0023681:-42362 | Msa1410630:CDS |
| GAACGGTCTAGGCAAATCAG+AGG | 0.672095 | tig0023681:-42345 | Msa1410630:CDS |
| AACATGGATTTGGAAGTGGA+CGG | 0.678483 | tig0023681:-42436 | Msa1410630:CDS |
| AATGAGACTAAGAACCATTG+GGG | 0.684064 | tig0023681:-42744 | Msa1410630:CDS |
| TGTGCCACTCTGATTGCACA+AGG | 0.692862 | tig0023681:+42627 | Msa1410620:intron |
| AAAGCCTTGTGCAATCAGAG+TGG | 0.727260 | tig0023681:-42631 | Msa1410630:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTAAAATTTGTTTCATAAAG+TGG | + | tig0023681:42527-42546 | Msa1410620:intron | 15.0% |
| !!! | TTAAAATTTGTTTCATAAAG+TGG | + | tig0023681:42527-42546 | Msa1410620:intron | 15.0% |
| !! | TATAACGAAGAATGTAAATA+CGG | + | tig0023681:42453-42472 | Msa1410620:intron | 20.0% |
| !! | TATAACGAAGAATGTAAATA+CGG | + | tig0023681:42453-42472 | Msa1410620:intron | 20.0% |
| !! | TTGATAATATATCACGAAGA+TGG | - | tig0023681:42383-42402 | Msa1410630:CDS | 25.0% |
| !! | GACTTAAATTTCGTTTTCTA+CGG | - | tig0023681:42416-42435 | Msa1410630:CDS | 25.0% |
| !! | TTTTAGTCGAAAAAAAAGTG+AGG | - | tig0023681:42715-42734 | Msa1410630:CDS | 25.0% |
| ! | TGATTTGAATGTTTCAATGA+AGG | - | tig0023681:42778-42797 | Msa1410630:CDS | 25.0% |
| !!! | ACTAAATAAAGGTGTTCATA+AGG | + | tig0023681:42806-42825 | Msa1410620:intron | 25.0% |
| ! | TTTGACGCAATACTAAATAA+AGG | + | tig0023681:42817-42836 | Msa1410620:intron | 25.0% |
| !! | CAATTTGAGATTGAGAATAA+TGG | - | tig0023681:42914-42933 | Msa1410630:CDS | 25.0% |
| !! | TTGATAATATATCACGAAGA+TGG | - | tig0023681:42383-42402 | Msa1410630:CDS | 25.0% |
| !! | GACTTAAATTTCGTTTTCTA+CGG | - | tig0023681:42416-42435 | Msa1410630:CDS | 25.0% |
| !! | TTTTAGTCGAAAAAAAAGTG+AGG | - | tig0023681:42715-42734 | Msa1410630:CDS | 25.0% |
| ! | TGATTTGAATGTTTCAATGA+AGG | - | tig0023681:42778-42797 | Msa1410630:CDS | 25.0% |
| !!! | ACTAAATAAAGGTGTTCATA+AGG | + | tig0023681:42806-42825 | Msa1410620:intron | 25.0% |
| ! | TTTGACGCAATACTAAATAA+AGG | + | tig0023681:42817-42836 | Msa1410620:intron | 25.0% |
| !! | CAATTTGAGATTGAGAATAA+TGG | - | tig0023681:42914-42933 | Msa1410630:CDS | 25.0% |
| ATAATGAGACTAAGAACCAT+TGG | - | tig0023681:42546-42565 | Msa1410630:CDS | 30.0% | |
| TAATGAGACTAAGAACCATT+GGG | - | tig0023681:42547-42566 | Msa1410630:CDS | 30.0% | |
| TACCATGGAGATAAAAATGA+TGG | - | tig0023681:42596-42615 | Msa1410630:CDS | 30.0% | |
| ACCATGGAGATAAAAATGAT+GGG | - | tig0023681:42597-42616 | Msa1410630:CDS | 30.0% | |
| ! | TTCAACAAGTATCTAGAACA+TGG | - | tig0023681:42840-42859 | Msa1410630:CDS | 30.0% |
| ! | AAGTATCTAGAACATGGATT+TGG | - | tig0023681:42846-42865 | Msa1410630:CDS | 30.0% |
| TGAGAATAATGGTGAAGAAA+TGG | - | tig0023681:42925-42944 | Msa1410630:CDS | 30.0% | |
| ATAATGGTGAAGAAATGGAA+CGG | - | tig0023681:42930-42949 | Msa1410630:CDS | 30.0% | |
| GGAAATAGTATTTCCAATCA+AGG | - | tig0023681:42968-42987 | Msa1410630:CDS | 30.0% | |
| GTGACTATAGGAGATTATAA+TGG | - | tig0023681:42992-43011 | Msa1410630:CDS | 30.0% | |
| ATAATGAGACTAAGAACCAT+TGG | - | tig0023681:42546-42565 | Msa1410630:CDS | 30.0% | |
| TAATGAGACTAAGAACCATT+GGG | - | tig0023681:42547-42566 | Msa1410630:CDS | 30.0% | |
| TACCATGGAGATAAAAATGA+TGG | - | tig0023681:42596-42615 | Msa1410630:CDS | 30.0% | |
| ACCATGGAGATAAAAATGAT+GGG | - | tig0023681:42597-42616 | Msa1410630:CDS | 30.0% | |
| ! | TTCAACAAGTATCTAGAACA+TGG | - | tig0023681:42840-42859 | Msa1410630:CDS | 30.0% |
| ! | AAGTATCTAGAACATGGATT+TGG | - | tig0023681:42846-42865 | Msa1410630:CDS | 30.0% |
| TGAGAATAATGGTGAAGAAA+TGG | - | tig0023681:42925-42944 | Msa1410630:CDS | 30.0% | |
| ATAATGGTGAAGAAATGGAA+CGG | - | tig0023681:42930-42949 | Msa1410630:CDS | 30.0% | |
| GGAAATAGTATTTCCAATCA+AGG | - | tig0023681:42968-42987 | Msa1410630:CDS | 30.0% | |
| GTGACTATAGGAGATTATAA+TGG | - | tig0023681:42992-43011 | Msa1410630:CDS | 30.0% | |
| ACACTACGTAGATGGTAAAT+CGG | - | tig0023681:42343-42362 | Msa1410630:CDS | 35.0% | |
| AATGTAAATACGGATCCAGT+AGG | + | tig0023681:42443-42462 | Msa1410620:intron | 35.0% | |
| GTTTCATAAAGTGGATCGAT+GGG | + | tig0023681:42518-42537 | Msa1410620:intron | 35.0% | |
| TGTTTCATAAAGTGGATCGA+TGG | + | tig0023681:42519-42538 | Msa1410620:intron | 35.0% | |
| AATGAGACTAAGAACCATTG+GGG | - | tig0023681:42548-42567 | Msa1410630:CDS | 35.0% | |
| AAAACTGATGTTGCATACCA+TGG | - | tig0023681:42581-42600 | Msa1410630:CDS | 35.0% | |
| !! | TCCCATCATTTTTATCTCCA+TGG | + | tig0023681:42601-42620 | Msa1410620:intron | 35.0% |
| ! | AAATGATGGGAATCTTCTTG+TGG | - | tig0023681:42610-42629 | Msa1410630:CDS | 35.0% |
| AGTCGAAAAAAAAGTGAGGT+TGG | - | tig0023681:42719-42738 | Msa1410630:CDS | 35.0% | |
| TGAGGTTGGACTTTCAATAA+TGG | - | tig0023681:42733-42752 | Msa1410630:CDS | 35.0% | |
| ACACTACGTAGATGGTAAAT+CGG | - | tig0023681:42343-42362 | Msa1410630:CDS | 35.0% | |
| AATGTAAATACGGATCCAGT+AGG | + | tig0023681:42443-42462 | Msa1410620:intron | 35.0% | |
| GTTTCATAAAGTGGATCGAT+GGG | + | tig0023681:42518-42537 | Msa1410620:intron | 35.0% | |
| TGTTTCATAAAGTGGATCGA+TGG | + | tig0023681:42519-42538 | Msa1410620:intron | 35.0% | |
| AATGAGACTAAGAACCATTG+GGG | - | tig0023681:42548-42567 | Msa1410630:CDS | 35.0% | |
| AAAACTGATGTTGCATACCA+TGG | - | tig0023681:42581-42600 | Msa1410630:CDS | 35.0% | |
| !! | TCCCATCATTTTTATCTCCA+TGG | + | tig0023681:42601-42620 | Msa1410620:intron | 35.0% |
| ! | AAATGATGGGAATCTTCTTG+TGG | - | tig0023681:42610-42629 | Msa1410630:CDS | 35.0% |
| AGTCGAAAAAAAAGTGAGGT+TGG | - | tig0023681:42719-42738 | Msa1410630:CDS | 35.0% | |
| TGAGGTTGGACTTTCAATAA+TGG | - | tig0023681:42733-42752 | Msa1410630:CDS | 35.0% | |
| TCACGAAGATGGTCTCATTA+AGG | - | tig0023681:42394-42413 | Msa1410630:CDS | 40.0% | |
| GTGCAGCAGAAGAGAAAAAA+GGG | - | tig0023681:42632-42651 | Msa1410630:CDS | 40.0% | |
| CTAGAACATGGATTTGGAAG+TGG | - | tig0023681:42852-42871 | Msa1410630:CDS | 40.0% | |
| AACATGGATTTGGAAGTGGA+CGG | - | tig0023681:42856-42875 | Msa1410630:CDS | 40.0% | |
| TCCAATCAAGGTGTGACTAT+AGG | - | tig0023681:42980-42999 | Msa1410630:CDS | 40.0% | |
| TCCTATAGTCACACCTTGAT+TGG | + | tig0023681:42984-43003 | Msa1410620:intron | 40.0% | |
| TCACGAAGATGGTCTCATTA+AGG | - | tig0023681:42394-42413 | Msa1410630:CDS | 40.0% | |
| GTGCAGCAGAAGAGAAAAAA+GGG | - | tig0023681:42632-42651 | Msa1410630:CDS | 40.0% | |
| CTAGAACATGGATTTGGAAG+TGG | - | tig0023681:42852-42871 | Msa1410630:CDS | 40.0% | |
| AACATGGATTTGGAAGTGGA+CGG | - | tig0023681:42856-42875 | Msa1410630:CDS | 40.0% | |
| TCCAATCAAGGTGTGACTAT+AGG | - | tig0023681:42980-42999 | Msa1410630:CDS | 40.0% | |
| TCCTATAGTCACACCTTGAT+TGG | + | tig0023681:42984-43003 | Msa1410620:intron | 40.0% | |
| AACACCCAGTTTCAGTAGAG+AGG | - | tig0023681:42303-42322 | Msa1410630:CDS | 45.0% | |
| CCTTCCTCTCTACTGAAACT+GGG | + | tig0023681:42310-42329 | Msa1410620:intron | 45.0% | |
| ACAGTGTCACACTACGTAGA+TGG | - | tig0023681:42335-42354 | Msa1410630:CDS | 45.0% | |
| ! | TTCGTTTTCTACGGACCTAC+TGG | - | tig0023681:42425-42444 | Msa1410630:CDS | 45.0% |
| AGACTAAGAACCATTGGGGA+GGG | - | tig0023681:42552-42571 | Msa1410630:CDS | 45.0% | |
| ! | TTTTCGTAATCCCTCCCCAA+TGG | + | tig0023681:42565-42584 | Msa1410620:intron | 45.0% |
| GGTGCAGCAGAAGAGAAAAA+AGG | - | tig0023681:42631-42650 | Msa1410630:CDS | 45.0% | |
| ! | AAAGCCTTGTGCAATCAGAG+TGG | - | tig0023681:42661-42680 | Msa1410630:CDS | 45.0% |
| GTGAAGAAATGGAACGGTCT+AGG | - | tig0023681:42936-42955 | Msa1410630:CDS | 45.0% | |
| AACACCCAGTTTCAGTAGAG+AGG | - | tig0023681:42303-42322 | Msa1410630:CDS | 45.0% | |
| CCTTCCTCTCTACTGAAACT+GGG | + | tig0023681:42310-42329 | Msa1410620:intron | 45.0% | |
| ACAGTGTCACACTACGTAGA+TGG | - | tig0023681:42335-42354 | Msa1410630:CDS | 45.0% | |
| ! | TTCGTTTTCTACGGACCTAC+TGG | - | tig0023681:42425-42444 | Msa1410630:CDS | 45.0% |
| AGACTAAGAACCATTGGGGA+GGG | - | tig0023681:42552-42571 | Msa1410630:CDS | 45.0% | |
| ! | TTTTCGTAATCCCTCCCCAA+TGG | + | tig0023681:42565-42584 | Msa1410620:intron | 45.0% |
| GGTGCAGCAGAAGAGAAAAA+AGG | - | tig0023681:42631-42650 | Msa1410630:CDS | 45.0% | |
| ! | AAAGCCTTGTGCAATCAGAG+TGG | - | tig0023681:42661-42680 | Msa1410630:CDS | 45.0% |
| GTGAAGAAATGGAACGGTCT+AGG | - | tig0023681:42936-42955 | Msa1410630:CDS | 45.0% | |
| ! | TTTTCCATCGGAGAAGAGCG+TGG | - | tig0023681:42256-42275 | Msa1410630:CDS | 50.0% |
| ! | TTTCCATCGGAGAAGAGCGT+GGG | - | tig0023681:42257-42276 | Msa1410630:CDS | 50.0% |
| CCCAGTTTCAGTAGAGAGGA+AGG | - | tig0023681:42307-42326 | Msa1410630:CDS | 50.0% | |
| GCCTTCCTCTCTACTGAAAC+TGG | + | tig0023681:42311-42330 | Msa1410620:intron | 50.0% | |
| GAGACTAAGAACCATTGGGG+AGG | - | tig0023681:42551-42570 | Msa1410630:CDS | 50.0% | |
| ! | TGTGCCACTCTGATTGCACA+AGG | + | tig0023681:42668-42687 | Msa1410620:intron | 50.0% |
| GAACGGTCTAGGCAAATCAG+AGG | - | tig0023681:42947-42966 | Msa1410630:CDS | 50.0% | |
| ! | TTTTCCATCGGAGAAGAGCG+TGG | - | tig0023681:42256-42275 | Msa1410630:CDS | 50.0% |
| ! | TTTCCATCGGAGAAGAGCGT+GGG | - | tig0023681:42257-42276 | Msa1410630:CDS | 50.0% |
| CCCAGTTTCAGTAGAGAGGA+AGG | - | tig0023681:42307-42326 | Msa1410630:CDS | 50.0% | |
| GCCTTCCTCTCTACTGAAAC+TGG | + | tig0023681:42311-42330 | Msa1410620:intron | 50.0% | |
| GAGACTAAGAACCATTGGGG+AGG | - | tig0023681:42551-42570 | Msa1410630:CDS | 50.0% | |
| ! | TGTGCCACTCTGATTGCACA+AGG | + | tig0023681:42668-42687 | Msa1410620:intron | 50.0% |
| GAACGGTCTAGGCAAATCAG+AGG | - | tig0023681:42947-42966 | Msa1410630:CDS | 50.0% | |
| GTTCCCACGCTCTTCTCCGA+TGG | + | tig0023681:42263-42282 | Msa1410620:intron | 60.0% | |
| GTTCCCACGCTCTTCTCCGA+TGG | + | tig0023681:42263-42282 | Msa1410620:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023681 | gene | 42245 | 43069 | 42245 | ID=Msa1410630;Name=Msa1410630 |
| tig0023681 | mRNA | 42245 | 43069 | 42245 | ID=Msa1410630-mRNA-1;Parent=Msa1410630;Name=Msa1410630-mRNA-1;_AED=0.31;_eAED=0.31;_QI=0|-1|0|1|-1|1|1|0|274 |
| tig0023681 | exon | 42245 | 43069 | 42245 | ID=Msa1410630-mRNA-1:exon:26680;Parent=Msa1410630-mRNA-1 |
| tig0023681 | CDS | 42245 | 43069 | 42245 | ID=Msa1410630-mRNA-1:cds;Parent=Msa1410630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
