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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025524.01.T01 | XP_013453681.2 | 99.167 | 120 | 1 | 0 | 1 | 120 | 1 | 120 | 7.64E-79 | 238 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025524.01.T01 | G7KF23 | 99.167 | 120 | 1 | 0 | 1 | 120 | 1 | 120 | 3.65e-79 | 238 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0180003237.01 | MsG0580025524.01 | 0.803228 | 3.853089e-49 | 1.925805e-46 |
| MsG0180005267.01 | MsG0580025524.01 | 0.805998 | 1.018176e-49 | 5.464974e-47 |
| MsG0280011267.01 | MsG0580025524.01 | 0.805296 | 1.429519e-49 | 7.535371e-47 |
| MsG0380011968.01 | MsG0580025524.01 | 0.803356 | 3.625449e-49 | 1.817935e-46 |
| MsG0380012889.01 | MsG0580025524.01 | 0.810814 | 9.558536e-51 | 5.819904e-48 |
| MsG0480019666.01 | MsG0580025524.01 | 0.807446 | 5.034597e-50 | 2.804806e-47 |
| MsG0480021133.01 | MsG0580025524.01 | 0.803131 | 4.035039e-49 | 2.011712e-46 |
| MsG0480022428.01 | MsG0580025524.01 | 0.806333 | 8.657921e-50 | 4.686657e-47 |
| MsG0480023431.01 | MsG0580025524.01 | 0.804353 | 2.250195e-49 | 1.157679e-46 |
| MsG0580024086.01 | MsG0580025524.01 | 0.818658 | 1.747179e-52 | 1.315727e-49 |
| MsG0580024688.01 | MsG0580025524.01 | -0.804072 | 2.573991e-49 | 1.314794e-46 |
| MsG0580025524.01 | MsG0580025550.01 | 0.895960 | 5.827729e-76 | 6.174088e-72 |
| MsG0580025524.01 | MsG0580025552.01 | 0.824843 | 6.478944e-54 | 5.806397e-51 |
| MsG0580025524.01 | MsG0580025961.01 | 0.801362 | 9.330688e-49 | 4.447617e-46 |
| MsG0580025524.01 | MsG0580027752.01 | 0.806524 | 7.888532e-50 | 4.291076e-47 |
| MsG0580025524.01 | MsG0680034974.01 | 0.810161 | 1.322897e-50 | 7.916275e-48 |
| MsG0580025524.01 | MsG0780036208.01 | 0.808875 | 2.497978e-50 | 1.444689e-47 |
| MsG0580025524.01 | MsG0780036472.01 | 0.811119 | 8.210719e-51 | 5.039847e-48 |
| MsG0580025524.01 | MsG0780036649.01 | 0.807430 | 5.074105e-50 | 2.825619e-47 |
| MsG0580025524.01 | MsG0780036839.01 | 0.801868 | 7.350694e-49 | 3.548952e-46 |
| MsG0580025524.01 | MsG0780036925.01 | -0.806971 | 6.348037e-50 | 3.493068e-47 |
| MsG0580025524.01 | MsG0780038914.01 | 0.804646 | 1.954772e-49 | 1.013317e-46 |
| MsG0580025524.01 | MsG0780040498.01 | 0.801224 | 9.959678e-49 | 4.730808e-46 |
| MsG0580025524.01 | MsG0780040805.01 | 0.801665 | 8.088369e-49 | 3.884834e-46 |
| MsG0580025524.01 | MsG0880043217.01 | 0.820870 | 5.457859e-53 | 4.370901e-50 |
| MsG0580025524.01 | MsG0880043530.01 | 0.803354 | 3.628218e-49 | 1.819252e-46 |
| MsG0580025524.01 | MsG0880043997.01 | 0.800957 | 1.129501e-48 | 5.329211e-46 |
| MsG0580025524.01 | MsG0880045755.01 | -0.800682 | 1.285076e-48 | 6.020772e-46 |
| MsG0580025524.01 | MsG0880046092.01 | 0.802774 | 4.782100e-49 | 2.362776e-46 |
| MsG0380016299.01 | MsG0580025524.01 | 0.822907 | 1.842130e-53 | 1.562597e-50 |
| MsG0380016300.01 | MsG0580025524.01 | 0.816545 | 5.234263e-52 | 3.719608e-49 |
| MsG0380016476.01 | MsG0580025524.01 | 0.824874 | 6.370345e-54 | 5.714337e-51 |
| MsG0280007678.01 | MsG0580025524.01 | 0.818855 | 1.576342e-52 | 1.193692e-49 |
| MsG0280010455.01 | MsG0580025524.01 | -0.813786 | 2.146144e-51 | 1.414778e-48 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0580025524.01.T01 | MTR_5g030310 | 99.167 | 120 | 1 | 0 | 1 | 120 | 1 | 120 | 9.25e-83 | 238 |
| MsG0580025524.01.T01 | MTR_5g430440 | 98.333 | 120 | 2 | 0 | 1 | 120 | 1 | 120 | 1.02e-81 | 235 |
| MsG0580025524.01.T01 | MTR_5g430430 | 83.333 | 120 | 20 | 0 | 1 | 120 | 1 | 120 | 8.53e-69 | 202 |
| MsG0580025524.01.T01 | MTR_5g030290 | 83.333 | 120 | 20 | 0 | 1 | 120 | 1 | 120 | 8.53e-69 | 202 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 38 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATATATCATTCTAAGAATA+TGG | 0.288449 | 5:-19987880 | MsG0580025524.01.T01:exon |
| TCACAGACCAATAGCATAGT+AGG | 0.330456 | 5:+19986864 | None:intergenic |
| AGGGCCTTCAGTCTTGAAAA+TGG | 0.356723 | 5:+19986973 | None:intergenic |
| TTATGCAGTGATGGTGGAGC+TGG | 0.397441 | 5:-19987070 | MsG0580025524.01.T01:intron |
| ATTGACCCCTACTATGCTAT+TGG | 0.405922 | 5:-19986871 | MsG0580025524.01.T01:three_prime_UTR |
| CTTGCTCTTGAGTGAAGCTC+TGG | 0.411535 | 5:+19987853 | None:intergenic |
| AAAATATTGTACTAAATAAA+GGG | 0.437412 | 5:-19986841 | MsG0580025524.01.T01:three_prime_UTR |
| TCACTGCTACTCTCAATAAC+TGG | 0.438274 | 5:+19987043 | None:intergenic |
| TAAGCAGCAGTGTGTATGTT+TGG | 0.450437 | 5:-19986759 | MsG0580025524.01.T01:three_prime_UTR |
| CCCTTGCCAGAGTTTACACC+AGG | 0.459349 | 5:+19986953 | None:intergenic |
| ATAGCATAGTAGGGGTCAAT+TGG | 0.465263 | 5:+19986874 | None:intergenic |
| CACAGACCAATAGCATAGTA+GGG | 0.478023 | 5:+19986865 | None:intergenic |
| TGTGCCATCAGTTATGAAGT+TGG | 0.489271 | 5:-19986802 | MsG0580025524.01.T01:three_prime_UTR |
| AGGACTGAAGGGCCTGATGC+TGG | 0.490624 | 5:-19987575 | MsG0580025524.01.T01:CDS |
| TGGTCTAATTATTCATTCAA+AGG | 0.507549 | 5:-19987979 | None:intergenic |
| GGCAATGTGTTGTGCAAGAC+AGG | 0.514042 | 5:-19987623 | MsG0580025524.01.T01:CDS |
| ACAACACATTGCCCAAGCCC+TGG | 0.525921 | 5:+19987633 | None:intergenic |
| CCCTGGTGTAAACTCTGGCA+AGG | 0.541663 | 5:-19986954 | MsG0580025524.01.T01:CDS |
| TATGCAGTGATGGTGGAGCT+GGG | 0.557903 | 5:-19987069 | MsG0580025524.01.T01:intron |
| ACATTCTGCAAGTGTGGTGA+AGG | 0.561546 | 5:-19987007 | MsG0580025524.01.T01:CDS |
| ATTGAGAGTAGCAGTGACAA+TGG | 0.563224 | 5:-19987037 | MsG0580025524.01.T01:CDS |
| CAGAGCTTCACTCAAGAGCA+AGG | 0.567749 | 5:-19987852 | MsG0580025524.01.T01:CDS |
| TTGCTCTTGAGTGAAGCTCT+GGG | 0.573531 | 5:+19987854 | None:intergenic |
| CAAACCAACTTCATAACTGA+TGG | 0.577062 | 5:+19986798 | None:intergenic |
| GTTGGACATGTGTTATAACT+AGG | 0.581816 | 5:-19987595 | MsG0580025524.01.T01:CDS |
| GTGTTATAACTAGGACTGAA+GGG | 0.595455 | 5:-19987586 | MsG0580025524.01.T01:CDS |
| TGTGCAAGACAGGTAAAGGT+TGG | 0.598871 | 5:-19987613 | MsG0580025524.01.T01:CDS |
| AAACTCTTATGCAGTGATGG+TGG | 0.602169 | 5:-19987076 | MsG0580025524.01.T01:intron |
| GAAGGCCCTGGTGTAAACTC+TGG | 0.603912 | 5:-19986959 | MsG0580025524.01.T01:CDS |
| TGTGTTATAACTAGGACTGA+AGG | 0.610701 | 5:-19987587 | MsG0580025524.01.T01:CDS |
| CCTGGTGTAAACTCTGGCAA+GGG | 0.620143 | 5:-19986953 | MsG0580025524.01.T01:CDS |
| GTGTTGTGCAAGACAGGTAA+AGG | 0.626364 | 5:-19987617 | MsG0580025524.01.T01:CDS |
| AGAGCTTCACTCAAGAGCAA+GGG | 0.651871 | 5:-19987851 | MsG0580025524.01.T01:intron |
| TCTGCAAGTGTGGTGAAGGG+TGG | 0.652623 | 5:-19987003 | MsG0580025524.01.T01:CDS |
| AGTGAAACATTCTGCAAGTG+TGG | 0.671634 | 5:-19987013 | MsG0580025524.01.T01:CDS |
| CATTCTGCAAGTGTGGTGAA+GGG | 0.681189 | 5:-19987006 | MsG0580025524.01.T01:CDS |
| ACAGACCAATAGCATAGTAG+GGG | 0.693917 | 5:+19986866 | None:intergenic |
| CCTTGCCAGAGTTTACACCA+GGG | 0.773669 | 5:+19986954 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATATTGTACTAAATAA+AGG | - | Chr5:19987827-19987846 | MsG0580025524.01.T01:intron | 10.0% |
| !! | AAAATATTGTACTAAATAAA+GGG | - | Chr5:19987828-19987847 | MsG0580025524.01.T01:intron | 10.0% |
| !! | TTAATTATTTGTTTGTAATA+TGG | - | Chr5:19987294-19987313 | MsG0580025524.01.T01:intron | 10.0% |
| !! | TAATATGAAATTGAGATTTA+AGG | + | Chr5:19987417-19987436 | None:intergenic | 15.0% |
| !! | TGATCGAAAAATAAATAAAT+TGG | - | Chr5:19987938-19987957 | MsG0580025524.01.T01:five_prime_UTR | 15.0% |
| !!! | AATATATCATTCTAAGAATA+TGG | - | Chr5:19986789-19986808 | MsG0580025524.01.T01:three_prime_UTR | 15.0% |
| !! | AAACTGTAAAGATGAAATAA+AGG | + | Chr5:19986860-19986879 | None:intergenic | 20.0% |
| !! | AATTTATCGTTCAACTTATT+AGG | + | Chr5:19987379-19987398 | None:intergenic | 20.0% |
| !! | GCAGTTAAAATAATAATAAG+AGG | + | Chr5:19987179-19987198 | None:intergenic | 20.0% |
| !! | TAAAATAATAATAAGAGGAG+TGG | + | Chr5:19987174-19987193 | None:intergenic | 20.0% |
| !! | TATCGTGGAAAAAAAATATA+AGG | - | Chr5:19987224-19987243 | MsG0580025524.01.T01:intron | 20.0% |
| !! | TTATTAGGTAAAAGTTCAAT+AGG | + | Chr5:19987364-19987383 | None:intergenic | 20.0% |
| !! | TTCTATAAGCATAAAATTAG+TGG | + | Chr5:19987489-19987508 | None:intergenic | 20.0% |
| !!! | ACGAAAATAGAGCATTATTT+TGG | + | Chr5:19986947-19986966 | None:intergenic | 25.0% |
| !!! | TTAACCAATAAGTTTTGTGT+AGG | - | Chr5:19986984-19987003 | MsG0580025524.01.T01:CDS | 25.0% |
| CTTTCCTACACAAAACTTAT+TGG | + | Chr5:19986991-19987010 | None:intergenic | 30.0% | |
| !! | GCAATCATTTTAACAATGGT+TGG | + | Chr5:19987321-19987340 | None:intergenic | 30.0% |
| !! | TGGTGCAATCATTTTAACAA+TGG | + | Chr5:19987325-19987344 | None:intergenic | 30.0% |
| ATCAAACTCTTATGCAGTGA+TGG | - | Chr5:19987590-19987609 | MsG0580025524.01.T01:CDS | 35.0% | |
| ATTTGACAAGAAAGCTATCG+TGG | - | Chr5:19987209-19987228 | MsG0580025524.01.T01:intron | 35.0% | |
| CAAACCAACTTCATAACTGA+TGG | + | Chr5:19987874-19987893 | None:intergenic | 35.0% | |
| GTGTTATAACTAGGACTGAA+GGG | - | Chr5:19987083-19987102 | MsG0580025524.01.T01:intron | 35.0% | |
| GTTGGACATGTGTTATAACT+AGG | - | Chr5:19987074-19987093 | MsG0580025524.01.T01:intron | 35.0% | |
| TAGGTAAGATCTTCATGTCA+TGG | + | Chr5:19987345-19987364 | None:intergenic | 35.0% | |
| TGTGTTATAACTAGGACTGA+AGG | - | Chr5:19987082-19987101 | MsG0580025524.01.T01:intron | 35.0% | |
| ! | CTGAGTTTTTATCTTGAGCT+GGG | + | Chr5:19987015-19987034 | None:intergenic | 35.0% |
| ! | GGCAAAGTTTTTGCTAAATG+TGG | - | Chr5:19987115-19987134 | MsG0580025524.01.T01:intron | 35.0% |
| !! | TGTTCCATTTTCAAGACTGA+AGG | - | Chr5:19987692-19987711 | MsG0580025524.01.T01:intron | 35.0% |
| AAACTCTTATGCAGTGATGG+TGG | - | Chr5:19987593-19987612 | MsG0580025524.01.T01:CDS | 40.0% | |
| ACAGACCAATAGCATAGTAG+GGG | + | Chr5:19987806-19987825 | None:intergenic | 40.0% | |
| AGTGAAACATTCTGCAAGTG+TGG | - | Chr5:19987656-19987675 | MsG0580025524.01.T01:CDS | 40.0% | |
| ATAGCATAGTAGGGGTCAAT+TGG | + | Chr5:19987798-19987817 | None:intergenic | 40.0% | |
| ATTGACCCCTACTATGCTAT+TGG | - | Chr5:19987798-19987817 | MsG0580025524.01.T01:intron | 40.0% | |
| ATTGAGAGTAGCAGTGACAA+TGG | - | Chr5:19987632-19987651 | MsG0580025524.01.T01:CDS | 40.0% | |
| CAAGATAAAAACTCAGGCCA+GGG | - | Chr5:19987019-19987038 | MsG0580025524.01.T01:CDS | 40.0% | |
| CACAGACCAATAGCATAGTA+GGG | + | Chr5:19987807-19987826 | None:intergenic | 40.0% | |
| CCAGCTCAAGATAAAAACTC+AGG | - | Chr5:19987013-19987032 | MsG0580025524.01.T01:CDS | 40.0% | |
| TAAGCAGCAGTGTGTATGTT+TGG | - | Chr5:19987910-19987929 | MsG0580025524.01.T01:five_prime_UTR | 40.0% | |
| TCAAGATAAAAACTCAGGCC+AGG | - | Chr5:19987018-19987037 | MsG0580025524.01.T01:CDS | 40.0% | |
| TCACAGACCAATAGCATAGT+AGG | + | Chr5:19987808-19987827 | None:intergenic | 40.0% | |
| TCACTGCTACTCTCAATAAC+TGG | + | Chr5:19987629-19987648 | None:intergenic | 40.0% | |
| TGTGCCATCAGTTATGAAGT+TGG | - | Chr5:19987867-19987886 | MsG0580025524.01.T01:exon | 40.0% | |
| ! | CCTGAGTTTTTATCTTGAGC+TGG | + | Chr5:19987016-19987035 | None:intergenic | 40.0% |
| ACATTCTGCAAGTGTGGTGA+AGG | - | Chr5:19987662-19987681 | MsG0580025524.01.T01:CDS | 45.0% | |
| AGAGCTTCACTCAAGAGCAA+GGG | - | Chr5:19986818-19986837 | MsG0580025524.01.T01:three_prime_UTR | 45.0% | |
| AGGGCCTTCAGTCTTGAAAA+TGG | + | Chr5:19987699-19987718 | None:intergenic | 45.0% | |
| CATTCTGCAAGTGTGGTGAA+GGG | - | Chr5:19987663-19987682 | MsG0580025524.01.T01:CDS | 45.0% | |
| GCAAAAACTTTGCCAGCATC+AGG | + | Chr5:19987109-19987128 | None:intergenic | 45.0% | |
| GTGTTGTGCAAGACAGGTAA+AGG | - | Chr5:19987052-19987071 | MsG0580025524.01.T01:CDS | 45.0% | |
| TGTGCAAGACAGGTAAAGGT+TGG | - | Chr5:19987056-19987075 | MsG0580025524.01.T01:CDS | 45.0% | |
| TTGCTCTTGAGTGAAGCTCT+GGG | + | Chr5:19986818-19986837 | None:intergenic | 45.0% | |
| !! | ATTTTCAAGACTGAAGGCCC+TGG | - | Chr5:19987698-19987717 | MsG0580025524.01.T01:intron | 45.0% |
| AAAAACTCAGGCCAGGGCTT+GGG | - | Chr5:19987025-19987044 | MsG0580025524.01.T01:CDS | 50.0% | |
| CAGAGCTTCACTCAAGAGCA+AGG | - | Chr5:19986817-19986836 | MsG0580025524.01.T01:three_prime_UTR | 50.0% | |
| CCTGGTGTAAACTCTGGCAA+GGG | - | Chr5:19987716-19987735 | MsG0580025524.01.T01:intron | 50.0% | |
| CCTTGCCAGAGTTTACACCA+GGG | + | Chr5:19987718-19987737 | None:intergenic | 50.0% | |
| CTTGCTCTTGAGTGAAGCTC+TGG | + | Chr5:19986819-19986838 | None:intergenic | 50.0% | |
| GGCAATGTGTTGTGCAAGAC+AGG | - | Chr5:19987046-19987065 | MsG0580025524.01.T01:CDS | 50.0% | |
| TAAAAACTCAGGCCAGGGCT+TGG | - | Chr5:19987024-19987043 | MsG0580025524.01.T01:CDS | 50.0% | |
| !! | TATGCAGTGATGGTGGAGCT+GGG | - | Chr5:19987600-19987619 | MsG0580025524.01.T01:CDS | 50.0% |
| !! | TTATGCAGTGATGGTGGAGC+TGG | - | Chr5:19987599-19987618 | MsG0580025524.01.T01:CDS | 50.0% |
| ACAACACATTGCCCAAGCCC+TGG | + | Chr5:19987039-19987058 | None:intergenic | 55.0% | |
| CCCTGGTGTAAACTCTGGCA+AGG | - | Chr5:19987715-19987734 | MsG0580025524.01.T01:intron | 55.0% | |
| CCCTTGCCAGAGTTTACACC+AGG | + | Chr5:19987719-19987738 | None:intergenic | 55.0% | |
| GAAGGCCCTGGTGTAAACTC+TGG | - | Chr5:19987710-19987729 | MsG0580025524.01.T01:intron | 55.0% | |
| TCTGCAAGTGTGGTGAAGGG+TGG | - | Chr5:19987666-19987685 | MsG0580025524.01.T01:CDS | 55.0% | |
| AGGACTGAAGGGCCTGATGC+TGG | - | Chr5:19987094-19987113 | MsG0580025524.01.T01:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr5 | gene | 19986703 | 19987988 | 19986703 | ID=MsG0580025524.01;Name=MsG0580025524.01 |
| Chr5 | mRNA | 19986703 | 19987988 | 19986703 | ID=MsG0580025524.01.T01;Parent=MsG0580025524.01;Name=MsG0580025524.01.T01;_AED=0.25;_eAED=0.25;_QI=105|1|1|1|0.5|0.33|3|204|120 |
| Chr5 | exon | 19986703 | 19987084 | 19986703 | ID=MsG0580025524.01.T01:exon:8402;Parent=MsG0580025524.01.T01 |
| Chr5 | exon | 19987533 | 19987685 | 19987533 | ID=MsG0580025524.01.T01:exon:8401;Parent=MsG0580025524.01.T01 |
| Chr5 | exon | 19987852 | 19987988 | 19987852 | ID=MsG0580025524.01.T01:exon:8400;Parent=MsG0580025524.01.T01 |
| Chr5 | five_prime_UTR | 19987884 | 19987988 | 19987884 | ID=MsG0580025524.01.T01:five_prime_utr;Parent=MsG0580025524.01.T01 |
| Chr5 | CDS | 19987852 | 19987883 | 19987852 | ID=MsG0580025524.01.T01:cds;Parent=MsG0580025524.01.T01 |
| Chr5 | CDS | 19987533 | 19987685 | 19987533 | ID=MsG0580025524.01.T01:cds;Parent=MsG0580025524.01.T01 |
| Chr5 | CDS | 19986907 | 19987084 | 19986907 | ID=MsG0580025524.01.T01:cds;Parent=MsG0580025524.01.T01 |
| Chr5 | three_prime_UTR | 19986703 | 19986906 | 19986703 | ID=MsG0580025524.01.T01:three_prime_utr;Parent=MsG0580025524.01.T01 |
| Gene Sequence |
| Protein sequence |
