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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0885140 | RHN51142.1 | 63.290 | 1155 | 161 | 15 | 1 | 904 | 1 | 1143 | 0.0 | 1276 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0885140 | sp|Q6JN46|EIX2_SOLLC | 33.366 | 1019 | 500 | 30 | 31 | 904 | 25 | 1009 | 1.00e-126 | 410 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0885140 | A0A396HCU9 | 63.290 | 1155 | 161 | 15 | 1 | 904 | 1 | 1143 | 0.0 | 1276 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0885140 | Msa0885610 | 0.857535 | 1.527544e-62 | -8.615850e-47 |
| Msa0885140 | Msa0912540 | 0.878347 | 3.023763e-69 | -8.615850e-47 |
| Msa0885140 | Msa0912560 | 0.802448 | 5.582623e-49 | -8.615850e-47 |
| Msa0885140 | Msa1359800 | 0.847127 | 1.407558e-59 | -8.615850e-47 |
| Msa0885140 | Msa1451750 | 0.887813 | 1.026331e-72 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0885140 | MtrunA17_Chr6g0465181 | 63.290 | 1155 | 161 | 15 | 1 | 904 | 1 | 1143 | 0.0 | 1276 |
| Msa0885140 | MtrunA17_Chr6g0465231 | 63.872 | 1121 | 192 | 12 | 1 | 909 | 1 | 1120 | 0.0 | 1268 |
| Msa0885140 | MtrunA17_Chr6g0465131 | 61.922 | 1124 | 210 | 13 | 1 | 907 | 1 | 1123 | 0.0 | 1247 |
| Msa0885140 | MtrunA17_Chr6g0464631 | 58.746 | 1212 | 193 | 15 | 1 | 909 | 1 | 1208 | 0.0 | 1228 |
| Msa0885140 | MtrunA17_Chr6g0465211 | 62.138 | 1104 | 206 | 16 | 1 | 904 | 1 | 1092 | 0.0 | 1207 |
| Msa0885140 | MtrunA17_Chr6g0465291 | 58.650 | 1185 | 211 | 15 | 1 | 907 | 22 | 1205 | 0.0 | 1200 |
| Msa0885140 | MtrunA17_Chr6g0465151 | 58.836 | 911 | 158 | 11 | 216 | 909 | 1 | 911 | 0.0 | 924 |
| Msa0885140 | MtrunA17_Chr6g0465151 | 26.731 | 621 | 345 | 23 | 84 | 660 | 254 | 808 | 1.85e-22 | 103 |
| Msa0885140 | MtrunA17_Chr5g0439461 | 41.112 | 1097 | 425 | 25 | 12 | 901 | 9 | 1091 | 0.0 | 652 |
| Msa0885140 | MtrunA17_Chr5g0439451 | 39.254 | 1126 | 426 | 24 | 7 | 901 | 3 | 1101 | 0.0 | 644 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0885140 | AT2G34930.1 | 29.325 | 948 | 440 | 27 | 38 | 834 | 32 | 900 | 1.22e-81 | 283 |
| Msa0885140 | AT1G07390.5 | 28.820 | 1034 | 558 | 33 | 12 | 889 | 17 | 1028 | 1.41e-70 | 253 |
| Msa0885140 | AT4G04220.1 | 30.132 | 833 | 435 | 27 | 39 | 827 | 24 | 753 | 7.49e-69 | 245 |
| Msa0885140 | AT1G07390.4 | 28.195 | 1064 | 555 | 34 | 12 | 889 | 17 | 1057 | 2.32e-67 | 244 |
| Msa0885140 | AT2G25470.3 | 29.314 | 846 | 448 | 27 | 107 | 893 | 213 | 967 | 1.61e-66 | 241 |
| Msa0885140 | AT2G25470.3 | 26.389 | 504 | 280 | 16 | 348 | 806 | 114 | 571 | 1.95e-21 | 101 |
| Msa0885140 | AT4G13920.1 | 30.250 | 919 | 454 | 32 | 14 | 834 | 1 | 830 | 3.02e-66 | 239 |
| Msa0885140 | AT3G53240.2 | 28.469 | 973 | 526 | 35 | 39 | 899 | 6 | 920 | 3.89e-66 | 239 |
| Msa0885140 | AT1G74190.1 | 28.176 | 976 | 524 | 33 | 39 | 889 | 27 | 950 | 9.47e-66 | 239 |
| Msa0885140 | AT3G05660.1 | 29.236 | 968 | 495 | 34 | 12 | 894 | 1 | 863 | 3.69e-65 | 236 |
Find 166 sgRNAs with CRISPR-Local
Find 232 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTGCAAGCATTGCTATTG+AGG | 0.463770 | 6_1:-40073339 | Msa0885140:CDS |
| AACTTATGTTTGACACCCAC+TGG | 0.430289 | 6_1:+40074691 | None:intergenic |
| AAGATTATCTTCGTAAAATG+AGG | 0.530723 | 6_1:+40072604 | None:intergenic |
| AAGGTCAAGCTCAGCAAGAT+TGG | 0.385570 | 6_1:+40074668 | None:intergenic |
| AATAGCAGATTTGATTCAAT+TGG | 0.372978 | 6_1:-40072843 | Msa0885140:CDS |
| AATCATATTTCTCATGTGTT+TGG | 0.371523 | 6_1:-40075660 | Msa0885140:CDS |
| AATGCATTATTGACATGGAA+AGG | 0.598773 | 6_1:-40072956 | Msa0885140:CDS |
| AATGGATAAAATGATCAGAA+AGG | 0.584754 | 6_1:+40074799 | None:intergenic |
| AATTACAATATGAAAGATCA+AGG | 0.534112 | 6_1:+40075276 | None:intergenic |
| AATTATATCCCAGGTTTCTT+TGG | 0.214834 | 6_1:-40075320 | Msa0885140:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGAATTCATGATTGACAATG+TGG | + | chr6_1:40072350-40072369 | None:intergenic | 30.0% | |
| TTTGTTCAAAAGAGGTTGTA+AGG | - | chr6_1:40072434-40072453 | Msa0885140:CDS | 30.0% | |
| ACATGTCAAATTCATCAACA+AGG | + | chr6_1:40072504-40072523 | None:intergenic | 30.0% | |
| AATTTGACATGTTGTCATCT+TGG | - | chr6_1:40072512-40072531 | Msa0885140:CDS | 30.0% | |
| CGCTTAAATAATTTCCATGA+AGG | + | chr6_1:40072609-40072628 | None:intergenic | 30.0% | |
| CTAACATATTTGAACCTCAA+TGG | - | chr6_1:40072691-40072710 | Msa0885140:CDS | 30.0% | |
| GTTCAAAATTATTCCCATTG+AGG | + | chr6_1:40072708-40072727 | None:intergenic | 30.0% | |
| TTTGAACACAATTATATCCC+AGG | - | chr6_1:40072721-40072740 | Msa0885140:CDS | 30.0% | |
| AATTATATCCCAGGTTTCTT+TGG | - | chr6_1:40072730-40072749 | Msa0885140:CDS | 30.0% | |
| CTCAGCAATAATTATTTGGA+AGG | - | chr6_1:40072925-40072944 | Msa0885140:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 40072343 | 40075729 | 40072343 | ID=Msa0885140;Name=Msa0885140 |
| chr6_1 | mRNA | 40072343 | 40075729 | 40072343 | ID=Msa0885140-mRNA-1;Parent=Msa0885140;Name=Msa0885140-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|0|0|1|0.5|0.44|9|0|909 |
| chr6_1 | exon | 40075481 | 40075729 | 40075481 | ID=Msa0885140-mRNA-1:exon:9110;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40075198 | 40075384 | 40075198 | ID=Msa0885140-mRNA-1:exon:9109;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40074883 | 40075125 | 40074883 | ID=Msa0885140-mRNA-1:exon:9108;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40074605 | 40074843 | 40074605 | ID=Msa0885140-mRNA-1:exon:9107;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40074358 | 40074574 | 40074358 | ID=Msa0885140-mRNA-1:exon:9106;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40074185 | 40074327 | 40074185 | ID=Msa0885140-mRNA-1:exon:9105;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40073873 | 40074046 | 40073873 | ID=Msa0885140-mRNA-1:exon:9104;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40073567 | 40073797 | 40073567 | ID=Msa0885140-mRNA-1:exon:9103;Parent=Msa0885140-mRNA-1 |
| chr6_1 | exon | 40072343 | 40073389 | 40072343 | ID=Msa0885140-mRNA-1:exon:9102;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40075481 | 40075729 | 40075481 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40075198 | 40075384 | 40075198 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40074883 | 40075125 | 40074883 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40074605 | 40074843 | 40074605 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40074358 | 40074574 | 40074358 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40074185 | 40074327 | 40074185 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40073873 | 40074046 | 40073873 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40073567 | 40073797 | 40073567 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| chr6_1 | CDS | 40072343 | 40073389 | 40072343 | ID=Msa0885140-mRNA-1:cds;Parent=Msa0885140-mRNA-1 |
| Gene Sequence |
>Msa0885140 ATGACCACATTGTCAATCATGAATTCATTTTGTTTGAAATTGATTCAAATCATATTTCTCATGTGTTTGGTGTTTCAAGCAGACCAGCTTGTTTGTTCAAAAGAGGTTGTAAGGTGCATACAAAGTGAGAGGCAGGCACTCCTGCAATTCAAGTCAGGCCTTGTTGATGAATTTGACATGTTGTCATCTTGGTCAACGGAAGATTGCTGCCAATGGTATGGAATTGGTTGCAGCAACCTCACTGGTCATCAACTAACATATTTGAACCTCAATGGGAATAATTTTGAACACAATTATATCCCAGGTTTCTTTGGATCTCTAATAAAGCTAAGATACCTTGATCTTTCATATTGTAATTTTGGTGGACAAATTCATATTCAATTTGAGTCTCTTTCACATTTGAACTACTTGAATCTTTCCAACAATTATTTAGATGGACGCATTCCATCTCAACTTGGATGTCTCTCCAACTTGCAGTATCTGGATCTCATTGAAAATTCTTTAAAAGGAAAGATACCATCTCAACTTGGAAAGCTTACGAACCTACAAGAGCTTTATCTTGAAGGAGGAGCTCTAACAATTGACAATGAGGATCACAGTGGAGGTCAGTGGTTGTCTAATCTAACTTCTTTAACCCATCTTCACATGTGGTCGATATCTAATCTTGATAAATCCAATAAACTAAGTTTAAGAAATTGTGACCTTTCTGATCATTTTATCCATTCCTTGAGTCAATCCAAGTTCAACTTTTCCACTTCTCTTTCTATCCTTGATCTCTCTTGGAACAACTTTGCGTCATCTTTGATATTCCAGTGGGTGTCAAACATAAGTTCCAATCTTGCTGAGCTTGACCTTAGTGGTAATCAAATGGTTGATCCACCATTAAATGGCTATGGCATAGCGATGAATTCTCTTGAGAGTGGGGTCTTTAAATCCTTCATGAATATATGTACCATACGTTCTTTAGGTTTGAGTCAAAACAATTTCACAGAAGACCTTCAAACAATTCTTCATAATTTGTCTAGTGGTTGTGTTAGAAACTCACTTCATGTGTTAGAACTCAGTTATAATGGAATCACTGGAACACTACCCGACCTTTCTGCATTCACATCATTGAAAACATTGGATCTCTCTCGTAGTAGCTTGCCATTTCAGTTGGAGAATTTATCCATCACATCAAACTCTTTAGATGGGGGGATTCCAAAATCATTTTGGATGAATGCATGTAAGTTGAAATCATTGGATCTGTCCAATAACAGTTTCAGTGGTGAGCTTCAAGTAAATGGAAAGGTAGTTGAAGATATTCGATTTCCAGCTAAGCTAAGGACACTGAGGATGGATTCGAACTCTTTACATGGTGTGATCTCTGACTTTCATTTTTCCGGTATGTCAATGTTAAAGGAATTAGGCTTGTCTGACAATTCACTAGCATTGACATTTACTGAAAATTGGACACAAAAGTACCTGCAGGATCTTGATATTTCAAATGCTGGAATTTCAGATAATGTTCCAGAGGGATTTTGGGCTATACTCTCATCACAAGAGTGCAGCAACATCAACATTTCAAACAATCATCTCAAAGGATCAATTCCAAATCTTCAAGTCAAAAATCATTGTTCTTATTTATATTTTTCATCAAATGAATTTGAAGGGCCCATTCCACCATTTCTCCAAGGTTCCGTGATTCCTTCTTCCATGGGATCACTTGTAGAACTGCAAGCATTGCTATTGAGGAACAATAGCTTAACAGGGGAGATCCCTTTCTCCTTATTGAATTGCACAAATTTAGTAATGCTAGATTTTAGAGAAAATAGATTAGGAGGACTCGTCCCTTATTGGATTGGAAGCGAATTAAAAGAGTTGCAAGTTGTAAGCTTACAAAGGAATCATTTCTTTGGAAGTATACCAGTAGAACTTTGCTATCTACAAAACATTCAACTCTTTGATCTCTCATTGAACAGTCTATCTGGAAGAATTCCCAACTGCATTAAAAATTTCACTTCGATGACTAAAAAAGTTCCATCACGAGGTTTTTCCGATCATTGGTATTATATAAACACTAGTTCTTTTAAAGAAGGTATGTCATATCAATTGAATGCATTATTGACATGGAAAGGTGTAGAACATGTGTTTACCAACAATGAATTGTTTCTTCTAAAAAGCATAGATCTTTCAAGCAATCACTTTTCAGGAGAGATTCCACCTGAAATAGCAGATTTGATTCAATTGGTCTCGTTGAATTTATCAAGAAACAACTTCACAGGGAAAATTCCTTCAAATATTGGAAAGCTAACATCACTTGACTTTCTTGATTTGTCACGAAACAAGTTGCTTGGTTCAATTCCTCCTAGTCTCTCTCAAATCAATCGGCTTAGTGTGTTAGATTTGTCCTATAATCAATTATCTGGAGAAATTCCAATGAGTACACAACTACAAAGTTTCAATGCCTCATTTTACGAAGATAATCTTGATCTTTGTGGTCCACCACTTGTAAAATTGTGCCTTGAAGGGGAGCCAACACATGAAACAAAAGTAAAAATTCAAGACGATGAAGATTTGCTTCTCAATCGTGGATTTTACATCAGTCTGACATTCGGATTTATTATAGGCTTCTGGGGAGTGTTTGGCTCAATCATAATCAAGCGTTCTTGGAGACATGCTTATTTCAAGTTCATGAACAATTTAGCAGATAATATATATGTGAAATGCAGATGGTGGCTCAATGATTAA |
| Protein sequence |
>Msa0885140 MTTLSIMNSFCLKLIQIIFLMCLVFQADQLVCSKEVVRCIQSERQALLQFKSGLVDEFDMLSSWSTEDCCQWYGIGCSNLTGHQLTYLNLNGNNFEHNYIPGFFGSLIKLRYLDLSYCNFGGQIHIQFESLSHLNYLNLSNNYLDGRIPSQLGCLSNLQYLDLIENSLKGKIPSQLGKLTNLQELYLEGGALTIDNEDHSGGQWLSNLTSLTHLHMWSISNLDKSNKLSLRNCDLSDHFIHSLSQSKFNFSTSLSILDLSWNNFASSLIFQWVSNISSNLAELDLSGNQMVDPPLNGYGIAMNSLESGVFKSFMNICTIRSLGLSQNNFTEDLQTILHNLSSGCVRNSLHVLELSYNGITGTLPDLSAFTSLKTLDLSRSSLPFQLENLSITSNSLDGGIPKSFWMNACKLKSLDLSNNSFSGELQVNGKVVEDIRFPAKLRTLRMDSNSLHGVISDFHFSGMSMLKELGLSDNSLALTFTENWTQKYLQDLDISNAGISDNVPEGFWAILSSQECSNINISNNHLKGSIPNLQVKNHCSYLYFSSNEFEGPIPPFLQGSVIPSSMGSLVELQALLLRNNSLTGEIPFSLLNCTNLVMLDFRENRLGGLVPYWIGSELKELQVVSLQRNHFFGSIPVELCYLQNIQLFDLSLNSLSGRIPNCIKNFTSMTKKVPSRGFSDHWYYINTSSFKEGMSYQLNALLTWKGVEHVFTNNELFLLKSIDLSSNHFSGEIPPEIADLIQLVSLNLSRNNFTGKIPSNIGKLTSLDFLDLSRNKLLGSIPPSLSQINRLSVLDLSYNQLSGEIPMSTQLQSFNASFYEDNLDLCGPPLVKLCLEGEPTHETKVKIQDDEDLLLNRGFYISLTFGFIIGFWGVFGSIIIKRSWRHAYFKFMNNLADNIYVKCRWWLND* |
