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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1036270 | XP_013449816.1 | 97.199 | 357 | 9 | 1 | 1 | 357 | 1 | 356 | 0.0 | 710 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1036270 | A0A072U2B1 | 97.199 | 357 | 9 | 1 | 1 | 357 | 1 | 356 | 0.0 | 710 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0266210 | Msa1036270 | 0.803513 | 3.363990e-49 | -8.615850e-47 |
| Msa0287670 | Msa1036270 | 0.804754 | 1.856333e-49 | -8.615850e-47 |
| Msa0609970 | Msa1036270 | 0.826502 | 2.618789e-54 | -8.615850e-47 |
| Msa0614990 | Msa1036270 | 0.811653 | 6.287597e-51 | -8.615850e-47 |
| Msa0650620 | Msa1036270 | 0.832499 | 9.132002e-56 | -8.615850e-47 |
| Msa0928010 | Msa1036270 | 0.825134 | 5.530443e-54 | -8.615850e-47 |
| Msa0998700 | Msa1036270 | 0.835781 | 1.374199e-56 | -8.615850e-47 |
| Msa1036270 | Msa1076540 | 0.985727 | 1.792676e-164 | -8.615850e-47 |
| Msa1036270 | Msa1338610 | 0.971500 | 2.920905e-133 | -8.615850e-47 |
| Msa1036270 | Msa1350690 | 0.803300 | 3.723403e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1036270 | MtrunA17_Chr7g0260551 | 97.199 | 357 | 9 | 1 | 1 | 357 | 1 | 356 | 0.0 | 710 |
| Msa1036270 | MtrunA17_Chr1g0184881 | 61.351 | 370 | 108 | 9 | 1 | 356 | 1 | 349 | 9.87e-146 | 416 |
| Msa1036270 | MtrunA17_Chr1g0188091 | 49.347 | 383 | 152 | 13 | 5 | 350 | 4 | 381 | 2.18e-99 | 299 |
| Msa1036270 | MtrunA17_Chr1g0166241 | 45.358 | 377 | 159 | 11 | 5 | 357 | 4 | 357 | 5.67e-95 | 287 |
| Msa1036270 | MtrunA17_Chr7g0251511 | 45.865 | 133 | 66 | 3 | 159 | 285 | 129 | 261 | 1.93e-34 | 129 |
| Msa1036270 | MtrunA17_Chr2g0289701 | 36.771 | 223 | 125 | 5 | 73 | 285 | 43 | 259 | 3.48e-34 | 128 |
| Msa1036270 | MtrunA17_Chr8g0384101 | 47.934 | 121 | 51 | 2 | 166 | 279 | 93 | 208 | 3.82e-33 | 124 |
| Msa1036270 | MtrunA17_Chr4g0075591 | 44.000 | 125 | 70 | 0 | 161 | 285 | 119 | 243 | 3.82e-32 | 122 |
| Msa1036270 | MtrunA17_Chr4g0075611 | 44.000 | 125 | 70 | 0 | 161 | 285 | 137 | 261 | 5.42e-32 | 122 |
| Msa1036270 | MtrunA17_Chr4g0040171 | 38.514 | 148 | 80 | 2 | 152 | 288 | 107 | 254 | 1.32e-30 | 118 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1036270 | AT3G22970.1 | 50.384 | 391 | 139 | 12 | 1 | 357 | 1 | 370 | 7.80e-110 | 325 |
| Msa1036270 | AT2G38820.2 | 54.915 | 295 | 110 | 9 | 1 | 284 | 1 | 283 | 4.04e-101 | 301 |
| Msa1036270 | AT4G14620.1 | 46.400 | 375 | 142 | 13 | 5 | 356 | 2 | 340 | 2.18e-93 | 282 |
| Msa1036270 | AT3G22970.2 | 50.391 | 256 | 88 | 5 | 123 | 357 | 22 | 259 | 2.34e-72 | 226 |
| Msa1036270 | AT3G54550.1 | 47.423 | 291 | 125 | 10 | 1 | 283 | 1 | 271 | 4.76e-72 | 226 |
| Msa1036270 | AT2G38820.1 | 50.000 | 202 | 78 | 9 | 1 | 191 | 1 | 190 | 3.72e-47 | 159 |
| Msa1036270 | AT3G25240.1 | 36.327 | 245 | 130 | 8 | 50 | 283 | 16 | 245 | 1.09e-34 | 129 |
| Msa1036270 | AT2G39650.2 | 39.024 | 164 | 85 | 4 | 159 | 307 | 46 | 209 | 2.09e-33 | 124 |
| Msa1036270 | AT2G39650.1 | 40.816 | 147 | 73 | 3 | 159 | 291 | 108 | 254 | 4.06e-33 | 125 |
| Msa1036270 | AT3G07350.1 | 45.312 | 128 | 64 | 1 | 164 | 285 | 139 | 266 | 2.45e-32 | 123 |
Find 82 sgRNAs with CRISPR-Local
Find 250 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCCACTTTCTGTATAGC+AGG | 0.488720 | 7_1:+72624111 | Msa1036270:CDS |
| AAGCGCGTGAAGTTCACTGT+CGG | 0.695670 | 7_1:-72623765 | None:intergenic |
| AAGTTTCTTTCATTAACATT+TGG | 0.413551 | 7_1:-72623952 | None:intergenic |
| ACCGGCTTAATCCTCTCTGC+CGG | 0.582629 | 7_1:-72623494 | None:intergenic |
| ACGCTTCCTTATGTATTCGT+AGG | 0.529019 | 7_1:+72624354 | Msa1036270:CDS |
| ACTGGGGTTAAGGTTGTGAC+TGG | 0.490506 | 7_1:+72624687 | Msa1036270:CDS |
| AGATGAGCCGCATCTACGCA+AGG | 0.602105 | 7_1:+72623598 | Msa1036270:CDS |
| AGGAAACAGAGAGAAAACAG+AGG | 0.611141 | 7_1:+72624559 | Msa1036270:CDS |
| AGGGTTTGCATGTTCCACCT+TGG | 0.550630 | 7_1:+72624445 | Msa1036270:CDS |
| AGTCAAAAGTGGTGGTTGAA+TGG | 0.479321 | 7_1:+72624628 | Msa1036270:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGACATCATGAAATGAAGAT+CGG | - | chr7_1:72623223-72623242 | None:intergenic | 30.0% | |
| TGAAGCCTATGAAATTCTTA+AGG | + | chr7_1:72623805-72623824 | Msa1036270:CDS | 30.0% | |
| TTCAATTTGTAAATCTCGCT+GGG | + | chr7_1:72624086-72624105 | Msa1036270:CDS | 30.0% | |
| GAATACATTGATGTGGTAAT+AGG | + | chr7_1:72624246-72624265 | Msa1036270:CDS | 30.0% | |
| GAAACAGAGTTTGAAGAAAA+AGG | + | chr7_1:72624425-72624444 | Msa1036270:CDS | 30.0% | |
| TCGAATACGTTAGATCAAAA+TGG | + | chr7_1:72624475-72624494 | Msa1036270:CDS | 30.0% | |
| CCTTACAATAAAAAACCAGA+AGG | - | chr7_1:72624879-72624898 | None:intergenic | 30.0% | |
| TGACATCATGAAATGAAGAT+CGG | - | chr7_1:72623223-72623242 | None:intergenic | 30.0% | |
| TGAAGCCTATGAAATTCTTA+AGG | + | chr7_1:72623805-72623824 | Msa1036270:CDS | 30.0% | |
| TTCAATTTGTAAATCTCGCT+GGG | + | chr7_1:72624086-72624105 | Msa1036270:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 72623093 | 72624988 | 72623093 | ID=Msa1036270;Name=Msa1036270 |
| chr7_1 | mRNA | 72623093 | 72624988 | 72623093 | ID=Msa1036270-mRNA-1;Parent=Msa1036270;Name=Msa1036270-mRNA-1;_AED=0.04;_eAED=0.04;_QI=359|1|1|1|1|1|3|248|357 |
| chr7_1 | exon | 72623093 | 72623826 | 72623093 | ID=Msa1036270-mRNA-1:exon:17695;Parent=Msa1036270-mRNA-1 |
| chr7_1 | exon | 72623937 | 72624132 | 72623937 | ID=Msa1036270-mRNA-1:exon:17696;Parent=Msa1036270-mRNA-1 |
| chr7_1 | exon | 72624238 | 72624988 | 72624238 | ID=Msa1036270-mRNA-1:exon:17697;Parent=Msa1036270-mRNA-1 |
| chr7_1 | five_prime_UTR | 72623093 | 72623451 | 72623093 | ID=Msa1036270-mRNA-1:five_prime_utr;Parent=Msa1036270-mRNA-1 |
| chr7_1 | CDS | 72623452 | 72623826 | 72623452 | ID=Msa1036270-mRNA-1:cds;Parent=Msa1036270-mRNA-1 |
| chr7_1 | CDS | 72623937 | 72624132 | 72623937 | ID=Msa1036270-mRNA-1:cds;Parent=Msa1036270-mRNA-1 |
| chr7_1 | CDS | 72624238 | 72624740 | 72624238 | ID=Msa1036270-mRNA-1:cds;Parent=Msa1036270-mRNA-1 |
| chr7_1 | three_prime_UTR | 72624741 | 72624988 | 72624741 | ID=Msa1036270-mRNA-1:three_prime_utr;Parent=Msa1036270-mRNA-1 |
| Gene Sequence |
>Msa1036270 ATGCCTTTCACAATGAAGATTCAGCCGATCGATTCTCAGATTCCGGCAGAGAGGATTAAGCCGGTCGTCAAGTCGCGGCTGAAGCGTCTTTTCGAGCGACAATTCTCCGGCGTTCTGAAGAATCCACCACCGGAAAAGATCGCCGGAGATGAGCCGCATCTACGCAAGGACGGTTCAAACAACGTCTTCATCGATTTTGAACCAAACTCAGTGTGTCTTGCGAAGATGGTGCAGAGTTTCATTGAAGAGAATCATGAGAAGCATTCAGTTTCATGTGCTCGTAACTGCTTCAACGGAAACTTCGACGATGGTTCCGACAGTGAACTTCACGCGCTTGGTGGTGGTACATCTGGTGAAGCCTATGAAATTCTTAAGGGTTTGGTGGCGTGTCCAAATGTTAATGAAAGAAACTTGTTAGCGGACACAACAAAGATCATTGAGAAGAACAAAACTGTGTGCAAACGTAAAGATGATAATTGCAGAAAAATTGTTATTGATGGATTGTTGAATCTTGGATATGATGCTTCAATTTGTAAATCTCGCTGGGAAAAATCCACTTTCTGTATAGCAGGTGAATATGAATACATTGATGTGGTAATAGGAAAGGAGAGGGTGATAATTGATGTTGATTTCAGATCAGAATTTGAGATTGCTCGATCAACCAAAGCTTACAAAGTGATTCTCCAAACGCTTCCTTATGTATTCGTAGGGAAGAGTGATCGGTTACATAGTATTGTAGCCATAGCATCTGAGGCAGCGAAACAGAGTTTGAAGAAAAAGGGTTTGCATGTTCCACCTTGGAGAAAACTCGAATACGTTAGATCAAAATGGTTCTCTCCTTACACAAGAATTACACCACCTATGTTTTGTCCTTGGTCACGTGAAATCAGTGAGGAAACAGAGAGAAAACAGAGGGTTTTGATCGGCGGCGGTGAGTCTGGACAGAGTGGTGGTGAGTCAGAGTCAAAAGTGGTGGTTGAATGGAAGCCACCAGAATTGAAACCCAAAAACTCTGTTCAGACTGGGGTTAAGGTTGTGACTGGTTTGGCAGCTGTTTTTCGTGAAAACCCATGA |
| Protein sequence |
>Msa1036270 MPFTMKIQPIDSQIPAERIKPVVKSRLKRLFERQFSGVLKNPPPEKIAGDEPHLRKDGSNNVFIDFEPNSVCLAKMVQSFIEENHEKHSVSCARNCFNGNFDDGSDSELHALGGGTSGEAYEILKGLVACPNVNERNLLADTTKIIEKNKTVCKRKDDNCRKIVIDGLLNLGYDASICKSRWEKSTFCIAGEYEYIDVVIGKERVIIDVDFRSEFEIARSTKAYKVILQTLPYVFVGKSDRLHSIVAIASEAAKQSLKKKGLHVPPWRKLEYVRSKWFSPYTRITPPMFCPWSREISEETERKQRVLIGGGESGQSGGESESKVVVEWKPPELKPKNSVQTGVKVVTGLAAVFRENP* |
