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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042430 | XP_013461666.1 | 79.167 | 144 | 8 | 2 | 1 | 122 | 1 | 144 | 6.51e-64 | 204 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042430 | A0A072V1Y3 | 79.167 | 144 | 8 | 2 | 1 | 122 | 1 | 144 | 3.11e-64 | 204 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0604350 | Msa1042430 | 0.812560 | 3.987273e-51 | -8.615850e-47 |
| Msa0636170 | Msa1042430 | 0.838110 | 3.493277e-57 | -8.615850e-47 |
| Msa0745060 | Msa1042430 | 0.845079 | 5.078546e-59 | -8.615850e-47 |
| Msa0825860 | Msa1042430 | 0.839086 | 1.954991e-57 | -8.615850e-47 |
| Msa0414420 | Msa1042430 | 0.815397 | 9.438481e-52 | -8.615850e-47 |
| Msa0450000 | Msa1042430 | 0.809580 | 1.763712e-50 | -8.615850e-47 |
| Msa0452900 | Msa1042430 | 0.821774 | 3.375942e-53 | -8.615850e-47 |
| Msa0453120 | Msa1042430 | 0.804266 | 2.346269e-49 | -8.615850e-47 |
| Msa0454910 | Msa1042430 | 0.822628 | 2.139886e-53 | -8.615850e-47 |
| Msa1025360 | Msa1042430 | 0.817683 | 2.903854e-52 | -8.615850e-47 |
| Msa1025370 | Msa1042430 | 0.821612 | 3.681309e-53 | -8.615850e-47 |
| Msa1042430 | Msa1044830 | 0.826609 | 2.469587e-54 | -8.615850e-47 |
| Msa1042430 | Msa1044840 | 0.813116 | 3.012531e-51 | -8.615850e-47 |
| Msa1042430 | Msa1092990 | 0.816740 | 4.733361e-52 | -8.615850e-47 |
| Msa1042430 | Msa1100980 | 0.805392 | 1.364671e-49 | -8.615850e-47 |
| Msa1042430 | Msa1146110 | 0.800472 | 1.418255e-48 | -8.615850e-47 |
| Msa1042430 | Msa1187950 | 0.816714 | 4.797046e-52 | -8.615850e-47 |
| Msa1042430 | Msa1269670 | 0.824187 | 9.245561e-54 | -8.615850e-47 |
| Msa1042430 | Msa1270240 | 0.808824 | 2.561149e-50 | -8.615850e-47 |
| Msa1042430 | Msa1287810 | 0.810602 | 1.062541e-50 | -8.615850e-47 |
| Msa1042430 | Msa1404000 | 0.802820 | 4.679460e-49 | -8.615850e-47 |
| Msa1042430 | Msa1415310 | 0.803709 | 3.062306e-49 | -8.615850e-47 |
| Msa1042430 | Msa1451190 | 0.860520 | 1.951231e-63 | -8.615850e-47 |
| Msa0267000 | Msa1042430 | 0.810121 | 1.348879e-50 | -8.615850e-47 |
| Msa0267010 | Msa1042430 | 0.800129 | 1.665482e-48 | -8.615850e-47 |
| Msa0865320 | Msa1042430 | 0.819213 | 1.307202e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042430 | MtrunA17_Chr3g0131781 | 79.167 | 144 | 8 | 2 | 1 | 122 | 1 | 144 | 5.99e-68 | 204 |
| Msa1042430 | MtrunA17_Chr8g0385941 | 41.111 | 180 | 47 | 10 | 1 | 129 | 1 | 172 | 9.92e-22 | 87.4 |
| 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 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAATTCGATCTTGGTCTTT+TGG | 0.187350 | 7_1:+80411392 | None:intergenic |
| TGGTAGCTGGAAAGTGAAAA+AGG | 0.224871 | 7_1:-80411418 | Msa1042430:CDS |
| TCGTTGCTCCGCCGTTTATT+TGG | 0.233205 | 7_1:+80411683 | None:intergenic |
| AACACCGACGGTGTAATTAT+TGG | 0.331686 | 7_1:-80411438 | Msa1042430:CDS |
| CAAAAGACCAAGATCGAATT+GGG | 0.359194 | 7_1:-80411391 | Msa1042430:CDS |
| CCAAAAGACCAAGATCGAAT+TGG | 0.364115 | 7_1:-80411392 | Msa1042430:CDS |
| AAATCATGGCGATTCGGCTT+CGG | 0.384660 | 7_1:-80411544 | Msa1042430:CDS |
| CCGCCGTTTATTTGGACCTT+CGG | 0.398024 | 7_1:+80411691 | None:intergenic |
| GGTCTCCGATGTCGCCTAAT+CGG | 0.413080 | 7_1:+80411599 | None:intergenic |
| TTCGGCTTCGGCAACGTCTC+AGG | 0.441191 | 7_1:-80411532 | Msa1042430:intron |
| CCACCGAAGGTCCAAATAAA+CGG | 0.453209 | 7_1:-80411694 | Msa1042430:CDS |
| GAAGAAACCCAATTCGATCT+TGG | 0.472216 | 7_1:+80411384 | None:intergenic |
| TTCGATCCGTGAGGTTCTGA+AGG | 0.475990 | 7_1:+80411643 | None:intergenic |
| AGTTCAAAATCATGGCGATT+CGG | 0.480998 | 7_1:-80411550 | Msa1042430:CDS |
| CGCCTAATCGGACGCTGGGT+CGG | 0.497118 | 7_1:+80411611 | None:intergenic |
| GCGGCGAGGGTGGGAATCAG+AGG | 0.498456 | 7_1:+80411573 | None:intergenic |
| CTCGCCGCAGTTCAAAATCA+TGG | 0.500043 | 7_1:-80411558 | Msa1042430:CDS |
| AATAATTACACCGTCGGTGT+TGG | 0.505458 | 7_1:+80411440 | None:intergenic |
| GTTTCTTCGCGAATTGAAGA+AGG | 0.522515 | 7_1:-80411369 | Msa1042430:CDS |
| TTTATTTGGACCTTCGGTGG+CGG | 0.523272 | 7_1:+80411697 | None:intergenic |
| GATGTCGCCTAATCGGACGC+TGG | 0.529379 | 7_1:+80411606 | None:intergenic |
| ACGGTGTAATTATTGGTAGC+TGG | 0.534282 | 7_1:-80411431 | Msa1042430:CDS |
| ATGTCGCCTAATCGGACGCT+GGG | 0.537206 | 7_1:+80411607 | None:intergenic |
| CCGTTTATTTGGACCTTCGG+TGG | 0.544420 | 7_1:+80411694 | None:intergenic |
| TCGATCCGTGAGGTTCTGAA+GGG | 0.559702 | 7_1:+80411644 | None:intergenic |
| CACCGACCCAGCGTCCGATT+AGG | 0.565703 | 7_1:-80411613 | Msa1042430:CDS |
| CGGCGAGGGTGGGAATCAGA+GGG | 0.591797 | 7_1:+80411574 | None:intergenic |
| GGAAGAGGTTCCGCCACCGA+AGG | 0.594303 | 7_1:-80411707 | Msa1042430:CDS |
| GAGGGTGGGAATCAGAGGGT+TGG | 0.602586 | 7_1:+80411578 | None:intergenic |
| GAAACGGAAGAAAATGGAAG+AGG | 0.606203 | 7_1:-80411722 | None:intergenic |
| CGATCCGTGAGGTTCTGAAG+GGG | 0.626502 | 7_1:+80411645 | None:intergenic |
| AGCGTCCGATTAGGCGACAT+CGG | 0.639876 | 7_1:-80411604 | Msa1042430:CDS |
| GATCCGTGAGGTTCTGAAGG+GGG | 0.654909 | 7_1:+80411646 | None:intergenic |
| GCTACCAATAATTACACCGT+CGG | 0.667969 | 7_1:+80411434 | None:intergenic |
| GACGTAGAAACCAACACCGA+CGG | 0.675808 | 7_1:-80411450 | Msa1042430:CDS |
| CAGAACCTCACGGATCGAAG+CGG | 0.686667 | 7_1:-80411639 | Msa1042430:CDS |
| TGTTGCCGCTTCGATCCGTG+AGG | 0.714492 | 7_1:+80411634 | None:intergenic |
| CCGAAGGTCCAAATAAACGG+CGG | 0.735932 | 7_1:-80411691 | Msa1042430:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGATTTTGAAGGTGATAATT+CGG | - | chr7_1:80411674-80411693 | Msa1042430:CDS | 25.0% |
| ! | AAACCAGTTCAAAAAAAATC+TGG | - | chr7_1:80411705-80411724 | Msa1042430:CDS | 25.0% |
| !!! | TAACCAGATTTTTTTTGAAC+TGG | + | chr7_1:80411711-80411730 | None:intergenic | 25.0% |
| ! | TCCTTTGACTAATTTGACTT+CGG | - | chr7_1:80411496-80411515 | Msa1042430:intron | 30.0% |
| ! | GATTTGTATCGAGATTTTGA+AGG | - | chr7_1:80411663-80411682 | Msa1042430:CDS | 30.0% |
| !! | GATTTTGAAGGTGATAATTC+GGG | - | chr7_1:80411675-80411694 | Msa1042430:CDS | 30.0% |
| AGTTCAAAATCATGGCGATT+CGG | - | chr7_1:80411437-80411456 | Msa1042430:CDS | 35.0% | |
| ACCGAAGTCAAATTAGTCAA+AGG | + | chr7_1:80411500-80411519 | None:intergenic | 35.0% | |
| CAAAAGACCAAGATCGAATT+GGG | - | chr7_1:80411596-80411615 | Msa1042430:CDS | 35.0% | |
| ! | ATCGCCATGATTTTGAACTG+CGG | + | chr7_1:80411436-80411455 | None:intergenic | 40.0% |
| TCTACGTCTTCCATCGAAAT+CGG | + | chr7_1:80411525-80411544 | None:intergenic | 40.0% | |
| AATAATTACACCGTCGGTGT+TGG | + | chr7_1:80411550-80411569 | None:intergenic | 40.0% | |
| AACACCGACGGTGTAATTAT+TGG | - | chr7_1:80411549-80411568 | Msa1042430:CDS | 40.0% | |
| GCTACCAATAATTACACCGT+CGG | + | chr7_1:80411556-80411575 | None:intergenic | 40.0% | |
| ! | ACGGTGTAATTATTGGTAGC+TGG | - | chr7_1:80411556-80411575 | Msa1042430:CDS | 40.0% |
| TGGTAGCTGGAAAGTGAAAA+AGG | - | chr7_1:80411569-80411588 | Msa1042430:CDS | 40.0% | |
| GGTAGCTGGAAAGTGAAAAA+GGG | - | chr7_1:80411570-80411589 | Msa1042430:CDS | 40.0% | |
| !! | CCAATTCGATCTTGGTCTTT+TGG | + | chr7_1:80411598-80411617 | None:intergenic | 40.0% |
| CCAAAAGACCAAGATCGAAT+TGG | - | chr7_1:80411595-80411614 | Msa1042430:CDS | 40.0% | |
| GAAGAAACCCAATTCGATCT+TGG | + | chr7_1:80411606-80411625 | None:intergenic | 40.0% | |
| GTTTCTTCGCGAATTGAAGA+AGG | - | chr7_1:80411618-80411637 | Msa1042430:CDS | 40.0% | |
| TTTATTTGGACCTTCGGTGG+CGG | + | chr7_1:80411293-80411312 | None:intergenic | 45.0% | |
| CCACCGAAGGTCCAAATAAA+CGG | - | chr7_1:80411293-80411312 | Msa1042430:CDS | 45.0% | |
| ! | ATGATTTTGAACTGCGGCGA+GGG | + | chr7_1:80411430-80411449 | None:intergenic | 45.0% |
| ! | AAATCATGGCGATTCGGCTT+CGG | - | chr7_1:80411443-80411462 | Msa1042430:CDS | 45.0% |
| GTCAAAGGACGAGTCTTCAA+GGG | + | chr7_1:80411485-80411504 | None:intergenic | 45.0% | |
| AGTCAAAGGACGAGTCTTCA+AGG | + | chr7_1:80411486-80411505 | None:intergenic | 45.0% | |
| ACTTCGGTTTCCGATTTCGA+TGG | - | chr7_1:80411512-80411531 | Msa1042430:intron | 45.0% | |
| CCGTTTATTTGGACCTTCGG+TGG | + | chr7_1:80411296-80411315 | None:intergenic | 50.0% | |
| CCGCCGTTTATTTGGACCTT+CGG | + | chr7_1:80411299-80411318 | None:intergenic | 50.0% | |
| CCGAAGGTCCAAATAAACGG+CGG | - | chr7_1:80411296-80411315 | Msa1042430:CDS | 50.0% | |
| TCGTTGCTCCGCCGTTTATT+TGG | + | chr7_1:80411307-80411326 | None:intergenic | 50.0% | |
| !! | TCGATCCGTGAGGTTCTGAA+GGG | + | chr7_1:80411346-80411365 | None:intergenic | 50.0% |
| ! | TTCGATCCGTGAGGTTCTGA+AGG | + | chr7_1:80411347-80411366 | None:intergenic | 50.0% |
| ! | CATGATTTTGAACTGCGGCG+AGG | + | chr7_1:80411431-80411450 | None:intergenic | 50.0% |
| CTCGCCGCAGTTCAAAATCA+TGG | - | chr7_1:80411429-80411448 | Msa1042430:CDS | 50.0% | |
| GACGTAGAAACCAACACCGA+CGG | - | chr7_1:80411537-80411556 | Msa1042430:CDS | 50.0% | |
| CTACCCCCTTCAGAACCTCA+CGG | - | chr7_1:80411338-80411357 | Msa1042430:CDS | 55.0% | |
| !! | GATCCGTGAGGTTCTGAAGG+GGG | + | chr7_1:80411344-80411363 | None:intergenic | 55.0% |
| !! | CGATCCGTGAGGTTCTGAAG+GGG | + | chr7_1:80411345-80411364 | None:intergenic | 55.0% |
| CAGAACCTCACGGATCGAAG+CGG | - | chr7_1:80411348-80411367 | Msa1042430:CDS | 55.0% | |
| ATGTCGCCTAATCGGACGCT+GGG | + | chr7_1:80411383-80411402 | None:intergenic | 55.0% | |
| AGCGTCCGATTAGGCGACAT+CGG | - | chr7_1:80411383-80411402 | Msa1042430:CDS | 55.0% | |
| GGTCTCCGATGTCGCCTAAT+CGG | + | chr7_1:80411391-80411410 | None:intergenic | 55.0% | |
| ! | TTTTGAACTGCGGCGAGGGT+GGG | + | chr7_1:80411426-80411445 | None:intergenic | 55.0% |
| ! | ATTTTGAACTGCGGCGAGGG+TGG | + | chr7_1:80411427-80411446 | None:intergenic | 55.0% |
| ! | TGTTGCCGCTTCGATCCGTG+AGG | + | chr7_1:80411356-80411375 | None:intergenic | 60.0% |
| GATGTCGCCTAATCGGACGC+TGG | + | chr7_1:80411384-80411403 | None:intergenic | 60.0% | |
| GAGGGTGGGAATCAGAGGGT+TGG | + | chr7_1:80411412-80411431 | None:intergenic | 60.0% | |
| TTCGGCTTCGGCAACGTCTC+AGG | - | chr7_1:80411455-80411474 | Msa1042430:intron | 60.0% | |
| GGAAGAGGTTCCGCCACCGA+AGG | - | chr7_1:80411280-80411299 | Msa1042430:CDS | 65.0% | |
| CACCGACCCAGCGTCCGATT+AGG | - | chr7_1:80411374-80411393 | Msa1042430:CDS | 65.0% | |
| CGCCTAATCGGACGCTGGGT+CGG | + | chr7_1:80411379-80411398 | None:intergenic | 65.0% | |
| CGGCGAGGGTGGGAATCAGA+GGG | + | chr7_1:80411416-80411435 | None:intergenic | 65.0% | |
| GCGGCGAGGGTGGGAATCAG+AGG | + | chr7_1:80411417-80411436 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 80411278 | 80411731 | 80411278 | ID=Msa1042430;Name=Msa1042430 |
| chr7_1 | mRNA | 80411278 | 80411731 | 80411278 | ID=Msa1042430-mRNA-1;Parent=Msa1042430;Name=Msa1042430-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0|0|1|1|1|2|0|130 |
| chr7_1 | exon | 80411533 | 80411731 | 80411533 | ID=Msa1042430-mRNA-1:exon:21950;Parent=Msa1042430-mRNA-1 |
| chr7_1 | exon | 80411278 | 80411471 | 80411278 | ID=Msa1042430-mRNA-1:exon:21949;Parent=Msa1042430-mRNA-1 |
| chr7_1 | CDS | 80411533 | 80411731 | 80411533 | ID=Msa1042430-mRNA-1:cds;Parent=Msa1042430-mRNA-1 |
| chr7_1 | CDS | 80411278 | 80411471 | 80411278 | ID=Msa1042430-mRNA-1:cds;Parent=Msa1042430-mRNA-1 |
| Gene Sequence |
| Protein sequence |
