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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0063760 | AES59968.1 | 92.268 | 194 | 14 | 1 | 1 | 194 | 267 | 459 | 3.05e-125 | 371 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0063760 | sp|Q9FMX6|DJC76_ARATH | 33.990 | 203 | 117 | 5 | 1 | 192 | 263 | 459 | 2.36e-23 | 99.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0063760 | G7IBD4 | 92.268 | 194 | 14 | 1 | 1 | 194 | 267 | 459 | 1.46e-125 | 371 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0063760 | Msa0154180 | 0.934585 | 3.216326e-96 | -8.615850e-47 |
| Msa0063760 | Msa0154200 | 0.882837 | 7.450702e-71 | -8.615850e-47 |
| Msa0063760 | Msa0154220 | 0.806474 | 8.085057e-50 | -8.615850e-47 |
| Msa0063760 | Msa0154240 | 0.809128 | 2.205484e-50 | -8.615850e-47 |
| Msa0063760 | Msa0154270 | 0.808404 | 3.149908e-50 | -8.615850e-47 |
| Msa0063760 | Msa0401340 | 0.803192 | 3.919607e-49 | -8.615850e-47 |
| Msa0063760 | Msa0984000 | 0.803638 | 3.168239e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0063760 | MtrunA17_Chr1g0164721 | 92.268 | 194 | 14 | 1 | 1 | 194 | 285 | 477 | 4.18e-129 | 371 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0063760 | AT5G23240.1 | 33.990 | 203 | 117 | 5 | 1 | 192 | 263 | 459 | 2.40e-24 | 99.4 |
Find 43 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCAGGATGAATGGAATTTA+TGG | 0.158588 | 1_2:+24419937 | None:intergenic |
| CAATTTCTAATTGGTTATAT+TGG | 0.226095 | 1_2:-24420099 | Msa0063760:CDS |
| CTCTTTGCAGCTGCATCTCT+TGG | 0.264299 | 1_2:+24419998 | None:intergenic |
| TCTCTTGGCTTACTAAGATT+TGG | 0.268758 | 1_2:+24420013 | None:intergenic |
| CCATTCATCCTGAGGAATAT+TGG | 0.276497 | 1_2:-24419928 | Msa0063760:CDS |
| ACTGGCAATCCCCATCTAAT+TGG | 0.277395 | 1_2:+24419770 | None:intergenic |
| CAATTAGATCAATTTCTAAT+TGG | 0.293169 | 1_2:-24420108 | Msa0063760:CDS |
| CCAGTGGTTACTTCATTGTT+TGG | 0.318448 | 1_2:-24419752 | Msa0063760:CDS |
| TTGGTGCGAATTGCACTATT+TGG | 0.322832 | 1_2:+24420073 | None:intergenic |
| ATGAAAATAGTCCAATTAGA+TGG | 0.341134 | 1_2:-24419781 | Msa0063760:CDS |
| TGGAAATTGTTAACAGCTCT+TGG | 0.381002 | 1_2:-24419652 | Msa0063760:CDS |
| TCAGGATGAATGGAATTTAT+GGG | 0.397759 | 1_2:+24419938 | None:intergenic |
| GAAGGAAGAACAGTAGTTGA+TGG | 0.402925 | 1_2:+24419902 | None:intergenic |
| AGTTGAGTTGAAAGAGCATT+GGG | 0.412413 | 1_2:-24419690 | Msa0063760:CDS |
| TCGATTTCTATTTCCAATGT+TGG | 0.441877 | 1_2:+24419565 | None:intergenic |
| GGTTACTTCATTGTTTGGTA+TGG | 0.442830 | 1_2:-24419747 | Msa0063760:CDS |
| CCAATATTCCTCAGGATGAA+TGG | 0.445444 | 1_2:+24419928 | None:intergenic |
| TTGGGGAGGTTCTCTAGCCT+TGG | 0.460364 | 1_2:-24419672 | Msa0063760:CDS |
| TGAAAATAGTCCAATTAGAT+GGG | 0.463058 | 1_2:-24419780 | Msa0063760:CDS |
| GAAAATGTAGGCTTCTCAAT+TGG | 0.464770 | 1_2:+24419851 | None:intergenic |
| GCAGCTACATGGTATGTGAT+TGG | 0.477504 | 1_2:-24419611 | Msa0063760:CDS |
| AAGGGTTGCTGTAGAATTTG+TGG | 0.483426 | 1_2:-24419588 | Msa0063760:CDS |
| GGCTTACTAAGATTTGGATC+AGG | 0.486859 | 1_2:+24420019 | None:intergenic |
| TGTTTGGTATGGCTGCAGTT+AGG | 0.496837 | 1_2:-24419736 | Msa0063760:CDS |
| CAGTTGAGTTGAAAGAGCAT+TGG | 0.510120 | 1_2:-24419691 | Msa0063760:CDS |
| GTAGTAGTACTAGTTGAAGA+AGG | 0.518499 | 1_2:+24419884 | None:intergenic |
| CTCTTGGTTGCAATATATGT+TGG | 0.521916 | 1_2:-24419636 | Msa0063760:CDS |
| TTCTTCCCTTGAGAAAATGT+AGG | 0.528643 | 1_2:+24419839 | None:intergenic |
| GATGGAGTCCAATATTCCTC+AGG | 0.534720 | 1_2:+24419920 | None:intergenic |
| CTACATGGTATGTGATTGGA+AGG | 0.538431 | 1_2:-24419607 | Msa0063760:CDS |
| GTAGAATTTGTGGCCAACAT+TGG | 0.550242 | 1_2:-24419578 | Msa0063760:CDS |
| CAGGATGAATGGAATTTATG+GGG | 0.557366 | 1_2:+24419939 | None:intergenic |
| ATATGTTGGTAGCAGCTACA+TGG | 0.578806 | 1_2:-24419622 | Msa0063760:CDS |
| AGAGCTGTTAACAATTTCCA+AGG | 0.595776 | 1_2:+24419655 | None:intergenic |
| GCAGTTAGGTTACATGAAGT+AGG | 0.596129 | 1_2:-24419722 | Msa0063760:CDS |
| AATTAGATGGGGATTGCCAG+TGG | 0.600248 | 1_2:-24419768 | Msa0063760:CDS |
| CATAAATTCCATTCATCCTG+AGG | 0.607786 | 1_2:-24419936 | Msa0063760:CDS |
| CCAAACAATGAAGTAACCAC+TGG | 0.612811 | 1_2:+24419752 | None:intergenic |
| AGGATGAATGGAATTTATGG+GGG | 0.638502 | 1_2:+24419940 | None:intergenic |
| GAGTTGAAAGAGCATTGGGG+AGG | 0.639356 | 1_2:-24419686 | Msa0063760:CDS |
| GAAAATAGTCCAATTAGATG+GGG | 0.640775 | 1_2:-24419779 | Msa0063760:CDS |
| GTTGAGTTGAAAGAGCATTG+GGG | 0.697316 | 1_2:-24419689 | Msa0063760:CDS |
| TACATGGTATGTGATTGGAA+GGG | 0.767981 | 1_2:-24419606 | Msa0063760:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAATTAGATCAATTTCTAAT+TGG | - | chr1_2:24419578-24419597 | Msa0063760:CDS | 20.0% |
| !! | CAATTTCTAATTGGTTATAT+TGG | - | chr1_2:24419587-24419606 | Msa0063760:CDS | 20.0% |
| ! | ATGAAAATAGTCCAATTAGA+TGG | - | chr1_2:24419905-24419924 | Msa0063760:CDS | 25.0% |
| ! | TGAAAATAGTCCAATTAGAT+GGG | - | chr1_2:24419906-24419925 | Msa0063760:CDS | 25.0% |
| !! | ATTTATGGGGGTTTTATGTT+TGG | + | chr1_2:24419737-24419756 | None:intergenic | 30.0% |
| TCAGGATGAATGGAATTTAT+GGG | + | chr1_2:24419751-24419770 | None:intergenic | 30.0% | |
| GAAAATAGTCCAATTAGATG+GGG | - | chr1_2:24419907-24419926 | Msa0063760:CDS | 30.0% | |
| TCGATTTCTATTTCCAATGT+TGG | + | chr1_2:24420124-24420143 | None:intergenic | 30.0% | |
| ! | CACAACTTTTGTCATGCTTT+TGG | + | chr1_2:24419635-24419654 | None:intergenic | 35.0% |
| TCTCTTGGCTTACTAAGATT+TGG | + | chr1_2:24419676-24419695 | None:intergenic | 35.0% | |
| AGGATGAATGGAATTTATGG+GGG | + | chr1_2:24419749-24419768 | None:intergenic | 35.0% | |
| CAGGATGAATGGAATTTATG+GGG | + | chr1_2:24419750-24419769 | None:intergenic | 35.0% | |
| CTCAGGATGAATGGAATTTA+TGG | + | chr1_2:24419752-24419771 | None:intergenic | 35.0% | |
| CATAAATTCCATTCATCCTG+AGG | - | chr1_2:24419750-24419769 | Msa0063760:CDS | 35.0% | |
| GTAGTAGTACTAGTTGAAGA+AGG | + | chr1_2:24419805-24419824 | None:intergenic | 35.0% | |
| GAAAATGTAGGCTTCTCAAT+TGG | + | chr1_2:24419838-24419857 | None:intergenic | 35.0% | |
| ! | AGAAGCCTACATTTTCTCAA+GGG | - | chr1_2:24419842-24419861 | Msa0063760:CDS | 35.0% |
| TTCTTCCCTTGAGAAAATGT+AGG | + | chr1_2:24419850-24419869 | None:intergenic | 35.0% | |
| GGTTACTTCATTGTTTGGTA+TGG | - | chr1_2:24419939-24419958 | Msa0063760:CDS | 35.0% | |
| !! | AGTTGAGTTGAAAGAGCATT+GGG | - | chr1_2:24419996-24420015 | Msa0063760:CDS | 35.0% |
| AGAGCTGTTAACAATTTCCA+AGG | + | chr1_2:24420034-24420053 | None:intergenic | 35.0% | |
| TGGAAATTGTTAACAGCTCT+TGG | - | chr1_2:24420034-24420053 | Msa0063760:CDS | 35.0% | |
| CTCTTGGTTGCAATATATGT+TGG | - | chr1_2:24420050-24420069 | Msa0063760:CDS | 35.0% | |
| TACATGGTATGTGATTGGAA+GGG | - | chr1_2:24420080-24420099 | Msa0063760:CDS | 35.0% | |
| TTGGTGCGAATTGCACTATT+TGG | + | chr1_2:24419616-24419635 | None:intergenic | 40.0% | |
| GGCTTACTAAGATTTGGATC+AGG | + | chr1_2:24419670-24419689 | None:intergenic | 40.0% | |
| CCAATATTCCTCAGGATGAA+TGG | + | chr1_2:24419761-24419780 | None:intergenic | 40.0% | |
| CCATTCATCCTGAGGAATAT+TGG | - | chr1_2:24419758-24419777 | Msa0063760:CDS | 40.0% | |
| GAAGGAAGAACAGTAGTTGA+TGG | + | chr1_2:24419787-24419806 | None:intergenic | 40.0% | |
| ! | GAGAAGCCTACATTTTCTCA+AGG | - | chr1_2:24419841-24419860 | Msa0063760:CDS | 40.0% |
| CCAAACAATGAAGTAACCAC+TGG | + | chr1_2:24419937-24419956 | None:intergenic | 40.0% | |
| CCAGTGGTTACTTCATTGTT+TGG | - | chr1_2:24419934-24419953 | Msa0063760:CDS | 40.0% | |
| GCAGTTAGGTTACATGAAGT+AGG | - | chr1_2:24419964-24419983 | Msa0063760:CDS | 40.0% | |
| !! | CAGTTGAGTTGAAAGAGCAT+TGG | - | chr1_2:24419995-24420014 | Msa0063760:CDS | 40.0% |
| !! | GTTGAGTTGAAAGAGCATTG+GGG | - | chr1_2:24419997-24420016 | Msa0063760:CDS | 40.0% |
| !! | ATATGTTGGTAGCAGCTACA+TGG | - | chr1_2:24420064-24420083 | Msa0063760:CDS | 40.0% |
| CTACATGGTATGTGATTGGA+AGG | - | chr1_2:24420079-24420098 | Msa0063760:CDS | 40.0% | |
| AAGGGTTGCTGTAGAATTTG+TGG | - | chr1_2:24420098-24420117 | Msa0063760:CDS | 40.0% | |
| GTAGAATTTGTGGCCAACAT+TGG | - | chr1_2:24420108-24420127 | Msa0063760:CDS | 40.0% | |
| GATGGAGTCCAATATTCCTC+AGG | + | chr1_2:24419769-24419788 | None:intergenic | 45.0% | |
| ACTGGCAATCCCCATCTAAT+TGG | + | chr1_2:24419919-24419938 | None:intergenic | 45.0% | |
| AATTAGATGGGGATTGCCAG+TGG | - | chr1_2:24419918-24419937 | Msa0063760:CDS | 45.0% | |
| TGTTTGGTATGGCTGCAGTT+AGG | - | chr1_2:24419950-24419969 | Msa0063760:CDS | 45.0% | |
| GCAGCTACATGGTATGTGAT+TGG | - | chr1_2:24420075-24420094 | Msa0063760:CDS | 45.0% | |
| CTCTTTGCAGCTGCATCTCT+TGG | + | chr1_2:24419691-24419710 | None:intergenic | 50.0% | |
| !! | GAGTTGAAAGAGCATTGGGG+AGG | - | chr1_2:24420000-24420019 | Msa0063760:CDS | 50.0% |
| TTGGGGAGGTTCTCTAGCCT+TGG | - | chr1_2:24420014-24420033 | Msa0063760:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 24419562 | 24420146 | 24419562 | ID=Msa0063760;Name=Msa0063760 |
| chr1_2 | mRNA | 24419562 | 24420146 | 24419562 | ID=Msa0063760-mRNA-1;Parent=Msa0063760;Name=Msa0063760-mRNA-1;_AED=0.17;_eAED=0.18;_QI=0|-1|0|1|-1|1|1|0|194 |
| chr1_2 | exon | 24419562 | 24420146 | 24419562 | ID=Msa0063760-mRNA-1:exon:8747;Parent=Msa0063760-mRNA-1 |
| chr1_2 | CDS | 24419562 | 24420146 | 24419562 | ID=Msa0063760-mRNA-1:cds;Parent=Msa0063760-mRNA-1 |
| Gene Sequence |
| Protein sequence |
