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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489800 | XP_013467661.1 | 97.872 | 141 | 3 | 0 | 6 | 146 | 116 | 256 | 4.23e-91 | 278 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489800 | A0A072VJS3 | 97.872 | 141 | 3 | 0 | 6 | 146 | 116 | 256 | 2.02e-91 | 278 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0278290 | Msa0489800 | 0.838160 | 3.391750e-57 | -8.615850e-47 |
| Msa0489800 | Msa0495330 | 0.804111 | 2.527248e-49 | -8.615850e-47 |
| Msa0489800 | Msa0731940 | 0.814236 | 1.707571e-51 | -8.615850e-47 |
| Msa0489800 | Msa0810220 | 0.810288 | 1.241920e-50 | -8.615850e-47 |
| Msa0489800 | Msa0969520 | 0.832158 | 1.108747e-55 | -8.615850e-47 |
| Msa0489800 | Msa1014540 | 0.801612 | 8.293613e-49 | -8.615850e-47 |
| Msa0489800 | Msa1054990 | 0.802691 | 4.974824e-49 | -8.615850e-47 |
| Msa0489800 | Msa1186950 | -0.805357 | 1.388369e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489800 | MtrunA17_Chr1g0175161 | 97.872 | 141 | 3 | 0 | 6 | 146 | 116 | 256 | 3.89e-95 | 278 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0489800 | AT3G57990.1 | 49.219 | 128 | 51 | 4 | 6 | 120 | 109 | 235 | 2.07e-28 | 107 |
Find 49 sgRNAs with CRISPR-Local
Find 85 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCGTCGGCTGGGGCGATTGC+AGG | 0.212071 | 3_4:-10488159 | Msa0489800:CDS |
| GTCGGGAAGGTGCCGTCGGC+TGG | 0.220747 | 3_4:-10488171 | Msa0489800:CDS |
| TTTCTTGTGATGGATAAAAT+TGG | 0.227367 | 3_4:-10488006 | Msa0489800:CDS |
| TCCGCAAAACGGTGGCGTTT+TGG | 0.257586 | 3_4:-10488250 | Msa0489800:CDS |
| CTGAGGTTGCGGCGAGGACT+AGG | 0.264777 | 3_4:-10488122 | Msa0489800:CDS |
| GAGGACTAGGGTTCCGATTA+GGG | 0.309618 | 3_4:-10488109 | Msa0489800:CDS |
| CGAGGACTAGGGTTCCGATT+AGG | 0.329022 | 3_4:-10488110 | Msa0489800:CDS |
| TAGGGTTCCGACTGAGGTTA+AGG | 0.336363 | 3_4:-10488055 | Msa0489800:CDS |
| GTTAAGGGCAAAAGCGCGTT+TGG | 0.345158 | 3_4:-10488039 | Msa0489800:CDS |
| TCGGGAAGGTGCCGTCGGCT+GGG | 0.374474 | 3_4:-10488170 | Msa0489800:CDS |
| AAAGGAAAGGTTGGTGCTGC+TGG | 0.377756 | 3_4:-10487937 | Msa0489800:CDS |
| CGGGAAGGTGCCGTCGGCTG+GGG | 0.380207 | 3_4:-10488169 | Msa0489800:CDS |
| ACCGCGGCACGTCCCCTAAT+CGG | 0.411961 | 3_4:+10488096 | None:intergenic |
| TTCTTGTGATGGATAAAATT+GGG | 0.414253 | 3_4:-10488005 | Msa0489800:CDS |
| TTTGTTGAATCTCCGGTGAT+TGG | 0.435435 | 3_4:-10488204 | Msa0489800:CDS |
| ATTTGAGTTTGTTGAATCTC+CGG | 0.443909 | 3_4:-10488211 | Msa0489800:CDS |
| AGGGTTCCGACTGAGGTTAA+GGG | 0.474352 | 3_4:-10488054 | Msa0489800:CDS |
| GAGGGTTCCGTTTCTTGTGA+TGG | 0.480532 | 3_4:-10488016 | Msa0489800:CDS |
| GTGATTGGTGGGTTTAGTGT+CGG | 0.483284 | 3_4:-10488189 | Msa0489800:CDS |
| GATTTGAAGAATTTGAAGAA+AGG | 0.489031 | 3_4:-10487955 | Msa0489800:CDS |
| GGTTATGCGTTTCCGCAAAA+CGG | 0.490258 | 3_4:-10488261 | Msa0489800:CDS |
| TTAAGGGCAAAAGCGCGTTT+GGG | 0.490448 | 3_4:-10488038 | Msa0489800:CDS |
| CTCGGCAACACAGCACTTGT+CGG | 0.490850 | 3_4:+10487904 | None:intergenic |
| TGATTGGTGGGTTTAGTGTC+GGG | 0.491545 | 3_4:-10488188 | Msa0489800:CDS |
| TTCAAATCCCCACACTCCGC+TGG | 0.499435 | 3_4:+10487970 | None:intergenic |
| AACATTTGCCAGCGGAGTGT+GGG | 0.501336 | 3_4:-10487978 | Msa0489800:CDS |
| AAGGTTGGTGCTGCTGGAGT+TGG | 0.503818 | 3_4:-10487931 | Msa0489800:CDS |
| GTTGAATCTCCGGTGATTGG+TGG | 0.516218 | 3_4:-10488201 | Msa0489800:CDS |
| TGAGGTTGCGGCGAGGACTA+GGG | 0.516942 | 3_4:-10488121 | Msa0489800:CDS |
| CGTCGGCTGGGGCGATTGCA+GGG | 0.524791 | 3_4:-10488158 | Msa0489800:CDS |
| GAACATTTGCCAGCGGAGTG+TGG | 0.526006 | 3_4:-10487979 | Msa0489800:CDS |
| GAAGAATTTGAAGAAAGGAA+AGG | 0.533083 | 3_4:-10487950 | Msa0489800:CDS |
| TCCGATTAGGGGACGTGCCG+CGG | 0.544241 | 3_4:-10488097 | Msa0489800:CDS |
| AATTTGAAGAAAGGAAAGGT+TGG | 0.544445 | 3_4:-10487946 | Msa0489800:CDS |
| CCTGCAATCGCCCCAGCCGA+CGG | 0.550116 | 3_4:+10488159 | None:intergenic |
| TTGAATCTCCGGTGATTGGT+GGG | 0.555286 | 3_4:-10488200 | Msa0489800:CDS |
| AGGGCAAAAGCGCGTTTGGG+AGG | 0.557667 | 3_4:-10488035 | Msa0489800:CDS |
| GGGCAAAAGCGCGTTTGGGA+GGG | 0.561677 | 3_4:-10488034 | Msa0489800:CDS |
| TAGTGTCGGGAAGGTGCCGT+CGG | 0.576506 | 3_4:-10488175 | Msa0489800:CDS |
| ACACTAAACCCACCAATCAC+CGG | 0.580138 | 3_4:+10488192 | None:intergenic |
| TGGTGGGTTTAGTGTCGGGA+AGG | 0.594609 | 3_4:-10488184 | Msa0489800:CDS |
| ACATTTGCCAGCGGAGTGTG+GGG | 0.619702 | 3_4:-10487977 | Msa0489800:CDS |
| CTTCACTGCAAAACTCGTCT+CGG | 0.621132 | 3_4:+10487886 | None:intergenic |
| TCTTGTGATGGATAAAATTG+GGG | 0.621136 | 3_4:-10488004 | Msa0489800:CDS |
| TATGCGTTTCCGCAAAACGG+TGG | 0.624687 | 3_4:-10488258 | Msa0489800:CDS |
| TGTGATGGATAAAATTGGGG+TGG | 0.626777 | 3_4:-10488001 | Msa0489800:CDS |
| CGGGGACTGAGGTTGCGGCG+AGG | 0.653848 | 3_4:-10488128 | Msa0489800:CDS |
| TGGGGTGGAACATTTGCCAG+CGG | 0.659065 | 3_4:-10487986 | Msa0489800:CDS |
| AGGACTAGGGTTCCGATTAG+GGG | 0.661644 | 3_4:-10488108 | Msa0489800:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAGAAAATTTGATTTCAATT+TGG | - | chr3_4:10487929-10487948 | Msa0489800:CDS | 15.0% |
| !!! | AGAAAATTTGATTTCAATTT+GGG | - | chr3_4:10487930-10487949 | Msa0489800:CDS | 15.0% |
| !! | TCTCAATTTGAAAATTGTAT+TGG | - | chr3_4:10488005-10488024 | Msa0489800:CDS | 20.0% |
| !!! | TGGTTTTGTTTAGATCAATA+AGG | - | chr3_4:10487889-10487908 | Msa0489800:CDS | 25.0% |
| ! | CACATTAATCAGTCAATTTA+GGG | + | chr3_4:10487973-10487992 | None:intergenic | 25.0% |
| !! | ACAAAAACCATTTTAAACCT+AGG | - | chr3_4:10488072-10488091 | Msa0489800:CDS | 25.0% |
| !! | AAGTTCGATTTTAGATGTTA+AGG | - | chr3_4:10488124-10488143 | Msa0489800:CDS | 25.0% |
| !! | AGTTCGATTTTAGATGTTAA+GGG | - | chr3_4:10488125-10488144 | Msa0489800:CDS | 25.0% |
| !! | ATTTTATCCATCACAAGAAA+CGG | + | chr3_4:10488401-10488420 | None:intergenic | 25.0% |
| !!! | TTTCTTGTGATGGATAAAAT+TGG | - | chr3_4:10488401-10488420 | Msa0489800:intron | 25.0% |
| !!! | TTCTTGTGATGGATAAAATT+GGG | - | chr3_4:10488402-10488421 | Msa0489800:intron | 25.0% |
| ! | GATTTGAAGAATTTGAAGAA+AGG | - | chr3_4:10488452-10488471 | Msa0489800:intron | 25.0% |
| AATAAGGTTTCTCTGTTAGT+TGG | - | chr3_4:10487905-10487924 | Msa0489800:CDS | 30.0% | |
| GCACATTAATCAGTCAATTT+AGG | + | chr3_4:10487974-10487993 | None:intergenic | 30.0% | |
| ! | AACCATTTTAAACCTAGGTT+TGG | - | chr3_4:10488077-10488096 | Msa0489800:CDS | 30.0% |
| ! | ACCATTTTAAACCTAGGTTT+GGG | - | chr3_4:10488078-10488097 | Msa0489800:CDS | 30.0% |
| !! | ATTTGAGTTTGTTGAATCTC+CGG | - | chr3_4:10488196-10488215 | Msa0489800:CDS | 30.0% |
| !! | TCTTGTGATGGATAAAATTG+GGG | - | chr3_4:10488403-10488422 | Msa0489800:intron | 30.0% |
| GAAGAATTTGAAGAAAGGAA+AGG | - | chr3_4:10488457-10488476 | Msa0489800:intron | 30.0% | |
| AATTTGAAGAAAGGAAAGGT+TGG | - | chr3_4:10488461-10488480 | Msa0489800:intron | 30.0% | |
| ! | AATCAGTCAATTTAGGGCAT+CGG | + | chr3_4:10487967-10487986 | None:intergenic | 35.0% |
| ! | CCATTTTAAACCTAGGTTTG+GGG | - | chr3_4:10488079-10488098 | Msa0489800:CDS | 35.0% |
| AAAGAAAAATCCCCAAACCT+AGG | + | chr3_4:10488092-10488111 | None:intergenic | 35.0% | |
| CCCCAAACCTAGGTTTAAAA+TGG | + | chr3_4:10488082-10488101 | None:intergenic | 40.0% | |
| TTTGTTGAATCTCCGGTGAT+TGG | - | chr3_4:10488203-10488222 | Msa0489800:CDS | 40.0% | |
| !! | TGTGATGGATAAAATTGGGG+TGG | - | chr3_4:10488406-10488425 | Msa0489800:intron | 40.0% |
| GGTTATGCGTTTCCGCAAAA+CGG | - | chr3_4:10488146-10488165 | Msa0489800:CDS | 45.0% | |
| TTGAATCTCCGGTGATTGGT+GGG | - | chr3_4:10488207-10488226 | Msa0489800:CDS | 45.0% | |
| ACACTAAACCCACCAATCAC+CGG | + | chr3_4:10488218-10488237 | None:intergenic | 45.0% | |
| !! | GTGATTGGTGGGTTTAGTGT+CGG | - | chr3_4:10488218-10488237 | Msa0489800:CDS | 45.0% |
| !! | TGATTGGTGGGTTTAGTGTC+GGG | - | chr3_4:10488219-10488238 | Msa0489800:CDS | 45.0% |
| !! | TGAATTTTAGGTGGGGGGTT+AGG | - | chr3_4:10488333-10488352 | Msa0489800:intron | 45.0% |
| !! | GAATTTTAGGTGGGGGGTTA+GGG | - | chr3_4:10488334-10488353 | Msa0489800:intron | 45.0% |
| ! | CTTTTGCCCTTAACCTCAGT+CGG | + | chr3_4:10488362-10488381 | None:intergenic | 45.0% |
| ! | TTAAGGGCAAAAGCGCGTTT+GGG | - | chr3_4:10488369-10488388 | Msa0489800:intron | 45.0% |
| !!! | TTTGTATAATTTTTAATTTT+TGG | + | chr3_4:10488057-10488076 | None:intergenic | 5.0% |
| TATGCGTTTCCGCAAAACGG+TGG | - | chr3_4:10488149-10488168 | Msa0489800:CDS | 50.0% | |
| GTTGAATCTCCGGTGATTGG+TGG | - | chr3_4:10488206-10488225 | Msa0489800:CDS | 50.0% | |
| !! | GGCGATTGCAGGGTTGTTTT+CGG | - | chr3_4:10488259-10488278 | Msa0489800:CDS | 50.0% |
| !! | GCGATTGCAGGGTTGTTTTC+GGG | - | chr3_4:10488260-10488279 | Msa0489800:CDS | 50.0% |
| !! | CGATTGCAGGGTTGTTTTCG+GGG | - | chr3_4:10488261-10488280 | Msa0489800:CDS | 50.0% |
| GAGGACTAGGGTTCCGATTA+GGG | - | chr3_4:10488298-10488317 | Msa0489800:CDS | 50.0% | |
| AGGACTAGGGTTCCGATTAG+GGG | - | chr3_4:10488299-10488318 | Msa0489800:CDS | 50.0% | |
| !! | TGCCGCGGTGAATTTTAGGT+GGG | - | chr3_4:10488325-10488344 | Msa0489800:intron | 50.0% |
| TAGGGTTCCGACTGAGGTTA+AGG | - | chr3_4:10488352-10488371 | Msa0489800:intron | 50.0% | |
| AGGGTTCCGACTGAGGTTAA+GGG | - | chr3_4:10488353-10488372 | Msa0489800:intron | 50.0% | |
| ! | GTTAAGGGCAAAAGCGCGTT+TGG | - | chr3_4:10488368-10488387 | Msa0489800:intron | 50.0% |
| GAGGGTTCCGTTTCTTGTGA+TGG | - | chr3_4:10488391-10488410 | Msa0489800:intron | 50.0% | |
| AACATTTGCCAGCGGAGTGT+GGG | - | chr3_4:10488429-10488448 | Msa0489800:intron | 50.0% | |
| !! | AAAGGAAAGGTTGGTGCTGC+TGG | - | chr3_4:10488470-10488489 | Msa0489800:intron | 50.0% |
| ! | TCCGCAAAACGGTGGCGTTT+TGG | - | chr3_4:10488157-10488176 | Msa0489800:CDS | 55.0% |
| ! | CCCAAAACGCCACCGTTTTG+CGG | + | chr3_4:10488161-10488180 | None:intergenic | 55.0% |
| ! | CCGCAAAACGGTGGCGTTTT+GGG | - | chr3_4:10488158-10488177 | Msa0489800:CDS | 55.0% |
| ! | CGCAAAACGGTGGCGTTTTG+GGG | - | chr3_4:10488159-10488178 | Msa0489800:CDS | 55.0% |
| !! | TGGTGGGTTTAGTGTCGGGA+AGG | - | chr3_4:10488223-10488242 | Msa0489800:CDS | 55.0% |
| !! | AGGGTTGTTTTCGGGGACTG+AGG | - | chr3_4:10488268-10488287 | Msa0489800:CDS | 55.0% |
| !! | GTTTTCGGGGACTGAGGTTG+CGG | - | chr3_4:10488274-10488293 | Msa0489800:CDS | 55.0% |
| CGAGGACTAGGGTTCCGATT+AGG | - | chr3_4:10488297-10488316 | Msa0489800:CDS | 55.0% | |
| ! | GACGTGCCGCGGTGAATTTT+AGG | - | chr3_4:10488321-10488340 | Msa0489800:intron | 55.0% |
| ! | GTGCCGCGGTGAATTTTAGG+TGG | - | chr3_4:10488324-10488343 | Msa0489800:intron | 55.0% |
| !! | GCCGCGGTGAATTTTAGGTG+GGG | - | chr3_4:10488326-10488345 | Msa0489800:intron | 55.0% |
| CCCCCACCTAAAATTCACCG+CGG | + | chr3_4:10488330-10488349 | None:intergenic | 55.0% | |
| !! | CCGCGGTGAATTTTAGGTGG+GGG | - | chr3_4:10488327-10488346 | Msa0489800:intron | 55.0% |
| !! | CGCGGTGAATTTTAGGTGGG+GGG | - | chr3_4:10488328-10488347 | Msa0489800:intron | 55.0% |
| TGGGGTGGAACATTTGCCAG+CGG | - | chr3_4:10488421-10488440 | Msa0489800:intron | 55.0% | |
| GAACATTTGCCAGCGGAGTG+TGG | - | chr3_4:10488428-10488447 | Msa0489800:intron | 55.0% | |
| ACATTTGCCAGCGGAGTGTG+GGG | - | chr3_4:10488430-10488449 | Msa0489800:intron | 55.0% | |
| TTCAAATCCCCACACTCCGC+TGG | + | chr3_4:10488440-10488459 | None:intergenic | 55.0% | |
| !! | AAGGTTGGTGCTGCTGGAGT+TGG | - | chr3_4:10488476-10488495 | Msa0489800:intron | 55.0% |
| CTCGGCAACACAGCACTTGT+CGG | + | chr3_4:10488506-10488525 | None:intergenic | 55.0% | |
| !! | TAGTGTCGGGAAGGTGCCGT+CGG | - | chr3_4:10488232-10488251 | Msa0489800:CDS | 60.0% |
| TGAGGTTGCGGCGAGGACTA+GGG | - | chr3_4:10488286-10488305 | Msa0489800:CDS | 60.0% | |
| ! | AGGGCAAAAGCGCGTTTGGG+AGG | - | chr3_4:10488372-10488391 | Msa0489800:intron | 60.0% |
| ! | GGGCAAAAGCGCGTTTGGGA+GGG | - | chr3_4:10488373-10488392 | Msa0489800:intron | 60.0% |
| CTGAGGTTGCGGCGAGGACT+AGG | - | chr3_4:10488285-10488304 | Msa0489800:CDS | 65.0% | |
| TCCGATTAGGGGACGTGCCG+CGG | - | chr3_4:10488310-10488329 | Msa0489800:CDS | 65.0% | |
| ACCGCGGCACGTCCCCTAAT+CGG | + | chr3_4:10488314-10488333 | None:intergenic | 65.0% | |
| GGGGGTTAGGGTTCCGACTG+AGG | - | chr3_4:10488346-10488365 | Msa0489800:intron | 65.0% | |
| !! | TCGGGAAGGTGCCGTCGGCT+GGG | - | chr3_4:10488237-10488256 | Msa0489800:CDS | 70.0% |
| CCTGCAATCGCCCCAGCCGA+CGG | + | chr3_4:10488251-10488270 | None:intergenic | 70.0% | |
| ! | CGTCGGCTGGGGCGATTGCA+GGG | - | chr3_4:10488249-10488268 | Msa0489800:CDS | 70.0% |
| !! | GTCGGGAAGGTGCCGTCGGC+TGG | - | chr3_4:10488236-10488255 | Msa0489800:CDS | 75.0% |
| !! | CGGGAAGGTGCCGTCGGCTG+GGG | - | chr3_4:10488238-10488257 | Msa0489800:CDS | 75.0% |
| ! | CCGTCGGCTGGGGCGATTGC+AGG | - | chr3_4:10488248-10488267 | Msa0489800:CDS | 75.0% |
| CGGGGACTGAGGTTGCGGCG+AGG | - | chr3_4:10488279-10488298 | Msa0489800:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 10487888 | 10488541 | 10487888 | ID=Msa0489800;Name=Msa0489800 |
| chr3_4 | mRNA | 10487888 | 10488541 | 10487888 | ID=Msa0489800-mRNA-1;Parent=Msa0489800;Name=Msa0489800-mRNA-1;_AED=0.20;_eAED=0.25;_QI=0|0|0|0.33|0|0.66|3|0|154 |
| chr3_4 | exon | 10488534 | 10488541 | 10488534 | ID=Msa0489800-mRNA-1:exon:3449;Parent=Msa0489800-mRNA-1 |
| chr3_4 | exon | 10488519 | 10488527 | 10488519 | ID=Msa0489800-mRNA-1:exon:3448;Parent=Msa0489800-mRNA-1 |
| chr3_4 | exon | 10487888 | 10488335 | 10487888 | ID=Msa0489800-mRNA-1:exon:3447;Parent=Msa0489800-mRNA-1 |
| chr3_4 | CDS | 10488534 | 10488541 | 10488534 | ID=Msa0489800-mRNA-1:cds;Parent=Msa0489800-mRNA-1 |
| chr3_4 | CDS | 10488519 | 10488527 | 10488519 | ID=Msa0489800-mRNA-1:cds;Parent=Msa0489800-mRNA-1 |
| chr3_4 | CDS | 10487888 | 10488335 | 10487888 | ID=Msa0489800-mRNA-1:cds;Parent=Msa0489800-mRNA-1 |
| Gene Sequence |
| Protein sequence |
