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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095540 | KEH43517.1 | 97.143 | 70 | 2 | 0 | 9 | 78 | 1 | 70 | 1.70e-41 | 140 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095540 | A0A072VNY8 | 97.143 | 70 | 2 | 0 | 9 | 78 | 1 | 70 | 8.13e-42 | 140 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004880 | Msa0095540 | 0.802899 | 4.506814e-49 | -8.615850e-47 |
| Msa0017510 | Msa0095540 | 0.811240 | 7.727948e-51 | -8.615850e-47 |
| Msa0036430 | Msa0095540 | 0.804091 | 2.550676e-49 | -8.615850e-47 |
| Msa0036960 | Msa0095540 | 0.832296 | 1.024911e-55 | -8.615850e-47 |
| Msa0044100 | Msa0095540 | 0.817715 | 2.856736e-52 | -8.615850e-47 |
| Msa0072370 | Msa0095540 | 0.809751 | 1.620899e-50 | -8.615850e-47 |
| Msa0095540 | Msa0141100 | 0.843464 | 1.379189e-58 | -8.615850e-47 |
| Msa0095540 | Msa0157290 | 0.810563 | 1.083270e-50 | -8.615850e-47 |
| Msa0095540 | Msa0183750 | 0.825028 | 5.859837e-54 | -8.615850e-47 |
| Msa0095540 | Msa0191040 | 0.825113 | 5.594405e-54 | -8.615850e-47 |
| Msa0095540 | Msa0233340 | 0.825046 | 5.801218e-54 | -8.615850e-47 |
| Msa0095540 | Msa0251240 | 0.801963 | 7.024620e-49 | -8.615850e-47 |
| Msa0095540 | Msa0266450 | 0.809410 | 1.918275e-50 | -8.615850e-47 |
| Msa0095540 | Msa0311690 | 0.817020 | 4.093976e-52 | -8.615850e-47 |
| Msa0095540 | Msa0374850 | 0.838139 | 3.433229e-57 | -8.615850e-47 |
| Msa0095540 | Msa0375090 | 0.839106 | 1.931899e-57 | -8.615850e-47 |
| Msa0095540 | Msa0385670 | 0.801749 | 7.772781e-49 | -8.615850e-47 |
| Msa0095540 | Msa0470340 | 0.838834 | 2.271735e-57 | -8.615850e-47 |
| Msa0095540 | Msa0470860 | 0.845108 | 4.987862e-59 | -8.615850e-47 |
| Msa0095540 | Msa0481110 | 0.802238 | 6.168333e-49 | -8.615850e-47 |
| Msa0095540 | Msa0531430 | 0.870202 | 1.743803e-66 | -8.615850e-47 |
| Msa0095540 | Msa0534570 | 0.827106 | 1.879217e-54 | -8.615850e-47 |
| Msa0095540 | Msa0534590 | 0.862287 | 5.638991e-64 | -8.615850e-47 |
| Msa0095540 | Msa0565600 | 0.803265 | 3.785784e-49 | -8.615850e-47 |
| Msa0095540 | Msa0590800 | 0.857270 | 1.829703e-62 | -8.615850e-47 |
| Msa0095540 | Msa0609430 | 0.812863 | 3.421936e-51 | -8.615850e-47 |
| Msa0095540 | Msa0611380 | 0.865434 | 5.923252e-65 | -8.615850e-47 |
| Msa0095540 | Msa0618180 | 0.817057 | 4.016203e-52 | -8.615850e-47 |
| Msa0095540 | Msa0628640 | 0.871248 | 7.896819e-67 | -8.615850e-47 |
| Msa0095540 | Msa0631120 | 0.847457 | 1.142920e-59 | -8.615850e-47 |
| Msa0095540 | Msa0666030 | 0.862915 | 3.612724e-64 | -8.615850e-47 |
| Msa0095540 | Msa0669340 | 0.863020 | 3.352592e-64 | -8.615850e-47 |
| Msa0095540 | Msa0684500 | 0.832670 | 8.278873e-56 | -8.615850e-47 |
| Msa0095540 | Msa0692060 | 0.814732 | 1.326534e-51 | -8.615850e-47 |
| Msa0095540 | Msa0701970 | 0.813368 | 2.652507e-51 | -8.615850e-47 |
| Msa0095540 | Msa0716450 | 0.846512 | 2.073258e-59 | -8.615850e-47 |
| Msa0095540 | Msa0717260 | 0.838692 | 2.473277e-57 | -8.615850e-47 |
| Msa0095540 | Msa0734230 | 0.801566 | 8.475793e-49 | -8.615850e-47 |
| Msa0095540 | Msa0758320 | 0.830327 | 3.125813e-55 | -8.615850e-47 |
| Msa0095540 | Msa0775440 | 0.811972 | 5.356849e-51 | -8.615850e-47 |
| Msa0095540 | Msa0799030 | 0.833784 | 4.370066e-56 | -8.615850e-47 |
| Msa0095540 | Msa0799700 | 0.807210 | 5.650685e-50 | -8.615850e-47 |
| Msa0095540 | Msa0810020 | 0.804525 | 2.072015e-49 | -8.615850e-47 |
| Msa0095540 | Msa0812820 | 0.858347 | 8.767566e-63 | -8.615850e-47 |
| Msa0095540 | Msa0837440 | 0.815014 | 1.148606e-51 | -8.615850e-47 |
| Msa0095540 | Msa0837980 | 0.836362 | 9.785579e-57 | -8.615850e-47 |
| Msa0095540 | Msa0853320 | 0.839649 | 1.396446e-57 | -8.615850e-47 |
| Msa0095540 | Msa0880140 | 0.812376 | 4.374816e-51 | -8.615850e-47 |
| Msa0095540 | Msa0979510 | 0.800896 | 1.162261e-48 | -8.615850e-47 |
| Msa0095540 | Msa1002620 | 0.808447 | 3.083898e-50 | -8.615850e-47 |
| Msa0095540 | Msa1033560 | 0.800610 | 1.329262e-48 | -8.615850e-47 |
| Msa0095540 | Msa1113850 | 0.804775 | 1.837358e-49 | -8.615850e-47 |
| Msa0095540 | Msa1160400 | 0.816005 | 6.908990e-52 | -8.615850e-47 |
| Msa0095540 | Msa1179460 | 0.808711 | 2.708162e-50 | -8.615850e-47 |
| Msa0095540 | Msa1190120 | 0.800875 | 1.173585e-48 | -8.615850e-47 |
| Msa0095540 | Msa1197590 | 0.805559 | 1.259001e-49 | -8.615850e-47 |
| Msa0095540 | Msa1201890 | 0.813727 | 2.210936e-51 | -8.615850e-47 |
| Msa0095540 | Msa1203000 | 0.828140 | 1.060668e-54 | -8.615850e-47 |
| Msa0095540 | Msa1211550 | 0.810949 | 8.937123e-51 | -8.615850e-47 |
| Msa0095540 | Msa1217940 | 0.815016 | 1.147221e-51 | -8.615850e-47 |
| Msa0095540 | Msa1218480 | 0.801241 | 9.879208e-49 | -8.615850e-47 |
| Msa0095540 | Msa1219260 | 0.838986 | 2.075530e-57 | -8.615850e-47 |
| Msa0095540 | Msa1227950 | 0.816511 | 5.326341e-52 | -8.615850e-47 |
| Msa0095540 | Msa1227970 | 0.802862 | 4.586695e-49 | -8.615850e-47 |
| Msa0095540 | Msa1254700 | 0.829181 | 5.944294e-55 | -8.615850e-47 |
| Msa0095540 | Msa1255280 | 0.803990 | 2.677809e-49 | -8.615850e-47 |
| Msa0095540 | Msa1266960 | 0.832022 | 1.198272e-55 | -8.615850e-47 |
| Msa0095540 | Msa1369700 | 0.800722 | 1.261045e-48 | -8.615850e-47 |
| Msa0095540 | Msa1397250 | 0.813194 | 2.895581e-51 | -8.615850e-47 |
| Msa0095540 | Msa1399560 | 0.834420 | 3.028242e-56 | -8.615850e-47 |
| Msa0095540 | Msa1401150 | 0.818809 | 1.614946e-52 | -8.615850e-47 |
| Msa0095540 | Msa1437190 | 0.828988 | 6.617281e-55 | -8.615850e-47 |
| Msa0095540 | Msa1443840 | 0.807024 | 6.185983e-50 | -8.615850e-47 |
| Msa0095540 | Msa1449730 | 0.877629 | 5.390700e-69 | -8.615850e-47 |
| Msa0095540 | Msa1460380 | 0.821846 | 3.249365e-53 | -8.615850e-47 |
| Msa0095540 | Msa1460390 | 0.816371 | 5.725517e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095540 | MtrunA17_Chr1g0199761 | 94.444 | 36 | 2 | 0 | 1 | 36 | 1 | 36 | 1.24e-17 | 69.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTACTTTGGGACTGAATTTC+TGG | 0.082262 | 1_3:-686343 | None:intergenic |
| CAGTTTCACGTTATAAGACT+TGG | 0.387807 | 1_3:+686286 | Msa0095540:CDS |
| ATGGAAATTCACATAATGAT+TGG | 0.418508 | 1_3:-686772 | None:intergenic |
| AGAAGATTATGCTTCTCAAC+GGG | 0.498617 | 1_3:+686693 | Msa0095540:CDS |
| AAAATGATATTGATGAGTGT+GGG | 0.536325 | 1_3:+686250 | None:intergenic |
| ATTGATGAGTGTGGGGCACA+TGG | 0.591913 | 1_3:+686258 | Msa0095540:CDS |
| AAGACTTGGAGTAAAGATAA+CGG | 0.603133 | 1_3:+686300 | Msa0095540:CDS |
| TAGAAGATTATGCTTCTCAA+CGG | 0.625011 | 1_3:+686692 | Msa0095540:CDS |
| TGGAACATCGAGGTGGCTGA+AGG | 0.628575 | 1_3:-686752 | None:intergenic |
| AAATGATATTGATGAGTGTG+GGG | 0.676724 | 1_3:+686251 | None:intergenic |
| TAATGATTGGAACATCGAGG+TGG | 0.726775 | 1_3:-686759 | None:intergenic |
| ACATAATGATTGGAACATCG+AGG | 0.733437 | 1_3:-686762 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTTCTAGTAAATCGAAA+TGG | - | chr1_3:686460-686479 | None:intergenic | 20.0% |
| !! | TTTGATGTGAATAATAATGT+GGG | - | chr1_3:686573-686592 | None:intergenic | 20.0% |
| !! | ATTTGATGTGAATAATAATG+TGG | - | chr1_3:686574-686593 | None:intergenic | 20.0% |
| ! | AAAACAGAAATGAAATCACT+TGG | - | chr1_3:686526-686545 | None:intergenic | 25.0% |
| AAGACTTGGAGTAAAGATAA+CGG | + | chr1_3:686300-686319 | Msa0095540:CDS | 30.0% | |
| !!! | TTGCTTTTTCTTTCCATCTT+TGG | + | chr1_3:686371-686390 | Msa0095540:intron | 30.0% |
| !!! | TTTGGCTTTTTCTTCCTTTT+TGG | + | chr1_3:686389-686408 | Msa0095540:intron | 30.0% |
| TGGATAAGTTAGTACTTAGT+AGG | - | chr1_3:686506-686525 | None:intergenic | 30.0% | |
| TGGGAATGAAATGCTTTATA+TGG | - | chr1_3:686554-686573 | None:intergenic | 30.0% | |
| ! | AACAAGAAGTATGACGTTAT+TGG | - | chr1_3:686625-686644 | None:intergenic | 30.0% |
| TAGAAGATTATGCTTCTCAA+CGG | + | chr1_3:686692-686711 | Msa0095540:CDS | 30.0% | |
| CAGTTTCACGTTATAAGACT+TGG | + | chr1_3:686286-686305 | Msa0095540:CDS | 35.0% | |
| AAAAGCAATGCTGGTACTTT+GGG | - | chr1_3:686359-686378 | None:intergenic | 35.0% | |
| AAAAAGCAATGCTGGTACTT+TGG | - | chr1_3:686360-686379 | None:intergenic | 35.0% | |
| ATGGAAAGAAAAAGCAATGC+TGG | - | chr1_3:686368-686387 | None:intergenic | 35.0% | |
| AAGGAAGAAAAAGCCAAAGA+TGG | - | chr1_3:686387-686406 | None:intergenic | 35.0% | |
| TACTGACAAGAGGACAATAA+AGG | - | chr1_3:686483-686502 | None:intergenic | 35.0% | |
| ! | GCTAAAGTTTTCAGACAACA+TGG | + | chr1_3:686597-686616 | Msa0095540:intron | 35.0% |
| AGAAGATTATGCTTCTCAAC+GGG | + | chr1_3:686693-686712 | Msa0095540:CDS | 35.0% | |
| ACATAATGATTGGAACATCG+AGG | - | chr1_3:686765-686784 | None:intergenic | 35.0% | |
| !! | GTACTTTGGGACTGAATTTC+TGG | - | chr1_3:686346-686365 | None:intergenic | 40.0% |
| !! | TTCCTTTTTGGCCAGTTTCT+GGG | + | chr1_3:686401-686420 | Msa0095540:intron | 40.0% |
| !! | ACTTAGTAGGTACTGACAAG+AGG | - | chr1_3:686493-686512 | None:intergenic | 40.0% |
| ! | CTCAGTCTTCTACGTTTTCT+GGG | + | chr1_3:686654-686673 | Msa0095540:intron | 40.0% |
| TAATGATTGGAACATCGAGG+TGG | - | chr1_3:686762-686781 | None:intergenic | 40.0% | |
| !! | CTTCCTTTTTGGCCAGTTTC+TGG | + | chr1_3:686400-686419 | Msa0095540:intron | 45.0% |
| TTTCTGGGTGTCTTGGCTAA+GGG | + | chr1_3:686416-686435 | Msa0095540:intron | 45.0% | |
| CCAGAAAACGTAGAAGACTG+AGG | - | chr1_3:686656-686675 | None:intergenic | 45.0% | |
| ! | CCTCAGTCTTCTACGTTTTC+TGG | + | chr1_3:686653-686672 | Msa0095540:intron | 45.0% |
| ATTGATGAGTGTGGGGCACA+TGG | + | chr1_3:686258-686277 | Msa0095540:CDS | 50.0% | |
| CACCCAGAAACTGGCCAAAA+AGG | - | chr1_3:686406-686425 | None:intergenic | 50.0% | |
| TAGCCAAGACACCCAGAAAC+TGG | - | chr1_3:686415-686434 | None:intergenic | 50.0% | |
| ! | GTTTCTGGGTGTCTTGGCTA+AGG | + | chr1_3:686415-686434 | Msa0095540:intron | 50.0% |
| ! | TGGCCAGTTTCTGGGTGTCT+TGG | + | chr1_3:686409-686428 | Msa0095540:intron | 55.0% |
| TGGAACATCGAGGTGGCTGA+AGG | - | chr1_3:686755-686774 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 686253 | 686786 | 686253 | ID=Msa0095540;Name=Msa0095540 |
| chr1_3 | mRNA | 686253 | 686786 | 686253 | ID=Msa0095540-mRNA-1;Parent=Msa0095540;Name=Msa0095540-mRNA-1;_AED=0.07;_eAED=0.08;_QI=0|0|0|1|0|0|2|0|78 |
| chr1_3 | exon | 686253 | 686361 | 686253 | ID=Msa0095540-mRNA-1:exon:55;Parent=Msa0095540-mRNA-1 |
| chr1_3 | exon | 686659 | 686786 | 686659 | ID=Msa0095540-mRNA-1:exon:56;Parent=Msa0095540-mRNA-1 |
| chr1_3 | CDS | 686253 | 686361 | 686253 | ID=Msa0095540-mRNA-1:cds;Parent=Msa0095540-mRNA-1 |
| chr1_3 | CDS | 686659 | 686786 | 686659 | ID=Msa0095540-mRNA-1:cds;Parent=Msa0095540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
