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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269660 | XP_003618062.1 | 74.153 | 236 | 34 | 3 | 1 | 234 | 1 | 211 | 9.51e-98 | 294 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269660 | G7K0N6 | 74.153 | 236 | 34 | 3 | 1 | 234 | 1 | 211 | 4.54e-98 | 294 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001380 | Msa1269660 | 0.806562 | 7.746385e-50 | -8.615850e-47 |
| Msa0078830 | Msa1269660 | 0.806687 | 7.288560e-50 | -8.615850e-47 |
| Msa0106530 | Msa1269660 | 0.806601 | 7.598419e-50 | -8.615850e-47 |
| Msa0708290 | Msa1269660 | 0.814183 | 1.753743e-51 | -8.615850e-47 |
| Msa0708300 | Msa1269660 | 0.810571 | 1.078640e-50 | -8.615850e-47 |
| Msa0708310 | Msa1269660 | 0.817179 | 3.770959e-52 | -8.615850e-47 |
| Msa0745070 | Msa1269660 | 0.976576 | 4.318239e-142 | -8.615850e-47 |
| Msa0825870 | Msa1269660 | 0.876713 | 1.121753e-68 | -8.615850e-47 |
| Msa0133080 | Msa1269660 | 0.834309 | 3.229451e-56 | -8.615850e-47 |
| Msa0198640 | Msa1269660 | 0.851217 | 1.024534e-60 | -8.615850e-47 |
| Msa0215590 | Msa1269660 | 0.810046 | 1.400517e-50 | -8.615850e-47 |
| Msa1236730 | Msa1269660 | 0.830585 | 2.703462e-55 | -8.615850e-47 |
| Msa1246700 | Msa1269660 | 0.858394 | 8.492637e-63 | -8.615850e-47 |
| Msa1269660 | Msa1317130 | 0.845676 | 3.500993e-59 | -8.615850e-47 |
| Msa1269660 | Msa1344890 | 0.834369 | 3.119160e-56 | -8.615850e-47 |
| Msa1269660 | Msa1353880 | 0.800647 | 1.306784e-48 | -8.615850e-47 |
| Msa1269660 | Msa1353890 | 0.807352 | 5.272259e-50 | -8.615850e-47 |
| Msa1269660 | Msa1365270 | 0.848619 | 5.460320e-60 | -8.615850e-47 |
| Msa1269660 | Msa1376450 | 0.857873 | 1.213343e-62 | -8.615850e-47 |
| Msa1269660 | Msa1391550 | 0.846471 | 2.128043e-59 | -8.615850e-47 |
| Msa1269660 | Msa1418280 | 0.812043 | 5.169315e-51 | -8.615850e-47 |
| Msa0377800 | Msa1269660 | 0.824402 | 8.230040e-54 | -8.615850e-47 |
| Msa0426600 | Msa1269660 | 0.818405 | 1.994466e-52 | -8.615850e-47 |
| Msa0333650 | Msa1269660 | 0.811572 | 6.545453e-51 | -8.615850e-47 |
| Msa1201200 | Msa1269660 | 0.829459 | 5.086615e-55 | -8.615850e-47 |
| Msa0517570 | Msa1269660 | 0.823772 | 1.157161e-53 | -8.615850e-47 |
| Msa0524440 | Msa1269660 | 0.810038 | 1.405802e-50 | -8.615850e-47 |
| Msa0574570 | Msa1269660 | 0.842506 | 2.480221e-58 | -8.615850e-47 |
| Msa0574600 | Msa1269660 | 0.802737 | 4.867016e-49 | -8.615850e-47 |
| Msa0865330 | Msa1269660 | 0.874555 | 6.161164e-68 | -8.615850e-47 |
| Msa0970230 | Msa1269660 | 0.803302 | 3.719380e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269660 | MtrunA17_Chr5g0448291 | 74.153 | 236 | 34 | 3 | 1 | 234 | 1 | 211 | 8.75e-102 | 294 |
| Msa1269660 | MtrunA17_Chr5g0448311 | 77.928 | 222 | 34 | 4 | 1 | 216 | 1 | 213 | 2.07e-84 | 250 |
| Msa1269660 | MtrunA17_Chr5g0448321 | 43.231 | 229 | 77 | 9 | 13 | 235 | 10 | 191 | 4.08e-34 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAGAGGGAAATGCTCTTA+TGG | 0.351628 | 8_3:+2859993 | Msa1269660:CDS |
| AACTTATGGTGATAACGTTA+TGG | 0.422749 | 8_3:+2859885 | Msa1269660:CDS |
| GAGATTACAGAACCAACTTA+TGG | 0.427552 | 8_3:+2859871 | Msa1269660:CDS |
| AGTGAAGAGTTTCGTGATAG+TGG | 0.437310 | 8_3:+2860047 | Msa1269660:CDS |
| CTGATATGTAAAATTCGAAC+CGG | 0.464643 | 8_3:-2859843 | None:intergenic |
| TTGCATAAGGAATGGCTTCA+AGG | 0.464946 | 8_3:-2859671 | None:intergenic |
| CAAGAAGGATATTGCAGAGA+AGG | 0.490364 | 8_3:-2859729 | None:intergenic |
| TGATGAGTGGTTGATGAAGA+GGG | 0.490655 | 8_3:-2859784 | None:intergenic |
| AGAAGATGAAGGAAAAGAAG+AGG | 0.503671 | 8_3:+2859978 | Msa1269660:CDS |
| GAAGATGAAGGAAAAGAAGA+GGG | 0.505978 | 8_3:+2859979 | Msa1269660:CDS |
| ATAACGTTATCACCATAAGT+TGG | 0.521599 | 8_3:-2859883 | None:intergenic |
| TGTAGCTAAAGAATTGCATA+AGG | 0.524182 | 8_3:-2859684 | None:intergenic |
| TCGACAGCGACAAGAGTAAC+CGG | 0.524574 | 8_3:+2859824 | Msa1269660:CDS |
| ATTGAAGCAGAAGAAGATGA+AGG | 0.541164 | 8_3:+2859967 | Msa1269660:CDS |
| CTAAAGAATTGCATAAGGAA+TGG | 0.544450 | 8_3:-2859679 | None:intergenic |
| TTGATGAGTGGTTGATGAAG+AGG | 0.572497 | 8_3:-2859785 | None:intergenic |
| TTCAAGGACTGAGAGAGTAA+AGG | 0.580402 | 8_3:-2859655 | None:intergenic |
| ATAATGCAATAAAAGCAAGA+AGG | 0.623530 | 8_3:-2859744 | None:intergenic |
| GGTTACTCTTGTCGCTGTCG+AGG | 0.630249 | 8_3:-2859822 | None:intergenic |
| GATAGTGAAACCAGAAAATG+TGG | 0.638900 | 8_3:+2859942 | Msa1269660:CDS |
| GAAACTAAACAAGAAATGTG+AGG | 0.665023 | 8_3:+2860155 | Msa1269660:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCTTCATTTTCTTCAATTT+GGG | - | chr8_3:2860028-2860047 | None:intergenic | 20.0% |
| !! | TTTATCAAAAAAATGAAAGC+TGG | + | chr8_3:2860180-2860199 | Msa1269660:CDS | 20.0% |
| ! | ATAATGCAATAAAAGCAAGA+AGG | - | chr8_3:2859747-2859766 | None:intergenic | 25.0% |
| !! | CAAACTATTTTCTTCTTCTT+GGG | - | chr8_3:2859920-2859939 | None:intergenic | 25.0% |
| !! | TCAAACTATTTTCTTCTTCT+TGG | - | chr8_3:2859921-2859940 | None:intergenic | 25.0% |
| !! | CTTCTTCATTTTCTTCAATT+TGG | - | chr8_3:2860029-2860048 | None:intergenic | 25.0% |
| CTAAAGAATTGCATAAGGAA+TGG | - | chr8_3:2859682-2859701 | None:intergenic | 30.0% | |
| TGTAGCTAAAGAATTGCATA+AGG | - | chr8_3:2859687-2859706 | None:intergenic | 30.0% | |
| !!! | ATGTTCAATGTTTTGATGAG+TGG | - | chr8_3:2859800-2859819 | None:intergenic | 30.0% |
| CTGATATGTAAAATTCGAAC+CGG | - | chr8_3:2859846-2859865 | None:intergenic | 30.0% | |
| ATAACGTTATCACCATAAGT+TGG | - | chr8_3:2859886-2859905 | None:intergenic | 30.0% | |
| ! | AACTTATGGTGATAACGTTA+TGG | + | chr8_3:2859885-2859904 | Msa1269660:CDS | 30.0% |
| ! | AGAAGAAGAAGTACAAAAAG+AGG | + | chr8_3:2860095-2860114 | Msa1269660:CDS | 30.0% |
| ! | GAAGAAGAAGTACAAAAAGA+GGG | + | chr8_3:2860096-2860115 | Msa1269660:CDS | 30.0% |
| GAAACTAAACAAGAAATGTG+AGG | + | chr8_3:2860155-2860174 | Msa1269660:CDS | 30.0% | |
| GAGATTACAGAACCAACTTA+TGG | + | chr8_3:2859871-2859890 | Msa1269660:CDS | 35.0% | |
| GATAGTGAAACCAGAAAATG+TGG | + | chr8_3:2859942-2859961 | Msa1269660:CDS | 35.0% | |
| ! | GCTTCAATAACCACATTTTC+TGG | - | chr8_3:2859955-2859974 | None:intergenic | 35.0% |
| ATTGAAGCAGAAGAAGATGA+AGG | + | chr8_3:2859967-2859986 | Msa1269660:CDS | 35.0% | |
| AGAAGATGAAGGAAAAGAAG+AGG | + | chr8_3:2859978-2859997 | Msa1269660:CDS | 35.0% | |
| GAAGATGAAGGAAAAGAAGA+GGG | + | chr8_3:2859979-2859998 | Msa1269660:CDS | 35.0% | |
| TTCAAGGACTGAGAGAGTAA+AGG | - | chr8_3:2859658-2859677 | None:intergenic | 40.0% | |
| TTGCATAAGGAATGGCTTCA+AGG | - | chr8_3:2859674-2859693 | None:intergenic | 40.0% | |
| CAAGAAGGATATTGCAGAGA+AGG | - | chr8_3:2859732-2859751 | None:intergenic | 40.0% | |
| !! | TGATGAGTGGTTGATGAAGA+GGG | - | chr8_3:2859787-2859806 | None:intergenic | 40.0% |
| !! | TTGATGAGTGGTTGATGAAG+AGG | - | chr8_3:2859788-2859807 | None:intergenic | 40.0% |
| AGAAGAGGGAAATGCTCTTA+TGG | + | chr8_3:2859993-2860012 | Msa1269660:CDS | 40.0% | |
| AGTGAAGAGTTTCGTGATAG+TGG | + | chr8_3:2860047-2860066 | Msa1269660:CDS | 40.0% | |
| TCGACAGCGACAAGAGTAAC+CGG | + | chr8_3:2859824-2859843 | Msa1269660:CDS | 50.0% | |
| GGTTACTCTTGTCGCTGTCG+AGG | - | chr8_3:2859825-2859844 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 2859571 | 2860278 | 2859571 | ID=Msa1269660;Name=Msa1269660 |
| chr8_3 | mRNA | 2859571 | 2860278 | 2859571 | ID=Msa1269660-mRNA-1;Parent=Msa1269660;Name=Msa1269660-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|235 |
| chr8_3 | exon | 2859571 | 2860278 | 2859571 | ID=Msa1269660-mRNA-1:exon:932;Parent=Msa1269660-mRNA-1 |
| chr8_3 | CDS | 2859571 | 2860278 | 2859571 | ID=Msa1269660-mRNA-1:cds;Parent=Msa1269660-mRNA-1 |
| Gene Sequence |
| Protein sequence |
