Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene054221.t1 | XP_003627812.1 | 69.3 | 189 | 28 | 1 | 5 | 163 | 207 | 395 | 3.10E-59 | 238 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene054221.t1 | Q9AV23 | 60.7 | 56 | 21 | 1 | 109 | 163 | 277 | 332 | 1.0e-10 | 68.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene054221.t1 | Q1RU51 | 69.3 | 189 | 28 | 1 | 5 | 163 | 207 | 395 | 2.2e-59 | 238.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049159 | MS.gene054221 | 0.802602 | 5.19E-49 | -1.69E-46 |
| MS.gene054221 | MS.gene060011 | 0.834724 | 2.54E-56 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene054221.t1 | MTR_6g045483 | 69.792 | 192 | 14 | 3 | 5 | 162 | 207 | 388 | 5.68e-83 | 249 |
| MS.gene054221.t1 | MTR_6g045483 | 69.948 | 193 | 14 | 3 | 5 | 163 | 207 | 389 | 8.29e-83 | 251 |
| MS.gene054221.t1 | MTR_6g045483 | 69.948 | 193 | 14 | 3 | 5 | 163 | 207 | 389 | 1.48e-82 | 251 |
| MS.gene054221.t1 | MTR_8g038580 | 69.312 | 189 | 28 | 1 | 5 | 163 | 207 | 395 | 1.66e-82 | 253 |
| MS.gene054221.t1 | MTR_6g045483 | 69.948 | 193 | 14 | 3 | 5 | 163 | 207 | 389 | 9.22e-82 | 251 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene054221.t1 | AT1G02260 | 45.294 | 170 | 61 | 5 | 5 | 163 | 207 | 355 | 1.41e-30 | 115 |
| MS.gene054221.t1 | AT1G02260 | 45.294 | 170 | 61 | 5 | 5 | 163 | 207 | 355 | 1.41e-30 | 115 |
Find 28 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGAGAATTAACATCTTCTT+TGG | 0.285311 | 6.1:+27094649 | None:intergenic |
| TGTGTTTATATGATTACATT+AGG | 0.308469 | 6.1:-27094268 | MS.gene054221:CDS |
| TCATTATTAGTCCCTTCCTT+TGG | 0.384907 | 6.1:+27094433 | None:intergenic |
| TATGTCGTGGACTGCAATTT+CGG | 0.400089 | 6.1:-27094215 | MS.gene054221:CDS |
| TTGGCTGCAACTTCCGCAAT+CGG | 0.401989 | 6.1:+27094668 | None:intergenic |
| ATGTTGATTGCAATGCTTCT+TGG | 0.424623 | 6.1:-27094244 | MS.gene054221:CDS |
| AATTTCGGCTGCATTAGCTT+TGG | 0.452114 | 6.1:-27094200 | MS.gene054221:CDS |
| AGAAGTACCTTCTCTAAACT+TGG | 0.473633 | 6.1:+27094151 | None:intergenic |
| CTTAATGCTCAAGAGTTGAA+TGG | 0.478485 | 6.1:-27094587 | MS.gene054221:CDS |
| TTCTTGATTTCAAAGATGCC+AGG | 0.478725 | 6.1:-27094174 | MS.gene054221:CDS |
| TACCTTCTCTAAACTTGGCC+TGG | 0.479617 | 6.1:+27094156 | None:intergenic |
| TGACTTGGCATCTCAAACAA+AGG | 0.524594 | 6.1:-27094413 | MS.gene054221:CDS |
| TTTGATCTCTTCGGAAGGAA+AGG | 0.533553 | 6.1:-27094332 | MS.gene054221:CDS |
| GATGTAGATAGAACAATAGA+AGG | 0.539083 | 6.1:-27094361 | MS.gene054221:CDS |
| GAATAATGAGACATTGTAGC+TGG | 0.539645 | 6.1:+27094617 | None:intergenic |
| CTAGAAATTCAACCAAAGGA+AGG | 0.551351 | 6.1:-27094445 | MS.gene054221:CDS |
| AATAGATAACTTACCCAGCA+TGG | 0.561845 | 6.1:+27094709 | None:intergenic |
| TTCTTGGTTTAAATATGTCG+TGG | 0.568745 | 6.1:-27094228 | MS.gene054221:CDS |
| ACATAGGACCCATCCATGCT+GGG | 0.581749 | 6.1:-27094722 | None:intergenic |
| GGAAGGGACTAATAATGACT+TGG | 0.586286 | 6.1:-27094428 | MS.gene054221:CDS |
| TGCCAGGCCAAGTTTAGAGA+AGG | 0.593357 | 6.1:-27094158 | MS.gene054221:CDS |
| TCTGCTAGAAATTCAACCAA+AGG | 0.599482 | 6.1:-27094449 | MS.gene054221:CDS |
| AGATATCGAGGATCCGATTG+CGG | 0.601914 | 6.1:-27094681 | MS.gene054221:CDS |
| TAGAAATTCAACCAAAGGAA+GGG | 0.616514 | 6.1:-27094444 | MS.gene054221:CDS |
| ATCTATTCATAAAGATATCG+AGG | 0.627397 | 6.1:-27094693 | MS.gene054221:CDS |
| CTTGGCATCTCAAACAAAGG+AGG | 0.666280 | 6.1:-27094410 | MS.gene054221:CDS |
| CTGAGTGGAAGCGTAGACTG+TGG | 0.666710 | 6.1:-27094297 | MS.gene054221:CDS |
| AGGACTGTTTAAGCGCTGAG+TGG | 0.679075 | 6.1:-27094312 | MS.gene054221:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTGTTTATATGATTACATT+AGG | - | chr6.1:27094577-27094596 | MS.gene054221:CDS | 20.0% |
| ! | ATCTATTCATAAAGATATCG+AGG | - | chr6.1:27094152-27094171 | MS.gene054221:CDS | 25.0% |
| ! | ATGAGAATTAACATCTTCTT+TGG | + | chr6.1:27094199-27094218 | None:intergenic | 25.0% |
| GATGTAGATAGAACAATAGA+AGG | - | chr6.1:27094484-27094503 | MS.gene054221:intron | 30.0% | |
| TAGAAATTCAACCAAAGGAA+GGG | - | chr6.1:27094401-27094420 | MS.gene054221:CDS | 30.0% | |
| TTCTTGGTTTAAATATGTCG+TGG | - | chr6.1:27094617-27094636 | MS.gene054221:CDS | 30.0% | |
| TTTCGTAGATTATGAACTTG+AGG | + | chr6.1:27094318-27094337 | None:intergenic | 30.0% | |
| CTAGAAATTCAACCAAAGGA+AGG | - | chr6.1:27094400-27094419 | MS.gene054221:CDS | 35.0% | |
| CTTAATGCTCAAGAGTTGAA+TGG | - | chr6.1:27094258-27094277 | MS.gene054221:CDS | 35.0% | |
| GAAATTGATAGGTTTCATGC+TGG | - | chr6.1:27094360-27094379 | MS.gene054221:CDS | 35.0% | |
| GAATAATGAGACATTGTAGC+TGG | + | chr6.1:27094231-27094250 | None:intergenic | 35.0% | |
| TCATAATCTACGAAACCGAT+TGG | - | chr6.1:27094323-27094342 | MS.gene054221:CDS | 35.0% | |
| TCATTATTAGTCCCTTCCTT+TGG | + | chr6.1:27094415-27094434 | None:intergenic | 35.0% | |
| TCTGCTAGAAATTCAACCAA+AGG | - | chr6.1:27094396-27094415 | MS.gene054221:CDS | 35.0% | |
| TTCTTGATTTCAAAGATGCC+AGG | - | chr6.1:27094671-27094690 | MS.gene054221:CDS | 35.0% | |
| ! | ATGTTGATTGCAATGCTTCT+TGG | - | chr6.1:27094601-27094620 | MS.gene054221:CDS | 35.0% |
| ! | CGAGTGATAGTGAAATTGAT+AGG | - | chr6.1:27094349-27094368 | MS.gene054221:CDS | 35.0% |
| !! | AGAAGTACCTTCTCTAAACT+TGG | + | chr6.1:27094697-27094716 | None:intergenic | 35.0% |
| !!! | AGGACATGTTTTGATCTCTT+CGG | - | chr6.1:27094504-27094523 | MS.gene054221:intron | 35.0% |
| CACTATCACTCGAAACCAAT+CGG | + | chr6.1:27094341-27094360 | None:intergenic | 40.0% | |
| GGAAGGGACTAATAATGACT+TGG | - | chr6.1:27094417-27094436 | MS.gene054221:CDS | 40.0% | |
| TTTGATCTCTTCGGAAGGAA+AGG | - | chr6.1:27094513-27094532 | MS.gene054221:intron | 40.0% | |
| ! | AATTTCGGCTGCATTAGCTT+TGG | - | chr6.1:27094645-27094664 | MS.gene054221:CDS | 40.0% |
| ! | ACATCGACAACAGTTTTCGA+CGG | + | chr6.1:27094469-27094488 | None:intergenic | 40.0% |
| ! | TATGTCGTGGACTGCAATTT+CGG | - | chr6.1:27094630-27094649 | MS.gene054221:CDS | 40.0% |
| ! | TGACTTGGCATCTCAAACAA+AGG | - | chr6.1:27094432-27094451 | MS.gene054221:CDS | 40.0% |
| !!! | CATGTTTTGATCTCTTCGGA+AGG | - | chr6.1:27094508-27094527 | MS.gene054221:intron | 40.0% |
| AGATATCGAGGATCCGATTG+CGG | - | chr6.1:27094164-27094183 | MS.gene054221:CDS | 45.0% | |
| CTTGGCATCTCAAACAAAGG+AGG | - | chr6.1:27094435-27094454 | MS.gene054221:CDS | 45.0% | |
| TACCTTCTCTAAACTTGGCC+TGG | + | chr6.1:27094692-27094711 | None:intergenic | 45.0% | |
| ! | CATCGACAACAGTTTTCGAC+GGG | + | chr6.1:27094468-27094487 | None:intergenic | 45.0% |
| TGCCAGGCCAAGTTTAGAGA+AGG | - | chr6.1:27094687-27094706 | MS.gene054221:CDS | 50.0% | |
| TTGGCTGCAACTTCCGCAAT+CGG | + | chr6.1:27094180-27094199 | None:intergenic | 50.0% | |
| !! | AGGACTGTTTAAGCGCTGAG+TGG | - | chr6.1:27094533-27094552 | MS.gene054221:intron | 50.0% |
| ! | CTGAGTGGAAGCGTAGACTG+TGG | - | chr6.1:27094548-27094567 | MS.gene054221:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.1 | gene | 27094138 | 27094729 | 27094138 | ID=MS.gene054221 |
| chr6.1 | mRNA | 27094138 | 27094729 | 27094138 | ID=MS.gene054221.t1;Parent=MS.gene054221 |
| chr6.1 | exon | 27094567 | 27094729 | 27094567 | ID=MS.gene054221.t1.exon1;Parent=MS.gene054221.t1 |
| chr6.1 | CDS | 27094567 | 27094729 | 27094567 | ID=cds.MS.gene054221.t1;Parent=MS.gene054221.t1 |
| chr6.1 | exon | 27094138 | 27094481 | 27094138 | ID=MS.gene054221.t1.exon2;Parent=MS.gene054221.t1 |
| chr6.1 | CDS | 27094138 | 27094481 | 27094138 | ID=cds.MS.gene054221.t1;Parent=MS.gene054221.t1 |
| Gene Sequence |
| Protein sequence |
