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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498490 | PNX94290.1 | 98.039 | 51 | 1 | 0 | 1 | 51 | 313 | 363 | 1.42e-22 | 98.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498490 | sp|Q9ZUN3|KEA4_ARATH | 84.314 | 51 | 8 | 0 | 1 | 51 | 299 | 349 | 2.38e-22 | 90.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498490 | A0A2K3MTZ6 | 98.039 | 51 | 1 | 0 | 1 | 51 | 313 | 363 | 6.77e-23 | 98.2 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0310550 | Msa0498490 | 0.811229 | 7.773315e-51 | -8.615850e-47 |
| Msa0350870 | Msa0498490 | 0.808342 | 3.245903e-50 | -8.615850e-47 |
| Msa0498490 | Msa0502340 | 0.810665 | 1.029443e-50 | -8.615850e-47 |
| Msa0498490 | Msa0502720 | 0.847498 | 1.113147e-59 | -8.615850e-47 |
| Msa0498490 | Msa0502730 | 0.877207 | 7.562169e-69 | -8.615850e-47 |
| Msa0498490 | Msa0502740 | 0.878380 | 2.942255e-69 | -8.615850e-47 |
| Msa0498490 | Msa0610800 | 0.838217 | 3.278015e-57 | -8.615850e-47 |
| Msa0498490 | Msa0889850 | 0.803217 | 3.873611e-49 | -8.615850e-47 |
| Msa0498490 | Msa0900770 | 0.809524 | 1.813250e-50 | -8.615850e-47 |
| Msa0498490 | Msa0925290 | 0.806847 | 6.742574e-50 | -8.615850e-47 |
| Msa0498490 | Msa1069220 | 0.805913 | 1.060832e-49 | -8.615850e-47 |
| Msa0498490 | Msa1124020 | 0.804136 | 2.496269e-49 | -8.615850e-47 |
| Msa0498490 | Msa1222620 | 0.805170 | 1.519203e-49 | -8.615850e-47 |
| Msa0498490 | Msa1334250 | 0.806334 | 8.649758e-50 | -8.615850e-47 |
| Msa0498490 | Msa1335780 | -0.803301 | 3.721513e-49 | -8.615850e-47 |
| Msa0498490 | Msa1373030 | 0.803991 | 2.676157e-49 | -8.615850e-47 |
| Msa0498490 | Msa1414750 | -0.802257 | 6.113284e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498490 | MtrunA17_Chr8g0389231 | 98.039 | 51 | 1 | 0 | 1 | 51 | 295 | 345 | 3.51e-26 | 98.2 |
| Msa0498490 | MtrunA17_Chr1g0151641 | 84.000 | 50 | 8 | 0 | 1 | 50 | 336 | 385 | 1.80e-22 | 87.8 |
| Msa0498490 | MtrunA17_Chr6g0475301 | 83.673 | 49 | 8 | 0 | 2 | 50 | 290 | 338 | 8.22e-22 | 85.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498490 | AT2G19600.1 | 84.314 | 51 | 8 | 0 | 1 | 51 | 299 | 349 | 2.42e-23 | 90.5 |
| Msa0498490 | AT5G51710.2 | 74.000 | 50 | 13 | 0 | 1 | 50 | 284 | 333 | 1.56e-18 | 77.0 |
| Msa0498490 | AT5G51710.1 | 74.000 | 50 | 13 | 0 | 1 | 50 | 284 | 333 | 1.61e-18 | 77.0 |
| Msa0498490 | AT5G11800.1 | 70.000 | 50 | 15 | 0 | 1 | 50 | 307 | 356 | 2.18e-17 | 73.6 |
Find 30 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCATGTTCAGGTTATAAT+TGG | 0.164987 | 3_4:+34918099 | Msa0498490:CDS |
| ATAGGTCTTGAAATTCTTAA+TGG | 0.213697 | 3_4:+34918056 | Msa0498490:exon |
| CTTTGCACTGCTTCCTGTCT+TGG | 0.249824 | 3_4:+34918335 | Msa0498490:CDS |
| TGGAACATCAGGTGTTCTTC+AGG | 0.293025 | 3_4:+34918359 | Msa0498490:CDS |
| GTAAATCGTAAGTTAATTAT+AGG | 0.299821 | 3_4:+34918397 | Msa0498490:exon |
| TGTCAATGCCCTTCATGTTC+AGG | 0.345506 | 3_4:+34918089 | Msa0498490:CDS |
| TTTGCACTGCTTCCTGTCTT+GGG | 0.351885 | 3_4:+34918336 | Msa0498490:CDS |
| CCTGTCTTGGGTGGAACATC+AGG | 0.367509 | 3_4:+34918348 | Msa0498490:CDS |
| ATTAAGAATTTCAAGACCTA+TGG | 0.377135 | 3_4:-34918054 | None:intergenic |
| TTTATTCTTCTTTGGCCCAT+AGG | 0.390810 | 3_4:+34918038 | Msa0498490:five_prime_UTR |
| ATGGCTTCTCTATTGTGCTC+TGG | 0.411810 | 3_4:+34917821 | None:intergenic |
| TAGTACATACCTGCAGAATC+AGG | 0.419052 | 3_4:-34918125 | None:intergenic |
| TAAATCGTAAGTTAATTATA+GGG | 0.426377 | 3_4:+34918398 | Msa0498490:exon |
| TAGTTTAAAGCACTGCTGAC+TGG | 0.496035 | 3_4:+34917847 | Msa0498490:five_prime_UTR |
| ATTAACTTACGATTTACTCA+TGG | 0.498408 | 3_4:-34918391 | None:intergenic |
| TTCTTCTAATTGACTTGGTG+TGG | 0.500000 | 3_4:+34917940 | Msa0498490:five_prime_UTR |
| AATTGGAACCCTGATTCTGC+AGG | 0.514037 | 3_4:+34918116 | Msa0498490:CDS |
| GCACTGCTTCCTGTCTTGGG+TGG | 0.523718 | 3_4:+34918339 | Msa0498490:CDS |
| GCTGACTGGTGGTATGTGAA+TGG | 0.533204 | 3_4:+34917861 | Msa0498490:five_prime_UTR |
| GGAACATCAGGTGTTCTTCA+GGG | 0.533805 | 3_4:+34918360 | Msa0498490:CDS |
| TTAAGAATTTCAAGACCTAT+GGG | 0.536814 | 3_4:-34918053 | None:intergenic |
| TCTTGAAATTCTTAATGGAA+AGG | 0.540979 | 3_4:+34918061 | Msa0498490:exon |
| CAATTATAACCTGAACATGA+AGG | 0.553145 | 3_4:-34918098 | None:intergenic |
| CCTGATGTTCCACCCAAGAC+AGG | 0.557834 | 3_4:-34918348 | None:intergenic |
| TAGACTTCTTCTAATTGACT+TGG | 0.563220 | 3_4:+34917935 | Msa0498490:five_prime_UTR |
| AATTATAACCTGAACATGAA+GGG | 0.577324 | 3_4:-34918097 | None:intergenic |
| AGTACATACCTGCAGAATCA+GGG | 0.614677 | 3_4:-34918124 | None:intergenic |
| CAAATTCAAAGAATTTGATG+AGG | 0.617780 | 3_4:-34918013 | None:intergenic |
| ATCGTAAGTTAATTATAGGG+CGG | 0.654980 | 3_4:+34918401 | Msa0498490:exon |
| TTTAAAGCACTGCTGACTGG+TGG | 0.685464 | 3_4:+34917850 | Msa0498490:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCTAACTAAACAAAAAAAAA+AGG | - | chr3_4:34917919-34917938 | None:intergenic | 15.0% |
| !! | TAAATCGTAAGTTAATTATA+GGG | + | chr3_4:34918398-34918417 | Msa0498490:exon | 15.0% |
| !!! | AAGAGAAATTTTCAAAAACA+GGG | - | chr3_4:34917979-34917998 | None:intergenic | 20.0% |
| !!! | AAAGAGAAATTTTCAAAAAC+AGG | - | chr3_4:34917980-34917999 | None:intergenic | 20.0% |
| !!! | AATTTGCTTTTATTCTTCTT+TGG | + | chr3_4:34918030-34918049 | Msa0498490:five_prime_UTR | 20.0% |
| !! | AATTCATTATTCGATGTTAT+TGG | + | chr3_4:34918282-34918301 | Msa0498490:intron | 20.0% |
| !! | GTAAATCGTAAGTTAATTAT+AGG | + | chr3_4:34918397-34918416 | Msa0498490:exon | 20.0% |
| ! | CAAATTCAAAGAATTTGATG+AGG | - | chr3_4:34918016-34918035 | None:intergenic | 25.0% |
| ! | TTAAGAATTTCAAGACCTAT+GGG | - | chr3_4:34918056-34918075 | None:intergenic | 25.0% |
| ! | ATTAAGAATTTCAAGACCTA+TGG | - | chr3_4:34918057-34918076 | None:intergenic | 25.0% |
| ! | ATAGGTCTTGAAATTCTTAA+TGG | + | chr3_4:34918056-34918075 | Msa0498490:exon | 25.0% |
| ! | TCTTGAAATTCTTAATGGAA+AGG | + | chr3_4:34918061-34918080 | Msa0498490:exon | 25.0% |
| ! | AATTATAACCTGAACATGAA+GGG | - | chr3_4:34918100-34918119 | None:intergenic | 25.0% |
| ! | ATTAACTTACGATTTACTCA+TGG | - | chr3_4:34918394-34918413 | None:intergenic | 25.0% |
| TAGACTTCTTCTAATTGACT+TGG | + | chr3_4:34917935-34917954 | Msa0498490:five_prime_UTR | 30.0% | |
| CAATTATAACCTGAACATGA+AGG | - | chr3_4:34918101-34918120 | None:intergenic | 30.0% | |
| ! | CTTCATGTTCAGGTTATAAT+TGG | + | chr3_4:34918099-34918118 | Msa0498490:CDS | 30.0% |
| !! | TTCTTCTAATTGACTTGGTG+TGG | + | chr3_4:34917940-34917959 | Msa0498490:five_prime_UTR | 35.0% |
| TTTATTCTTCTTTGGCCCAT+AGG | + | chr3_4:34918038-34918057 | Msa0498490:five_prime_UTR | 35.0% | |
| !!! | CGATGTTATTGGTTTTTGTC+AGG | + | chr3_4:34918293-34918312 | Msa0498490:intron | 35.0% |
| !! | TAGTTTAAAGCACTGCTGAC+TGG | + | chr3_4:34917847-34917866 | Msa0498490:five_prime_UTR | 40.0% |
| AGTACATACCTGCAGAATCA+GGG | - | chr3_4:34918127-34918146 | None:intergenic | 40.0% | |
| TAGTACATACCTGCAGAATC+AGG | - | chr3_4:34918128-34918147 | None:intergenic | 40.0% | |
| ! | TTTTGTCAGGATTGTGCTGT+CGG | + | chr3_4:34918306-34918325 | Msa0498490:intron | 40.0% |
| !! | TTTAAAGCACTGCTGACTGG+TGG | + | chr3_4:34917850-34917869 | Msa0498490:five_prime_UTR | 45.0% |
| TGTCAATGCCCTTCATGTTC+AGG | + | chr3_4:34918089-34918108 | Msa0498490:CDS | 45.0% | |
| AATTGGAACCCTGATTCTGC+AGG | + | chr3_4:34918116-34918135 | Msa0498490:CDS | 45.0% | |
| CTGCAGTTGTGTAGAAAGAG+TGG | + | chr3_4:34918198-34918217 | Msa0498490:intron | 45.0% | |
| TTTGCACTGCTTCCTGTCTT+GGG | + | chr3_4:34918336-34918355 | Msa0498490:CDS | 45.0% | |
| TGGAACATCAGGTGTTCTTC+AGG | + | chr3_4:34918359-34918378 | Msa0498490:CDS | 45.0% | |
| GGAACATCAGGTGTTCTTCA+GGG | + | chr3_4:34918360-34918379 | Msa0498490:CDS | 45.0% | |
| GCTGACTGGTGGTATGTGAA+TGG | + | chr3_4:34917861-34917880 | Msa0498490:five_prime_UTR | 50.0% | |
| CTTTGCACTGCTTCCTGTCT+TGG | + | chr3_4:34918335-34918354 | Msa0498490:CDS | 50.0% | |
| CCTGATGTTCCACCCAAGAC+AGG | - | chr3_4:34918351-34918370 | None:intergenic | 55.0% | |
| CCTGTCTTGGGTGGAACATC+AGG | + | chr3_4:34918348-34918367 | Msa0498490:CDS | 55.0% | |
| GCACTGCTTCCTGTCTTGGG+TGG | + | chr3_4:34918339-34918358 | Msa0498490:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 34917824 | 34918423 | 34917824 | ID=Msa0498490;Name=Msa0498490 |
| chr3_4 | mRNA | 34917824 | 34918423 | 34917824 | ID=Msa0498490-mRNA-1;Parent=Msa0498490;Name=Msa0498490-mRNA-1;_AED=0.00;_eAED=0.00;_QI=251|1|1|1|1|1|2|16|51 |
| chr3_4 | exon | 34917824 | 34918137 | 34917824 | ID=Msa0498490-mRNA-1:exon:7374;Parent=Msa0498490-mRNA-1 |
| chr3_4 | exon | 34918315 | 34918423 | 34918315 | ID=Msa0498490-mRNA-1:exon:7375;Parent=Msa0498490-mRNA-1 |
| chr3_4 | five_prime_UTR | 34917824 | 34918074 | 34917824 | ID=Msa0498490-mRNA-1:five_prime_utr;Parent=Msa0498490-mRNA-1 |
| chr3_4 | CDS | 34918075 | 34918137 | 34918075 | ID=Msa0498490-mRNA-1:cds;Parent=Msa0498490-mRNA-1 |
| chr3_4 | CDS | 34918315 | 34918407 | 34918315 | ID=Msa0498490-mRNA-1:cds;Parent=Msa0498490-mRNA-1 |
| chr3_4 | three_prime_UTR | 34918408 | 34918423 | 34918408 | ID=Msa0498490-mRNA-1:three_prime_utr;Parent=Msa0498490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
