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.gene65807.t1 | RHN65790.1 | 94.4 | 72 | 4 | 0 | 1 | 72 | 45 | 116 | 4.20E-29 | 137.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene65807.t1 | Q6NWL4 | 38.4 | 73 | 45 | 0 | 2 | 74 | 215 | 287 | 3.2e-06 | 52.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene65807.t1 | Q2HW81 | 94.4 | 72 | 4 | 0 | 1 | 72 | 230 | 301 | 3.0e-29 | 137.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene65807.t1 | TR | Rcd1-like |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene65807.t1 | MTR_3g018640 | 94.444 | 72 | 4 | 0 | 1 | 72 | 230 | 301 | 5.26e-42 | 139 |
| MS.gene65807.t1 | MTR_5g093460 | 52.632 | 76 | 36 | 0 | 1 | 76 | 358 | 433 | 5.56e-19 | 80.1 |
| MS.gene65807.t1 | MTR_8g106940 | 42.391 | 92 | 53 | 0 | 1 | 92 | 230 | 321 | 3.40e-18 | 77.4 |
| MS.gene65807.t1 | MTR_6g065170 | 42.391 | 92 | 53 | 0 | 1 | 92 | 230 | 321 | 8.95e-16 | 70.5 |
| MS.gene65807.t1 | MTR_3g053170 | 43.023 | 86 | 49 | 0 | 2 | 87 | 219 | 304 | 2.94e-14 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene65807.t1 | AT3G20800 | 45.349 | 86 | 46 | 1 | 2 | 87 | 232 | 316 | 1.19e-16 | 73.2 |
Find 21 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCGCTTATCTCAAAATTGC+AGG | 0.298861 | 3.2:-9090095 | MS.gene65807:intron |
| AGTACCAACCTCATAGCTTT+TGG | 0.304125 | 3.2:+9089490 | None:intergenic |
| CACCCTCACCTCGTTTGTTT+AGG | 0.375935 | 3.2:-9090137 | MS.gene65807:CDS |
| TTTGCATCTTTGAGCCTGTT+TGG | 0.380485 | 3.2:+9089951 | None:intergenic |
| TGTTGTTACATGAGAATGTT+GGG | 0.422120 | 3.2:-9089468 | MS.gene65807:CDS |
| TAACAACTTATCTTCCAAAC+AGG | 0.438040 | 3.2:-9089965 | MS.gene65807:CDS |
| GGAGGAATTGATGATATTGT+AGG | 0.453082 | 3.2:-9089415 | MS.gene65807:CDS |
| AACCGAGTTCCTTTAGAAGC+AGG | 0.491153 | 3.2:-9089442 | MS.gene65807:CDS |
| CCTCCTCTACCTGCTTCTAA+AGG | 0.503277 | 3.2:+9089433 | None:intergenic |
| GTTCCTTTAGAAGCAGGTAG+AGG | 0.520910 | 3.2:-9089436 | MS.gene65807:CDS |
| CTGTTGTTACATGAGAATGT+TGG | 0.540471 | 3.2:-9089469 | MS.gene65807:CDS |
| GAGGAATTGATGATATTGTA+GGG | 0.550926 | 3.2:-9089414 | MS.gene65807:CDS |
| CCTTTAGAAGCAGGTAGAGG+AGG | 0.553169 | 3.2:-9089433 | MS.gene65807:CDS |
| AGCCTAAACAAACGAGGTGA+GGG | 0.564226 | 3.2:+9090135 | None:intergenic |
| AGGATGATCCAAAAGCTATG+AGG | 0.573307 | 3.2:-9089498 | MS.gene65807:CDS |
| AAGCCTAAACAAACGAGGTG+AGG | 0.574047 | 3.2:+9090134 | None:intergenic |
| TGATCCAAAAGCTATGAGGT+TGG | 0.619400 | 3.2:-9089494 | MS.gene65807:CDS |
| TACCTGCTTCTAAAGGAACT+CGG | 0.631809 | 3.2:+9089440 | None:intergenic |
| CTAAACAAACGAGGTGAGGG+TGG | 0.654655 | 3.2:+9090138 | None:intergenic |
| ATCAAAAGCCTAAACAAACG+AGG | 0.710976 | 3.2:+9090129 | None:intergenic |
| GTTGTTACATGAGAATGTTG+GGG | 0.746517 | 3.2:-9089467 | MS.gene65807:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATTAAATTATATCATATC+AGG | + | chr3.2:9089703-9089722 | None:intergenic | 10.0% |
| !! | TTAAATACAAATCATTAAAT+TGG | + | chr3.2:9089852-9089871 | None:intergenic | 10.0% |
| !! | ATTGGTTAATAATAAATCAA+TGG | + | chr3.2:9089834-9089853 | None:intergenic | 15.0% |
| !! | ATTGAATTCTCTCTTTATAA+AGG | + | chr3.2:9089991-9090010 | None:intergenic | 20.0% |
| ! | AACTTCTTTCATCTTAAAAC+AGG | - | chr3.2:9089554-9089573 | MS.gene65807:intron | 25.0% |
| ! | ACTTCTTTCATCTTAAAACA+GGG | - | chr3.2:9089555-9089574 | MS.gene65807:intron | 25.0% |
| ! | ATATTACAAGACATGCTATT+AGG | - | chr3.2:9089753-9089772 | MS.gene65807:intron | 25.0% |
| ! | CTAGATATTGTTTCAATTTC+AGG | - | chr3.2:9090037-9090056 | MS.gene65807:intron | 25.0% |
| ! | TAAAGAGAGAATTCAATTGT+TGG | - | chr3.2:9089994-9090013 | MS.gene65807:intron | 25.0% |
| ! | TATTACAAGACATGCTATTA+GGG | - | chr3.2:9089754-9089773 | MS.gene65807:intron | 25.0% |
| ! | TGTGTATACACACATTTAAT+AGG | + | chr3.2:9089798-9089817 | None:intergenic | 25.0% |
| ! | TTCAACAATTCTTAAGATCA+TGG | + | chr3.2:9089500-9089519 | None:intergenic | 25.0% |
| !! | CATTTATGGTATTTTCAAAG+TGG | - | chr3.2:9089902-9089921 | MS.gene65807:intron | 25.0% |
| !!! | AGTAAGTTTTGTGACATTTA+TGG | - | chr3.2:9089888-9089907 | MS.gene65807:intron | 25.0% |
| TAACAACTTATCTTCCAAAC+AGG | - | chr3.2:9089590-9089609 | MS.gene65807:intron | 30.0% | |
| TCAAAGTGGATACTAACTAT+AGG | - | chr3.2:9089916-9089935 | MS.gene65807:intron | 30.0% | |
| TGTCACAAAACTTACTAAAG+AGG | + | chr3.2:9089884-9089903 | None:intergenic | 30.0% | |
| TGTTGTTACATGAGAATGTT+GGG | - | chr3.2:9090087-9090106 | MS.gene65807:intron | 30.0% | |
| ! | GAGGAATTGATGATATTGTA+GGG | - | chr3.2:9090141-9090160 | MS.gene65807:CDS | 30.0% |
| ATCAAAAGCCTAAACAAACG+AGG | + | chr3.2:9089429-9089448 | None:intergenic | 35.0% | |
| CTGTTGTTACATGAGAATGT+TGG | - | chr3.2:9090086-9090105 | MS.gene65807:intron | 35.0% | |
| CTTATCTCAAAATTGCAGGT+TGG | - | chr3.2:9089464-9089483 | MS.gene65807:CDS | 35.0% | |
| GTGTGTATACACATATGTGA+AGG | - | chr3.2:9089805-9089824 | MS.gene65807:intron | 35.0% | |
| GTTGTTACATGAGAATGTTG+GGG | - | chr3.2:9090088-9090107 | MS.gene65807:intron | 35.0% | |
| TGTATACACATATGTGAAGG+TGG | - | chr3.2:9089808-9089827 | MS.gene65807:intron | 35.0% | |
| ! | AACGTCTGAAACAAGAGAAA+AGG | + | chr3.2:9089527-9089546 | None:intergenic | 35.0% |
| ! | GGAGGAATTGATGATATTGT+AGG | - | chr3.2:9090140-9090159 | MS.gene65807:CDS | 35.0% |
| AGGATGATCCAAAAGCTATG+AGG | - | chr3.2:9090057-9090076 | MS.gene65807:intron | 40.0% | |
| CTCGCTTATCTCAAAATTGC+AGG | - | chr3.2:9089460-9089479 | MS.gene65807:CDS | 40.0% | |
| TACAAGACATGCTATTAGGG+TGG | - | chr3.2:9089757-9089776 | MS.gene65807:intron | 40.0% | |
| TGATCCAAAAGCTATGAGGT+TGG | - | chr3.2:9090061-9090080 | MS.gene65807:intron | 40.0% | |
| TTTGCATCTTTGAGCCTGTT+TGG | + | chr3.2:9089607-9089626 | None:intergenic | 40.0% | |
| ! | AGTACCAACCTCATAGCTTT+TGG | + | chr3.2:9090068-9090087 | None:intergenic | 40.0% |
| ! | ATGCTATTAGGGTGGCTTTT+AGG | - | chr3.2:9089765-9089784 | MS.gene65807:intron | 40.0% |
| ! | TACCTGCTTCTAAAGGAACT+CGG | + | chr3.2:9090118-9090137 | None:intergenic | 40.0% |
| AAGCCTAAACAAACGAGGTG+AGG | + | chr3.2:9089424-9089443 | None:intergenic | 45.0% | |
| AGCCTAAACAAACGAGGTGA+GGG | + | chr3.2:9089423-9089442 | None:intergenic | 45.0% | |
| ! | AACCGAGTTCCTTTAGAAGC+AGG | - | chr3.2:9090113-9090132 | MS.gene65807:CDS | 45.0% |
| ! | GTTCCTTTAGAAGCAGGTAG+AGG | - | chr3.2:9090119-9090138 | MS.gene65807:CDS | 45.0% |
| CACCCTCACCTCGTTTGTTT+AGG | - | chr3.2:9089418-9089437 | MS.gene65807:CDS | 50.0% | |
| CCTCCTCTACCTGCTTCTAA+AGG | + | chr3.2:9090125-9090144 | None:intergenic | 50.0% | |
| CTAAACAAACGAGGTGAGGG+TGG | + | chr3.2:9089420-9089439 | None:intergenic | 50.0% | |
| ! | CCTTTAGAAGCAGGTAGAGG+AGG | - | chr3.2:9090122-9090141 | MS.gene65807:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 9089393 | 9090184 | 9089393 | ID=MS.gene65807 |
| chr3.2 | mRNA | 9089393 | 9090184 | 9089393 | ID=MS.gene65807.t1;Parent=MS.gene65807 |
| chr3.2 | exon | 9090096 | 9090184 | 9090096 | ID=MS.gene65807.t1.exon1;Parent=MS.gene65807.t1 |
| chr3.2 | CDS | 9090096 | 9090184 | 9090096 | ID=cds.MS.gene65807.t1;Parent=MS.gene65807.t1 |
| chr3.2 | exon | 9089932 | 9090001 | 9089932 | ID=MS.gene65807.t1.exon2;Parent=MS.gene65807.t1 |
| chr3.2 | CDS | 9089932 | 9090001 | 9089932 | ID=cds.MS.gene65807.t1;Parent=MS.gene65807.t1 |
| chr3.2 | exon | 9089393 | 9089518 | 9089393 | ID=MS.gene65807.t1.exon3;Parent=MS.gene65807.t1 |
| chr3.2 | CDS | 9089393 | 9089518 | 9089393 | ID=cds.MS.gene65807.t1;Parent=MS.gene65807.t1 |
| Gene Sequence |
| Protein sequence |
