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.gene67003.t1 | XP_003589130.1 | 96.9 | 131 | 4 | 0 | 1 | 131 | 49 | 179 | 5.00E-73 | 283.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene67003.t1 | K4PW38 | 47.4 | 114 | 50 | 3 | 19 | 128 | 74 | 181 | 5.0e-21 | 102.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene67003.t1 | Q2HTQ7 | 96.9 | 131 | 4 | 0 | 1 | 131 | 49 | 179 | 3.6e-73 | 283.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene054010 | MS.gene67003 | 0.804471 | 2.13E-49 | -1.69E-46 |
| MS.gene054012 | MS.gene67003 | 0.802571 | 5.27E-49 | -1.69E-46 |
| MS.gene054013 | MS.gene67003 | 0.804003 | 2.66E-49 | -1.69E-46 |
| MS.gene055604 | MS.gene67003 | 0.801853 | 7.40E-49 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 34 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGTTTAAGGTGGGAATT+TGG | 0.274976 | 1.4:+5406390 | None:intergenic |
| TCAGTTAAATTCAGGCATTC+AGG | 0.281549 | 1.4:+5407307 | MS.gene67003:CDS |
| CCAAGGGAAATAAAAGAAAT+TGG | 0.316828 | 1.4:+5406433 | MS.gene67003:CDS |
| GTTTATAGTGACACTCAAAA+TGG | 0.326390 | 1.4:+5406905 | MS.gene67003:CDS |
| TCTCATGAGGTTTATAGTTA+TGG | 0.339420 | 1.4:+5406705 | MS.gene67003:CDS |
| GGATGCTTGAATGAAAGATT+TGG | 0.362727 | 1.4:+5406660 | MS.gene67003:CDS |
| TGTTTGTTAGGATTATTGTA+TGG | 0.365430 | 1.4:+5406592 | MS.gene67003:intron |
| TGGGAGTTTCAGTTAAATTC+AGG | 0.382777 | 1.4:+5407299 | MS.gene67003:CDS |
| GGGAAAGTTGCAGCAGATAA+TGG | 0.383947 | 1.4:+5406872 | MS.gene67003:CDS |
| ATAAATATTATGCAGATTAG+TGG | 0.407993 | 1.4:+5406850 | MS.gene67003:intron |
| AGGATTATTGTATGGGAAGA+TGG | 0.415442 | 1.4:+5406600 | MS.gene67003:intron |
| CAGCAGATAATGGTCACAAA+TGG | 0.418083 | 1.4:+5406882 | MS.gene67003:CDS |
| TAAATATTATGCAGATTAGT+GGG | 0.421333 | 1.4:+5406851 | MS.gene67003:intron |
| AACTGAAACTCCCATGCCCT+TGG | 0.450146 | 1.4:-5407290 | None:intergenic |
| GCTGTCATTGCTGTCAAAGA+AGG | 0.450482 | 1.4:+5407480 | MS.gene67003:CDS |
| AGCAGATAATGGTCACAAAT+GGG | 0.486308 | 1.4:+5406883 | MS.gene67003:CDS |
| GAATGTGAGCAAAGGAAGAA+TGG | 0.490985 | 1.4:+5406639 | MS.gene67003:CDS |
| TTTGACAGCAACCAAGGGCA+TGG | 0.491667 | 1.4:+5407279 | MS.gene67003:intron |
| TTTATAGTGACACTCAAAAT+GGG | 0.504799 | 1.4:+5406906 | MS.gene67003:CDS |
| GTTTGTTAGGATTATTGTAT+GGG | 0.510760 | 1.4:+5406593 | MS.gene67003:intron |
| GACTTCTCTTGATCGTTCCA+AGG | 0.518829 | 1.4:+5406416 | MS.gene67003:CDS |
| TTGACAGCAACCAAGGGCAT+GGG | 0.522018 | 1.4:+5407280 | MS.gene67003:intron |
| GAGGTTTATAGTTATGGAGA+AGG | 0.523360 | 1.4:+5406711 | MS.gene67003:CDS |
| TGTTTAAGGTGGGAATTTGG+AGG | 0.535611 | 1.4:+5406393 | None:intergenic |
| GTTTAAGGTGGGAATTTGGA+GGG | 0.541664 | 1.4:+5406394 | None:intergenic |
| AGGTTTATAGTTATGGAGAA+GGG | 0.550052 | 1.4:+5406712 | MS.gene67003:CDS |
| AAAGAAGGCTTAGTACAACT+TGG | 0.558403 | 1.4:+5407495 | MS.gene67003:CDS |
| TGATCAATTGAAGAATTCCA+TGG | 0.573918 | 1.4:-5406950 | None:intergenic |
| ATTCTTCAAAATGTCTCATG+AGG | 0.574625 | 1.4:+5406692 | MS.gene67003:CDS |
| ATGCTAACTATGTTGGTCCA+TGG | 0.581522 | 1.4:+5406933 | MS.gene67003:CDS |
| ACTTCTCTTGATCGTTCCAA+GGG | 0.587449 | 1.4:+5406417 | MS.gene67003:CDS |
| ACAACTTGGTTCATTTAACA+AGG | 0.613113 | 1.4:+5407509 | MS.gene67003:CDS |
| AAATATTATGCAGATTAGTG+GGG | 0.628220 | 1.4:+5406852 | MS.gene67003:intron |
| GGGTGTGATGCTAACTATGT+TGG | 0.633314 | 1.4:+5406926 | MS.gene67003:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATCTTATTTTCTTAAACA+TGG | - | chr1.4:5406777-5406796 | None:intergenic | 15.0% |
| !!! | ATCAAATTACTATTCATTTT+TGG | + | chr1.4:5407448-5407467 | MS.gene67003:intron | 15.0% |
| !! | ACTATTTCAATGTTAACTTA+TGG | - | chr1.4:5407233-5407252 | None:intergenic | 20.0% |
| !! | ATAAATATTATGCAGATTAG+TGG | + | chr1.4:5406850-5406869 | MS.gene67003:intron | 20.0% |
| !! | CATAATTTACAAAGAAAATG+AGG | - | chr1.4:5407204-5407223 | None:intergenic | 20.0% |
| !! | CTATTTCAATGTTAACTTAT+GGG | - | chr1.4:5407232-5407251 | None:intergenic | 20.0% |
| !! | TAAATATTATGCAGATTAGT+GGG | + | chr1.4:5406851-5406870 | MS.gene67003:intron | 20.0% |
| !!! | AATTGGTAAGTTTTATTTCA+TGG | + | chr1.4:5406450-5406469 | MS.gene67003:intron | 20.0% |
| !!! | AGATTTTACTATCTTTTTAG+TGG | + | chr1.4:5406791-5406810 | MS.gene67003:intron | 20.0% |
| !!! | ATAGTAATTTGATAGCATTA+TGG | - | chr1.4:5407441-5407460 | None:intergenic | 20.0% |
| !!! | CTCATTTTCTTTGTAAATTA+TGG | + | chr1.4:5407202-5407221 | MS.gene67003:intron | 20.0% |
| !!! | GATTTTACTATCTTTTTAGT+GGG | + | chr1.4:5406792-5406811 | MS.gene67003:intron | 20.0% |
| ! | AAATATTATGCAGATTAGTG+GGG | + | chr1.4:5406852-5406871 | MS.gene67003:intron | 25.0% |
| ! | ACACAAAAGTTGTCAAAAAA+TGG | - | chr1.4:5407116-5407135 | None:intergenic | 25.0% |
| ! | ATTCTTCAATTGATCATGTA+AGG | + | chr1.4:5406957-5406976 | MS.gene67003:intron | 25.0% |
| ! | TTCTTCAATTGATCATGTAA+GGG | + | chr1.4:5406958-5406977 | MS.gene67003:intron | 25.0% |
| ! | TTTATAGTGACACTCAAAAT+GGG | + | chr1.4:5406906-5406925 | MS.gene67003:CDS | 25.0% |
| !! | AACATTTAGAATTTGCACAA+AGG | - | chr1.4:5407035-5407054 | None:intergenic | 25.0% |
| !! | GTTTGTTAGGATTATTGTAT+GGG | + | chr1.4:5406593-5406612 | MS.gene67003:intron | 25.0% |
| !! | TGTTTGTTAGGATTATTGTA+TGG | + | chr1.4:5406592-5406611 | MS.gene67003:intron | 25.0% |
| !!! | AATAACACGTTTTGTTTGTT+AGG | + | chr1.4:5406580-5406599 | MS.gene67003:intron | 25.0% |
| !!! | ATTTTAATGAATGTGAGCAA+AGG | + | chr1.4:5406631-5406650 | MS.gene67003:CDS | 25.0% |
| ACAACTTGGTTCATTTAACA+AGG | + | chr1.4:5407509-5407528 | MS.gene67003:CDS | 30.0% | |
| AGGTTTATAGTTATGGAGAA+GGG | + | chr1.4:5406712-5406731 | MS.gene67003:CDS | 30.0% | |
| ATTCTTCAAAATGTCTCATG+AGG | + | chr1.4:5406692-5406711 | MS.gene67003:CDS | 30.0% | |
| CCAAGGGAAATAAAAGAAAT+TGG | + | chr1.4:5406433-5406452 | MS.gene67003:CDS | 30.0% | |
| GTTTATAGTGACACTCAAAA+TGG | + | chr1.4:5406905-5406924 | MS.gene67003:CDS | 30.0% | |
| TCTCATGAGGTTTATAGTTA+TGG | + | chr1.4:5406705-5406724 | MS.gene67003:CDS | 30.0% | |
| TGATCAATTGAAGAATTCCA+TGG | - | chr1.4:5406953-5406972 | None:intergenic | 30.0% | |
| ! | ATTTAGAATTTGCACAAAGG+AGG | - | chr1.4:5407032-5407051 | None:intergenic | 30.0% |
| !! | CCAATTTCTTTTATTTCCCT+TGG | - | chr1.4:5406436-5406455 | None:intergenic | 30.0% |
| !! | TAAATTTTGACAGCAACCAA+GGG | + | chr1.4:5407274-5407293 | MS.gene67003:intron | 30.0% |
| !! | TTAAATTTTGACAGCAACCA+AGG | + | chr1.4:5407273-5407292 | MS.gene67003:intron | 30.0% |
| AAAGAAGGCTTAGTACAACT+TGG | + | chr1.4:5407495-5407514 | MS.gene67003:CDS | 35.0% | |
| AGGATTATTGTATGGGAAGA+TGG | + | chr1.4:5406600-5406619 | MS.gene67003:intron | 35.0% | |
| GAGGTTTATAGTTATGGAGA+AGG | + | chr1.4:5406711-5406730 | MS.gene67003:CDS | 35.0% | |
| GGATGCTTGAATGAAAGATT+TGG | + | chr1.4:5406660-5406679 | MS.gene67003:CDS | 35.0% | |
| TCAGTTAAATTCAGGCATTC+AGG | + | chr1.4:5407307-5407326 | MS.gene67003:CDS | 35.0% | |
| TGGGAGTTTCAGTTAAATTC+AGG | + | chr1.4:5407299-5407318 | MS.gene67003:CDS | 35.0% | |
| ! | AAACATGGCAAGAAAGTGTA+AGG | - | chr1.4:5406762-5406781 | None:intergenic | 35.0% |
| ! | AGCAGATAATGGTCACAAAT+GGG | + | chr1.4:5406883-5406902 | MS.gene67003:CDS | 35.0% |
| ACTTCTCTTGATCGTTCCAA+GGG | + | chr1.4:5406417-5406436 | MS.gene67003:CDS | 40.0% | |
| ATGCTAACTATGTTGGTCCA+TGG | + | chr1.4:5406933-5406952 | MS.gene67003:CDS | 40.0% | |
| GAATGTGAGCAAAGGAAGAA+TGG | + | chr1.4:5406639-5406658 | MS.gene67003:CDS | 40.0% | |
| ! | ATTCAGGCATTCAGGTTAGT+TGG | + | chr1.4:5407315-5407334 | MS.gene67003:intron | 40.0% |
| ! | CAGCAGATAATGGTCACAAA+TGG | + | chr1.4:5406882-5406901 | MS.gene67003:CDS | 40.0% |
| ! | TTCAGGCATTCAGGTTAGTT+GGG | + | chr1.4:5407316-5407335 | MS.gene67003:intron | 40.0% |
| GACTTCTCTTGATCGTTCCA+AGG | + | chr1.4:5406416-5406435 | MS.gene67003:CDS | 45.0% | |
| GCTGTCATTGCTGTCAAAGA+AGG | + | chr1.4:5407480-5407499 | MS.gene67003:CDS | 45.0% | |
| GGGAAAGTTGCAGCAGATAA+TGG | + | chr1.4:5406872-5406891 | MS.gene67003:CDS | 45.0% | |
| GGGTGTGATGCTAACTATGT+TGG | + | chr1.4:5406926-5406945 | MS.gene67003:CDS | 45.0% | |
| AACTGAAACTCCCATGCCCT+TGG | - | chr1.4:5407293-5407312 | None:intergenic | 50.0% | |
| TTTGACAGCAACCAAGGGCA+TGG | + | chr1.4:5407279-5407298 | MS.gene67003:intron | 50.0% | |
| ! | TTGACAGCAACCAAGGGCAT+GGG | + | chr1.4:5407280-5407299 | MS.gene67003:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 5406401 | 5407530 | 5406401 | ID=MS.gene67003 |
| chr1.4 | mRNA | 5406401 | 5407530 | 5406401 | ID=MS.gene67003.t1;Parent=MS.gene67003 |
| chr1.4 | exon | 5406401 | 5406454 | 5406401 | ID=MS.gene67003.t1.exon1;Parent=MS.gene67003.t1 |
| chr1.4 | CDS | 5406401 | 5406454 | 5406401 | ID=cds.MS.gene67003.t1;Parent=MS.gene67003.t1 |
| chr1.4 | exon | 5406602 | 5406733 | 5406602 | ID=MS.gene67003.t1.exon2;Parent=MS.gene67003.t1 |
| chr1.4 | CDS | 5406602 | 5406733 | 5406602 | ID=cds.MS.gene67003.t1;Parent=MS.gene67003.t1 |
| chr1.4 | exon | 5406865 | 5406973 | 5406865 | ID=MS.gene67003.t1.exon3;Parent=MS.gene67003.t1 |
| chr1.4 | CDS | 5406865 | 5406973 | 5406865 | ID=cds.MS.gene67003.t1;Parent=MS.gene67003.t1 |
| chr1.4 | exon | 5407287 | 5407328 | 5407287 | ID=MS.gene67003.t1.exon4;Parent=MS.gene67003.t1 |
| chr1.4 | CDS | 5407287 | 5407328 | 5407287 | ID=cds.MS.gene67003.t1;Parent=MS.gene67003.t1 |
| chr1.4 | exon | 5407474 | 5407530 | 5407474 | ID=MS.gene67003.t1.exon5;Parent=MS.gene67003.t1 |
| chr1.4 | CDS | 5407474 | 5407530 | 5407474 | ID=cds.MS.gene67003.t1;Parent=MS.gene67003.t1 |
| Gene Sequence |
| Protein sequence |
