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.gene03560.t1 | XP_013459288.2 | 89.2 | 286 | 24 | 4 | 1 | 285 | 1 | 280 | 6.20E-140 | 506.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene03560.t1 | Q9CA66 | 56.1 | 132 | 54 | 1 | 150 | 277 | 135 | 266 | 4.3e-33 | 143.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene03560.t1 | A0A2K3L4M1 | 71.8 | 284 | 66 | 8 | 1 | 280 | 1 | 274 | 2.4e-101 | 378.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene03560.t1 | TF | RWP-RK |
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.gene03560.t1 | MTR_3g435550 | 88.265 | 196 | 19 | 2 | 90 | 285 | 1 | 192 | 8.78e-124 | 351 |
| MS.gene03560.t1 | MTR_3g091700 | 50.467 | 107 | 47 | 1 | 155 | 261 | 159 | 259 | 3.36e-30 | 114 |
| MS.gene03560.t1 | MTR_0140s0010 | 41.379 | 174 | 77 | 7 | 83 | 246 | 61 | 219 | 8.77e-28 | 107 |
| MS.gene03560.t1 | MTR_5g024070 | 36.719 | 128 | 73 | 2 | 136 | 256 | 188 | 314 | 2.06e-21 | 92.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene03560.t1 | AT1G18790 | 62.500 | 128 | 41 | 2 | 137 | 257 | 112 | 239 | 1.03e-49 | 166 |
| MS.gene03560.t1 | AT1G74480 | 40.000 | 260 | 115 | 13 | 17 | 253 | 1 | 242 | 5.84e-42 | 146 |
| MS.gene03560.t1 | AT5G66990 | 48.252 | 143 | 67 | 2 | 121 | 258 | 132 | 272 | 3.48e-41 | 144 |
| MS.gene03560.t1 | AT5G53040 | 53.704 | 108 | 44 | 2 | 150 | 257 | 148 | 249 | 1.29e-30 | 115 |
| MS.gene03560.t1 | AT4G35590 | 36.296 | 135 | 73 | 2 | 150 | 277 | 192 | 320 | 4.60e-19 | 85.9 |
| MS.gene03560.t1 | AT4G35590 | 36.296 | 135 | 73 | 2 | 150 | 277 | 242 | 370 | 7.41e-19 | 85.9 |
Find 49 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTACTTGTACATTCTTTATA+AGG | 0.172964 | 3.4:+30318400 | None:intergenic |
| GATTATCATACGTAGAAAAT+TGG | 0.202707 | 3.4:+30319137 | None:intergenic |
| TTCAATGATTGGTCACATTA+TGG | 0.214480 | 3.4:-30318941 | MS.gene03560:CDS |
| TGATAACCTTCTATGCTTAA+TGG | 0.225802 | 3.4:+30318821 | None:intergenic |
| AGAGTTTCATTTCGAAATTC+AGG | 0.227635 | 3.4:+30318869 | None:intergenic |
| TTCCATGAAAGGATCAAAAT+TGG | 0.229603 | 3.4:+30318901 | None:intergenic |
| AACTTGATGAAAACACAAAA+AGG | 0.320323 | 3.4:-30317510 | MS.gene03560:CDS |
| TCTCTAGCAGCTTGAGATAT+TGG | 0.323623 | 3.4:+30318513 | None:intergenic |
| AAGAAAAGGTGTAGGGATCT+TGG | 0.330015 | 3.4:-30318465 | MS.gene03560:CDS |
| GCTCGTGGTTATGAGGTTAA+TGG | 0.353288 | 3.4:-30317446 | MS.gene03560:CDS |
| TACTTGTACATTCTTTATAA+GGG | 0.359802 | 3.4:+30318401 | None:intergenic |
| TCAATCACAGACTATGGTTA+TGG | 0.390957 | 3.4:-30318732 | MS.gene03560:intron |
| GGTGCAGGTACAAGTAATTC+AGG | 0.392094 | 3.4:+30318842 | None:intergenic |
| CCTGCACCATTAAGCATAGA+AGG | 0.395032 | 3.4:-30318827 | MS.gene03560:intron |
| GGCTTACACATTTGAAGAAA+AGG | 0.415724 | 3.4:-30318479 | MS.gene03560:CDS |
| CATTCTTTATAAGGGTTTGA+AGG | 0.417292 | 3.4:+30318409 | None:intergenic |
| TATGAGGTTAATGGAACAAC+AGG | 0.443913 | 3.4:-30317437 | MS.gene03560:CDS |
| ATCAAAATTGGTATCTTGCA+TGG | 0.445144 | 3.4:+30318913 | None:intergenic |
| CTGCTAGAGACCTTAATGTT+GGG | 0.489436 | 3.4:-30318500 | MS.gene03560:CDS |
| GAAAGAAATGAAGAAGGTAG+AGG | 0.489935 | 3.4:-30317548 | MS.gene03560:CDS |
| ATGAATGTGATGAGAAGATA+AGG | 0.493501 | 3.4:-30317591 | MS.gene03560:CDS |
| GCTTAGACAAGCATGTTTCA+AGG | 0.494981 | 3.4:-30317488 | MS.gene03560:CDS |
| AATTGGAATGGAGGTTGCAA+TGG | 0.509497 | 3.4:+30319154 | None:intergenic |
| AGAGAAGGCTCGTGGTTATG+AGG | 0.510346 | 3.4:-30317453 | MS.gene03560:CDS |
| CCTTCTATGCTTAATGGTGC+AGG | 0.511925 | 3.4:+30318827 | None:intergenic |
| ATTGCAGAAAGAAATGAAGA+AGG | 0.517898 | 3.4:-30317554 | MS.gene03560:CDS |
| GCTGCTAGAGACCTTAATGT+TGG | 0.523622 | 3.4:-30318501 | MS.gene03560:CDS |
| AATGTGTAAGCCCAACATTA+AGG | 0.530566 | 3.4:+30318490 | None:intergenic |
| ATGTGGAATGAACTTGATGC+TGG | 0.537913 | 3.4:-30318687 | MS.gene03560:CDS |
| CACATTTGAAGAAAAGGTGT+AGG | 0.540159 | 3.4:-30318473 | MS.gene03560:CDS |
| GAATTCAAAGGTGGCCACAT+AGG | 0.544869 | 3.4:-30318443 | MS.gene03560:CDS |
| TCAAAATTGGTATCTTGCAT+GGG | 0.545683 | 3.4:+30318914 | None:intergenic |
| TACTGGAGAAAATGTTGCAA+AGG | 0.556786 | 3.4:-30318625 | MS.gene03560:CDS |
| AGGCTAATTACAAGAAGAGA+AGG | 0.568624 | 3.4:-30317468 | MS.gene03560:CDS |
| AGGCTCATTAGTTTCCTATG+TGG | 0.571114 | 3.4:+30318429 | None:intergenic |
| TGTTGCAAAGGAAATTGTGA+AGG | 0.572064 | 3.4:-30318613 | MS.gene03560:CDS |
| ACATTTGAAGAAAAGGTGTA+GGG | 0.575896 | 3.4:-30318472 | MS.gene03560:CDS |
| TTATTGGTGGTGCAGGAGCA+AGG | 0.586089 | 3.4:-30317616 | MS.gene03560:intron |
| TCATATTTCAAAACCGTGAG+TGG | 0.589090 | 3.4:+30319205 | None:intergenic |
| GTAGGGATCTTGGAATTCAA+AGG | 0.603743 | 3.4:-30318455 | MS.gene03560:CDS |
| TACGTAGAAAATTGGAATGG+AGG | 0.603829 | 3.4:+30319145 | None:intergenic |
| TCATACGTAGAAAATTGGAA+TGG | 0.613632 | 3.4:+30319142 | None:intergenic |
| GTTGCAAAGGAAATTGTGAA+GGG | 0.628143 | 3.4:-30318612 | MS.gene03560:CDS |
| GCATCAAGTTCATTCCACAT+TGG | 0.632758 | 3.4:+30318690 | None:intergenic |
| GGAGAATGTTGATCCACTCA+CGG | 0.640251 | 3.4:-30319218 | MS.gene03560:CDS |
| TGAGAAGATAAGGAATGCTG+TGG | 0.656309 | 3.4:-30317581 | MS.gene03560:CDS |
| GCAGGTACAAGTAATTCAGG+TGG | 0.663503 | 3.4:+30318845 | None:intergenic |
| TTACAAGAAGAGAAGGCTCG+TGG | 0.668367 | 3.4:-30317461 | MS.gene03560:CDS |
| GGGATCTTGGAATTCAAAGG+TGG | 0.676630 | 3.4:-30318452 | MS.gene03560:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTTAAATTTTTTTTTT+TGG | - | chr3.4:30318384-30318403 | MS.gene03560:intron | 0.0% |
| !! | ATTAATAACTCAAAAAATAT+TGG | + | chr3.4:30318215-30318234 | None:intergenic | 10.0% |
| !!! | AATATATTTTAGAAAATATG+AGG | - | chr3.4:30318652-30318671 | MS.gene03560:CDS | 10.0% |
| !!! | AATTTATTTATTTTGTTAAC+GGG | - | chr3.4:30317815-30317834 | MS.gene03560:intron | 10.0% |
| !!! | AATTTTAAATATACTCTATA+CGG | + | chr3.4:30317579-30317598 | None:intergenic | 10.0% |
| !!! | TTTTATTTATTAATTATTGG+TGG | - | chr3.4:30318957-30318976 | MS.gene03560:intron | 10.0% |
| !! | AATTTGTAAAGATAATTTCA+TGG | + | chr3.4:30317556-30317575 | None:intergenic | 15.0% |
| !! | TGGAAAGTAAAAAAAAAAAA+AGG | + | chr3.4:30317536-30317555 | None:intergenic | 15.0% |
| !!! | AAAAAGAAAATCATGATTTT+AGG | + | chr3.4:30318758-30318777 | None:intergenic | 15.0% |
| !!! | ATTTATTTATTTTGTTAACG+GGG | - | chr3.4:30317816-30317835 | MS.gene03560:intron | 15.0% |
| !! | AAAAAAAAAAAAGGAACTAG+TGG | + | chr3.4:30317527-30317546 | None:intergenic | 20.0% |
| !! | AAAAATCACATTATTTAGTG+AGG | - | chr3.4:30318310-30318329 | MS.gene03560:intron | 20.0% |
| !! | TACTTGTACATTCTTTATAA+GGG | + | chr3.4:30318188-30318207 | None:intergenic | 20.0% |
| !! | TGTTAAAAGTTATAGCAAAA+AGG | - | chr3.4:30318615-30318634 | MS.gene03560:CDS | 20.0% |
| !! | TTACTTGTACATTCTTTATA+AGG | + | chr3.4:30318189-30318208 | None:intergenic | 20.0% |
| !!! | AATAATGTGATTTTTTGGTT+TGG | + | chr3.4:30318305-30318324 | None:intergenic | 20.0% |
| !!! | CACTAAATAATGTGATTTTT+TGG | + | chr3.4:30318310-30318329 | None:intergenic | 20.0% |
| !!! | CTTTTTCTTACTAATTTTTG+TGG | - | chr3.4:30318772-30318791 | MS.gene03560:intron | 20.0% |
| !!! | GGAATTGAAAAATCAATTTT+AGG | + | chr3.4:30318697-30318716 | None:intergenic | 20.0% |
| !!! | TAGGTTAATTTTCACTATAA+GGG | + | chr3.4:30318678-30318697 | None:intergenic | 20.0% |
| !!! | TCTTTTTTAACTCATAACAT+AGG | + | chr3.4:30318447-30318466 | None:intergenic | 20.0% |
| !!! | TTAGGTTAATTTTCACTATA+AGG | + | chr3.4:30318679-30318698 | None:intergenic | 20.0% |
| !!! | TTTTCTATTAACAACATTAC+TGG | - | chr3.4:30317944-30317963 | MS.gene03560:intron | 20.0% |
| !!! | TTTTTTACAGATTCAATGAT+TGG | - | chr3.4:30317634-30317653 | MS.gene03560:intron | 20.0% |
| ! | AACTTGATGAAAACACAAAA+AGG | - | chr3.4:30319076-30319095 | MS.gene03560:intron | 25.0% |
| ! | AATTATTCAATCACAGACTA+TGG | - | chr3.4:30317848-30317867 | MS.gene03560:intron | 25.0% |
| ! | GATTATCATACGTAGAAAAT+TGG | + | chr3.4:30317452-30317471 | None:intergenic | 25.0% |
| !! | GGATAATAATTTTCCATGAA+AGG | + | chr3.4:30317699-30317718 | None:intergenic | 25.0% |
| !!! | TGTAGTGAATTGTTTTAATG+TGG | - | chr3.4:30318818-30318837 | MS.gene03560:intron | 25.0% |
| AGAGTTTCATTTCGAAATTC+AGG | + | chr3.4:30317720-30317739 | None:intergenic | 30.0% | |
| ATCAAAATTGGTATCTTGCA+TGG | + | chr3.4:30317676-30317695 | None:intergenic | 30.0% | |
| ATGAATGTGATGAGAAGATA+AGG | - | chr3.4:30318995-30319014 | MS.gene03560:intron | 30.0% | |
| ATTATTTAGTGAGGAGATCT+AGG | - | chr3.4:30318319-30318338 | MS.gene03560:intron | 30.0% | |
| ATTGCAGAAAGAAATGAAGA+AGG | - | chr3.4:30319032-30319051 | MS.gene03560:intron | 30.0% | |
| CATTCTTTATAAGGGTTTGA+AGG | + | chr3.4:30318180-30318199 | None:intergenic | 30.0% | |
| TCAAAATTGGTATCTTGCAT+GGG | + | chr3.4:30317675-30317694 | None:intergenic | 30.0% | |
| TCATACGTAGAAAATTGGAA+TGG | + | chr3.4:30317447-30317466 | None:intergenic | 30.0% | |
| TGATAACCTTCTATGCTTAA+TGG | + | chr3.4:30317768-30317787 | None:intergenic | 30.0% | |
| TTATTTAGTGAGGAGATCTA+GGG | - | chr3.4:30318320-30318339 | MS.gene03560:intron | 30.0% | |
| TTCCATGAAAGGATCAAAAT+TGG | + | chr3.4:30317688-30317707 | None:intergenic | 30.0% | |
| ! | ACATTTGAAGAAAAGGTGTA+GGG | - | chr3.4:30318114-30318133 | MS.gene03560:intron | 30.0% |
| ! | ACTTGATGCTGGATTTTATT+CGG | - | chr3.4:30317910-30317929 | MS.gene03560:intron | 30.0% |
| ! | TTATGGTGATGCTAAAAATG+TGG | - | chr3.4:30317871-30317890 | MS.gene03560:intron | 30.0% |
| ! | TTCAATGATTGGTCACATTA+TGG | - | chr3.4:30317645-30317664 | MS.gene03560:intron | 30.0% |
| !! | TACCAATTTTGATCCTTTCA+TGG | - | chr3.4:30317683-30317702 | MS.gene03560:intron | 30.0% |
| !! | TTATTAATTATTGGTGGTGC+AGG | - | chr3.4:30318963-30318982 | MS.gene03560:intron | 30.0% |
| !! | TTTTCATCAAGTTGCAAATC+TGG | + | chr3.4:30319069-30319088 | None:intergenic | 30.0% |
| AATGTGTAAGCCCAACATTA+AGG | + | chr3.4:30318099-30318118 | None:intergenic | 35.0% | |
| AGGCTAATTACAAGAAGAGA+AGG | - | chr3.4:30319118-30319137 | MS.gene03560:CDS | 35.0% | |
| ATGTTTGCGCAAGCAAATTA+TGG | + | chr3.4:30318868-30318887 | None:intergenic | 35.0% | |
| CAAGTCGCAAAATTTAGAGA+TGG | + | chr3.4:30318718-30318737 | None:intergenic | 35.0% | |
| CTAAAAATGTGGTTCCAATG+TGG | - | chr3.4:30317882-30317901 | MS.gene03560:intron | 35.0% | |
| GAAAGAAATGAAGAAGGTAG+AGG | - | chr3.4:30319038-30319057 | MS.gene03560:intron | 35.0% | |
| GGCTTACACATTTGAAGAAA+AGG | - | chr3.4:30318107-30318126 | MS.gene03560:intron | 35.0% | |
| GTTGCAAAGGAAATTGTGAA+GGG | - | chr3.4:30317974-30317993 | MS.gene03560:intron | 35.0% | |
| TACGTAGAAAATTGGAATGG+AGG | + | chr3.4:30317444-30317463 | None:intergenic | 35.0% | |
| TACTGGAGAAAATGTTGCAA+AGG | - | chr3.4:30317961-30317980 | MS.gene03560:intron | 35.0% | |
| TATGAGGTTAATGGAACAAC+AGG | - | chr3.4:30319149-30319168 | MS.gene03560:CDS | 35.0% | |
| TCAATCACAGACTATGGTTA+TGG | - | chr3.4:30317854-30317873 | MS.gene03560:intron | 35.0% | |
| TCATATTTCAAAACCGTGAG+TGG | + | chr3.4:30317384-30317403 | None:intergenic | 35.0% | |
| TGTTGCAAAGGAAATTGTGA+AGG | - | chr3.4:30317973-30317992 | MS.gene03560:intron | 35.0% | |
| ! | CACATTTGAAGAAAAGGTGT+AGG | - | chr3.4:30318113-30318132 | MS.gene03560:intron | 35.0% |
| ! | CATCTCTAAATTTTGCGACT+TGG | - | chr3.4:30318716-30318735 | MS.gene03560:CDS | 35.0% |
| !!! | AAATTTTGCGACTTGGTAAG+CGG | - | chr3.4:30318723-30318742 | MS.gene03560:CDS | 35.0% |
| AATTGGAATGGAGGTTGCAA+TGG | + | chr3.4:30317435-30317454 | None:intergenic | 40.0% | |
| ATGTGGAATGAACTTGATGC+TGG | - | chr3.4:30317899-30317918 | MS.gene03560:intron | 40.0% | |
| CTGCTAGAGACCTTAATGTT+GGG | - | chr3.4:30318086-30318105 | MS.gene03560:intron | 40.0% | |
| GCATCAAGTTCATTCCACAT+TGG | + | chr3.4:30317899-30317918 | None:intergenic | 40.0% | |
| GCTTAGACAAGCATGTTTCA+AGG | - | chr3.4:30319098-30319117 | MS.gene03560:intron | 40.0% | |
| GTAGGGATCTTGGAATTCAA+AGG | - | chr3.4:30318131-30318150 | MS.gene03560:intron | 40.0% | |
| TCTCTAGCAGCTTGAGATAT+TGG | + | chr3.4:30318076-30318095 | None:intergenic | 40.0% | |
| TGAGAAGATAAGGAATGCTG+TGG | - | chr3.4:30319005-30319024 | MS.gene03560:intron | 40.0% | |
| ! | AAGAAAAGGTGTAGGGATCT+TGG | - | chr3.4:30318121-30318140 | MS.gene03560:intron | 40.0% |
| ! | AGGCTCATTAGTTTCCTATG+TGG | + | chr3.4:30318160-30318179 | None:intergenic | 40.0% |
| CCTGCACCATTAAGCATAGA+AGG | - | chr3.4:30317759-30317778 | MS.gene03560:intron | 45.0% | |
| CCTTCTATGCTTAATGGTGC+AGG | + | chr3.4:30317762-30317781 | None:intergenic | 45.0% | |
| GAATTCAAAGGTGGCCACAT+AGG | - | chr3.4:30318143-30318162 | MS.gene03560:intron | 45.0% | |
| GCAGGTACAAGTAATTCAGG+TGG | + | chr3.4:30317744-30317763 | None:intergenic | 45.0% | |
| GCTCGTGGTTATGAGGTTAA+TGG | - | chr3.4:30319140-30319159 | MS.gene03560:CDS | 45.0% | |
| GCTGCTAGAGACCTTAATGT+TGG | - | chr3.4:30318085-30318104 | MS.gene03560:intron | 45.0% | |
| GGAGAATGTTGATCCACTCA+CGG | - | chr3.4:30317368-30317387 | MS.gene03560:CDS | 45.0% | |
| GGGATCTTGGAATTCAAAGG+TGG | - | chr3.4:30318134-30318153 | MS.gene03560:intron | 45.0% | |
| GGTGCAGGTACAAGTAATTC+AGG | + | chr3.4:30317747-30317766 | None:intergenic | 45.0% | |
| TTACAAGAAGAGAAGGCTCG+TGG | - | chr3.4:30319125-30319144 | MS.gene03560:CDS | 45.0% | |
| !!! | ACATTTTATTTATTAATTAT+TGG | - | chr3.4:30318954-30318973 | MS.gene03560:intron | 5.0% |
| !!! | TAATTTATTTATTTTGTTAA+CGG | - | chr3.4:30317814-30317833 | MS.gene03560:intron | 5.0% |
| AGAGAAGGCTCGTGGTTATG+AGG | - | chr3.4:30319133-30319152 | MS.gene03560:CDS | 50.0% | |
| !! | TTATTGGTGGTGCAGGAGCA+AGG | - | chr3.4:30318970-30318989 | MS.gene03560:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 30317366 | 30319242 | 30317366 | ID=MS.gene03560 |
| chr3.4 | mRNA | 30317366 | 30319242 | 30317366 | ID=MS.gene03560.t1;Parent=MS.gene03560 |
| chr3.4 | exon | 30319106 | 30319242 | 30319106 | ID=MS.gene03560.t1.exon1;Parent=MS.gene03560.t1 |
| chr3.4 | CDS | 30319106 | 30319242 | 30319106 | ID=cds.MS.gene03560.t1;Parent=MS.gene03560.t1 |
| chr3.4 | exon | 30318828 | 30318964 | 30318828 | ID=MS.gene03560.t1.exon2;Parent=MS.gene03560.t1 |
| chr3.4 | CDS | 30318828 | 30318964 | 30318828 | ID=cds.MS.gene03560.t1;Parent=MS.gene03560.t1 |
| chr3.4 | exon | 30318404 | 30318744 | 30318404 | ID=MS.gene03560.t1.exon3;Parent=MS.gene03560.t1 |
| chr3.4 | CDS | 30318404 | 30318744 | 30318404 | ID=cds.MS.gene03560.t1;Parent=MS.gene03560.t1 |
| chr3.4 | exon | 30317366 | 30317623 | 30317366 | ID=MS.gene03560.t1.exon4;Parent=MS.gene03560.t1 |
| chr3.4 | CDS | 30317366 | 30317623 | 30317366 | ID=cds.MS.gene03560.t1;Parent=MS.gene03560.t1 |
| Gene Sequence |
| Protein sequence |
