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.gene09747.t1 | XP_024640239.1 | 89.9 | 247 | 18 | 3 | 2 | 244 | 1 | 244 | 3.00E-119 | 438 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene09747.t1 | Q9SKK8 | 31.6 | 177 | 106 | 7 | 32 | 199 | 43 | 213 | 9.3e-13 | 75.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene09747.t1 | G7JXF0 | 89.9 | 247 | 18 | 3 | 2 | 244 | 1 | 244 | 2.1e-119 | 438.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050148 | MS.gene09747 | 0.971488 | 3.05E-133 | -1.69E-46 |
| MS.gene050149 | MS.gene09747 | 0.974423 | 3.95E-138 | -1.69E-46 |
| MS.gene050161 | MS.gene09747 | 0.830024 | 3.71E-55 | -1.69E-46 |
| MS.gene050961 | MS.gene09747 | 0.82123 | 4.51E-53 | -1.69E-46 |
| MS.gene05861 | MS.gene09747 | 0.8329 | 7.26E-56 | -1.69E-46 |
| MS.gene05862 | MS.gene09747 | 0.824284 | 8.77E-54 | -1.69E-46 |
| MS.gene05969 | MS.gene09747 | 0.833093 | 6.50E-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.gene09747.t1 | MTR_5g013030 | 91.903 | 247 | 13 | 3 | 2 | 244 | 1 | 244 | 9.41e-149 | 415 |
| MS.gene09747.t1 | MTR_3g091200 | 32.086 | 187 | 109 | 9 | 28 | 205 | 43 | 220 | 3.76e-15 | 74.3 |
| MS.gene09747.t1 | MTR_8g027745 | 31.098 | 164 | 98 | 6 | 30 | 185 | 33 | 189 | 8.70e-15 | 73.2 |
| MS.gene09747.t1 | MTR_4g073230 | 32.593 | 135 | 77 | 4 | 1 | 124 | 8 | 139 | 1.92e-12 | 66.6 |
| MS.gene09747.t1 | MTR_1g028290 | 26.667 | 225 | 148 | 7 | 22 | 235 | 37 | 255 | 4.93e-12 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene09747.t1 | AT5G53110 | 35.057 | 174 | 94 | 7 | 27 | 186 | 39 | 207 | 3.95e-17 | 80.1 |
| MS.gene09747.t1 | AT2G25410 | 28.807 | 243 | 136 | 10 | 31 | 242 | 42 | 278 | 4.06e-16 | 77.0 |
| MS.gene09747.t1 | AT2G46495 | 28.655 | 171 | 102 | 8 | 29 | 185 | 35 | 199 | 3.28e-13 | 68.6 |
| MS.gene09747.t1 | AT2G46495 | 28.655 | 171 | 102 | 8 | 29 | 185 | 35 | 199 | 3.62e-13 | 68.6 |
| MS.gene09747.t1 | AT5G36001 | 29.560 | 159 | 94 | 8 | 29 | 185 | 41 | 183 | 1.12e-11 | 62.8 |
| MS.gene09747.t1 | AT5G36001 | 29.560 | 159 | 94 | 8 | 29 | 185 | 41 | 183 | 3.90e-11 | 62.4 |
Find 42 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCTTTCTCACCCTCTTCT+TGG | 0.138462 | 5.4:+6636420 | MS.gene09747:CDS |
| TATGATGATACCACTCTTTC+TGG | 0.178660 | 5.4:+6636541 | MS.gene09747:CDS |
| TCACTATCCATTTCACATAA+AGG | 0.295402 | 5.4:+6636495 | MS.gene09747:CDS |
| AGACTGTTGTCTGAAATATA+AGG | 0.324770 | 5.4:-6636916 | None:intergenic |
| CACTATCCATTTCACATAAA+GGG | 0.339521 | 5.4:+6636496 | MS.gene09747:CDS |
| GAACTAGGCATAGGAACTTC+AGG | 0.345941 | 5.4:-6636850 | None:intergenic |
| CATAGCGTGGCAGATTTCTA+AGG | 0.365268 | 5.4:+6637602 | MS.gene09747:CDS |
| AAGAAGAGTGAATTCATCAT+TGG | 0.384353 | 5.4:-6636403 | None:intergenic |
| GTTAACTGCAACGGTATTGC+TGG | 0.410536 | 5.4:+6636463 | MS.gene09747:CDS |
| TGTTGACCCTTTATGTGAAA+TGG | 0.413795 | 5.4:-6636502 | None:intergenic |
| CGTTGCAGTTAACAGAGGTT+TGG | 0.417106 | 5.4:-6636453 | None:intergenic |
| GGCAACACTTGTAGGCATAA+AGG | 0.435949 | 5.4:+6637544 | MS.gene09747:CDS |
| GACTGTTGTCTGAAATATAA+GGG | 0.447474 | 5.4:-6636915 | None:intergenic |
| TATATTTCAGACAACAGTCT+TGG | 0.476999 | 5.4:+6636919 | MS.gene09747:CDS |
| GCATAAAGGTTCATTTATCA+AGG | 0.478351 | 5.4:+6637558 | MS.gene09747:CDS |
| GTGGCACTGGCAACACTTGT+AGG | 0.486667 | 5.4:+6637536 | MS.gene09747:CDS |
| ACTATCAAATCACCATATGA+TGG | 0.503242 | 5.4:-6636607 | None:intergenic |
| TGAAATGGATAGTGAATGTC+AGG | 0.523321 | 5.4:-6636487 | None:intergenic |
| AATCTGAAGAAAGCAAAGAA+TGG | 0.524107 | 5.4:+6636968 | MS.gene09747:CDS |
| AACTAGGCATAGGAACTTCA+GGG | 0.534743 | 5.4:-6636849 | None:intergenic |
| CATTTATCAAGGAGGAAAGA+AGG | 0.537861 | 5.4:+6637569 | MS.gene09747:CDS |
| TCTCACACAGCACGCAATAC+AGG | 0.540563 | 5.4:+6637006 | MS.gene09747:CDS |
| ACGGTGTAAAGGTGAGGTTA+AGG | 0.543625 | 5.4:-6636705 | None:intergenic |
| ATAGTATTGGAACGGTGTAA+AGG | 0.555489 | 5.4:-6636716 | None:intergenic |
| ACCATATGATGGAAAATGAA+TGG | 0.555827 | 5.4:-6636596 | None:intergenic |
| ATATAAGGGCTATATTTGAA+AGG | 0.590983 | 5.4:-6636901 | None:intergenic |
| GAAGATGAAAACCAAGAAGA+GGG | 0.591458 | 5.4:-6636431 | None:intergenic |
| AGGACAATTGTTGCATAGCG+TGG | 0.602254 | 5.4:+6637589 | MS.gene09747:CDS |
| AAGCTCAAAACCAGAAAGAG+TGG | 0.602365 | 5.4:-6636551 | None:intergenic |
| AGAACGTAATAGTATTGGAA+CGG | 0.607440 | 5.4:-6636724 | None:intergenic |
| GGAAGATGAAAACCAAGAAG+AGG | 0.611027 | 5.4:-6636432 | None:intergenic |
| CAAACCTCTGTTAACTGCAA+CGG | 0.615436 | 5.4:+6636454 | MS.gene09747:CDS |
| ATATTTGAAAGGAATAGCAA+TGG | 0.622554 | 5.4:-6636890 | None:intergenic |
| TAACTTGAATCACTTAAACA+TGG | 0.633744 | 5.4:-6636808 | None:intergenic |
| GTCTTGGTCTTAGATTAACA+TGG | 0.638466 | 5.4:+6636935 | MS.gene09747:CDS |
| AAAGTCTTGTGGAGCAATTG+AGG | 0.638737 | 5.4:-6636762 | None:intergenic |
| TAAAGGTTCATTTATCAAGG+AGG | 0.641975 | 5.4:+6637561 | MS.gene09747:CDS |
| ATTGGAACGGTGTAAAGGTG+AGG | 0.642041 | 5.4:-6636711 | None:intergenic |
| TCTTGGTCTTAGATTAACAT+GGG | 0.645510 | 5.4:+6636936 | MS.gene09747:CDS |
| AATACCGTTGCAGTTAACAG+AGG | 0.663218 | 5.4:-6636458 | None:intergenic |
| TAAGGTTGAGAAAGACTCTG+TGG | 0.692883 | 5.4:-6636687 | None:intergenic |
| ATATGATGGAAAATGAATGG+TGG | 0.729816 | 5.4:-6636593 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTACAAAAATAAAGTTCA+TGG | + | chr5.4:6637054-6637073 | MS.gene09747:intron | 15.0% |
| !! | ATTACAAAAATAAAGTTCAT+GGG | + | chr5.4:6637055-6637074 | MS.gene09747:intron | 15.0% |
| !! | GTATAGTACATATATATATT+GGG | + | chr5.4:6637191-6637210 | MS.gene09747:intron | 15.0% |
| !! | TGTATAGTACATATATATAT+TGG | + | chr5.4:6637190-6637209 | MS.gene09747:intron | 15.0% |
| !! | AGAAAATTATTAACAAAGCT+TGG | + | chr5.4:6637418-6637437 | MS.gene09747:intron | 20.0% |
| !! | TTTGTAATTAAAGAAAGAGA+TGG | - | chr5.4:6637043-6637062 | None:intergenic | 20.0% |
| !!! | TTTTAAGAACGTAATAGTAT+TGG | - | chr5.4:6636732-6636751 | None:intergenic | 20.0% |
| ! | AGGAAATTATGCTCATTTAA+AGG | - | chr5.4:6637099-6637118 | None:intergenic | 25.0% |
| ! | AGTACATATATATATTGGGA+AGG | + | chr5.4:6637195-6637214 | MS.gene09747:intron | 25.0% |
| ! | ATAATTTCCTTATACTAGGT+TGG | + | chr5.4:6637109-6637128 | MS.gene09747:intron | 25.0% |
| ! | ATATAAGGGCTATATTTGAA+AGG | - | chr5.4:6636904-6636923 | None:intergenic | 25.0% |
| ! | ATATTTGAAAGGAATAGCAA+TGG | - | chr5.4:6636893-6636912 | None:intergenic | 25.0% |
| ! | ATCATTACGAAGTATATACT+AGG | + | chr5.4:6637249-6637268 | MS.gene09747:intron | 25.0% |
| ! | TAACTTGAATCACTTAAACA+TGG | - | chr5.4:6636811-6636830 | None:intergenic | 25.0% |
| ! | TAATTTCCTTATACTAGGTT+GGG | + | chr5.4:6637110-6637129 | MS.gene09747:intron | 25.0% |
| !! | ATCAAGAAGATCAATCTTTT+TGG | - | chr5.4:6636653-6636672 | None:intergenic | 25.0% |
| !!! | TTGACTTTTTTACATGAACT+AGG | - | chr5.4:6636868-6636887 | None:intergenic | 25.0% |
| AATCTGAAGAAAGCAAAGAA+TGG | + | chr5.4:6636968-6636987 | MS.gene09747:CDS | 30.0% | |
| ACTATCAAATCACCATATGA+TGG | - | chr5.4:6636610-6636629 | None:intergenic | 30.0% | |
| CACTATCCATTTCACATAAA+GGG | + | chr5.4:6636496-6636515 | MS.gene09747:CDS | 30.0% | |
| GAGCATAATTTCCTTATACT+AGG | + | chr5.4:6637105-6637124 | MS.gene09747:intron | 30.0% | |
| GCATAAAGGTTCATTTATCA+AGG | + | chr5.4:6637558-6637577 | MS.gene09747:CDS | 30.0% | |
| TAAAGGTTCATTTATCAAGG+AGG | + | chr5.4:6637561-6637580 | MS.gene09747:CDS | 30.0% | |
| TACGAAGTATATACTAGGTT+GGG | + | chr5.4:6637254-6637273 | MS.gene09747:intron | 30.0% | |
| TAGTACATTATCTTTCGTGT+AGG | + | chr5.4:6637316-6637335 | MS.gene09747:intron | 30.0% | |
| TATATTTCAGACAACAGTCT+TGG | + | chr5.4:6636919-6636938 | MS.gene09747:CDS | 30.0% | |
| TCACTATCCATTTCACATAA+AGG | + | chr5.4:6636495-6636514 | MS.gene09747:CDS | 30.0% | |
| TTACGAAGTATATACTAGGT+TGG | + | chr5.4:6637253-6637272 | MS.gene09747:intron | 30.0% | |
| ! | ACCATATGATGGAAAATGAA+TGG | - | chr5.4:6636599-6636618 | None:intergenic | 30.0% |
| ! | ACCATTCATTTTCCATCATA+TGG | + | chr5.4:6636595-6636614 | MS.gene09747:CDS | 30.0% |
| ! | AGAACGTAATAGTATTGGAA+CGG | - | chr5.4:6636727-6636746 | None:intergenic | 30.0% |
| ! | AGACTGTTGTCTGAAATATA+AGG | - | chr5.4:6636919-6636938 | None:intergenic | 30.0% |
| ! | ATATGATGGAAAATGAATGG+TGG | - | chr5.4:6636596-6636615 | None:intergenic | 30.0% |
| ! | GACTGTTGTCTGAAATATAA+GGG | - | chr5.4:6636918-6636937 | None:intergenic | 30.0% |
| ! | TTTTTACATGAACTAGGCAT+AGG | - | chr5.4:6636862-6636881 | None:intergenic | 30.0% |
| !! | TCTTGGTCTTAGATTAACAT+GGG | + | chr5.4:6636936-6636955 | MS.gene09747:CDS | 30.0% |
| !! | TTTTGTTTGTGAAAGTCTTG+TGG | - | chr5.4:6636776-6636795 | None:intergenic | 30.0% |
| !!! | ATCAATCTTTTTGGTGTCAT+AGG | - | chr5.4:6636644-6636663 | None:intergenic | 30.0% |
| AAACTACCCAACCTAGTATA+AGG | - | chr5.4:6637119-6637138 | None:intergenic | 35.0% | |
| CATTTATCAAGGAGGAAAGA+AGG | + | chr5.4:6637569-6637588 | MS.gene09747:CDS | 35.0% | |
| GAAGATGAAAACCAAGAAGA+GGG | - | chr5.4:6636434-6636453 | None:intergenic | 35.0% | |
| TATGATGATACCACTCTTTC+TGG | + | chr5.4:6636541-6636560 | MS.gene09747:CDS | 35.0% | |
| TCTTTCGTGTAGGATTGATT+CGG | + | chr5.4:6637326-6637345 | MS.gene09747:intron | 35.0% | |
| TGAAATGGATAGTGAATGTC+AGG | - | chr5.4:6636490-6636509 | None:intergenic | 35.0% | |
| TGTTGACCCTTTATGTGAAA+TGG | - | chr5.4:6636505-6636524 | None:intergenic | 35.0% | |
| ! | ATAGTATTGGAACGGTGTAA+AGG | - | chr5.4:6636719-6636738 | None:intergenic | 35.0% |
| ! | ATATACTAGGTTGGGTAGTT+TGG | + | chr5.4:6637262-6637281 | MS.gene09747:intron | 35.0% |
| !! | GTCTTGGTCTTAGATTAACA+TGG | + | chr5.4:6636935-6636954 | MS.gene09747:CDS | 35.0% |
| !!! | CTTTTTGGTGTCATAGGAAA+TGG | - | chr5.4:6636638-6636657 | None:intergenic | 35.0% |
| AACTAGGCATAGGAACTTCA+GGG | - | chr5.4:6636852-6636871 | None:intergenic | 40.0% | |
| AAGCTCAAAACCAGAAAGAG+TGG | - | chr5.4:6636554-6636573 | None:intergenic | 40.0% | |
| AATACCGTTGCAGTTAACAG+AGG | - | chr5.4:6636461-6636480 | None:intergenic | 40.0% | |
| CAAACCTCTGTTAACTGCAA+CGG | + | chr5.4:6636454-6636473 | MS.gene09747:CDS | 40.0% | |
| GGAAGATGAAAACCAAGAAG+AGG | - | chr5.4:6636435-6636454 | None:intergenic | 40.0% | |
| TAAGGTTGAGAAAGACTCTG+TGG | - | chr5.4:6636690-6636709 | None:intergenic | 40.0% | |
| TTCAACACATGTGCAGTTCT+TGG | + | chr5.4:6637491-6637510 | MS.gene09747:intron | 40.0% | |
| ! | AAAGTCTTGTGGAGCAATTG+AGG | - | chr5.4:6636765-6636784 | None:intergenic | 40.0% |
| ! | TCTCAGCATCTGTATTTTCG+TGG | + | chr5.4:6637514-6637533 | MS.gene09747:CDS | 40.0% |
| !!! | ACTCTGTGGACACAGTTTTT+TGG | - | chr5.4:6636676-6636695 | None:intergenic | 40.0% |
| ACGGTGTAAAGGTGAGGTTA+AGG | - | chr5.4:6636708-6636727 | None:intergenic | 45.0% | |
| AGGACAATTGTTGCATAGCG+TGG | + | chr5.4:6637589-6637608 | MS.gene09747:CDS | 45.0% | |
| ATTGGAACGGTGTAAAGGTG+AGG | - | chr5.4:6636714-6636733 | None:intergenic | 45.0% | |
| CGTTGCAGTTAACAGAGGTT+TGG | - | chr5.4:6636456-6636475 | None:intergenic | 45.0% | |
| CTTCTTTCTCACCCTCTTCT+TGG | + | chr5.4:6636420-6636439 | MS.gene09747:CDS | 45.0% | |
| GAACTAGGCATAGGAACTTC+AGG | - | chr5.4:6636853-6636872 | None:intergenic | 45.0% | |
| GGCAACACTTGTAGGCATAA+AGG | + | chr5.4:6637544-6637563 | MS.gene09747:CDS | 45.0% | |
| GTTAACTGCAACGGTATTGC+TGG | + | chr5.4:6636463-6636482 | MS.gene09747:CDS | 45.0% | |
| ! | CAGCATCTGTATTTTCGTGG+TGG | + | chr5.4:6637517-6637536 | MS.gene09747:CDS | 45.0% |
| TCTCACACAGCACGCAATAC+AGG | + | chr5.4:6637006-6637025 | MS.gene09747:CDS | 50.0% | |
| ! | CTGTATTTTCGTGGTGGCAC+TGG | + | chr5.4:6637523-6637542 | MS.gene09747:CDS | 50.0% |
| !! | GTGGCACTGGCAACACTTGT+AGG | + | chr5.4:6637536-6637555 | MS.gene09747:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 6636406 | 6637622 | 6636406 | ID=MS.gene09747 |
| chr5.4 | mRNA | 6636406 | 6637622 | 6636406 | ID=MS.gene09747.t1;Parent=MS.gene09747 |
| chr5.4 | exon | 6636406 | 6637027 | 6636406 | ID=MS.gene09747.t1.exon1;Parent=MS.gene09747.t1 |
| chr5.4 | CDS | 6636406 | 6637027 | 6636406 | ID=cds.MS.gene09747.t1;Parent=MS.gene09747.t1 |
| chr5.4 | exon | 6637507 | 6637622 | 6637507 | ID=MS.gene09747.t1.exon2;Parent=MS.gene09747.t1 |
| chr5.4 | CDS | 6637507 | 6637622 | 6637507 | ID=cds.MS.gene09747.t1;Parent=MS.gene09747.t1 |
| Gene Sequence |
| Protein sequence |
