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.gene20603.t1 | RHN49902.1 | 91.8 | 194 | 15 | 1 | 1 | 194 | 46 | 238 | 1.20E-99 | 372.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20603.t1 | Q67YE6 | 58.0 | 193 | 73 | 2 | 1 | 193 | 1 | 185 | 5.2e-59 | 228.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20603.t1 | I3SH14 | 91.8 | 194 | 15 | 1 | 1 | 194 | 1 | 193 | 8.8e-100 | 372.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050353 | MS.gene20603 | 0.846945 | 1.58E-59 | -1.69E-46 |
| MS.gene050354 | MS.gene20603 | 0.814245 | 1.70E-51 | -1.69E-46 |
| MS.gene050416 | MS.gene20603 | 0.804673 | 1.93E-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20603.t1 | MTR_6g008210 | 91.753 | 194 | 15 | 1 | 1 | 194 | 1 | 193 | 1.61e-131 | 367 |
| MS.gene20603.t1 | MTR_7g091810 | 46.763 | 139 | 67 | 2 | 5 | 139 | 2 | 137 | 4.04e-38 | 132 |
| MS.gene20603.t1 | MTR_0100s0160 | 48.921 | 139 | 64 | 2 | 5 | 139 | 2 | 137 | 4.91e-38 | 132 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20603.t1 | AT3G28210 | 60.694 | 173 | 64 | 1 | 1 | 173 | 1 | 169 | 4.77e-73 | 219 |
| MS.gene20603.t1 | AT3G28210 | 60.694 | 173 | 64 | 1 | 1 | 173 | 1 | 169 | 4.77e-73 | 219 |
| MS.gene20603.t1 | AT3G57480 | 46.250 | 160 | 79 | 3 | 5 | 160 | 2 | 158 | 1.68e-42 | 143 |
| MS.gene20603.t1 | AT3G57480 | 46.250 | 160 | 79 | 3 | 5 | 160 | 2 | 158 | 1.68e-42 | 143 |
| MS.gene20603.t1 | AT2G41835 | 46.707 | 167 | 75 | 4 | 5 | 160 | 2 | 165 | 3.40e-41 | 140 |
| MS.gene20603.t1 | AT5G48205 | 39.091 | 110 | 34 | 2 | 5 | 108 | 2 | 84 | 3.94e-15 | 70.5 |
Find 43 sgRNAs with CRISPR-Local
Find 64 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGGACATTCATGTGACTTAT+AGG | 0.238124 | 6.3:-4345555 | None:intergenic |
| CTGTAAAACTTGCCACATTA+AGG | 0.277586 | 6.3:+4345781 | MS.gene20603:CDS |
| CTGCTGTTGTGGTCTGGTTT+CGG | 0.299904 | 6.3:-4345575 | None:intergenic |
| TTAAAGAAGCACCGTAGTTC+AGG | 0.303701 | 6.3:+4345674 | MS.gene20603:CDS |
| AAGGACAAATAATAGGTTTC+TGG | 0.312800 | 6.3:+4345889 | MS.gene20603:CDS |
| CAAATGCAAGGACAAATAAT+AGG | 0.336795 | 6.3:+4345882 | MS.gene20603:CDS |
| TAATAGGTTTCTGGCTGCTC+TGG | 0.375383 | 6.3:+4345898 | MS.gene20603:CDS |
| TCCTAGTAATCCTTCTGTTA+AGG | 0.396096 | 6.3:+4345979 | MS.gene20603:CDS |
| TGGCAATGTTTACCTAAATC+TGG | 0.409207 | 6.3:-4344904 | None:intergenic |
| AATCTCCTTGCAACGCTTCA+CGG | 0.413705 | 6.3:-4345735 | None:intergenic |
| TTCCTTCCTTTCACATGTGA+TGG | 0.417131 | 6.3:+4344952 | MS.gene20603:CDS |
| TGAAGAATGCTCCATGTCTA+TGG | 0.426712 | 6.3:+4345613 | MS.gene20603:CDS |
| GCTGCTCTGGCTTCAAGAAA+TGG | 0.428865 | 6.3:+4345911 | MS.gene20603:CDS |
| AAAATTGAAACTATGGCATC+AGG | 0.440213 | 6.3:+4344865 | None:intergenic |
| ATCTCCTTGCAACGCTTCAC+GGG | 0.447360 | 6.3:-4345734 | None:intergenic |
| CACATGTGATGGCTGCAAAC+AGG | 0.451079 | 6.3:+4344963 | MS.gene20603:CDS |
| GTCGGTTTCTTCTTCTTGCT+AGG | 0.454998 | 6.3:-4345707 | None:intergenic |
| TCGGTTTCTTCTTCTTGCTA+GGG | 0.487824 | 6.3:-4345706 | None:intergenic |
| TAAAGAAGCACCGTAGTTCA+GGG | 0.513706 | 6.3:+4345675 | MS.gene20603:CDS |
| TTAAGGTGTGCCTCAAGCAC+CGG | 0.526623 | 6.3:+4345798 | MS.gene20603:CDS |
| AAGCATGATCAGCAGCAAAC+CGG | 0.531829 | 6.3:-4345817 | None:intergenic |
| GCCTTAACAGAAGGATTACT+AGG | 0.545552 | 6.3:-4345980 | None:intergenic |
| TATGGAGATCACAGGCAACA+TGG | 0.561346 | 6.3:+4345631 | MS.gene20603:CDS |
| CAGCAGCAAACCGGTGCTTG+AGG | 0.563456 | 6.3:-4345808 | None:intergenic |
| TGCAACAGCAGCTGTTGATG+AGG | 0.572883 | 6.3:-4345861 | None:intergenic |
| CAGCTGCTGTTGCAAATGCA+AGG | 0.574672 | 6.3:+4345870 | MS.gene20603:CDS |
| CAACGCTTCACGGGACAAGT+CGG | 0.578371 | 6.3:-4345725 | None:intergenic |
| GCTGATCATGCTTGTAGTAG+AGG | 0.580042 | 6.3:+4345827 | MS.gene20603:CDS |
| TGAAAGGAAGGAAATCAAGC+TGG | 0.583998 | 6.3:-4344942 | None:intergenic |
| TCCATGTCTATGGAGATCAC+AGG | 0.587969 | 6.3:+4345623 | MS.gene20603:CDS |
| AGCCATCACATGTGAAAGGA+AGG | 0.588356 | 6.3:-4344954 | None:intergenic |
| ATGGAGATCACAGGCAACAT+GGG | 0.594572 | 6.3:+4345632 | MS.gene20603:CDS |
| GCTGGTGACAATCAACATGC+TGG | 0.594811 | 6.3:-4344924 | None:intergenic |
| AATCAACAAGCCTTAACAGA+AGG | 0.596098 | 6.3:-4345989 | None:intergenic |
| TTGTCCCGTGAAGCGTTGCA+AGG | 0.611347 | 6.3:+4345730 | MS.gene20603:CDS |
| ATTGAAACTATGGCATCAGG+TGG | 0.618057 | 6.3:+4344868 | None:intergenic |
| TTGCAGCCATCACATGTGAA+AGG | 0.623081 | 6.3:-4344958 | None:intergenic |
| GCCTGTGATCTCCATAGACA+TGG | 0.623654 | 6.3:-4345624 | None:intergenic |
| GGTCACACTTCCCTGAACTA+CGG | 0.626391 | 6.3:-4345685 | None:intergenic |
| GCTTGAGGCACACCTTAATG+TGG | 0.642622 | 6.3:-4345793 | None:intergenic |
| ATAATAACAGGTATTCTGTG+TGG | 0.653008 | 6.3:+4345523 | MS.gene20603:intron |
| TTAACAGAAGGATTACTAGG+AGG | 0.691197 | 6.3:-4345977 | None:intergenic |
| CAACATGGGAGAAAACGAAG+AGG | 0.737384 | 6.3:+4345646 | MS.gene20603:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAACATAATTTATAATAAC+AGG | + | chr6.3:4345511-4345530 | MS.gene20603:intron | 10.0% |
| !! | TGTAGTATAATCAAATATGT+TGG | + | chr6.3:4345250-4345269 | MS.gene20603:intron | 20.0% |
| !! | TTAATTCATGATTGACTAAT+TGG | + | chr6.3:4345150-4345169 | MS.gene20603:intron | 20.0% |
| !!! | TTACTAGTATTCATTGATTA+AGG | - | chr6.3:4345457-4345476 | None:intergenic | 20.0% |
| ! | GTTTCCAATTACAAAATTCT+TGG | + | chr6.3:4345429-4345448 | MS.gene20603:intron | 25.0% |
| ! | TATAATCAAATATGTTGGTC+TGG | + | chr6.3:4345255-4345274 | MS.gene20603:intron | 25.0% |
| ! | TGCTAAATATGAAACAGAAA+AGG | + | chr6.3:4345485-4345504 | MS.gene20603:intron | 25.0% |
| !! | TGAAAAATCTTGATAACTGA+GGG | + | chr6.3:4345061-4345080 | MS.gene20603:intron | 25.0% |
| AAGAATCGTTCAGTCAAATA+TGG | - | chr6.3:4345020-4345039 | None:intergenic | 30.0% | |
| AAGGACAAATAATAGGTTTC+TGG | + | chr6.3:4345889-4345908 | MS.gene20603:CDS | 30.0% | |
| ATAATAACAGGTATTCTGTG+TGG | + | chr6.3:4345523-4345542 | MS.gene20603:intron | 30.0% | |
| CAAAACAGTACAAGATAAAC+TGG | - | chr6.3:4345232-4345251 | None:intergenic | 30.0% | |
| CAAATGCAAGGACAAATAAT+AGG | + | chr6.3:4345882-4345901 | MS.gene20603:CDS | 30.0% | |
| CAGTCAAATATGGAACTAAT+CGG | - | chr6.3:4345010-4345029 | None:intergenic | 30.0% | |
| GTCTTTGACTAAAACAACTT+TGG | + | chr6.3:4345382-4345401 | MS.gene20603:intron | 30.0% | |
| TTCAAATGTGTCAAATCATG+TGG | + | chr6.3:4345307-4345326 | MS.gene20603:intron | 30.0% | |
| TTGACTAAAACAACTTTGGT+CGG | + | chr6.3:4345386-4345405 | MS.gene20603:intron | 30.0% | |
| ! | GGTACCAAGAATTTTGTAAT+TGG | - | chr6.3:4345436-4345455 | None:intergenic | 30.0% |
| ! | GTGAAAAATCTTGATAACTG+AGG | + | chr6.3:4345060-4345079 | MS.gene20603:intron | 30.0% |
| CTGTAAAACTTGCCACATTA+AGG | + | chr6.3:4345781-4345800 | MS.gene20603:CDS | 35.0% | |
| TCCTAGTAATCCTTCTGTTA+AGG | + | chr6.3:4345979-4345998 | MS.gene20603:CDS | 35.0% | |
| TGACTGAACGATTCTTGATT+AGG | + | chr6.3:4345024-4345043 | MS.gene20603:intron | 35.0% | |
| TGGCAATGTTTACCTAAATC+TGG | - | chr6.3:4344907-4344926 | None:intergenic | 35.0% | |
| TTAACAGAAGGATTACTAGG+AGG | - | chr6.3:4345980-4345999 | None:intergenic | 35.0% | |
| ! | ACAGAAGCTTTTCCAGATTT+AGG | + | chr6.3:4344892-4344911 | MS.gene20603:CDS | 35.0% |
| !!! | TGAACGAGATCCAGATTTTT+TGG | - | chr6.3:4345948-4345967 | None:intergenic | 35.0% |
| CAAGACTGTGCCAAAAAATC+TGG | + | chr6.3:4345935-4345954 | MS.gene20603:CDS | 40.0% | |
| CGATCAGAAACACATGAGTT+CGG | + | chr6.3:4345360-4345379 | MS.gene20603:intron | 40.0% | |
| CGGACATTCATGTGACTTAT+AGG | - | chr6.3:4345558-4345577 | None:intergenic | 40.0% | |
| GCCTTAACAGAAGGATTACT+AGG | - | chr6.3:4345983-4346002 | None:intergenic | 40.0% | |
| GGTTAATGTGTTGAGTAGTG+TGG | + | chr6.3:4345407-4345426 | MS.gene20603:intron | 40.0% | |
| TCGGTTTCTTCTTCTTGCTA+GGG | - | chr6.3:4345709-4345728 | None:intergenic | 40.0% | |
| TGAAAGGAAGGAAATCAAGC+TGG | - | chr6.3:4344945-4344964 | None:intergenic | 40.0% | |
| TGAAGAATGCTCCATGTCTA+TGG | + | chr6.3:4345613-4345632 | MS.gene20603:CDS | 40.0% | |
| TTCCTTCCTTTCACATGTGA+TGG | + | chr6.3:4344952-4344971 | MS.gene20603:CDS | 40.0% | |
| !! | CAATCACTTTTCTGCTGTTG+TGG | - | chr6.3:4345589-4345608 | None:intergenic | 40.0% |
| !! | TAAAGAAGCACCGTAGTTCA+GGG | + | chr6.3:4345675-4345694 | MS.gene20603:CDS | 40.0% |
| !! | TTAAAGAAGCACCGTAGTTC+AGG | + | chr6.3:4345674-4345693 | MS.gene20603:CDS | 40.0% |
| AAGCATGATCAGCAGCAAAC+CGG | - | chr6.3:4345820-4345839 | None:intergenic | 45.0% | |
| AATCTCCTTGCAACGCTTCA+CGG | - | chr6.3:4345738-4345757 | None:intergenic | 45.0% | |
| AGCCATCACATGTGAAAGGA+AGG | - | chr6.3:4344957-4344976 | None:intergenic | 45.0% | |
| ATGGAGATCACAGGCAACAT+GGG | + | chr6.3:4345632-4345651 | MS.gene20603:CDS | 45.0% | |
| CAACATGGGAGAAAACGAAG+AGG | + | chr6.3:4345646-4345665 | MS.gene20603:CDS | 45.0% | |
| GCTGATCATGCTTGTAGTAG+AGG | + | chr6.3:4345827-4345846 | MS.gene20603:CDS | 45.0% | |
| TATGGAGATCACAGGCAACA+TGG | + | chr6.3:4345631-4345650 | MS.gene20603:CDS | 45.0% | |
| TCCATGTCTATGGAGATCAC+AGG | + | chr6.3:4345623-4345642 | MS.gene20603:CDS | 45.0% | |
| TTGCAGCCATCACATGTGAA+AGG | - | chr6.3:4344961-4344980 | None:intergenic | 45.0% | |
| ! | ACTTTTCTGCTGTTGTGGTC+TGG | - | chr6.3:4345584-4345603 | None:intergenic | 45.0% |
| ! | GTCGGTTTCTTCTTCTTGCT+AGG | - | chr6.3:4345710-4345729 | None:intergenic | 45.0% |
| !! | TAATAGGTTTCTGGCTGCTC+TGG | + | chr6.3:4345898-4345917 | MS.gene20603:CDS | 45.0% |
| ATCTCCTTGCAACGCTTCAC+GGG | - | chr6.3:4345737-4345756 | None:intergenic | 50.0% | |
| CACATGTGATGGCTGCAAAC+AGG | + | chr6.3:4344963-4344982 | MS.gene20603:CDS | 50.0% | |
| CAGCTGCTGTTGCAAATGCA+AGG | + | chr6.3:4345870-4345889 | MS.gene20603:CDS | 50.0% | |
| GCCTGTGATCTCCATAGACA+TGG | - | chr6.3:4345627-4345646 | None:intergenic | 50.0% | |
| GCTGGTGACAATCAACATGC+TGG | - | chr6.3:4344927-4344946 | None:intergenic | 50.0% | |
| GCTTGAGGCACACCTTAATG+TGG | - | chr6.3:4345796-4345815 | None:intergenic | 50.0% | |
| GGTCACACTTCCCTGAACTA+CGG | - | chr6.3:4345688-4345707 | None:intergenic | 50.0% | |
| TGCAACAGCAGCTGTTGATG+AGG | - | chr6.3:4345864-4345883 | None:intergenic | 50.0% | |
| TTAAGGTGTGCCTCAAGCAC+CGG | + | chr6.3:4345798-4345817 | MS.gene20603:CDS | 50.0% | |
| ! | CTGCTGTTGTGGTCTGGTTT+CGG | - | chr6.3:4345578-4345597 | None:intergenic | 50.0% |
| ! | GCTGCTCTGGCTTCAAGAAA+TGG | + | chr6.3:4345911-4345930 | MS.gene20603:CDS | 50.0% |
| CAACGCTTCACGGGACAAGT+CGG | - | chr6.3:4345728-4345747 | None:intergenic | 55.0% | |
| !! | TTGTCCCGTGAAGCGTTGCA+AGG | + | chr6.3:4345730-4345749 | MS.gene20603:CDS | 55.0% |
| CAGCAGCAAACCGGTGCTTG+AGG | - | chr6.3:4345811-4345830 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.3 | gene | 4344877 | 4346009 | 4344877 | ID=MS.gene20603 |
| chr6.3 | mRNA | 4344877 | 4346009 | 4344877 | ID=MS.gene20603.t1;Parent=MS.gene20603 |
| chr6.3 | exon | 4344877 | 4344984 | 4344877 | ID=MS.gene20603.t1.exon1;Parent=MS.gene20603.t1 |
| chr6.3 | CDS | 4344877 | 4344984 | 4344877 | ID=cds.MS.gene20603.t1;Parent=MS.gene20603.t1 |
| chr6.3 | exon | 4345533 | 4346009 | 4345533 | ID=MS.gene20603.t1.exon2;Parent=MS.gene20603.t1 |
| chr6.3 | CDS | 4345533 | 4346009 | 4345533 | ID=cds.MS.gene20603.t1;Parent=MS.gene20603.t1 |
| Gene Sequence |
| Protein sequence |
