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.gene59064.t1 | XP_003609277.1 | 59.6 | 228 | 39 | 2 | 1 | 175 | 43 | 270 | 1.60E-67 | 265.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene59064.t1 | Q9LT81 | 31.2 | 282 | 85 | 7 | 4 | 177 | 95 | 375 | 3.3e-26 | 119.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene59064.t1 | G7JVB8 | 59.6 | 228 | 39 | 2 | 1 | 175 | 43 | 270 | 1.1e-67 | 265.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene59064.t1 | TF | C3H |
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.gene59064.t1 | MTR_4g113940 | 59.649 | 228 | 39 | 2 | 1 | 175 | 43 | 270 | 5.75e-87 | 257 |
| MS.gene59064.t1 | MTR_4g113890 | 64.211 | 190 | 42 | 3 | 1 | 174 | 51 | 230 | 1.15e-76 | 229 |
| MS.gene59064.t1 | MTR_4g113860 | 43.388 | 242 | 75 | 2 | 1 | 180 | 71 | 312 | 1.66e-60 | 191 |
| MS.gene59064.t1 | MTR_4g113970 | 46.561 | 189 | 50 | 5 | 1 | 139 | 65 | 252 | 7.92e-43 | 144 |
| MS.gene59064.t1 | MTR_3g050390 | 40.566 | 212 | 89 | 4 | 4 | 180 | 24 | 233 | 8.48e-41 | 138 |
| MS.gene59064.t1 | MTR_3g466460 | 55.932 | 59 | 23 | 1 | 127 | 182 | 46 | 104 | 1.13e-14 | 67.8 |
| MS.gene59064.t1 | MTR_8g066730 | 30.556 | 108 | 59 | 1 | 12 | 103 | 91 | 198 | 4.03e-11 | 60.8 |
| MS.gene59064.t1 | MTR_8g066730 | 30.556 | 108 | 59 | 1 | 12 | 103 | 91 | 198 | 7.35e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene59064.t1 | AT3G19360 | 31.449 | 283 | 85 | 7 | 4 | 178 | 95 | 376 | 4.72e-31 | 116 |
| MS.gene59064.t1 | AT3G19360 | 31.449 | 283 | 85 | 7 | 4 | 178 | 95 | 376 | 4.72e-31 | 116 |
Find 43 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACCTAGCTTCTGCAAATT+TGG | 0.182814 | 8.4:+13991764 | None:intergenic |
| CCAAGTGTACGCTTCTTCTT+AGG | 0.267354 | 8.4:+13991043 | None:intergenic |
| AGCCAGATCAATCGTATTTA+CGG | 0.289560 | 8.4:-13991010 | MS.gene59064:CDS |
| CTCTGGAAACACACCTCATT+TGG | 0.330065 | 8.4:-13990956 | MS.gene59064:CDS |
| AATTTACAGTTATCTCTATA+TGG | 0.333739 | 8.4:+13991638 | None:intergenic |
| TCAATCGTATTTACGGTGAT+TGG | 0.347052 | 8.4:-13991003 | MS.gene59064:CDS |
| CATACCGGATATTGTTCCTT+TGG | 0.350886 | 8.4:-13991468 | MS.gene59064:CDS |
| ATTTGTACCGAGTTCAGATT+TGG | 0.381030 | 8.4:-13991851 | MS.gene59064:CDS |
| AGACTAAGCTGTGTTGCAAT+TGG | 0.425188 | 8.4:-13991494 | MS.gene59064:CDS |
| TCAACTGCAGCTGAGAAATC+AGG | 0.433581 | 8.4:-13991726 | MS.gene59064:CDS |
| AGCAAGCAAGGGGCACTTAT+CGG | 0.435970 | 8.4:-13991518 | MS.gene59064:CDS |
| AGATTTGGTGCTTGTAGAAA+CGG | 0.437088 | 8.4:-13991836 | MS.gene59064:CDS |
| ACGGTGATTGGATTGATGAT+TGG | 0.443878 | 8.4:-13990991 | MS.gene59064:CDS |
| TCCTTGTTTATAGGCAGAGC+AGG | 0.451853 | 8.4:-13991106 | MS.gene59064:intron |
| CCTAAGAAGAAGCGTACACT+TGG | 0.453400 | 8.4:-13991043 | MS.gene59064:CDS |
| CATTCCAAAGGAACAATATC+CGG | 0.460353 | 8.4:+13991464 | None:intergenic |
| CTAATAATTTGGAAGGCAGC+AGG | 0.471854 | 8.4:-13991551 | MS.gene59064:intron |
| AGCTTCTGCAAATTTGGTGG+TGG | 0.473172 | 8.4:+13991770 | None:intergenic |
| CACCGTAAATACGATTGATC+TGG | 0.481235 | 8.4:+13991008 | None:intergenic |
| GGGCTGTGAACAAGCAAGCA+AGG | 0.482646 | 8.4:-13991530 | MS.gene59064:CDS |
| ATGTACCCGACTTGTGGAAA+AGG | 0.484051 | 8.4:-13991077 | MS.gene59064:CDS |
| TGTGCAAGAAGTATTGCAAT+GGG | 0.488339 | 8.4:-13991670 | MS.gene59064:CDS |
| CTCTTTGCTCATGATGAAGA+AGG | 0.508905 | 8.4:-13991435 | MS.gene59064:intron |
| TGCTCTGATTTGTTTGATTG+AGG | 0.510278 | 8.4:+13991893 | None:intergenic |
| CCTAGCTTCTGCAAATTTGG+TGG | 0.512657 | 8.4:+13991767 | None:intergenic |
| GGCTGTGAACAAGCAAGCAA+GGG | 0.513346 | 8.4:-13991529 | MS.gene59064:CDS |
| TTCTGAATGTACCCGACTTG+TGG | 0.526232 | 8.4:-13991083 | MS.gene59064:CDS |
| TGCAGTTGATCTTCGTTGCA+CGG | 0.530704 | 8.4:+13991740 | None:intergenic |
| ATCATGGAGCTGAAGAGATA+AGG | 0.532117 | 8.4:-13991796 | MS.gene59064:CDS |
| TGTTGCAATTGGAAGCATAC+CGG | 0.563682 | 8.4:-13991483 | MS.gene59064:CDS |
| TGATTTGTTTGATTGAGGCA+AGG | 0.569543 | 8.4:+13991898 | None:intergenic |
| CTGTGCAAGAAGTATTGCAA+TGG | 0.572239 | 8.4:-13991671 | MS.gene59064:CDS |
| TGTTTCCAGAGCATAACAAA+AGG | 0.581785 | 8.4:+13990968 | None:intergenic |
| GAAGAATGCTTATCCAAATG+AGG | 0.582982 | 8.4:+13990943 | None:intergenic |
| TAATAATTTGGAAGGCAGCA+GGG | 0.584634 | 8.4:-13991550 | MS.gene59064:intron |
| CCACCAAATTTGCAGAAGCT+AGG | 0.604649 | 8.4:-13991767 | MS.gene59064:CDS |
| AAAGAGACAGTTCATTCCAA+AGG | 0.613697 | 8.4:+13991452 | None:intergenic |
| GCTGTGAACAAGCAAGCAAG+GGG | 0.637136 | 8.4:-13991528 | MS.gene59064:CDS |
| CCAAATTTGCAGAAGCTAGG+TGG | 0.641093 | 8.4:-13991764 | MS.gene59064:CDS |
| CAAGAAGTATTGCAATGGGG+AGG | 0.655957 | 8.4:-13991666 | MS.gene59064:CDS |
| CTAAGAAGAAGCGTACACTT+GGG | 0.659038 | 8.4:-13991042 | MS.gene59064:CDS |
| ACAAGCACCAAATCTGAACT+CGG | 0.659308 | 8.4:+13991844 | None:intergenic |
| GTGCAAGAAGTATTGCAATG+GGG | 0.763140 | 8.4:-13991669 | MS.gene59064:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGATGAAAAAATCATACAA+AGG | - | chr8.4:13991154-13991173 | MS.gene59064:intron | 20.0% |
| !! | AATTTACAGTTATCTCTATA+TGG | + | chr8.4:13991219-13991238 | None:intergenic | 20.0% |
| !!! | CAATAACTCATTTTGATTAT+TGG | - | chr8.4:13991445-13991464 | MS.gene59064:CDS | 20.0% |
| ! | AAAAATTGCAACTTTGATCA+TGG | - | chr8.4:13991042-13991061 | MS.gene59064:CDS | 25.0% |
| ! | ACTTATCGGAACTAATAATT+TGG | - | chr8.4:13991292-13991311 | MS.gene59064:intron | 25.0% |
| !!! | CTCATTTTGATTATTGGTTT+TGG | - | chr8.4:13991451-13991470 | MS.gene59064:CDS | 25.0% |
| !!! | TGTTTCATGTTTGATTTGAA+TGG | - | chr8.4:13991643-13991662 | MS.gene59064:intron | 25.0% |
| ATCGGAACTAATAATTTGGA+AGG | - | chr8.4:13991296-13991315 | MS.gene59064:intron | 30.0% | |
| TAAGTACTCTCTTGATTTCA+AGG | + | chr8.4:13991277-13991296 | None:intergenic | 30.0% | |
| ! | ATGATTCCATCCTTGTTTAT+AGG | - | chr8.4:13991739-13991758 | MS.gene59064:CDS | 30.0% |
| !! | GAAATCAAGAGAGTACTTAT+CGG | - | chr8.4:13991278-13991297 | MS.gene59064:intron | 30.0% |
| AAAGAGACAGTTCATTCCAA+AGG | + | chr8.4:13991405-13991424 | None:intergenic | 35.0% | |
| AGCCAGATCAATCGTATTTA+CGG | - | chr8.4:13991844-13991863 | MS.gene59064:CDS | 35.0% | |
| ATTTGTACCGAGTTCAGATT+TGG | - | chr8.4:13991003-13991022 | MS.gene59064:CDS | 35.0% | |
| CATTCCAAAGGAACAATATC+CGG | + | chr8.4:13991393-13991412 | None:intergenic | 35.0% | |
| TAATAATTTGGAAGGCAGCA+GGG | - | chr8.4:13991304-13991323 | MS.gene59064:intron | 35.0% | |
| TCAATCGTATTTACGGTGAT+TGG | - | chr8.4:13991851-13991870 | MS.gene59064:CDS | 35.0% | |
| TGCAAAAATGTTCCTTCCTA+AGG | - | chr8.4:13991704-13991723 | MS.gene59064:CDS | 35.0% | |
| TGTTTCCAGAGCATAACAAA+AGG | + | chr8.4:13991889-13991908 | None:intergenic | 35.0% | |
| ! | AGGAACATTTTTGCAAGACA+AGG | + | chr8.4:13991699-13991718 | None:intergenic | 35.0% |
| ! | ATTTTTGCAAGACAAGGCAA+AGG | + | chr8.4:13991693-13991712 | None:intergenic | 35.0% |
| ! | TCATTTTCCATCAGAACCTT+AGG | + | chr8.4:13991723-13991742 | None:intergenic | 35.0% |
| ! | TTTTTGCAAGACAAGGCAAA+GGG | + | chr8.4:13991692-13991711 | None:intergenic | 35.0% |
| !! | AGATTTGGTGCTTGTAGAAA+CGG | - | chr8.4:13991018-13991037 | MS.gene59064:CDS | 35.0% |
| !! | TGATTTGTTTGATTGAGGCA+AGG | + | chr8.4:13990959-13990978 | None:intergenic | 35.0% |
| !! | TGCTCTGATTTGTTTGATTG+AGG | + | chr8.4:13990964-13990983 | None:intergenic | 35.0% |
| !! | TGTGCAAGAAGTATTGCAAT+GGG | - | chr8.4:13991184-13991203 | MS.gene59064:intron | 35.0% |
| ACAAGCACCAAATCTGAACT+CGG | + | chr8.4:13991013-13991032 | None:intergenic | 40.0% | |
| AGACTAAGCTGTGTTGCAAT+TGG | - | chr8.4:13991360-13991379 | MS.gene59064:intron | 40.0% | |
| ATCATGGAGCTGAAGAGATA+AGG | - | chr8.4:13991058-13991077 | MS.gene59064:CDS | 40.0% | |
| ATGAAGATCCTGCACAGTTT+AGG | - | chr8.4:13991244-13991263 | MS.gene59064:intron | 40.0% | |
| CACCGTAAATACGATTGATC+TGG | + | chr8.4:13991849-13991868 | None:intergenic | 40.0% | |
| CATACCGGATATTGTTCCTT+TGG | - | chr8.4:13991386-13991405 | MS.gene59064:intron | 40.0% | |
| CTAATAATTTGGAAGGCAGC+AGG | - | chr8.4:13991303-13991322 | MS.gene59064:intron | 40.0% | |
| CTCTTTGCTCATGATGAAGA+AGG | - | chr8.4:13991419-13991438 | MS.gene59064:intron | 40.0% | |
| TGAAGATCCTGCACAGTTTA+GGG | - | chr8.4:13991245-13991264 | MS.gene59064:intron | 40.0% | |
| TTTCCATCAGAACCTTAGGA+AGG | + | chr8.4:13991719-13991738 | None:intergenic | 40.0% | |
| ! | ACGGTGATTGGATTGATGAT+TGG | - | chr8.4:13991863-13991882 | MS.gene59064:CDS | 40.0% |
| ! | CTAAGAAGAAGCGTACACTT+GGG | - | chr8.4:13991812-13991831 | MS.gene59064:CDS | 40.0% |
| ! | CTTCTTCCTTTTCCACAAGT+CGG | + | chr8.4:13991786-13991805 | None:intergenic | 40.0% |
| ! | TGTTGCAATTGGAAGCATAC+CGG | - | chr8.4:13991371-13991390 | MS.gene59064:intron | 40.0% |
| ! | TTCTTCCTTTTCCACAAGTC+GGG | + | chr8.4:13991785-13991804 | None:intergenic | 40.0% |
| !! | CTGTGCAAGAAGTATTGCAA+TGG | - | chr8.4:13991183-13991202 | MS.gene59064:intron | 40.0% |
| !! | GTGCAAGAAGTATTGCAATG+GGG | - | chr8.4:13991185-13991204 | MS.gene59064:intron | 40.0% |
| !!! | ATTGGCCTTTTGTTATGCTC+TGG | - | chr8.4:13991881-13991900 | MS.gene59064:CDS | 40.0% |
| AAGGCAAAGGGAAAACCAGT+AGG | + | chr8.4:13991680-13991699 | None:intergenic | 45.0% | |
| ACCTGCTCTGCCTATAAACA+AGG | + | chr8.4:13991752-13991771 | None:intergenic | 45.0% | |
| ACTGTGCAGGATCTTCATGA+AGG | + | chr8.4:13991242-13991261 | None:intergenic | 45.0% | |
| ATGGAAAATGCTCCTCCTAC+TGG | - | chr8.4:13991662-13991681 | MS.gene59064:CDS | 45.0% | |
| CCAAATTTGCAGAAGCTAGG+TGG | - | chr8.4:13991090-13991109 | MS.gene59064:CDS | 45.0% | |
| CCAAGTGTACGCTTCTTCTT+AGG | + | chr8.4:13991814-13991833 | None:intergenic | 45.0% | |
| CCACCAAATTTGCAGAAGCT+AGG | - | chr8.4:13991087-13991106 | MS.gene59064:CDS | 45.0% | |
| CCACCTAGCTTCTGCAAATT+TGG | + | chr8.4:13991093-13991112 | None:intergenic | 45.0% | |
| CCTAGCTTCTGCAAATTTGG+TGG | + | chr8.4:13991090-13991109 | None:intergenic | 45.0% | |
| GAATCATCCCTAAACTGTGC+AGG | + | chr8.4:13991255-13991274 | None:intergenic | 45.0% | |
| GCTCTGCCTATAAACAAGGA+TGG | + | chr8.4:13991748-13991767 | None:intergenic | 45.0% | |
| TCAACTGCAGCTGAGAAATC+AGG | - | chr8.4:13991128-13991147 | MS.gene59064:intron | 45.0% | |
| TGCAGTTGATCTTCGTTGCA+CGG | + | chr8.4:13991117-13991136 | None:intergenic | 45.0% | |
| ! | AGCTTCTGCAAATTTGGTGG+TGG | + | chr8.4:13991087-13991106 | None:intergenic | 45.0% |
| ! | ATGTACCCGACTTGTGGAAA+AGG | - | chr8.4:13991777-13991796 | MS.gene59064:CDS | 45.0% |
| ! | CCTAAGAAGAAGCGTACACT+TGG | - | chr8.4:13991811-13991830 | MS.gene59064:CDS | 45.0% |
| ! | CTCTGGAAACACACCTCATT+TGG | - | chr8.4:13991898-13991917 | MS.gene59064:CDS | 45.0% |
| ! | GTTCCTTCCTAAGGTTCTGA+TGG | - | chr8.4:13991713-13991732 | MS.gene59064:CDS | 45.0% |
| ! | TCCTTGTTTATAGGCAGAGC+AGG | - | chr8.4:13991748-13991767 | MS.gene59064:CDS | 45.0% |
| ! | TTCTGAATGTACCCGACTTG+TGG | - | chr8.4:13991771-13991790 | MS.gene59064:CDS | 45.0% |
| !! | CAAGAAGTATTGCAATGGGG+AGG | - | chr8.4:13991188-13991207 | MS.gene59064:intron | 45.0% |
| GCAAAGGGAAAACCAGTAGG+AGG | + | chr8.4:13991677-13991696 | None:intergenic | 50.0% | |
| GCTGTGAACAAGCAAGCAAG+GGG | - | chr8.4:13991326-13991345 | MS.gene59064:intron | 50.0% | |
| GGCTGTGAACAAGCAAGCAA+GGG | - | chr8.4:13991325-13991344 | MS.gene59064:intron | 50.0% | |
| !! | AGCAAGCAAGGGGCACTTAT+CGG | - | chr8.4:13991336-13991355 | MS.gene59064:intron | 50.0% |
| GGGCTGTGAACAAGCAAGCA+AGG | - | chr8.4:13991324-13991343 | MS.gene59064:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 13990952 | 13991924 | 13990952 | ID=MS.gene59064 |
| chr8.4 | mRNA | 13990952 | 13991924 | 13990952 | ID=MS.gene59064.t1;Parent=MS.gene59064 |
| chr8.4 | exon | 13991645 | 13991924 | 13991645 | ID=MS.gene59064.t1.exon1;Parent=MS.gene59064.t1 |
| chr8.4 | CDS | 13991645 | 13991924 | 13991645 | ID=cds.MS.gene59064.t1;Parent=MS.gene59064.t1 |
| chr8.4 | exon | 13991436 | 13991558 | 13991436 | ID=MS.gene59064.t1.exon2;Parent=MS.gene59064.t1 |
| chr8.4 | CDS | 13991436 | 13991558 | 13991436 | ID=cds.MS.gene59064.t1;Parent=MS.gene59064.t1 |
| chr8.4 | exon | 13990952 | 13991115 | 13990952 | ID=MS.gene59064.t1.exon3;Parent=MS.gene59064.t1 |
| chr8.4 | CDS | 13990952 | 13991115 | 13990952 | ID=cds.MS.gene59064.t1;Parent=MS.gene59064.t1 |
| Gene Sequence |
| Protein sequence |
