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.gene71282.t1 | XP_004502163.1 | 54.9 | 182 | 72 | 6 | 70 | 249 | 89 | 262 | 1.50E-38 | 169.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71282.t1 | A0A1S2YB06 | 54.9 | 182 | 72 | 6 | 70 | 249 | 89 | 262 | 1.1e-38 | 169.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71282.t1 | MTR_3g083150 | 45.817 | 251 | 93 | 9 | 1 | 249 | 3 | 212 | 2.75e-52 | 169 |
| MS.gene71282.t1 | MTR_3g083030 | 40.081 | 247 | 123 | 7 | 5 | 249 | 7 | 230 | 1.24e-48 | 160 |
| MS.gene71282.t1 | MTR_3g083050 | 36.800 | 250 | 110 | 7 | 2 | 249 | 4 | 207 | 1.53e-38 | 134 |
| MS.gene71282.t1 | MTR_3g083100 | 53.957 | 139 | 44 | 7 | 123 | 249 | 44 | 174 | 3.85e-33 | 119 |
| MS.gene71282.t1 | MTR_3g083080 | 43.333 | 180 | 87 | 7 | 70 | 248 | 40 | 205 | 9.88e-31 | 113 |
| MS.gene71282.t1 | MTR_3g082340 | 35.968 | 253 | 126 | 10 | 1 | 248 | 1 | 222 | 1.93e-27 | 105 |
| MS.gene71282.t1 | MTR_3g082420 | 37.662 | 231 | 114 | 10 | 25 | 248 | 14 | 221 | 1.21e-26 | 103 |
| MS.gene71282.t1 | MTR_3g080680 | 35.749 | 207 | 106 | 9 | 54 | 248 | 7 | 198 | 3.36e-15 | 72.4 |
| MS.gene71282.t1 | MTR_3g086030 | 43.299 | 97 | 49 | 3 | 58 | 154 | 4 | 94 | 3.84e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 61 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAAATCAAAATTGAAAT+TGG | 0.218152 | 3.4:+78188841 | MS.gene71282:CDS |
| TCAGGTTCCGGTTCCTGTTC+TGG | 0.268602 | 3.4:-78188752 | None:intergenic |
| ACATTTGCTTCGCGTGGAAT+AGG | 0.285666 | 3.4:-78189150 | None:intergenic |
| TGAACTCTCAAAACTTGCTT+TGG | 0.329305 | 3.4:+78189230 | MS.gene71282:CDS |
| ATCATCAATGTTAATGGGTC+TGG | 0.331844 | 3.4:-78189190 | None:intergenic |
| GCGACGATCATCAATGTTAA+TGG | 0.336654 | 3.4:-78189196 | None:intergenic |
| CACAACTTGACCTCAGCTTT+AGG | 0.366584 | 3.4:-78189536 | None:intergenic |
| CATTTGCTTCGCGTGGAATA+GGG | 0.382126 | 3.4:-78189149 | None:intergenic |
| TCCGAATCTGAGTCAGGTTC+CGG | 0.387483 | 3.4:-78188764 | None:intergenic |
| TCGATGGAGACTTCCGTGTT+TGG | 0.409673 | 3.4:+78188671 | MS.gene71282:CDS |
| ACGTACGCTTATGTTCTCTT+TGG | 0.417221 | 3.4:-78189041 | None:intergenic |
| TGGCGCTATCCGACCTCCCT+CGG | 0.430048 | 3.4:+78188691 | MS.gene71282:CDS |
| TCTGCTTCCGAATCTGAGTC+AGG | 0.441479 | 3.4:-78188770 | None:intergenic |
| AGAGGAATCGGAAGCAGAAT+CGG | 0.441498 | 3.4:+78188793 | MS.gene71282:CDS |
| TTGAGAGTTCAATGAAAAGT+TGG | 0.442717 | 3.4:-78189218 | None:intergenic |
| TTCGGAAGCAGAAGAGGAAT+CGG | 0.445225 | 3.4:+78188781 | MS.gene71282:CDS |
| CGACGATCATCAATGTTAAT+GGG | 0.446899 | 3.4:-78189195 | None:intergenic |
| TAAGTACAATCGCGACAATC+AGG | 0.448286 | 3.4:+78189254 | MS.gene71282:CDS |
| GCTGAAACGTGAACCAGAAC+AGG | 0.451816 | 3.4:+78188739 | MS.gene71282:CDS |
| TGCCGTAGCTGCGTATTTGA+AGG | 0.453844 | 3.4:+78189018 | MS.gene71282:CDS |
| CTCCTCTTCAGCTCTTTCAC+TGG | 0.460728 | 3.4:-78188887 | None:intergenic |
| AAGGAACTCATACTTGATAT+CGG | 0.464780 | 3.4:-78189360 | None:intergenic |
| TCATCAATGTTAATGGGTCT+GGG | 0.481203 | 3.4:-78189189 | None:intergenic |
| ACGTGAACCAGAACAGGAAC+CGG | 0.488454 | 3.4:+78188745 | MS.gene71282:CDS |
| GCCTGAAAAGTTGTTGGAGC+AGG | 0.490523 | 3.4:-78189494 | None:intergenic |
| GGCGCTATCCGACCTCCCTC+GGG | 0.503278 | 3.4:+78188692 | MS.gene71282:CDS |
| TCGGGAAGCTGCGACGATAG+AGG | 0.503732 | 3.4:+78188710 | MS.gene71282:CDS |
| ACCGGAACCTGACTCAGATT+CGG | 0.504213 | 3.4:+78188763 | MS.gene71282:CDS |
| GGCCTTCAAATACGCAGCTA+CGG | 0.508382 | 3.4:-78189020 | None:intergenic |
| CGGGAAGCTGCGACGATAGA+GGG | 0.509892 | 3.4:+78188711 | MS.gene71282:CDS |
| CTCAGATTCGGAAGCAGAAG+AGG | 0.513582 | 3.4:+78188775 | MS.gene71282:CDS |
| AATTGAAATTGGATCTGTCT+TGG | 0.516569 | 3.4:+78188852 | MS.gene71282:CDS |
| TACCAGTGAAAGAGCTGAAG+AGG | 0.516791 | 3.4:+78188885 | MS.gene71282:CDS |
| ACGTGTGCCTGAAAAGTTGT+TGG | 0.530725 | 3.4:-78189500 | None:intergenic |
| AGCTAAGATAAAACAAGAAG+AGG | 0.538294 | 3.4:+78188985 | MS.gene71282:CDS |
| TTATTCTTGTACACAAATTG+CGG | 0.539548 | 3.4:-78188962 | None:intergenic |
| CGCAGCTTCCCGAGGGAGGT+CGG | 0.540112 | 3.4:-78188700 | None:intergenic |
| CACGCAAAATGAAAAGTACA+AGG | 0.542670 | 3.4:-78188938 | None:intergenic |
| TGGAATAGGGATGGCATCGA+AGG | 0.543328 | 3.4:-78189136 | None:intergenic |
| TCCTTCCTGTCTAATGTCGA+TGG | 0.544147 | 3.4:+78188655 | None:intergenic |
| ATCGGAAGCAGAATCGGAAT+CGG | 0.547771 | 3.4:+78188799 | MS.gene71282:CDS |
| CCACATACATTTGCTTCGCG+TGG | 0.552295 | 3.4:-78189156 | None:intergenic |
| TCTATCGTCGCAGCTTCCCG+AGG | 0.562694 | 3.4:-78188708 | None:intergenic |
| ATCGGAATCGGAAGAAGAAG+AGG | 0.567237 | 3.4:+78188811 | MS.gene71282:CDS |
| TACAAGGGTGATCATCATAC+CGG | 0.577686 | 3.4:-78188922 | None:intergenic |
| GTTGGAGCAGGGCAGTCTGA+AGG | 0.582271 | 3.4:-78189482 | None:intergenic |
| TGCTTCGCGTGGAATAGGGA+TGG | 0.588632 | 3.4:-78189145 | None:intergenic |
| CCACGCGAAGCAAATGTATG+TGG | 0.589475 | 3.4:+78189156 | MS.gene71282:CDS |
| TGAAATTGGATCTGTCTTGG+TGG | 0.593345 | 3.4:+78188855 | MS.gene71282:CDS |
| TCGTCGCAGCTTCCCGAGGG+AGG | 0.595927 | 3.4:-78188704 | None:intergenic |
| GAAATTGGATCTGTCTTGGT+GGG | 0.596722 | 3.4:+78188856 | MS.gene71282:CDS |
| AGAGGAGTGATTTCGCAAGC+CGG | 0.602949 | 3.4:+78188903 | MS.gene71282:CDS |
| CTATCGTCGCAGCTTCCCGA+GGG | 0.612642 | 3.4:-78188707 | None:intergenic |
| TGAGTTCCTTGAGCTTGTCA+AGG | 0.613030 | 3.4:+78189373 | MS.gene71282:CDS |
| GCTGCGACGATAGAGGGAAG+TGG | 0.614516 | 3.4:+78188717 | MS.gene71282:CDS |
| GGAATAGGGATGGCATCGAA+GGG | 0.630858 | 3.4:-78189135 | None:intergenic |
| AGGTCGGATAGCGCCAAACA+CGG | 0.633277 | 3.4:-78188684 | None:intergenic |
| CCTGAAAAGTTGTTGGAGCA+GGG | 0.635748 | 3.4:-78189493 | None:intergenic |
| GGGTTGCCTTGACAAGCTCA+AGG | 0.655608 | 3.4:-78189379 | None:intergenic |
| GAACTCGAAGCCTAAAGCTG+AGG | 0.667865 | 3.4:+78189526 | MS.gene71282:CDS |
| ACGCAAAATGAAAAGTACAA+GGG | 0.752956 | 3.4:-78188937 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGTTTATCTTATTAATTTA+GGG | + | chr3.4:78189335-78189354 | MS.gene71282:intron | 10.0% |
| !! | TTTGTTTATCTTATTAATTT+AGG | + | chr3.4:78189334-78189353 | MS.gene71282:intron | 10.0% |
| !! | ATCAAAATCAAAATTGAAAT+TGG | + | chr3.4:78188841-78188860 | MS.gene71282:CDS | 15.0% |
| !! | AGAATTAAAAGCAAGATTAA+AGG | - | chr3.4:78189073-78189092 | None:intergenic | 20.0% |
| !! | ATGTAGTAATTACCAAAAAT+AGG | - | chr3.4:78189416-78189435 | None:intergenic | 20.0% |
| !! | TAATTACCAAAAATAGGAAT+AGG | - | chr3.4:78189410-78189429 | None:intergenic | 20.0% |
| ! | TTATTCTTGTACACAAATTG+CGG | - | chr3.4:78188965-78188984 | None:intergenic | 25.0% |
| AAGGAACTCATACTTGATAT+CGG | - | chr3.4:78189363-78189382 | None:intergenic | 30.0% | |
| AATTGAAATTGGATCTGTCT+TGG | + | chr3.4:78188852-78188871 | MS.gene71282:CDS | 30.0% | |
| AGCTAAGATAAAACAAGAAG+AGG | + | chr3.4:78188985-78189004 | MS.gene71282:CDS | 30.0% | |
| TTGAGAGTTCAATGAAAAGT+TGG | - | chr3.4:78189221-78189240 | None:intergenic | 30.0% | |
| ! | ACGCAAAATGAAAAGTACAA+GGG | - | chr3.4:78188940-78188959 | None:intergenic | 30.0% |
| !!! | TGTTTTTGGTTTTGCTTGAA+AGG | - | chr3.4:78189441-78189460 | None:intergenic | 30.0% |
| AAAAATAGGAATAGGACGAC+GGG | - | chr3.4:78189402-78189421 | None:intergenic | 35.0% | |
| CAAAAATAGGAATAGGACGA+CGG | - | chr3.4:78189403-78189422 | None:intergenic | 35.0% | |
| CGACGATCATCAATGTTAAT+GGG | - | chr3.4:78189198-78189217 | None:intergenic | 35.0% | |
| ! | ATCATCAATGTTAATGGGTC+TGG | - | chr3.4:78189193-78189212 | None:intergenic | 35.0% |
| ! | CACGCAAAATGAAAAGTACA+AGG | - | chr3.4:78188941-78188960 | None:intergenic | 35.0% |
| ! | TCAGTAGCATCTTCTGTTTT+TGG | - | chr3.4:78189455-78189474 | None:intergenic | 35.0% |
| ! | TCATCAATGTTAATGGGTCT+GGG | - | chr3.4:78189192-78189211 | None:intergenic | 35.0% |
| ! | TGAACTCTCAAAACTTGCTT+TGG | + | chr3.4:78189230-78189249 | MS.gene71282:CDS | 35.0% |
| ACGTACGCTTATGTTCTCTT+TGG | - | chr3.4:78189044-78189063 | None:intergenic | 40.0% | |
| GAAATTGGATCTGTCTTGGT+GGG | + | chr3.4:78188856-78188875 | MS.gene71282:CDS | 40.0% | |
| GCGACGATCATCAATGTTAA+TGG | - | chr3.4:78189199-78189218 | None:intergenic | 40.0% | |
| TAAGTACAATCGCGACAATC+AGG | + | chr3.4:78189254-78189273 | MS.gene71282:CDS | 40.0% | |
| TACAAGGGTGATCATCATAC+CGG | - | chr3.4:78188925-78188944 | None:intergenic | 40.0% | |
| TGAAATTGGATCTGTCTTGG+TGG | + | chr3.4:78188855-78188874 | MS.gene71282:CDS | 40.0% | |
| ! | CGTCGTCCTATTCCTATTTT+TGG | + | chr3.4:78189401-78189420 | MS.gene71282:CDS | 40.0% |
| ACATTTGCTTCGCGTGGAAT+AGG | - | chr3.4:78189153-78189172 | None:intergenic | 45.0% | |
| ACGTGTGCCTGAAAAGTTGT+TGG | - | chr3.4:78189503-78189522 | None:intergenic | 45.0% | |
| AGAGGAATCGGAAGCAGAAT+CGG | + | chr3.4:78188793-78188812 | MS.gene71282:CDS | 45.0% | |
| ATCGGAAGCAGAATCGGAAT+CGG | + | chr3.4:78188799-78188818 | MS.gene71282:CDS | 45.0% | |
| ATCGGAATCGGAAGAAGAAG+AGG | + | chr3.4:78188811-78188830 | MS.gene71282:CDS | 45.0% | |
| CACAACTTGACCTCAGCTTT+AGG | - | chr3.4:78189539-78189558 | None:intergenic | 45.0% | |
| CATTTGCTTCGCGTGGAATA+GGG | - | chr3.4:78189152-78189171 | None:intergenic | 45.0% | |
| CCTGAAAAGTTGTTGGAGCA+GGG | - | chr3.4:78189496-78189515 | None:intergenic | 45.0% | |
| TACCAGTGAAAGAGCTGAAG+AGG | + | chr3.4:78188885-78188904 | MS.gene71282:CDS | 45.0% | |
| TGAGTTCCTTGAGCTTGTCA+AGG | + | chr3.4:78189373-78189392 | MS.gene71282:CDS | 45.0% | |
| TTCGGAAGCAGAAGAGGAAT+CGG | + | chr3.4:78188781-78188800 | MS.gene71282:CDS | 45.0% | |
| ACCGGAACCTGACTCAGATT+CGG | + | chr3.4:78188763-78188782 | MS.gene71282:CDS | 50.0% | |
| ACGTGAACCAGAACAGGAAC+CGG | + | chr3.4:78188745-78188764 | MS.gene71282:CDS | 50.0% | |
| AGAGGAGTGATTTCGCAAGC+CGG | + | chr3.4:78188903-78188922 | MS.gene71282:CDS | 50.0% | |
| CCACATACATTTGCTTCGCG+TGG | - | chr3.4:78189159-78189178 | None:intergenic | 50.0% | |
| CCACGCGAAGCAAATGTATG+TGG | + | chr3.4:78189156-78189175 | MS.gene71282:CDS | 50.0% | |
| CTCAGATTCGGAAGCAGAAG+AGG | + | chr3.4:78188775-78188794 | MS.gene71282:CDS | 50.0% | |
| CTCCTCTTCAGCTCTTTCAC+TGG | - | chr3.4:78188890-78188909 | None:intergenic | 50.0% | |
| GAACTCGAAGCCTAAAGCTG+AGG | + | chr3.4:78189526-78189545 | MS.gene71282:CDS | 50.0% | |
| GCCTGAAAAGTTGTTGGAGC+AGG | - | chr3.4:78189497-78189516 | None:intergenic | 50.0% | |
| GCTGAAACGTGAACCAGAAC+AGG | + | chr3.4:78188739-78188758 | MS.gene71282:CDS | 50.0% | |
| GGCCTTCAAATACGCAGCTA+CGG | - | chr3.4:78189023-78189042 | None:intergenic | 50.0% | |
| TCCGAATCTGAGTCAGGTTC+CGG | - | chr3.4:78188767-78188786 | None:intergenic | 50.0% | |
| TCGATGGAGACTTCCGTGTT+TGG | + | chr3.4:78188671-78188690 | MS.gene71282:CDS | 50.0% | |
| TCTGCTTCCGAATCTGAGTC+AGG | - | chr3.4:78188773-78188792 | None:intergenic | 50.0% | |
| TGCCGTAGCTGCGTATTTGA+AGG | + | chr3.4:78189018-78189037 | MS.gene71282:CDS | 50.0% | |
| ! | CCCTGCTCCAACAACTTTTC+AGG | + | chr3.4:78189493-78189512 | MS.gene71282:CDS | 50.0% |
| ! | GGAATAGGGATGGCATCGAA+GGG | - | chr3.4:78189138-78189157 | None:intergenic | 50.0% |
| ! | TGGAATAGGGATGGCATCGA+AGG | - | chr3.4:78189139-78189158 | None:intergenic | 50.0% |
| !! | CAACTTTTCAGGCACACGTC+TGG | + | chr3.4:78189504-78189523 | MS.gene71282:CDS | 50.0% |
| AGGTCGGATAGCGCCAAACA+CGG | - | chr3.4:78188687-78188706 | None:intergenic | 55.0% | |
| GGGTTGCCTTGACAAGCTCA+AGG | - | chr3.4:78189382-78189401 | None:intergenic | 55.0% | |
| TCAGGTTCCGGTTCCTGTTC+TGG | - | chr3.4:78188755-78188774 | None:intergenic | 55.0% | |
| TGCTTCGCGTGGAATAGGGA+TGG | - | chr3.4:78189148-78189167 | None:intergenic | 55.0% | |
| CGGGAAGCTGCGACGATAGA+GGG | + | chr3.4:78188711-78188730 | MS.gene71282:CDS | 60.0% | |
| CTATCGTCGCAGCTTCCCGA+GGG | - | chr3.4:78188710-78188729 | None:intergenic | 60.0% | |
| GCTGCGACGATAGAGGGAAG+TGG | + | chr3.4:78188717-78188736 | MS.gene71282:CDS | 60.0% | |
| GTTGGAGCAGGGCAGTCTGA+AGG | - | chr3.4:78189485-78189504 | None:intergenic | 60.0% | |
| TCGGGAAGCTGCGACGATAG+AGG | + | chr3.4:78188710-78188729 | MS.gene71282:CDS | 60.0% | |
| TCTATCGTCGCAGCTTCCCG+AGG | - | chr3.4:78188711-78188730 | None:intergenic | 60.0% | |
| TGGCGCTATCCGACCTCCCT+CGG | + | chr3.4:78188691-78188710 | MS.gene71282:CDS | 65.0% | |
| CGCAGCTTCCCGAGGGAGGT+CGG | - | chr3.4:78188703-78188722 | None:intergenic | 70.0% | |
| GGCGCTATCCGACCTCCCTC+GGG | + | chr3.4:78188692-78188711 | MS.gene71282:CDS | 70.0% | |
| TCGTCGCAGCTTCCCGAGGG+AGG | - | chr3.4:78188707-78188726 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 78188668 | 78189574 | 78188668 | ID=MS.gene71282 |
| chr3.4 | mRNA | 78188668 | 78189574 | 78188668 | ID=MS.gene71282.t1;Parent=MS.gene71282 |
| chr3.4 | exon | 78188668 | 78189057 | 78188668 | ID=MS.gene71282.t1.exon1;Parent=MS.gene71282.t1 |
| chr3.4 | CDS | 78188668 | 78189057 | 78188668 | ID=cds.MS.gene71282.t1;Parent=MS.gene71282.t1 |
| chr3.4 | exon | 78189135 | 78189275 | 78189135 | ID=MS.gene71282.t1.exon2;Parent=MS.gene71282.t1 |
| chr3.4 | CDS | 78189135 | 78189275 | 78189135 | ID=cds.MS.gene71282.t1;Parent=MS.gene71282.t1 |
| chr3.4 | exon | 78189356 | 78189574 | 78189356 | ID=MS.gene71282.t1.exon3;Parent=MS.gene71282.t1 |
| chr3.4 | CDS | 78189356 | 78189574 | 78189356 | ID=cds.MS.gene71282.t1;Parent=MS.gene71282.t1 |
| Gene Sequence |
| Protein sequence |
