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.gene074378.t1 | XP_013461027.1 | 93 | 187 | 9 | 1 | 1 | 187 | 1 | 183 | 1.00E-87 | 332.8 |
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.gene074378.t1 | A0A072V025 | 93.0 | 187 | 9 | 1 | 1 | 187 | 1 | 183 | 7.4e-88 | 332.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene43289 | MS.gene074378 | PPI |
| MS.gene60343 | MS.gene074378 | PPI |
| MS.gene074378 | MS.gene56948 | PPI |
| MS.gene074378 | MS.gene033220 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene074378.t1 | MTR_3g078300 | 93.048 | 187 | 9 | 1 | 1 | 187 | 1 | 183 | 2.35e-128 | 358 |
| MS.gene074378.t1 | MTR_3g078300 | 92.617 | 149 | 7 | 1 | 1 | 149 | 1 | 145 | 1.26e-99 | 285 |
| MS.gene074378.t1 | MTR_4g106790 | 54.450 | 191 | 79 | 3 | 1 | 187 | 1 | 187 | 1.61e-58 | 181 |
| MS.gene074378.t1 | MTR_4g106790 | 54.248 | 153 | 62 | 3 | 1 | 149 | 1 | 149 | 6.44e-43 | 141 |
| MS.gene074378.t1 | MTR_5g035430 | 40.761 | 184 | 94 | 2 | 1 | 184 | 1 | 169 | 1.49e-40 | 135 |
| MS.gene074378.t1 | MTR_8g063200 | 42.408 | 191 | 86 | 6 | 1 | 186 | 1 | 172 | 1.60e-36 | 125 |
| MS.gene074378.t1 | MTR_4g097220 | 34.021 | 194 | 95 | 4 | 1 | 187 | 1 | 168 | 2.62e-29 | 106 |
| MS.gene074378.t1 | MTR_4g097220 | 42.241 | 116 | 48 | 2 | 1 | 116 | 1 | 97 | 2.82e-23 | 90.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene074378.t1 | AT5G50090 | 45.789 | 190 | 68 | 5 | 1 | 187 | 1 | 158 | 4.04e-43 | 141 |
| MS.gene074378.t1 | AT1G60010 | 40.838 | 191 | 91 | 6 | 1 | 187 | 1 | 173 | 2.01e-42 | 140 |
| MS.gene074378.t1 | AT5G50090 | 45.503 | 189 | 64 | 5 | 1 | 187 | 1 | 152 | 2.27e-42 | 139 |
| MS.gene074378.t1 | AT1G10530 | 42.781 | 187 | 86 | 6 | 1 | 187 | 1 | 166 | 2.44e-42 | 140 |
| MS.gene074378.t1 | AT5G62900 | 43.850 | 187 | 79 | 4 | 1 | 187 | 1 | 161 | 5.98e-41 | 136 |
| MS.gene074378.t1 | AT5G50090 | 54.237 | 118 | 40 | 1 | 1 | 118 | 1 | 104 | 1.51e-35 | 122 |
| MS.gene074378.t1 | AT5G67620 | 29.469 | 207 | 100 | 6 | 1 | 187 | 1 | 181 | 1.20e-24 | 95.1 |
Find 34 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTAATGATGCTCTTCTTCT+TGG | 0.200037 | 3.4:+74976562 | MS.gene074378:CDS |
| AAAGTTGTCTTCACCAAATC+TGG | 0.293990 | 3.4:-74976768 | None:intergenic |
| CAACTTTGAATGTCCTTGTT+TGG | 0.305139 | 3.4:-74976460 | None:intergenic |
| TGCTTGAGATCTTTCCTGTT+TGG | 0.351259 | 3.4:-74977203 | None:intergenic |
| GATTTGGTGAAGACAACTTT+GGG | 0.355948 | 3.4:+74976771 | MS.gene074378:CDS |
| CATGTCTCATAAACCAGATT+TGG | 0.362054 | 3.4:+74976755 | MS.gene074378:CDS |
| GTTGTTGTTGATGTTGGTTT+TGG | 0.367219 | 3.4:-74976506 | None:intergenic |
| CAGGGTTCAATTTCATAACT+TGG | 0.372913 | 3.4:-74976399 | None:intergenic |
| GACAACTTTGGGGTTAGAAA+TGG | 0.376259 | 3.4:+74976782 | MS.gene074378:CDS |
| GTTTGACACACAAGACAATA+AGG | 0.391455 | 3.4:+74976821 | MS.gene074378:CDS |
| CAGAGGTTATAAAGGGCATA+AGG | 0.401834 | 3.4:+74976703 | MS.gene074378:intron |
| TTGTGTTCAGAGGTTATAAA+GGG | 0.425799 | 3.4:+74976696 | MS.gene074378:intron |
| GTTGTGTTCAGAGGTTATAA+AGG | 0.434348 | 3.4:+74976695 | MS.gene074378:intron |
| TTGCTTCTCTGTCTCTCAGC+TGG | 0.441329 | 3.4:-74977311 | None:intergenic |
| CCAAGAAGAAGAGCATCATT+AGG | 0.444033 | 3.4:-74976562 | None:intergenic |
| TCACAGCTAAGACAAGATTC+TGG | 0.458380 | 3.4:+74977257 | MS.gene074378:CDS |
| AGATTTGGTGAAGACAACTT+TGG | 0.460928 | 3.4:+74976770 | MS.gene074378:CDS |
| AACTTGGTTGTTGTTGATGT+TGG | 0.469472 | 3.4:-74976512 | None:intergenic |
| TTATGCGAGTTAATCGAACT+TGG | 0.525047 | 3.4:-74976528 | None:intergenic |
| TCTGAGATACTCTGTAAAGA+TGG | 0.532885 | 3.4:-74977283 | None:intergenic |
| GGCAGCATTATTAGTTGATG+TGG | 0.546831 | 3.4:-74977230 | None:intergenic |
| AGAGGTTATAAAGGGCATAA+GGG | 0.552926 | 3.4:+74976704 | MS.gene074378:intron |
| TCTTGTCTTAGCTGTGACAA+TGG | 0.579137 | 3.4:-74977251 | None:intergenic |
| AGAAGAGCAACACAATGACC+AGG | 0.589232 | 3.4:-74976418 | None:intergenic |
| TATAGACTCATCACAACTCA+AGG | 0.595309 | 3.4:+74976592 | MS.gene074378:CDS |
| CACTACAGTATATCCAAACA+AGG | 0.611228 | 3.4:+74976447 | MS.gene074378:CDS |
| CTTGTTTGGATATACTGTAG+TGG | 0.620700 | 3.4:-74976446 | None:intergenic |
| AACAGGAAAGATCTCAAGCA+AGG | 0.631588 | 3.4:+74977206 | MS.gene074378:CDS |
| TAGTGATACAACACCCAAGT+GGG | 0.648394 | 3.4:+74976341 | MS.gene074378:CDS |
| CAAGTTATGAAATTGAACCC+TGG | 0.662805 | 3.4:+74976400 | MS.gene074378:CDS |
| ATTTGGTGAAGACAACTTTG+GGG | 0.688333 | 3.4:+74976772 | MS.gene074378:CDS |
| CTAGTGATACAACACCCAAG+TGG | 0.711840 | 3.4:+74976340 | MS.gene074378:CDS |
| TTGTGATGAGTCTATAAACA+TGG | 0.715588 | 3.4:-74976585 | None:intergenic |
| GAAGAGCAACACAATGACCA+GGG | 0.729031 | 3.4:-74976417 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAACAAAAAAAAAAAAAA+AGG | - | chr3.4:74976857-74976876 | None:intergenic | 10.0% |
| !! | CCTCAAAATTCTTTATATTA+CGG | + | chr3.4:74977102-74977121 | MS.gene074378:intron | 20.0% |
| !! | TTCACTAATTATATACATGA+AGG | + | chr3.4:74976980-74976999 | MS.gene074378:intron | 20.0% |
| !!! | AAACAATGGATTTTATCATT+TGG | + | chr3.4:74976914-74976933 | MS.gene074378:intron | 20.0% |
| !!! | AACAATGGATTTTATCATTT+GGG | + | chr3.4:74976915-74976934 | MS.gene074378:intron | 20.0% |
| !!! | TTTTCCTTTTCTTTTAAATG+TGG | + | chr3.4:74977039-74977058 | MS.gene074378:intron | 20.0% |
| ! | AACACAACAAACATTTCAAA+AGG | - | chr3.4:74976683-74976702 | None:intergenic | 25.0% |
| ! | AGTTGCTCCAAAAATAATAA+TGG | + | chr3.4:74976478-74976497 | MS.gene074378:CDS | 25.0% |
| ! | CAATTTGTGTAATTCTCTAT+TGG | + | chr3.4:74976618-74976637 | MS.gene074378:intron | 25.0% |
| !! | CCGTAATATAAAGAATTTTG+AGG | - | chr3.4:74977105-74977124 | None:intergenic | 25.0% |
| !!! | AACATCATTTTTGCAAACAA+TGG | + | chr3.4:74976900-74976919 | MS.gene074378:intron | 25.0% |
| !!! | TTGTAAAGTTCTGATTTTTC+AGG | + | chr3.4:74977177-74977196 | MS.gene074378:intron | 25.0% |
| AAATGGAGAAAAAAGCAAAG+AGG | + | chr3.4:74976799-74976818 | MS.gene074378:CDS | 30.0% | |
| AAGGTTTGACTAGATTGTTT+AGG | + | chr3.4:74976999-74977018 | MS.gene074378:intron | 30.0% | |
| CAAAAGGTCAATCTCAAATT+TGG | - | chr3.4:74976667-74976686 | None:intergenic | 30.0% | |
| GTTTCTATAGCAATCAAGTT+TGG | + | chr3.4:74976871-74976890 | MS.gene074378:intron | 30.0% | |
| TCGACCACATTTAAAAGAAA+AGG | - | chr3.4:74977046-74977065 | None:intergenic | 30.0% | |
| TTGTGATGAGTCTATAAACA+TGG | - | chr3.4:74976588-74976607 | None:intergenic | 30.0% | |
| TTGTGTTCAGAGGTTATAAA+GGG | + | chr3.4:74976696-74976715 | MS.gene074378:intron | 30.0% | |
| !! | GGTGTCACCATTATTATTTT+TGG | - | chr3.4:74976488-74976507 | None:intergenic | 30.0% |
| AAAGTTGTCTTCACCAAATC+TGG | - | chr3.4:74976771-74976790 | None:intergenic | 35.0% | |
| CAACTTTGAATGTCCTTGTT+TGG | - | chr3.4:74976463-74976482 | None:intergenic | 35.0% | |
| CAAGTTATGAAATTGAACCC+TGG | + | chr3.4:74976400-74976419 | MS.gene074378:CDS | 35.0% | |
| CACTACAGTATATCCAAACA+AGG | + | chr3.4:74976447-74976466 | MS.gene074378:CDS | 35.0% | |
| CAGGGTTCAATTTCATAACT+TGG | - | chr3.4:74976402-74976421 | None:intergenic | 35.0% | |
| CATGTCTCATAAACCAGATT+TGG | + | chr3.4:74976755-74976774 | MS.gene074378:CDS | 35.0% | |
| CTTGTTTGGATATACTGTAG+TGG | - | chr3.4:74976449-74976468 | None:intergenic | 35.0% | |
| GTTGTGTTCAGAGGTTATAA+AGG | + | chr3.4:74976695-74976714 | MS.gene074378:intron | 35.0% | |
| GTTTGACACACAAGACAATA+AGG | + | chr3.4:74976821-74976840 | MS.gene074378:CDS | 35.0% | |
| TATAGACTCATCACAACTCA+AGG | + | chr3.4:74976592-74976611 | MS.gene074378:CDS | 35.0% | |
| TCTCTTCAAACATACTAGCA+TGG | - | chr3.4:74977141-74977160 | None:intergenic | 35.0% | |
| TTATGCGAGTTAATCGAACT+TGG | - | chr3.4:74976531-74976550 | None:intergenic | 35.0% | |
| ! | AACTTGGTTGTTGTTGATGT+TGG | - | chr3.4:74976515-74976534 | None:intergenic | 35.0% |
| ! | AATTTCTCTGTTTTCCCACT+TGG | - | chr3.4:74976358-74976377 | None:intergenic | 35.0% |
| ! | AGAGGTTATAAAGGGCATAA+GGG | + | chr3.4:74976704-74976723 | MS.gene074378:intron | 35.0% |
| ! | ATTTCTCTGTTTTCCCACTT+GGG | - | chr3.4:74976357-74976376 | None:intergenic | 35.0% |
| ! | ATTTGGTGAAGACAACTTTG+GGG | + | chr3.4:74976772-74976791 | MS.gene074378:CDS | 35.0% |
| ! | TCTGAGATACTCTGTAAAGA+TGG | - | chr3.4:74977286-74977305 | None:intergenic | 35.0% |
| !! | AGATTTGGTGAAGACAACTT+TGG | + | chr3.4:74976770-74976789 | MS.gene074378:CDS | 35.0% |
| !! | GAAATGTTTGTTGTGTTCAG+AGG | + | chr3.4:74976686-74976705 | MS.gene074378:intron | 35.0% |
| !! | GATTTGGTGAAGACAACTTT+GGG | + | chr3.4:74976771-74976790 | MS.gene074378:CDS | 35.0% |
| !!! | GTTGTTGTTGATGTTGGTTT+TGG | - | chr3.4:74976509-74976528 | None:intergenic | 35.0% |
| AACAGGAAAGATCTCAAGCA+AGG | + | chr3.4:74977206-74977225 | MS.gene074378:CDS | 40.0% | |
| CCTAATGATGCTCTTCTTCT+TGG | + | chr3.4:74976562-74976581 | MS.gene074378:CDS | 40.0% | |
| TAGTGATACAACACCCAAGT+GGG | + | chr3.4:74976341-74976360 | MS.gene074378:CDS | 40.0% | |
| TCACAGCTAAGACAAGATTC+TGG | + | chr3.4:74977257-74977276 | MS.gene074378:CDS | 40.0% | |
| TCTTGTCTTAGCTGTGACAA+TGG | - | chr3.4:74977254-74977273 | None:intergenic | 40.0% | |
| TGCTTGAGATCTTTCCTGTT+TGG | - | chr3.4:74977206-74977225 | None:intergenic | 40.0% | |
| ! | CAGAGGTTATAAAGGGCATA+AGG | + | chr3.4:74976703-74976722 | MS.gene074378:intron | 40.0% |
| ! | GGCAGCATTATTAGTTGATG+TGG | - | chr3.4:74977233-74977252 | None:intergenic | 40.0% |
| !! | CCAAGAAGAAGAGCATCATT+AGG | - | chr3.4:74976565-74976584 | None:intergenic | 40.0% |
| !! | GACAACTTTGGGGTTAGAAA+TGG | + | chr3.4:74976782-74976801 | MS.gene074378:CDS | 40.0% |
| !!! | GATTTTTCAGGCTACCAAAC+AGG | + | chr3.4:74977189-74977208 | MS.gene074378:intron | 40.0% |
| AGAAGAGCAACACAATGACC+AGG | - | chr3.4:74976421-74976440 | None:intergenic | 45.0% | |
| CTAGTGATACAACACCCAAG+TGG | + | chr3.4:74976340-74976359 | MS.gene074378:CDS | 45.0% | |
| GAAGAGCAACACAATGACCA+GGG | - | chr3.4:74976420-74976439 | None:intergenic | 45.0% | |
| GGTCGATGCAGTCGAAATTG+TGG | + | chr3.4:74977060-74977079 | MS.gene074378:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 74976307 | 74977318 | 74976307 | ID=MS.gene074378 |
| chr3.4 | mRNA | 74976307 | 74977318 | 74976307 | ID=MS.gene074378.t1;Parent=MS.gene074378 |
| chr3.4 | exon | 74976307 | 74976613 | 74976307 | ID=MS.gene074378.t1.exon1;Parent=MS.gene074378.t1 |
| chr3.4 | CDS | 74976307 | 74976613 | 74976307 | ID=cds.MS.gene074378.t1;Parent=MS.gene074378.t1 |
| chr3.4 | exon | 74976706 | 74976842 | 74976706 | ID=MS.gene074378.t1.exon2;Parent=MS.gene074378.t1 |
| chr3.4 | CDS | 74976706 | 74976842 | 74976706 | ID=cds.MS.gene074378.t1;Parent=MS.gene074378.t1 |
| chr3.4 | exon | 74977199 | 74977318 | 74977199 | ID=MS.gene074378.t1.exon3;Parent=MS.gene074378.t1 |
| chr3.4 | CDS | 74977199 | 74977318 | 74977199 | ID=cds.MS.gene074378.t1;Parent=MS.gene074378.t1 |
| Gene Sequence |
| Protein sequence |
