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.gene001676.t1 | XP_003591832.1 | 99 | 194 | 2 | 0 | 1 | 194 | 145 | 338 | 1.50E-89 | 339 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001676.t1 | Q9S7Y1 | 70.1 | 177 | 45 | 2 | 1 | 172 | 161 | 334 | 3.1e-59 | 229.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001676.t1 | G7I4X0 | 99.0 | 194 | 2 | 0 | 1 | 194 | 145 | 338 | 1.1e-89 | 339.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene001676.t1 | TF | bHLH |
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.gene001676.t1 | MTR_1g093750 | 99.485 | 194 | 1 | 0 | 1 | 194 | 145 | 338 | 1.31e-138 | 390 |
| MS.gene001676.t1 | MTR_3g070970 | 45.503 | 189 | 94 | 3 | 7 | 186 | 66 | 254 | 4.65e-49 | 160 |
| MS.gene001676.t1 | MTR_2g015890 | 44.379 | 169 | 81 | 3 | 10 | 172 | 63 | 224 | 6.06e-37 | 129 |
| MS.gene001676.t1 | MTR_4g079760 | 40.625 | 192 | 103 | 2 | 10 | 194 | 64 | 251 | 2.68e-33 | 119 |
| MS.gene001676.t1 | MTR_2g091190 | 43.787 | 169 | 84 | 3 | 10 | 171 | 55 | 219 | 3.35e-32 | 116 |
| MS.gene001676.t1 | MTR_2g015890 | 48.739 | 119 | 54 | 1 | 10 | 128 | 63 | 174 | 4.81e-29 | 107 |
| MS.gene001676.t1 | MTR_5g066080 | 37.379 | 206 | 93 | 4 | 8 | 182 | 31 | 231 | 5.72e-28 | 105 |
| MS.gene001676.t1 | MTR_4g087920 | 43.429 | 175 | 88 | 5 | 5 | 172 | 66 | 236 | 3.14e-26 | 101 |
| MS.gene001676.t1 | MTR_5g032375 | 32.370 | 173 | 93 | 4 | 12 | 171 | 43 | 204 | 4.49e-24 | 94.7 |
| MS.gene001676.t1 | MTR_2g015890 | 38.636 | 132 | 68 | 3 | 47 | 172 | 2 | 126 | 5.59e-19 | 80.1 |
| MS.gene001676.t1 | MTR_2g015890 | 41.463 | 82 | 41 | 1 | 47 | 128 | 2 | 76 | 1.72e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001676.t1 | AT1G68810 | 71.642 | 201 | 45 | 4 | 1 | 192 | 161 | 358 | 6.34e-83 | 250 |
| MS.gene001676.t1 | AT3G25710 | 58.559 | 222 | 52 | 4 | 1 | 187 | 119 | 335 | 8.40e-71 | 218 |
| MS.gene001676.t1 | AT3G56770 | 47.059 | 170 | 82 | 4 | 6 | 172 | 37 | 201 | 9.93e-45 | 148 |
| MS.gene001676.t1 | AT2G41130 | 49.112 | 169 | 73 | 5 | 10 | 172 | 63 | 224 | 1.29e-39 | 135 |
| MS.gene001676.t1 | AT2G40200 | 45.333 | 150 | 72 | 4 | 10 | 155 | 59 | 202 | 3.02e-34 | 122 |
| MS.gene001676.t1 | AT4G38070 | 37.324 | 142 | 77 | 3 | 8 | 149 | 87 | 216 | 1.68e-26 | 102 |
| MS.gene001676.t1 | AT5G57150 | 25.137 | 183 | 99 | 5 | 21 | 174 | 58 | 231 | 2.64e-11 | 61.2 |
| MS.gene001676.t1 | AT4G00050 | 45.283 | 53 | 29 | 0 | 18 | 70 | 116 | 168 | 4.21e-11 | 60.8 |
| MS.gene001676.t1 | AT4G00050 | 45.283 | 53 | 29 | 0 | 18 | 70 | 218 | 270 | 6.07e-11 | 60.8 |
| MS.gene001676.t1 | AT4G00050 | 45.283 | 53 | 29 | 0 | 18 | 70 | 218 | 270 | 7.02e-11 | 60.8 |
Find 22 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATGAGTGCTCAAGAAATTA+TGG | 0.286315 | 1.3:-65118068 | MS.gene001676:CDS |
| TCAAGACATTGAAAGCATTA+AGG | 0.296728 | 1.3:-65116629 | MS.gene001676:CDS |
| TTCAATGTCTTGATTAGTTC+AGG | 0.303436 | 1.3:+65116639 | None:intergenic |
| GCAGATGATGATGAAGATTA+TGG | 0.331671 | 1.3:-65116726 | MS.gene001676:CDS |
| GTTGGAGATGAATCTGCTTC+TGG | 0.334849 | 1.3:-65116468 | MS.gene001676:CDS |
| GATGAAGATTATGGATCAAA+TGG | 0.416803 | 1.3:-65116717 | MS.gene001676:CDS |
| TTCAGCTTCACTATGACTCT+TGG | 0.417321 | 1.3:+65118024 | None:intergenic |
| TCATCACATTCAGTTGGAAC+TGG | 0.424698 | 1.3:+65116765 | None:intergenic |
| CCTCACTTTGCTGTGATGAT+AGG | 0.438078 | 1.3:-65116674 | MS.gene001676:CDS |
| ATACTTACTTTGGTTGTGCT+TGG | 0.449724 | 1.3:+65117947 | None:intergenic |
| GTTAATTCATCACATTCAGT+TGG | 0.495856 | 1.3:+65116759 | None:intergenic |
| GCCGTGATGGAGAAGAGTGT+TGG | 0.496995 | 1.3:-65116486 | MS.gene001676:CDS |
| GCTGATATAACAACACTTGG+AGG | 0.532615 | 1.3:-65116591 | MS.gene001676:CDS |
| TCAAGAAATTATGGAGGCTA+AGG | 0.546278 | 1.3:-65118059 | MS.gene001676:CDS |
| AGCTGCGTAGCTTAGCAAGA+TGG | 0.576612 | 1.3:+65117975 | None:intergenic |
| AGAAGCACTCAAAGCCGTGA+TGG | 0.594589 | 1.3:-65116499 | MS.gene001676:CDS |
| AGAGTCATAGTGAAGCTGAA+AGG | 0.601072 | 1.3:-65118021 | MS.gene001676:CDS |
| AAAGCTGATATAACAACACT+TGG | 0.602897 | 1.3:-65116594 | MS.gene001676:CDS |
| CTGGAAGTGTCAAGAGACAA+AGG | 0.603991 | 1.3:-65116449 | MS.gene001676:CDS |
| TCCAACACTCTTCTCCATCA+CGG | 0.628636 | 1.3:+65116485 | None:intergenic |
| CCTATCATCACAGCAAAGTG+AGG | 0.634985 | 1.3:+65116674 | None:intergenic |
| GAGTGCTCAAGAAATTATGG+AGG | 0.703562 | 1.3:-65118065 | MS.gene001676:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATTTATAGTTAATTAAAG+TGG | + | chr1.3:65117535-65117554 | None:intergenic | 10.0% |
| !! | ATTATATATTAGTACTATAT+TGG | + | chr1.3:65116711-65116730 | None:intergenic | 10.0% |
| !! | TTACTAATATATACTTACTT+TGG | + | chr1.3:65116555-65116574 | None:intergenic | 15.0% |
| !!! | AGATATTTTGAATTTACAAA+AGG | + | chr1.3:65116816-65116835 | None:intergenic | 15.0% |
| !!! | TTGTTCTCTTTTTTTTTTTT+TGG | - | chr1.3:65116961-65116980 | MS.gene001676:intron | 15.0% |
| !! | ATAGATCTGATATATACATA+AGG | + | chr1.3:65117387-65117406 | None:intergenic | 20.0% |
| !! | TATGATATAAGAATGTGAAA+TGG | + | chr1.3:65117346-65117365 | None:intergenic | 20.0% |
| !! | TGAAAATATTTACAATCTCA+TGG | + | chr1.3:65117420-65117439 | None:intergenic | 20.0% |
| !!! | AATAGTGGATATATTTTGAA+TGG | + | chr1.3:65117322-65117341 | None:intergenic | 20.0% |
| !!! | ATATAACCTTTTAGAAAATG+AGG | - | chr1.3:65116873-65116892 | MS.gene001676:intron | 20.0% |
| !!! | GATTTTGATTTTGTTGTTTA+TGG | + | chr1.3:65116851-65116870 | None:intergenic | 20.0% |
| ! | ATCTGATATATACATAAGGT+TGG | + | chr1.3:65117383-65117402 | None:intergenic | 25.0% |
| ! | GGCATATATTGAATTCAAAA+AGG | + | chr1.3:65116795-65116814 | None:intergenic | 25.0% |
| ! | TGAAAATATATTGTCTTTGC+CGG | - | chr1.3:65117179-65117198 | MS.gene001676:intron | 25.0% |
| ! | TGGAGAATGAAAAGAAATAA+AGG | - | chr1.3:65117229-65117248 | MS.gene001676:intron | 25.0% |
| !! | GGTTTGCATTTTAAATTTCT+TGG | + | chr1.3:65116667-65116686 | None:intergenic | 25.0% |
| !!! | AAGAATGTTTTGTTCATTAC+TGG | - | chr1.3:65117928-65117947 | MS.gene001676:intron | 25.0% |
| !!! | GTAACTATATGTTTTGTTGT+GGG | - | chr1.3:65117015-65117034 | MS.gene001676:intron | 25.0% |
| !!! | TGTAACTATATGTTTTGTTG+TGG | - | chr1.3:65117014-65117033 | MS.gene001676:intron | 25.0% |
| AAAGCTGATATAACAACACT+TGG | - | chr1.3:65117895-65117914 | MS.gene001676:intron | 30.0% | |
| AATATTTACAATCTCATGGC+AGG | + | chr1.3:65117416-65117435 | None:intergenic | 30.0% | |
| AGAATGTGAAATGGAAATAG+TGG | + | chr1.3:65117337-65117356 | None:intergenic | 30.0% | |
| ATATTTACAATCTCATGGCA+GGG | + | chr1.3:65117415-65117434 | None:intergenic | 30.0% | |
| GAATTAGTGTTAATGTCTCT+TGG | - | chr1.3:65117110-65117129 | MS.gene001676:intron | 30.0% | |
| GATGAAGATTATGGATCAAA+TGG | - | chr1.3:65117772-65117791 | MS.gene001676:intron | 30.0% | |
| GTTAATTCATCACATTCAGT+TGG | + | chr1.3:65117733-65117752 | None:intergenic | 30.0% | |
| TGACTGATCAACATATTATC+CGG | + | chr1.3:65117201-65117220 | None:intergenic | 30.0% | |
| ! | GATATATACATAAGGTTGGT+AGG | + | chr1.3:65117379-65117398 | None:intergenic | 30.0% |
| ! | GCTTTTGTTAACATCCTTTT+TGG | - | chr1.3:65116921-65116940 | MS.gene001676:intron | 30.0% |
| ! | TTCAATGTCTTGATTAGTTC+AGG | + | chr1.3:65117853-65117872 | None:intergenic | 30.0% |
| ! | TTTGCACCTCATTTTCTAAA+AGG | + | chr1.3:65116882-65116901 | None:intergenic | 30.0% |
| !! | AGTGGATATATTTTGAATGG+TGG | + | chr1.3:65117319-65117338 | None:intergenic | 30.0% |
| !! | TCAAGACATTGAAAGCATTA+AGG | - | chr1.3:65117860-65117879 | MS.gene001676:intron | 30.0% |
| !! | TTGAGTTGAGATCTTTGATT+AGG | + | chr1.3:65116688-65116707 | None:intergenic | 30.0% |
| ATACTTACTTTGGTTGTGCT+TGG | + | chr1.3:65116545-65116564 | None:intergenic | 35.0% | |
| GTATACCAAACAAGCCAAAA+AGG | + | chr1.3:65116938-65116957 | None:intergenic | 35.0% | |
| GTTATGTTTGTGACTGACAA+AGG | + | chr1.3:65117273-65117292 | None:intergenic | 35.0% | |
| GTTGATCAGTCAAACTCAAT+TGG | - | chr1.3:65117209-65117228 | MS.gene001676:intron | 35.0% | |
| TATAATGTGTGGTAGTTCCA+AGG | - | chr1.3:65117046-65117065 | MS.gene001676:intron | 35.0% | |
| TCAAGAAATTATGGAGGCTA+AGG | - | chr1.3:65116430-65116449 | MS.gene001676:CDS | 35.0% | |
| TGTCTCTTGGTATGATAAAG+AGG | - | chr1.3:65117123-65117142 | MS.gene001676:intron | 35.0% | |
| ! | GCAGATGATGATGAAGATTA+TGG | - | chr1.3:65117763-65117782 | MS.gene001676:intron | 35.0% |
| !! | TTTTCAACTGCATGCTGTTT+TGG | + | chr1.3:65117151-65117170 | None:intergenic | 35.0% |
| !!! | AACATCCTTTTTGGCTTGTT+TGG | - | chr1.3:65116930-65116949 | MS.gene001676:intron | 35.0% |
| !!! | GCAAGAGTGTTTTTTCTAAG+TGG | - | chr1.3:65116769-65116788 | MS.gene001676:CDS | 35.0% |
| AGAGTCATAGTGAAGCTGAA+AGG | - | chr1.3:65116468-65116487 | MS.gene001676:CDS | 40.0% | |
| CTAGCTGGCTAAAGAAAAAG+TGG | - | chr1.3:65117075-65117094 | MS.gene001676:intron | 40.0% | |
| GAGTGCTCAAGAAATTATGG+AGG | - | chr1.3:65116424-65116443 | MS.gene001676:CDS | 40.0% | |
| GCTGATATAACAACACTTGG+AGG | - | chr1.3:65117898-65117917 | MS.gene001676:intron | 40.0% | |
| TCATCACATTCAGTTGGAAC+TGG | + | chr1.3:65117727-65117746 | None:intergenic | 40.0% | |
| TTCAGCTTCACTATGACTCT+TGG | + | chr1.3:65116468-65116487 | None:intergenic | 40.0% | |
| CCTATCATCACAGCAAAGTG+AGG | + | chr1.3:65117818-65117837 | None:intergenic | 45.0% | |
| GTTGGAGATGAATCTGCTTC+TGG | - | chr1.3:65118021-65118040 | MS.gene001676:CDS | 45.0% | |
| TCCAACACTCTTCTCCATCA+CGG | + | chr1.3:65118007-65118026 | None:intergenic | 45.0% | |
| ! | CCTCACTTTGCTGTGATGAT+AGG | - | chr1.3:65117815-65117834 | MS.gene001676:intron | 45.0% |
| !! | CTGGAAGTGTCAAGAGACAA+AGG | - | chr1.3:65118040-65118059 | MS.gene001676:CDS | 45.0% |
| !! | GGGAGTGTCTCTATAATGTG+TGG | - | chr1.3:65117035-65117054 | MS.gene001676:intron | 45.0% |
| AGCTGCGTAGCTTAGCAAGA+TGG | + | chr1.3:65116517-65116536 | None:intergenic | 50.0% | |
| TGAGCTGAGCTGAGATCTCA+TGG | + | chr1.3:65117446-65117465 | None:intergenic | 50.0% | |
| !! | AGAAGCACTCAAAGCCGTGA+TGG | - | chr1.3:65117990-65118009 | MS.gene001676:CDS | 50.0% |
| GTTCCAAGGAAGCAGCTAGC+TGG | - | chr1.3:65117060-65117079 | MS.gene001676:intron | 55.0% | |
| TAGCCAGCTAGCTGCTTCCT+TGG | + | chr1.3:65117066-65117085 | None:intergenic | 55.0% | |
| ! | GCCGTGATGGAGAAGAGTGT+TGG | - | chr1.3:65118003-65118022 | MS.gene001676:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 65116422 | 65118089 | 65116422 | ID=MS.gene001676 |
| chr1.3 | mRNA | 65116422 | 65118089 | 65116422 | ID=MS.gene001676.t1;Parent=MS.gene001676 |
| chr1.3 | exon | 65117955 | 65118089 | 65117955 | ID=MS.gene001676.t1.exon1;Parent=MS.gene001676.t1 |
| chr1.3 | CDS | 65117955 | 65118089 | 65117955 | ID=cds.MS.gene001676.t1;Parent=MS.gene001676.t1 |
| chr1.3 | exon | 65116422 | 65116871 | 65116422 | ID=MS.gene001676.t1.exon2;Parent=MS.gene001676.t1 |
| chr1.3 | CDS | 65116422 | 65116871 | 65116422 | ID=cds.MS.gene001676.t1;Parent=MS.gene001676.t1 |
| Gene Sequence |
| Protein sequence |
