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.gene028581.t1 | XP_013457137.1 | 96.7 | 210 | 7 | 0 | 1 | 210 | 1 | 210 | 2.70E-105 | 391.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028581.t1 | O81900 | 42.5 | 179 | 86 | 3 | 24 | 192 | 14 | 185 | 1.3e-26 | 121.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028581.t1 | A0A072UQ23 | 96.7 | 210 | 7 | 0 | 1 | 210 | 1 | 210 | 2.0e-105 | 391.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene028581.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.gene028581.t1 | MTR_4g091910 | 96.667 | 210 | 7 | 0 | 1 | 210 | 1 | 210 | 7.10e-151 | 417 |
| MS.gene028581.t1 | MTR_4g091990 | 47.867 | 211 | 90 | 4 | 1 | 209 | 1 | 193 | 2.77e-60 | 187 |
| MS.gene028581.t1 | MTR_8g064700 | 31.429 | 175 | 106 | 3 | 42 | 202 | 239 | 413 | 1.15e-19 | 86.3 |
| MS.gene028581.t1 | MTR_1g112680 | 30.526 | 190 | 92 | 4 | 27 | 183 | 304 | 486 | 8.73e-18 | 81.3 |
| MS.gene028581.t1 | MTR_2g084280 | 31.737 | 167 | 109 | 3 | 37 | 198 | 121 | 287 | 1.07e-15 | 74.3 |
| MS.gene028581.t1 | MTR_4g057270 | 29.940 | 167 | 96 | 5 | 46 | 197 | 148 | 308 | 2.22e-15 | 73.9 |
| MS.gene028581.t1 | MTR_2g038040 | 27.108 | 166 | 103 | 2 | 45 | 192 | 50 | 215 | 1.31e-11 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028581.t1 | AT4G21330 | 45.283 | 159 | 75 | 2 | 44 | 192 | 29 | 185 | 8.18e-39 | 133 |
| MS.gene028581.t1 | AT2G16910 | 32.298 | 161 | 82 | 3 | 46 | 179 | 313 | 473 | 9.62e-18 | 81.3 |
| MS.gene028581.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 46 | 214 | 1.71e-14 | 69.7 |
| MS.gene028581.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 45 | 213 | 1.92e-14 | 69.7 |
| MS.gene028581.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 46 | 214 | 2.10e-14 | 69.7 |
| MS.gene028581.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 45 | 213 | 3.38e-14 | 69.7 |
| MS.gene028581.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 46 | 214 | 4.37e-14 | 69.3 |
| MS.gene028581.t1 | AT2G28160 | 27.869 | 183 | 119 | 5 | 21 | 191 | 103 | 284 | 6.81e-13 | 66.6 |
| MS.gene028581.t1 | AT2G28160 | 27.869 | 183 | 119 | 5 | 21 | 191 | 103 | 284 | 7.90e-13 | 66.6 |
| MS.gene028581.t1 | AT1G10610 | 28.571 | 147 | 96 | 1 | 44 | 181 | 231 | 377 | 7.99e-13 | 67.0 |
| MS.gene028581.t1 | AT1G10610 | 28.571 | 147 | 96 | 1 | 44 | 181 | 261 | 407 | 1.00e-12 | 66.6 |
| MS.gene028581.t1 | AT1G10610 | 28.571 | 147 | 96 | 1 | 44 | 181 | 164 | 310 | 1.39e-12 | 65.9 |
| MS.gene028581.t1 | AT1G12860 | 29.870 | 154 | 93 | 2 | 46 | 186 | 266 | 417 | 2.82e-12 | 65.5 |
| MS.gene028581.t1 | AT1G12860 | 29.870 | 154 | 93 | 2 | 46 | 186 | 266 | 417 | 2.92e-12 | 65.1 |
| MS.gene028581.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.50e-11 | 62.4 |
| MS.gene028581.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.58e-11 | 62.4 |
| MS.gene028581.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.58e-11 | 62.4 |
| MS.gene028581.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.58e-11 | 62.4 |
| MS.gene028581.t1 | AT4G37850 | 31.818 | 154 | 80 | 4 | 51 | 188 | 156 | 300 | 2.82e-11 | 62.0 |
| MS.gene028581.t1 | AT4G37850 | 31.818 | 154 | 80 | 4 | 51 | 188 | 156 | 300 | 2.82e-11 | 62.0 |
Find 43 sgRNAs with CRISPR-Local
Find 64 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCAACTATTATCAAGTATT+AGG | 0.172705 | 4.4:+22176114 | MS.gene028581:CDS |
| TCTTTCTGTCTCAAGGTTCT+TGG | 0.203142 | 4.4:-22174950 | None:intergenic |
| TTCTTGGATGTGAACACTTT+TGG | 0.236396 | 4.4:-22174934 | None:intergenic |
| GATGAATAAAATGGGGTTAC+AGG | 0.250695 | 4.4:+22175605 | MS.gene028581:CDS |
| AACTTCATGTTGCAACTTCA+TGG | 0.287708 | 4.4:-22175493 | None:intergenic |
| TGTTGATGAGATGAATAAAA+TGG | 0.288149 | 4.4:+22175596 | MS.gene028581:CDS |
| TTGGGTTTCAATGCTGAAAA+TGG | 0.303250 | 4.4:+22174859 | MS.gene028581:CDS |
| GCAGAAGACTCTCTTTGTTT+TGG | 0.306313 | 4.4:-22175573 | None:intergenic |
| CCAACTATTATCAAGTATTA+GGG | 0.313449 | 4.4:+22176115 | MS.gene028581:CDS |
| CCCTAATACTTGATAATAGT+TGG | 0.313701 | 4.4:-22176115 | None:intergenic |
| CAATAGACTATGTGTGTCTA+TGG | 0.334837 | 4.4:+22174831 | MS.gene028581:CDS |
| TTCTCTTTCTTTCTGTCTCA+AGG | 0.354427 | 4.4:-22174957 | None:intergenic |
| ATGCTGAAAATGGTAGCAAT+AGG | 0.358285 | 4.4:+22174869 | MS.gene028581:CDS |
| TCTCATTACAGCCTCCTTGC+AGG | 0.362149 | 4.4:+22175876 | MS.gene028581:CDS |
| ATGGTAGCAATAGGGGAAAC+TGG | 0.388089 | 4.4:+22174878 | MS.gene028581:CDS |
| GAAACTCACTAGCAGACTTT+TGG | 0.388264 | 4.4:+22174984 | MS.gene028581:CDS |
| GTGCTTACATTTGTGATGAT+TGG | 0.399278 | 4.4:-22175024 | None:intergenic |
| TGCTGAAAATGGTAGCAATA+GGG | 0.418097 | 4.4:+22174870 | MS.gene028581:CDS |
| GTTGATGAGATGAATAAAAT+GGG | 0.433684 | 4.4:+22175597 | MS.gene028581:CDS |
| AGACCTCAGTGTTACTACTA+TGG | 0.457876 | 4.4:+22175843 | MS.gene028581:CDS |
| GAATGATTTGAACATTGAAA+TGG | 0.483853 | 4.4:+22175819 | MS.gene028581:CDS |
| CACAATAGAGCTTGATGGAA+TGG | 0.493719 | 4.4:+22175524 | MS.gene028581:CDS |
| AGTCTCACAATAGAGCTTGA+TGG | 0.495480 | 4.4:+22175519 | MS.gene028581:CDS |
| GTGCAGGTAGCAAAAGTTGA+TGG | 0.518362 | 4.4:+22175727 | MS.gene028581:CDS |
| ATGCTCATTGAGAAGAAAAG+AGG | 0.521277 | 4.4:+22175769 | MS.gene028581:CDS |
| ATGTGTGTCTATGGAAGAGT+TGG | 0.537161 | 4.4:+22174840 | MS.gene028581:CDS |
| GAACAAAGCAAGCATTATTG+AGG | 0.548126 | 4.4:+22175455 | MS.gene028581:CDS |
| CTTTCTATAGGAAGAGGTGC+AGG | 0.549579 | 4.4:+22175711 | MS.gene028581:intron |
| CTCAGTGTTACTACTATGGC+AGG | 0.550252 | 4.4:+22175847 | MS.gene028581:CDS |
| GCTGAAAATGGTAGCAATAG+GGG | 0.556414 | 4.4:+22174871 | MS.gene028581:CDS |
| GGAATTCGATAAAGTTCAAG+TGG | 0.574985 | 4.4:-22176094 | None:intergenic |
| AATTTATAGTGTCACCTGCA+AGG | 0.580808 | 4.4:-22175890 | None:intergenic |
| AAGTTGATGGAAATAAGCTA+TGG | 0.582461 | 4.4:+22175740 | MS.gene028581:CDS |
| TTGAGACAGAAAGAAAGAGA+AGG | 0.583322 | 4.4:+22174959 | MS.gene028581:CDS |
| AACAAGCACCGTGATAATGA+TGG | 0.583729 | 4.4:+22174907 | MS.gene028581:CDS |
| TGTGTGTCTATGGAAGAGTT+GGG | 0.584878 | 4.4:+22174841 | MS.gene028581:CDS |
| TTGGGACACCATCATTATCA+CGG | 0.595132 | 4.4:-22174915 | None:intergenic |
| TGAGACAGAAAGAAAGAGAA+GGG | 0.595420 | 4.4:+22174960 | MS.gene028581:CDS |
| GCAATAGGGGAAACTGGAGA+AGG | 0.660867 | 4.4:+22174884 | MS.gene028581:CDS |
| TCATTGAGAAGAAAAGAGGA+AGG | 0.693261 | 4.4:+22175773 | MS.gene028581:CDS |
| TTGATGAGATGAATAAAATG+GGG | 0.713073 | 4.4:+22175598 | MS.gene028581:CDS |
| TTATAGTGTCACCTGCAAGG+AGG | 0.739971 | 4.4:-22175887 | None:intergenic |
| CTGCCATAGTAGTAACACTG+AGG | 0.765658 | 4.4:-22175846 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTATAATAATTAGGTCATA+CGG | - | chr4.4:22175293-22175312 | None:intergenic | 15.0% |
| !!! | AGTTTTTAATTAGTACATTA+TGG | + | chr4.4:22175398-22175417 | MS.gene028581:intron | 15.0% |
| !!! | ATTCTATTTTTGTTATTTTC+AGG | + | chr4.4:22176057-22176076 | MS.gene028581:intron | 15.0% |
| !! | ATATAGTTTAGAGGATTTAA+TGG | - | chr4.4:22175112-22175131 | None:intergenic | 20.0% |
| !! | GATAATGATATATAGTTTAG+AGG | - | chr4.4:22175121-22175140 | None:intergenic | 20.0% |
| !! | TTTCATGATTTATCATCTAT+TGG | + | chr4.4:22175074-22175093 | MS.gene028581:intron | 20.0% |
| !!! | ATATGTTCTTTTAGTAATGT+TGG | + | chr4.4:22175680-22175699 | MS.gene028581:intron | 20.0% |
| !!! | GTTCATCTAAAATCAAATTT+AGG | - | chr4.4:22175439-22175458 | None:intergenic | 20.0% |
| !!! | TATGTTCTTTTAGTAATGTT+GGG | + | chr4.4:22175681-22175700 | MS.gene028581:intron | 20.0% |
| ! | GAATGATTTGAACATTGAAA+TGG | + | chr4.4:22175819-22175838 | MS.gene028581:CDS | 25.0% |
| ! | TGAAACATTTCATAGACATT+AGG | - | chr4.4:22175186-22175205 | None:intergenic | 25.0% |
| ! | TTGATGAGATGAATAAAATG+GGG | + | chr4.4:22175598-22175617 | MS.gene028581:CDS | 25.0% |
| !! | ATGTTCTTTTAGTAATGTTG+GGG | + | chr4.4:22175682-22175701 | MS.gene028581:intron | 25.0% |
| !! | GTTGATGAGATGAATAAAAT+GGG | + | chr4.4:22175597-22175616 | MS.gene028581:CDS | 25.0% |
| !! | TGTTGATGAGATGAATAAAA+TGG | + | chr4.4:22175596-22175615 | MS.gene028581:CDS | 25.0% |
| !!! | TTTTGTTATTTTCAGGACAT+GGG | + | chr4.4:22176064-22176083 | MS.gene028581:intron | 25.0% |
| !!! | TTTTTGTTATTTTCAGGACA+TGG | + | chr4.4:22176063-22176082 | MS.gene028581:intron | 25.0% |
| GATGTTAGAGACTAAATTGA+CGG | - | chr4.4:22175235-22175254 | None:intergenic | 30.0% | |
| TATAGATCATGAGACTCATT+AGG | - | chr4.4:22175663-22175682 | None:intergenic | 30.0% | |
| TTGATACTTTCTATAGGAAG+AGG | + | chr4.4:22175705-22175724 | MS.gene028581:intron | 30.0% | |
| !! | AAGTTGATGGAAATAAGCTA+TGG | + | chr4.4:22175740-22175759 | MS.gene028581:CDS | 30.0% |
| AACTTCATGTTGCAACTTCA+TGG | - | chr4.4:22175496-22175515 | None:intergenic | 35.0% | |
| AATTTATAGTGTCACCTGCA+AGG | - | chr4.4:22175893-22175912 | None:intergenic | 35.0% | |
| ATGCTCATTGAGAAGAAAAG+AGG | + | chr4.4:22175769-22175788 | MS.gene028581:CDS | 35.0% | |
| ATGCTGAAAATGGTAGCAAT+AGG | + | chr4.4:22174869-22174888 | MS.gene028581:CDS | 35.0% | |
| CAATAGACTATGTGTGTCTA+TGG | + | chr4.4:22174831-22174850 | MS.gene028581:CDS | 35.0% | |
| GAACAAAGCAAGCATTATTG+AGG | + | chr4.4:22175455-22175474 | MS.gene028581:CDS | 35.0% | |
| GATGAATAAAATGGGGTTAC+AGG | + | chr4.4:22175605-22175624 | MS.gene028581:CDS | 35.0% | |
| GGAATTCGATAAAGTTCAAG+TGG | - | chr4.4:22176097-22176116 | None:intergenic | 35.0% | |
| GTGCTTACATTTGTGATGAT+TGG | - | chr4.4:22175027-22175046 | None:intergenic | 35.0% | |
| TCATTGAGAAGAAAAGAGGA+AGG | + | chr4.4:22175773-22175792 | MS.gene028581:CDS | 35.0% | |
| TGAGACAGAAAGAAAGAGAA+GGG | + | chr4.4:22174960-22174979 | MS.gene028581:CDS | 35.0% | |
| TGCTGAAAATGGTAGCAATA+GGG | + | chr4.4:22174870-22174889 | MS.gene028581:CDS | 35.0% | |
| TTCTCTTTCTTTCTGTCTCA+AGG | - | chr4.4:22174960-22174979 | None:intergenic | 35.0% | |
| TTGAGACAGAAAGAAAGAGA+AGG | + | chr4.4:22174959-22174978 | MS.gene028581:CDS | 35.0% | |
| TTGGGTTTCAATGCTGAAAA+TGG | + | chr4.4:22174859-22174878 | MS.gene028581:CDS | 35.0% | |
| ! | ACGGATTTTCGTACACTATA+TGG | - | chr4.4:22175216-22175235 | None:intergenic | 35.0% |
| ! | TCAACTCTTTTCTCTCTTCT+TGG | - | chr4.4:22175552-22175571 | None:intergenic | 35.0% |
| ! | TCTTGGATGTGAACACTTTT+GGG | - | chr4.4:22174936-22174955 | None:intergenic | 35.0% |
| ! | TTCTTGGATGTGAACACTTT+TGG | - | chr4.4:22174937-22174956 | None:intergenic | 35.0% |
| !! | TTGGGGTTGATACTTTCTAT+AGG | + | chr4.4:22175699-22175718 | MS.gene028581:intron | 35.0% |
| AGTCTCACAATAGAGCTTGA+TGG | + | chr4.4:22175519-22175538 | MS.gene028581:CDS | 40.0% | |
| ATGTGTGTCTATGGAAGAGT+TGG | + | chr4.4:22174840-22174859 | MS.gene028581:CDS | 40.0% | |
| CACAATAGAGCTTGATGGAA+TGG | + | chr4.4:22175524-22175543 | MS.gene028581:CDS | 40.0% | |
| GCTGAAAATGGTAGCAATAG+GGG | + | chr4.4:22174871-22174890 | MS.gene028581:CDS | 40.0% | |
| TCTTTCTGTCTCAAGGTTCT+TGG | - | chr4.4:22174953-22174972 | None:intergenic | 40.0% | |
| TGTGTGTCTATGGAAGAGTT+GGG | + | chr4.4:22174841-22174860 | MS.gene028581:CDS | 40.0% | |
| TTGGGACACCATCATTATCA+CGG | - | chr4.4:22174918-22174937 | None:intergenic | 40.0% | |
| ! | AACAAGCACCGTGATAATGA+TGG | + | chr4.4:22174907-22174926 | MS.gene028581:CDS | 40.0% |
| ! | AGACCTCAGTGTTACTACTA+TGG | + | chr4.4:22175843-22175862 | MS.gene028581:CDS | 40.0% |
| ! | GAAACTCACTAGCAGACTTT+TGG | + | chr4.4:22174984-22175003 | MS.gene028581:CDS | 40.0% |
| !! | GCAGAAGACTCTCTTTGTTT+TGG | - | chr4.4:22175576-22175595 | None:intergenic | 40.0% |
| !!! | TGTTATTTTCAGGACATGGG+TGG | + | chr4.4:22176067-22176086 | MS.gene028581:intron | 40.0% |
| ATGGTAGCAATAGGGGAAAC+TGG | + | chr4.4:22174878-22174897 | MS.gene028581:CDS | 45.0% | |
| CTGCCATAGTAGTAACACTG+AGG | - | chr4.4:22175849-22175868 | None:intergenic | 45.0% | |
| GTGCAGGTAGCAAAAGTTGA+TGG | + | chr4.4:22175727-22175746 | MS.gene028581:CDS | 45.0% | |
| TTATAGTGTCACCTGCAAGG+AGG | - | chr4.4:22175890-22175909 | None:intergenic | 45.0% | |
| ! | CTCAGTGTTACTACTATGGC+AGG | + | chr4.4:22175847-22175866 | MS.gene028581:CDS | 45.0% |
| ! | CTTTCTATAGGAAGAGGTGC+AGG | + | chr4.4:22175711-22175730 | MS.gene028581:intron | 45.0% |
| !!! | CTAGCAGACTTTTGGTGCTT+AGG | + | chr4.4:22174992-22175011 | MS.gene028581:CDS | 45.0% |
| !! | ACTAAATAATTATAATAATT+AGG | - | chr4.4:22175301-22175320 | None:intergenic | 5.0% |
| !!! | TATTATAATTATTTAGTTTA+TGG | + | chr4.4:22175304-22175323 | MS.gene028581:intron | 5.0% |
| GCAATAGGGGAAACTGGAGA+AGG | + | chr4.4:22174884-22174903 | MS.gene028581:CDS | 50.0% | |
| TCTCATTACAGCCTCCTTGC+AGG | + | chr4.4:22175876-22175895 | MS.gene028581:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 22174814 | 22176135 | 22174814 | ID=MS.gene028581 |
| chr4.4 | mRNA | 22174814 | 22176135 | 22174814 | ID=MS.gene028581.t1;Parent=MS.gene028581 |
| chr4.4 | exon | 22174814 | 22175038 | 22174814 | ID=MS.gene028581.t1.exon1;Parent=MS.gene028581.t1 |
| chr4.4 | CDS | 22174814 | 22175038 | 22174814 | ID=cds.MS.gene028581.t1;Parent=MS.gene028581.t1 |
| chr4.4 | exon | 22175453 | 22175626 | 22175453 | ID=MS.gene028581.t1.exon2;Parent=MS.gene028581.t1 |
| chr4.4 | CDS | 22175453 | 22175626 | 22175453 | ID=cds.MS.gene028581.t1;Parent=MS.gene028581.t1 |
| chr4.4 | exon | 22175721 | 22175897 | 22175721 | ID=MS.gene028581.t1.exon3;Parent=MS.gene028581.t1 |
| chr4.4 | CDS | 22175721 | 22175897 | 22175721 | ID=cds.MS.gene028581.t1;Parent=MS.gene028581.t1 |
| chr4.4 | exon | 22176079 | 22176135 | 22176079 | ID=MS.gene028581.t1.exon4;Parent=MS.gene028581.t1 |
| chr4.4 | CDS | 22176079 | 22176135 | 22176079 | ID=cds.MS.gene028581.t1;Parent=MS.gene028581.t1 |
| Gene Sequence |
| Protein sequence |
