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.gene028578.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.gene028578.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.gene028578.t1 | A0A072UQ23 | 96.7 | 210 | 7 | 0 | 1 | 210 | 1 | 210 | 2.0e-105 | 391.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene028578.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.gene028578.t1 | MTR_4g091910 | 96.667 | 210 | 7 | 0 | 1 | 210 | 1 | 210 | 7.10e-151 | 417 |
| MS.gene028578.t1 | MTR_4g091990 | 47.867 | 211 | 90 | 4 | 1 | 209 | 1 | 193 | 2.77e-60 | 187 |
| MS.gene028578.t1 | MTR_8g064700 | 31.429 | 175 | 106 | 3 | 42 | 202 | 239 | 413 | 1.15e-19 | 86.3 |
| MS.gene028578.t1 | MTR_1g112680 | 30.526 | 190 | 92 | 4 | 27 | 183 | 304 | 486 | 8.73e-18 | 81.3 |
| MS.gene028578.t1 | MTR_2g084280 | 31.737 | 167 | 109 | 3 | 37 | 198 | 121 | 287 | 1.07e-15 | 74.3 |
| MS.gene028578.t1 | MTR_4g057270 | 29.940 | 167 | 96 | 5 | 46 | 197 | 148 | 308 | 2.22e-15 | 73.9 |
| MS.gene028578.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.gene028578.t1 | AT4G21330 | 45.283 | 159 | 75 | 2 | 44 | 192 | 29 | 185 | 8.18e-39 | 133 |
| MS.gene028578.t1 | AT2G16910 | 32.298 | 161 | 82 | 3 | 46 | 179 | 313 | 473 | 9.62e-18 | 81.3 |
| MS.gene028578.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 46 | 214 | 1.71e-14 | 69.7 |
| MS.gene028578.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 45 | 213 | 1.92e-14 | 69.7 |
| MS.gene028578.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 46 | 214 | 2.10e-14 | 69.7 |
| MS.gene028578.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 45 | 213 | 3.38e-14 | 69.7 |
| MS.gene028578.t1 | AT5G57150 | 30.769 | 169 | 103 | 3 | 38 | 192 | 46 | 214 | 4.37e-14 | 69.3 |
| MS.gene028578.t1 | AT2G28160 | 27.869 | 183 | 119 | 5 | 21 | 191 | 103 | 284 | 6.81e-13 | 66.6 |
| MS.gene028578.t1 | AT2G28160 | 27.869 | 183 | 119 | 5 | 21 | 191 | 103 | 284 | 7.90e-13 | 66.6 |
| MS.gene028578.t1 | AT1G10610 | 28.571 | 147 | 96 | 1 | 44 | 181 | 231 | 377 | 7.99e-13 | 67.0 |
| MS.gene028578.t1 | AT1G10610 | 28.571 | 147 | 96 | 1 | 44 | 181 | 261 | 407 | 1.00e-12 | 66.6 |
| MS.gene028578.t1 | AT1G10610 | 28.571 | 147 | 96 | 1 | 44 | 181 | 164 | 310 | 1.39e-12 | 65.9 |
| MS.gene028578.t1 | AT1G12860 | 29.870 | 154 | 93 | 2 | 46 | 186 | 266 | 417 | 2.82e-12 | 65.5 |
| MS.gene028578.t1 | AT1G12860 | 29.870 | 154 | 93 | 2 | 46 | 186 | 266 | 417 | 2.92e-12 | 65.1 |
| MS.gene028578.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.50e-11 | 62.4 |
| MS.gene028578.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.58e-11 | 62.4 |
| MS.gene028578.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.58e-11 | 62.4 |
| MS.gene028578.t1 | AT3G26744 | 30.769 | 156 | 93 | 3 | 46 | 186 | 306 | 461 | 2.58e-11 | 62.4 |
| MS.gene028578.t1 | AT4G37850 | 31.818 | 154 | 80 | 4 | 51 | 188 | 156 | 300 | 2.82e-11 | 62.0 |
| MS.gene028578.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 | 4.3:+22325242 | MS.gene028578:CDS |
| TCTTTCTGTCTCAAGGTTCT+TGG | 0.203142 | 4.3:-22324078 | None:intergenic |
| TTCTTGGATGTGAACACTTT+TGG | 0.236396 | 4.3:-22324062 | None:intergenic |
| GATGAATAAAATGGGGTTAC+AGG | 0.250695 | 4.3:+22324733 | MS.gene028578:CDS |
| AACTTCATGTTGCAACTTCA+TGG | 0.287708 | 4.3:-22324621 | None:intergenic |
| TGTTGATGAGATGAATAAAA+TGG | 0.288149 | 4.3:+22324724 | MS.gene028578:CDS |
| TTGGGTTTCAATGCTGAAAA+TGG | 0.303250 | 4.3:+22323987 | MS.gene028578:CDS |
| GCAGAAGACTCTCTTTGTTT+TGG | 0.306313 | 4.3:-22324701 | None:intergenic |
| CCAACTATTATCAAGTATTA+GGG | 0.313449 | 4.3:+22325243 | MS.gene028578:CDS |
| CCCTAATACTTGATAATAGT+TGG | 0.313701 | 4.3:-22325243 | None:intergenic |
| CAATAGACTATGTGTGTCTA+TGG | 0.334837 | 4.3:+22323959 | MS.gene028578:CDS |
| TTCTCTTTCTTTCTGTCTCA+AGG | 0.354427 | 4.3:-22324085 | None:intergenic |
| ATGCTGAAAATGGTAGCAAT+AGG | 0.358285 | 4.3:+22323997 | MS.gene028578:CDS |
| TCTCATTACAGCCTCCTTGC+AGG | 0.362149 | 4.3:+22325004 | MS.gene028578:CDS |
| ATGGTAGCAATAGGGGAAAC+TGG | 0.388089 | 4.3:+22324006 | MS.gene028578:CDS |
| GAAACTCACTAGCAGACTTT+TGG | 0.388264 | 4.3:+22324112 | MS.gene028578:CDS |
| GTGCTTACATTTGTGATGAT+TGG | 0.399278 | 4.3:-22324152 | None:intergenic |
| TGCTGAAAATGGTAGCAATA+GGG | 0.418097 | 4.3:+22323998 | MS.gene028578:CDS |
| GTTGATGAGATGAATAAAAT+GGG | 0.433684 | 4.3:+22324725 | MS.gene028578:CDS |
| AGACCTCAGTGTTACTACTA+TGG | 0.457876 | 4.3:+22324971 | MS.gene028578:CDS |
| GAATGATTTGAACATTGAAA+TGG | 0.483853 | 4.3:+22324947 | MS.gene028578:CDS |
| CACAATAGAGCTTGATGGAA+TGG | 0.493719 | 4.3:+22324652 | MS.gene028578:CDS |
| AGTCTCACAATAGAGCTTGA+TGG | 0.495480 | 4.3:+22324647 | MS.gene028578:CDS |
| GTGCAGGTAGCAAAAGTTGA+TGG | 0.518362 | 4.3:+22324855 | MS.gene028578:CDS |
| ATGCTCATTGAGAAGAAAAG+AGG | 0.521277 | 4.3:+22324897 | MS.gene028578:CDS |
| ATGTGTGTCTATGGAAGAGT+TGG | 0.537161 | 4.3:+22323968 | MS.gene028578:CDS |
| GAACAAAGCAAGCATTATTG+AGG | 0.548126 | 4.3:+22324583 | MS.gene028578:CDS |
| CTTTCTATAGGAAGAGGTGC+AGG | 0.549579 | 4.3:+22324839 | MS.gene028578:intron |
| CTCAGTGTTACTACTATGGC+AGG | 0.550252 | 4.3:+22324975 | MS.gene028578:CDS |
| GCTGAAAATGGTAGCAATAG+GGG | 0.556414 | 4.3:+22323999 | MS.gene028578:CDS |
| GGAATTCGATAAAGTTCAAG+TGG | 0.574985 | 4.3:-22325222 | None:intergenic |
| AATTTATAGTGTCACCTGCA+AGG | 0.580808 | 4.3:-22325018 | None:intergenic |
| AAGTTGATGGAAATAAGCTA+TGG | 0.582461 | 4.3:+22324868 | MS.gene028578:CDS |
| TTGAGACAGAAAGAAAGAGA+AGG | 0.583322 | 4.3:+22324087 | MS.gene028578:CDS |
| AACAAGCACCGTGATAATGA+TGG | 0.583729 | 4.3:+22324035 | MS.gene028578:CDS |
| TGTGTGTCTATGGAAGAGTT+GGG | 0.584878 | 4.3:+22323969 | MS.gene028578:CDS |
| TTGGGACACCATCATTATCA+CGG | 0.595132 | 4.3:-22324043 | None:intergenic |
| TGAGACAGAAAGAAAGAGAA+GGG | 0.595420 | 4.3:+22324088 | MS.gene028578:CDS |
| GCAATAGGGGAAACTGGAGA+AGG | 0.660867 | 4.3:+22324012 | MS.gene028578:CDS |
| TCATTGAGAAGAAAAGAGGA+AGG | 0.693261 | 4.3:+22324901 | MS.gene028578:CDS |
| TTGATGAGATGAATAAAATG+GGG | 0.713073 | 4.3:+22324726 | MS.gene028578:CDS |
| TTATAGTGTCACCTGCAAGG+AGG | 0.739971 | 4.3:-22325015 | None:intergenic |
| CTGCCATAGTAGTAACACTG+AGG | 0.765658 | 4.3:-22324974 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTATAATAATTAGGTCATA+CGG | - | chr4.3:22324421-22324440 | None:intergenic | 15.0% |
| !!! | AGTTTTTAATTAGTACATTA+TGG | + | chr4.3:22324526-22324545 | MS.gene028578:intron | 15.0% |
| !!! | ATTCTATTTTTGTTATTTTC+AGG | + | chr4.3:22325185-22325204 | MS.gene028578:intron | 15.0% |
| !! | ATATAGTTTAGAGGATTTAA+TGG | - | chr4.3:22324240-22324259 | None:intergenic | 20.0% |
| !! | GATAATGATATATAGTTTAG+AGG | - | chr4.3:22324249-22324268 | None:intergenic | 20.0% |
| !! | TTTCATGATTTATCATCTAT+TGG | + | chr4.3:22324202-22324221 | MS.gene028578:intron | 20.0% |
| !!! | ATATGTTCTTTTAGTAATGT+TGG | + | chr4.3:22324808-22324827 | MS.gene028578:intron | 20.0% |
| !!! | GTTCATCTAAAATCAAATTT+AGG | - | chr4.3:22324567-22324586 | None:intergenic | 20.0% |
| !!! | TATGTTCTTTTAGTAATGTT+GGG | + | chr4.3:22324809-22324828 | MS.gene028578:intron | 20.0% |
| ! | GAATGATTTGAACATTGAAA+TGG | + | chr4.3:22324947-22324966 | MS.gene028578:CDS | 25.0% |
| ! | TGAAACATTTCATAGACATT+AGG | - | chr4.3:22324314-22324333 | None:intergenic | 25.0% |
| ! | TTGATGAGATGAATAAAATG+GGG | + | chr4.3:22324726-22324745 | MS.gene028578:CDS | 25.0% |
| !! | ATGTTCTTTTAGTAATGTTG+GGG | + | chr4.3:22324810-22324829 | MS.gene028578:intron | 25.0% |
| !! | GTTGATGAGATGAATAAAAT+GGG | + | chr4.3:22324725-22324744 | MS.gene028578:CDS | 25.0% |
| !! | TGTTGATGAGATGAATAAAA+TGG | + | chr4.3:22324724-22324743 | MS.gene028578:CDS | 25.0% |
| !!! | TTTTGTTATTTTCAGGACAT+GGG | + | chr4.3:22325192-22325211 | MS.gene028578:intron | 25.0% |
| !!! | TTTTTGTTATTTTCAGGACA+TGG | + | chr4.3:22325191-22325210 | MS.gene028578:intron | 25.0% |
| GATGTTAGAGACTAAATTGA+CGG | - | chr4.3:22324363-22324382 | None:intergenic | 30.0% | |
| TATAGATCATGAGACTCATT+AGG | - | chr4.3:22324791-22324810 | None:intergenic | 30.0% | |
| TTGATACTTTCTATAGGAAG+AGG | + | chr4.3:22324833-22324852 | MS.gene028578:intron | 30.0% | |
| !! | AAGTTGATGGAAATAAGCTA+TGG | + | chr4.3:22324868-22324887 | MS.gene028578:CDS | 30.0% |
| AACTTCATGTTGCAACTTCA+TGG | - | chr4.3:22324624-22324643 | None:intergenic | 35.0% | |
| AATTTATAGTGTCACCTGCA+AGG | - | chr4.3:22325021-22325040 | None:intergenic | 35.0% | |
| ATGCTCATTGAGAAGAAAAG+AGG | + | chr4.3:22324897-22324916 | MS.gene028578:CDS | 35.0% | |
| ATGCTGAAAATGGTAGCAAT+AGG | + | chr4.3:22323997-22324016 | MS.gene028578:CDS | 35.0% | |
| CAATAGACTATGTGTGTCTA+TGG | + | chr4.3:22323959-22323978 | MS.gene028578:CDS | 35.0% | |
| GAACAAAGCAAGCATTATTG+AGG | + | chr4.3:22324583-22324602 | MS.gene028578:CDS | 35.0% | |
| GATGAATAAAATGGGGTTAC+AGG | + | chr4.3:22324733-22324752 | MS.gene028578:CDS | 35.0% | |
| GGAATTCGATAAAGTTCAAG+TGG | - | chr4.3:22325225-22325244 | None:intergenic | 35.0% | |
| GTGCTTACATTTGTGATGAT+TGG | - | chr4.3:22324155-22324174 | None:intergenic | 35.0% | |
| TCATTGAGAAGAAAAGAGGA+AGG | + | chr4.3:22324901-22324920 | MS.gene028578:CDS | 35.0% | |
| TGAGACAGAAAGAAAGAGAA+GGG | + | chr4.3:22324088-22324107 | MS.gene028578:CDS | 35.0% | |
| TGCTGAAAATGGTAGCAATA+GGG | + | chr4.3:22323998-22324017 | MS.gene028578:CDS | 35.0% | |
| TTCTCTTTCTTTCTGTCTCA+AGG | - | chr4.3:22324088-22324107 | None:intergenic | 35.0% | |
| TTGAGACAGAAAGAAAGAGA+AGG | + | chr4.3:22324087-22324106 | MS.gene028578:CDS | 35.0% | |
| TTGGGTTTCAATGCTGAAAA+TGG | + | chr4.3:22323987-22324006 | MS.gene028578:CDS | 35.0% | |
| ! | ACGGATTTTCGTACACTATA+TGG | - | chr4.3:22324344-22324363 | None:intergenic | 35.0% |
| ! | TCAACTCTTTTCTCTCTTCT+TGG | - | chr4.3:22324680-22324699 | None:intergenic | 35.0% |
| ! | TCTTGGATGTGAACACTTTT+GGG | - | chr4.3:22324064-22324083 | None:intergenic | 35.0% |
| ! | TTCTTGGATGTGAACACTTT+TGG | - | chr4.3:22324065-22324084 | None:intergenic | 35.0% |
| !! | TTGGGGTTGATACTTTCTAT+AGG | + | chr4.3:22324827-22324846 | MS.gene028578:intron | 35.0% |
| AGTCTCACAATAGAGCTTGA+TGG | + | chr4.3:22324647-22324666 | MS.gene028578:CDS | 40.0% | |
| ATGTGTGTCTATGGAAGAGT+TGG | + | chr4.3:22323968-22323987 | MS.gene028578:CDS | 40.0% | |
| CACAATAGAGCTTGATGGAA+TGG | + | chr4.3:22324652-22324671 | MS.gene028578:CDS | 40.0% | |
| GCTGAAAATGGTAGCAATAG+GGG | + | chr4.3:22323999-22324018 | MS.gene028578:CDS | 40.0% | |
| TCTTTCTGTCTCAAGGTTCT+TGG | - | chr4.3:22324081-22324100 | None:intergenic | 40.0% | |
| TGTGTGTCTATGGAAGAGTT+GGG | + | chr4.3:22323969-22323988 | MS.gene028578:CDS | 40.0% | |
| TTGGGACACCATCATTATCA+CGG | - | chr4.3:22324046-22324065 | None:intergenic | 40.0% | |
| ! | AACAAGCACCGTGATAATGA+TGG | + | chr4.3:22324035-22324054 | MS.gene028578:CDS | 40.0% |
| ! | AGACCTCAGTGTTACTACTA+TGG | + | chr4.3:22324971-22324990 | MS.gene028578:CDS | 40.0% |
| ! | GAAACTCACTAGCAGACTTT+TGG | + | chr4.3:22324112-22324131 | MS.gene028578:CDS | 40.0% |
| !! | GCAGAAGACTCTCTTTGTTT+TGG | - | chr4.3:22324704-22324723 | None:intergenic | 40.0% |
| !!! | TGTTATTTTCAGGACATGGG+TGG | + | chr4.3:22325195-22325214 | MS.gene028578:intron | 40.0% |
| ATGGTAGCAATAGGGGAAAC+TGG | + | chr4.3:22324006-22324025 | MS.gene028578:CDS | 45.0% | |
| CTGCCATAGTAGTAACACTG+AGG | - | chr4.3:22324977-22324996 | None:intergenic | 45.0% | |
| GTGCAGGTAGCAAAAGTTGA+TGG | + | chr4.3:22324855-22324874 | MS.gene028578:CDS | 45.0% | |
| TTATAGTGTCACCTGCAAGG+AGG | - | chr4.3:22325018-22325037 | None:intergenic | 45.0% | |
| ! | CTCAGTGTTACTACTATGGC+AGG | + | chr4.3:22324975-22324994 | MS.gene028578:CDS | 45.0% |
| ! | CTTTCTATAGGAAGAGGTGC+AGG | + | chr4.3:22324839-22324858 | MS.gene028578:intron | 45.0% |
| !!! | CTAGCAGACTTTTGGTGCTT+AGG | + | chr4.3:22324120-22324139 | MS.gene028578:CDS | 45.0% |
| !! | ACTAAATAATTATAATAATT+AGG | - | chr4.3:22324429-22324448 | None:intergenic | 5.0% |
| !!! | TATTATAATTATTTAGTTTA+TGG | + | chr4.3:22324432-22324451 | MS.gene028578:intron | 5.0% |
| GCAATAGGGGAAACTGGAGA+AGG | + | chr4.3:22324012-22324031 | MS.gene028578:CDS | 50.0% | |
| TCTCATTACAGCCTCCTTGC+AGG | + | chr4.3:22325004-22325023 | MS.gene028578:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 22323942 | 22325263 | 22323942 | ID=MS.gene028578 |
| chr4.3 | mRNA | 22323942 | 22325263 | 22323942 | ID=MS.gene028578.t1;Parent=MS.gene028578 |
| chr4.3 | exon | 22323942 | 22324166 | 22323942 | ID=MS.gene028578.t1.exon1;Parent=MS.gene028578.t1 |
| chr4.3 | CDS | 22323942 | 22324166 | 22323942 | ID=cds.MS.gene028578.t1;Parent=MS.gene028578.t1 |
| chr4.3 | exon | 22324581 | 22324754 | 22324581 | ID=MS.gene028578.t1.exon2;Parent=MS.gene028578.t1 |
| chr4.3 | CDS | 22324581 | 22324754 | 22324581 | ID=cds.MS.gene028578.t1;Parent=MS.gene028578.t1 |
| chr4.3 | exon | 22324849 | 22325025 | 22324849 | ID=MS.gene028578.t1.exon3;Parent=MS.gene028578.t1 |
| chr4.3 | CDS | 22324849 | 22325025 | 22324849 | ID=cds.MS.gene028578.t1;Parent=MS.gene028578.t1 |
| chr4.3 | exon | 22325207 | 22325263 | 22325207 | ID=MS.gene028578.t1.exon4;Parent=MS.gene028578.t1 |
| chr4.3 | CDS | 22325207 | 22325263 | 22325207 | ID=cds.MS.gene028578.t1;Parent=MS.gene028578.t1 |
| Gene Sequence |
| Protein sequence |
