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.gene062344.t1 | XP_003617458.1 | 98.7 | 157 | 2 | 0 | 1 | 157 | 1 | 157 | 2.60E-84 | 321.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene062344.t1 | Q682H0 | 63.3 | 158 | 57 | 1 | 1 | 157 | 1 | 158 | 2.0e-53 | 209.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene062344.t1 | B7FNC9 | 98.7 | 157 | 2 | 0 | 1 | 157 | 1 | 157 | 1.9e-84 | 321.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049239 | MS.gene062344 | 0.869796 | 2.37E-66 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene062344 | MS.gene78507 | PPI |
| MS.gene062344 | MS.gene074024 | PPI |
| MS.gene062344 | MS.gene032837 | PPI |
| MS.gene91904 | MS.gene062344 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene062344.t1 | MTR_5g091800 | 98.726 | 157 | 2 | 0 | 1 | 157 | 1 | 157 | 6.96e-116 | 324 |
| MS.gene062344.t1 | MTR_3g452470 | 79.114 | 158 | 32 | 1 | 1 | 157 | 1 | 158 | 2.81e-94 | 270 |
| MS.gene062344.t1 | MTR_4g108350 | 51.333 | 150 | 71 | 1 | 4 | 153 | 12 | 159 | 1.59e-46 | 149 |
| MS.gene062344.t1 | MTR_5g039530 | 44.578 | 166 | 74 | 2 | 2 | 155 | 7 | 166 | 8.60e-41 | 135 |
| MS.gene062344.t1 | MTR_4g108350 | 48.000 | 150 | 67 | 2 | 4 | 153 | 12 | 150 | 2.82e-39 | 130 |
| MS.gene062344.t1 | MTR_3g099010 | 48.760 | 121 | 56 | 1 | 1 | 121 | 1 | 115 | 9.20e-34 | 116 |
| MS.gene062344.t1 | MTR_8g096670 | 50.962 | 104 | 51 | 0 | 1 | 104 | 1 | 104 | 7.52e-33 | 112 |
| MS.gene062344.t1 | MTR_8g096670 | 55.682 | 88 | 39 | 0 | 17 | 104 | 7 | 94 | 5.43e-30 | 105 |
| MS.gene062344.t1 | MTR_4g093260 | 31.333 | 150 | 89 | 2 | 3 | 147 | 6 | 146 | 2.86e-20 | 86.7 |
| MS.gene062344.t1 | MTR_4g093510 | 33.088 | 136 | 77 | 2 | 17 | 147 | 20 | 146 | 2.98e-20 | 86.7 |
| MS.gene062344.t1 | MTR_4g093270 | 31.159 | 138 | 81 | 2 | 17 | 149 | 17 | 145 | 1.16e-19 | 84.0 |
| MS.gene062344.t1 | MTR_4g093260 | 32.540 | 126 | 71 | 2 | 27 | 147 | 21 | 137 | 6.04e-17 | 77.0 |
| MS.gene062344.t1 | MTR_4g093280 | 30.496 | 141 | 84 | 2 | 17 | 152 | 20 | 151 | 2.19e-14 | 69.7 |
| MS.gene062344.t1 | MTR_5g019720 | 29.688 | 128 | 78 | 2 | 7 | 134 | 28 | 143 | 3.57e-14 | 67.0 |
| MS.gene062344.t1 | MTR_5g019720 | 32.990 | 97 | 61 | 1 | 7 | 103 | 28 | 120 | 3.09e-13 | 63.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene062344.t1 | AT2G42820 | 63.291 | 158 | 57 | 1 | 1 | 157 | 1 | 158 | 2.38e-74 | 219 |
| MS.gene062344.t1 | AT1G74520 | 46.053 | 152 | 80 | 1 | 4 | 155 | 9 | 158 | 4.09e-42 | 138 |
| MS.gene062344.t1 | AT1G74520 | 46.053 | 152 | 80 | 1 | 4 | 155 | 9 | 158 | 4.09e-42 | 138 |
| MS.gene062344.t1 | AT1G69700 | 44.966 | 149 | 79 | 1 | 2 | 147 | 9 | 157 | 4.71e-37 | 125 |
| MS.gene062344.t1 | AT5G50720 | 58.095 | 105 | 44 | 0 | 1 | 105 | 1 | 105 | 2.15e-35 | 119 |
| MS.gene062344.t1 | AT5G62490 | 56.842 | 95 | 41 | 0 | 7 | 101 | 12 | 106 | 1.35e-34 | 119 |
| MS.gene062344.t1 | AT4G24960 | 45.669 | 127 | 68 | 1 | 8 | 134 | 8 | 133 | 4.01e-32 | 112 |
| MS.gene062344.t1 | AT4G24960 | 40.441 | 136 | 71 | 1 | 20 | 155 | 1 | 126 | 1.27e-29 | 105 |
| MS.gene062344.t1 | AT4G24960 | 41.748 | 103 | 59 | 1 | 32 | 134 | 1 | 102 | 7.39e-23 | 87.4 |
| MS.gene062344.t1 | AT4G36720 | 36.842 | 95 | 56 | 1 | 7 | 101 | 36 | 126 | 5.64e-16 | 72.0 |
Find 36 sgRNAs with CRISPR-Local
Find 64 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGACATACGTCAAGAAATT+TGG | 0.280571 | 5.1:+73402276 | MS.gene062344:CDS |
| GTCAAGAAATTTGGTAACTA+TGG | 0.297751 | 5.1:+73402285 | MS.gene062344:CDS |
| ACCAACAGTGGCTAACATAT+TGG | 0.311228 | 5.1:+73402005 | MS.gene062344:CDS |
| GAACGTTATATTGATAGATT+TGG | 0.323087 | 5.1:+73402378 | MS.gene062344:CDS |
| CCAACAGTGGCTAACATATT+GGG | 0.341811 | 5.1:+73402006 | MS.gene062344:CDS |
| CAACTTACAAGGTCCTATAT+TGG | 0.344124 | 5.1:+73402062 | MS.gene062344:CDS |
| ATCACTCTCTCAAATGCATC+TGG | 0.360770 | 5.1:-73402402 | None:intergenic |
| ATATCAATAGGTTTCCCATT+TGG | 0.373951 | 5.1:+73402172 | MS.gene062344:intron |
| AGACATTTGGACACAACAAT+AGG | 0.378599 | 5.1:+73401422 | MS.gene062344:CDS |
| ATTGCTGAACCTACCAATAT+AGG | 0.380907 | 5.1:-73402075 | None:intergenic |
| AAGCTTCATGTATGGCCAAA+TGG | 0.383376 | 5.1:-73402187 | None:intergenic |
| TGGAGCAATACTAAGACATT+TGG | 0.388072 | 5.1:+73401409 | MS.gene062344:CDS |
| CTTCGAGCTTTCAACTTACA+AGG | 0.426910 | 5.1:+73402051 | MS.gene062344:CDS |
| AAAATCATCATGGGTGTCCT+TGG | 0.439409 | 5.1:+73401389 | None:intergenic |
| AGCTTCATGTATGGCCAAAT+GGG | 0.440653 | 5.1:-73402186 | None:intergenic |
| GACATTTGGACACAACAATA+GGG | 0.477953 | 5.1:+73401423 | MS.gene062344:CDS |
| TATTGAAAGTCCTTCAACCT+TGG | 0.507265 | 5.1:+73401979 | MS.gene062344:CDS |
| TGAAGCTTGTGTTCTGCGTA+TGG | 0.521277 | 5.1:+73402202 | MS.gene062344:CDS |
| TGTTGGTCATCCAAGGTTGA+AGG | 0.521506 | 5.1:-73401989 | None:intergenic |
| AGAACCTTCTTGTACTCCTC+AGG | 0.524082 | 5.1:-73402321 | None:intergenic |
| CCCAATATGTTAGCCACTGT+TGG | 0.527231 | 5.1:-73402006 | None:intergenic |
| CAGAACACAAGCTTCATGTA+TGG | 0.542978 | 5.1:-73402195 | None:intergenic |
| TAGCCACTGTTGGTCATCCA+AGG | 0.555283 | 5.1:-73401996 | None:intergenic |
| AGGATAAAGAAGCATTACTC+CGG | 0.560010 | 5.1:-73401845 | None:intergenic |
| TTGGTACTGCCAATGTTCAA+TGG | 0.561469 | 5.1:+73402225 | MS.gene062344:CDS |
| GCTTGTGTTCTGCGTATGGT+TGG | 0.576715 | 5.1:+73402206 | MS.gene062344:CDS |
| GGATAAAGAAGCATTACTCC+GGG | 0.584585 | 5.1:-73401844 | None:intergenic |
| TCATAGATACGCATCAATGA+GGG | 0.589923 | 5.1:+73401955 | MS.gene062344:intron |
| ATCATAGATACGCATCAATG+AGG | 0.601236 | 5.1:+73401954 | MS.gene062344:intron |
| TCACTCTCTCAAATGCATCT+GGG | 0.601880 | 5.1:-73402401 | None:intergenic |
| TAAGCTGCTCCATTGAACAT+TGG | 0.632735 | 5.1:-73402234 | None:intergenic |
| TTATCCTGAGGAGTACAAGA+AGG | 0.638050 | 5.1:+73402317 | MS.gene062344:CDS |
| AATGTCTTAGTATTGCTCCA+AGG | 0.660944 | 5.1:-73401406 | None:intergenic |
| ACATATATGAGAATTATGCA+AGG | 0.691799 | 5.1:+73402256 | MS.gene062344:CDS |
| CAACCTTGGATGACCAACAG+TGG | 0.691907 | 5.1:+73401993 | MS.gene062344:CDS |
| TGGAAATTACAATTATCCTG+AGG | 0.710511 | 5.1:+73402305 | MS.gene062344:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CTTAATAAAAAAATATCAAT+AGG | + | chr5.1:73402160-73402179 | MS.gene062344:intron | 10.0% |
| !! | TAAAGATATATTTATAACTT+TGG | - | chr5.1:73402458-73402477 | None:intergenic | 10.0% |
| !!! | TTCTATAATTATCTTTTTAT+TGG | + | chr5.1:73401586-73401605 | MS.gene062344:intron | 10.0% |
| !! | AAAAGATAATTATAGAAAAG+TGG | - | chr5.1:73401583-73401602 | None:intergenic | 15.0% |
| !!! | ACAATTTGATAATATTTATC+TGG | + | chr5.1:73402137-73402156 | MS.gene062344:intron | 15.0% |
| !!! | TATAATTATCTTTTTATTGG+TGG | + | chr5.1:73401589-73401608 | MS.gene062344:intron | 15.0% |
| !! | TCTATTTCACTTTATATTTC+AGG | + | chr5.1:73402519-73402538 | MS.gene062344:intron | 20.0% |
| !! | TTCTATAATTATCTAGATGA+AGG | + | chr5.1:73401688-73401707 | MS.gene062344:intron | 20.0% |
| ! | AAAAGTAGGATGTTATTAAG+AGG | - | chr5.1:73401812-73401831 | None:intergenic | 25.0% |
| ! | AATATGACCATTACTTACAA+AGG | - | chr5.1:73401868-73401887 | None:intergenic | 25.0% |
| ! | ACATATATGAGAATTATGCA+AGG | + | chr5.1:73402256-73402275 | MS.gene062344:CDS | 25.0% |
| ! | GAAATTCTTTCAAAACACAT+GGG | + | chr5.1:73401749-73401768 | MS.gene062344:intron | 25.0% |
| ! | GAACGTTATATTGATAGATT+TGG | + | chr5.1:73402378-73402397 | MS.gene062344:CDS | 25.0% |
| ! | TCTTTATCCTTTGTAAGTAA+TGG | + | chr5.1:73401858-73401877 | MS.gene062344:intron | 25.0% |
| !! | AATTATCTTTTTATTGGTGG+TGG | + | chr5.1:73401592-73401611 | MS.gene062344:intron | 25.0% |
| ATATCAATAGGTTTCCCATT+TGG | + | chr5.1:73402172-73402191 | MS.gene062344:intron | 30.0% | |
| CGAAATTCTTTCAAAACACA+TGG | + | chr5.1:73401748-73401767 | MS.gene062344:intron | 30.0% | |
| TGCATAAAATATGCAAGATC+CGG | - | chr5.1:73401632-73401651 | None:intergenic | 30.0% | |
| TGGAAATTACAATTATCCTG+AGG | + | chr5.1:73402305-73402324 | MS.gene062344:CDS | 30.0% | |
| ! | GTCAAGAAATTTGGTAACTA+TGG | + | chr5.1:73402285-73402304 | MS.gene062344:CDS | 30.0% |
| !! | TCGTACATGCAATATTTTGA+AGG | - | chr5.1:73401731-73401750 | None:intergenic | 30.0% |
| AATGTCTTAGTATTGCTCCA+AGG | - | chr5.1:73401409-73401428 | None:intergenic | 35.0% | |
| AGACATTTGGACACAACAAT+AGG | + | chr5.1:73401422-73401441 | MS.gene062344:CDS | 35.0% | |
| AGGACATACGTCAAGAAATT+TGG | + | chr5.1:73402276-73402295 | MS.gene062344:CDS | 35.0% | |
| ATCATAGATACGCATCAATG+AGG | + | chr5.1:73401954-73401973 | MS.gene062344:intron | 35.0% | |
| ATGGGACACACTCTAAATTT+AGG | + | chr5.1:73401767-73401786 | MS.gene062344:intron | 35.0% | |
| ATTGCTGAACCTACCAATAT+AGG | - | chr5.1:73402078-73402097 | None:intergenic | 35.0% | |
| CAACTTACAAGGTCCTATAT+TGG | + | chr5.1:73402062-73402081 | MS.gene062344:CDS | 35.0% | |
| CATAAAATATGCAAGATCCG+GGG | - | chr5.1:73401630-73401649 | None:intergenic | 35.0% | |
| GACATTTGGACACAACAATA+GGG | + | chr5.1:73401423-73401442 | MS.gene062344:CDS | 35.0% | |
| GCATAAAATATGCAAGATCC+GGG | - | chr5.1:73401631-73401650 | None:intergenic | 35.0% | |
| TATTGAAAGTCCTTCAACCT+TGG | + | chr5.1:73401979-73401998 | MS.gene062344:CDS | 35.0% | |
| TCATAGATACGCATCAATGA+GGG | + | chr5.1:73401955-73401974 | MS.gene062344:intron | 35.0% | |
| TGGAGCAATACTAAGACATT+TGG | + | chr5.1:73401409-73401428 | MS.gene062344:CDS | 35.0% | |
| TTACAAGGTCCTATATTGGT+AGG | + | chr5.1:73402066-73402085 | MS.gene062344:intron | 35.0% | |
| !! | AGGATAAAGAAGCATTACTC+CGG | - | chr5.1:73401848-73401867 | None:intergenic | 35.0% |
| !!! | ATCCTACTTTTTTGTGTACC+AGG | + | chr5.1:73401821-73401840 | MS.gene062344:intron | 35.0% |
| AAGCTTCATGTATGGCCAAA+TGG | - | chr5.1:73402190-73402209 | None:intergenic | 40.0% | |
| ACCAACAGTGGCTAACATAT+TGG | + | chr5.1:73402005-73402024 | MS.gene062344:CDS | 40.0% | |
| AGCTTCATGTATGGCCAAAT+GGG | - | chr5.1:73402189-73402208 | None:intergenic | 40.0% | |
| ATCACTCTCTCAAATGCATC+TGG | - | chr5.1:73402405-73402424 | None:intergenic | 40.0% | |
| CAGAACACAAGCTTCATGTA+TGG | - | chr5.1:73402198-73402217 | None:intergenic | 40.0% | |
| CCAACAGTGGCTAACATATT+GGG | + | chr5.1:73402006-73402025 | MS.gene062344:CDS | 40.0% | |
| CTTCGAGCTTTCAACTTACA+AGG | + | chr5.1:73402051-73402070 | MS.gene062344:CDS | 40.0% | |
| TAAGCTGCTCCATTGAACAT+TGG | - | chr5.1:73402237-73402256 | None:intergenic | 40.0% | |
| TCACTCTCTCAAATGCATCT+GGG | - | chr5.1:73402404-73402423 | None:intergenic | 40.0% | |
| TTGGTACTGCCAATGTTCAA+TGG | + | chr5.1:73402225-73402244 | MS.gene062344:CDS | 40.0% | |
| ! | TTATCCTGAGGAGTACAAGA+AGG | + | chr5.1:73402317-73402336 | MS.gene062344:CDS | 40.0% |
| !! | GGATAAAGAAGCATTACTCC+GGG | - | chr5.1:73401847-73401866 | None:intergenic | 40.0% |
| AGAACCTTCTTGTACTCCTC+AGG | - | chr5.1:73402324-73402343 | None:intergenic | 45.0% | |
| CCCAATATGTTAGCCACTGT+TGG | - | chr5.1:73402009-73402028 | None:intergenic | 45.0% | |
| GGCCTGGTACACAAAAAAGT+AGG | - | chr5.1:73401826-73401845 | None:intergenic | 45.0% | |
| TGAAGCTTGTGTTCTGCGTA+TGG | + | chr5.1:73402202-73402221 | MS.gene062344:CDS | 45.0% | |
| TGTTGGTCATCCAAGGTTGA+AGG | - | chr5.1:73401992-73402011 | None:intergenic | 45.0% | |
| ! | TGAGCTTAGCTCAGTTGGTA+TGG | - | chr5.1:73401659-73401678 | None:intergenic | 45.0% |
| !!! | ACTTTTTTGTGTACCAGGCC+CGG | + | chr5.1:73401826-73401845 | MS.gene062344:intron | 45.0% |
| AAGATCCGGGGTTCGAATCT+CGG | - | chr5.1:73401618-73401637 | None:intergenic | 50.0% | |
| CAACCTTGGATGACCAACAG+TGG | + | chr5.1:73401993-73402012 | MS.gene062344:CDS | 50.0% | |
| GCTTGTGTTCTGCGTATGGT+TGG | + | chr5.1:73402206-73402225 | MS.gene062344:CDS | 50.0% | |
| TAGCCACTGTTGGTCATCCA+AGG | - | chr5.1:73401999-73402018 | None:intergenic | 50.0% | |
| CCAACTGAGCTAAGCTCACG+TGG | + | chr5.1:73401661-73401680 | MS.gene062344:intron | 55.0% | |
| CCACGTGAGCTTAGCTCAGT+TGG | - | chr5.1:73401664-73401683 | None:intergenic | 55.0% | |
| !! | AAGAAGCATTACTCCGGGCC+TGG | - | chr5.1:73401842-73401861 | None:intergenic | 55.0% |
| GGTGGCCGAGATTCGAACCC+CGG | + | chr5.1:73401610-73401629 | MS.gene062344:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.1 | gene | 73401398 | 73402567 | 73401398 | ID=MS.gene062344 |
| chr5.1 | mRNA | 73401398 | 73402567 | 73401398 | ID=MS.gene062344.t1;Parent=MS.gene062344 |
| chr5.1 | exon | 73401398 | 73401444 | 73401398 | ID=MS.gene062344.t1.exon1;Parent=MS.gene062344.t1 |
| chr5.1 | CDS | 73401398 | 73401444 | 73401398 | ID=cds.MS.gene062344.t1;Parent=MS.gene062344.t1 |
| chr5.1 | exon | 73401843 | 73401869 | 73401843 | ID=MS.gene062344.t1.exon2;Parent=MS.gene062344.t1 |
| chr5.1 | CDS | 73401843 | 73401869 | 73401843 | ID=cds.MS.gene062344.t1;Parent=MS.gene062344.t1 |
| chr5.1 | exon | 73401961 | 73402083 | 73401961 | ID=MS.gene062344.t1.exon3;Parent=MS.gene062344.t1 |
| chr5.1 | CDS | 73401961 | 73402083 | 73401961 | ID=cds.MS.gene062344.t1;Parent=MS.gene062344.t1 |
| chr5.1 | exon | 73402182 | 73402431 | 73402182 | ID=MS.gene062344.t1.exon4;Parent=MS.gene062344.t1 |
| chr5.1 | CDS | 73402182 | 73402431 | 73402182 | ID=cds.MS.gene062344.t1;Parent=MS.gene062344.t1 |
| chr5.1 | exon | 73402541 | 73402567 | 73402541 | ID=MS.gene062344.t1.exon5;Parent=MS.gene062344.t1 |
| chr5.1 | CDS | 73402541 | 73402567 | 73402541 | ID=cds.MS.gene062344.t1;Parent=MS.gene062344.t1 |
| Gene Sequence |
| Protein sequence |
