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.gene34943.t1 | RHN42365.1 | 97.3 | 146 | 4 | 0 | 1 | 146 | 1 | 146 | 1.30E-72 | 282.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34943.t1 | Q9LJQ5 | 45.3 | 161 | 78 | 3 | 6 | 157 | 7 | 166 | 4.0e-33 | 142.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34943.t1 | A0A396GU97 | 97.3 | 146 | 4 | 0 | 1 | 146 | 1 | 146 | 9.6e-73 | 282.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene055371 | MS.gene34943 | 0.806188 | 9.29E-50 | -1.69E-46 |
| MS.gene058909 | MS.gene34943 | 0.863157 | 3.04E-64 | -1.69E-46 |
| MS.gene058912 | MS.gene34943 | 0.859779 | 3.27E-63 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene47676 | MS.gene34943 | PPI |
| MS.gene34943 | MS.gene019156 | PPI |
| MS.gene34943 | MS.gene038238 | PPI |
| MS.gene34943 | MS.gene47993 | PPI |
| MS.gene46954 | MS.gene34943 | PPI |
| MS.gene017030 | MS.gene34943 | PPI |
| MS.gene22220 | MS.gene34943 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34943.t1 | MTR_1g109630 | 45.378 | 119 | 61 | 1 | 26 | 144 | 13 | 127 | 1.08e-33 | 118 |
| MS.gene34943.t1 | MTR_3g449880 | 37.956 | 137 | 85 | 0 | 9 | 145 | 31 | 167 | 2.51e-30 | 110 |
| MS.gene34943.t1 | MTR_8g099060 | 36.800 | 125 | 79 | 0 | 21 | 145 | 58 | 182 | 6.65e-25 | 96.7 |
| MS.gene34943.t1 | MTR_1g099500 | 31.944 | 144 | 96 | 1 | 4 | 145 | 32 | 175 | 3.25e-24 | 94.7 |
| MS.gene34943.t1 | MTR_5g090340 | 41.732 | 127 | 72 | 1 | 21 | 145 | 90 | 216 | 8.97e-24 | 94.4 |
| MS.gene34943.t1 | MTR_5g090340 | 41.732 | 127 | 72 | 1 | 21 | 145 | 87 | 213 | 9.39e-24 | 94.4 |
| MS.gene34943.t1 | MTR_8g028450 | 37.008 | 127 | 80 | 0 | 21 | 147 | 62 | 188 | 1.57e-23 | 93.2 |
| MS.gene34943.t1 | MTR_3g062910 | 28.302 | 159 | 98 | 2 | 3 | 147 | 17 | 173 | 9.63e-23 | 90.9 |
| MS.gene34943.t1 | MTR_3g449880 | 37.963 | 108 | 67 | 0 | 38 | 145 | 38 | 145 | 1.69e-20 | 84.3 |
| MS.gene34943.t1 | MTR_4g014700 | 30.303 | 132 | 92 | 0 | 17 | 148 | 3 | 134 | 2.43e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34943.t1 | AT3G18260 | 45.062 | 162 | 79 | 3 | 5 | 157 | 6 | 166 | 2.54e-45 | 148 |
| MS.gene34943.t1 | AT2G46170 | 40.714 | 140 | 83 | 0 | 9 | 148 | 40 | 179 | 1.22e-30 | 109 |
| MS.gene34943.t1 | AT2G46170 | 41.007 | 139 | 82 | 0 | 7 | 145 | 38 | 176 | 7.99e-30 | 109 |
| MS.gene34943.t1 | AT3G10260 | 32.168 | 143 | 97 | 0 | 3 | 145 | 27 | 169 | 1.56e-26 | 100 |
| MS.gene34943.t1 | AT3G10260 | 32.168 | 143 | 97 | 0 | 3 | 145 | 27 | 169 | 1.56e-26 | 100 |
| MS.gene34943.t1 | AT3G10260 | 32.168 | 143 | 97 | 0 | 3 | 145 | 47 | 189 | 2.64e-26 | 100 |
| MS.gene34943.t1 | AT4G11220 | 34.959 | 123 | 80 | 0 | 21 | 143 | 69 | 191 | 4.82e-25 | 97.4 |
| MS.gene34943.t1 | AT3G61560 | 38.583 | 127 | 78 | 0 | 21 | 147 | 52 | 178 | 1.84e-24 | 94.4 |
| MS.gene34943.t1 | AT4G23630 | 34.400 | 125 | 82 | 0 | 21 | 145 | 73 | 197 | 3.63e-24 | 95.1 |
| MS.gene34943.t1 | AT4G23630 | 34.400 | 125 | 82 | 0 | 21 | 145 | 73 | 197 | 3.63e-24 | 95.1 |
| MS.gene34943.t1 | AT3G61560 | 38.583 | 127 | 78 | 0 | 21 | 147 | 52 | 178 | 3.68e-24 | 94.7 |
| MS.gene34943.t1 | AT3G61560 | 38.583 | 127 | 78 | 0 | 21 | 147 | 52 | 178 | 3.68e-24 | 94.7 |
| MS.gene34943.t1 | AT1G64090 | 38.400 | 125 | 77 | 0 | 21 | 145 | 48 | 172 | 3.78e-24 | 94.7 |
| MS.gene34943.t1 | AT5G41600 | 35.200 | 125 | 81 | 0 | 21 | 145 | 52 | 176 | 8.94e-24 | 93.6 |
| MS.gene34943.t1 | AT1G64090 | 34.043 | 141 | 77 | 1 | 21 | 145 | 48 | 188 | 1.84e-20 | 85.1 |
| MS.gene34943.t1 | AT1G68230 | 30.370 | 135 | 88 | 2 | 13 | 145 | 7 | 137 | 7.31e-14 | 65.5 |
| MS.gene34943.t1 | AT1G68230 | 29.630 | 135 | 89 | 2 | 13 | 145 | 7 | 137 | 1.32e-13 | 65.9 |
| MS.gene34943.t1 | AT3G54120 | 31.579 | 133 | 91 | 0 | 14 | 146 | 1 | 133 | 3.28e-13 | 64.7 |
| MS.gene34943.t1 | AT4G01230 | 42.857 | 84 | 48 | 0 | 7 | 90 | 40 | 123 | 4.57e-13 | 65.1 |
| MS.gene34943.t1 | AT3G19460 | 30.579 | 121 | 83 | 1 | 29 | 149 | 14 | 133 | 7.77e-13 | 64.3 |
| MS.gene34943.t1 | AT3G19460 | 30.579 | 121 | 83 | 1 | 29 | 149 | 14 | 133 | 7.77e-13 | 64.3 |
| MS.gene34943.t1 | AT3G19460 | 31.034 | 116 | 79 | 1 | 29 | 144 | 14 | 128 | 2.87e-12 | 62.0 |
| MS.gene34943.t1 | AT3G19460 | 31.034 | 116 | 79 | 1 | 29 | 144 | 14 | 128 | 2.87e-12 | 62.0 |
| MS.gene34943.t1 | AT3G19460 | 31.034 | 116 | 79 | 1 | 29 | 144 | 14 | 128 | 2.87e-12 | 62.0 |
Find 31 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CACAAATACCAACACTTTAT+TGG | 0.084513 | 4.1:-16670567 | MS.gene34943:CDS |
| TGCTTGGGATAACATTAATT+TGG | 0.217906 | 4.1:-16671239 | MS.gene34943:CDS |
| ATTCTTGTAAAACAGTTTCT+AGG | 0.234459 | 4.1:+16670706 | None:intergenic |
| GAAGGAACATTCTTAGTAAT+TGG | 0.237845 | 4.1:+16670640 | None:intergenic |
| TCTGATTCTGATGATGAAAT+TGG | 0.270683 | 4.1:-16671769 | MS.gene34943:CDS |
| AAGCCACTTCATGAAATTCT+TGG | 0.343549 | 4.1:-16671715 | MS.gene34943:CDS |
| TGTACTCAACAACCTCAAAT+AGG | 0.360635 | 4.1:+16671214 | None:intergenic |
| GGACCTACCAATATTTCTTC+TGG | 0.380270 | 4.1:-16670601 | MS.gene34943:CDS |
| TATGATACCAGAAGAAATAT+TGG | 0.384599 | 4.1:+16670594 | None:intergenic |
| ATTAATTTGGTTCCTATTTG+AGG | 0.387542 | 4.1:-16671226 | MS.gene34943:CDS |
| GAAATTCTTGGTGGAGGAAA+AGG | 0.413815 | 4.1:-16671703 | MS.gene34943:intron |
| TAGTGGCTGATGTGTTGTTA+TGG | 0.416856 | 4.1:-16671290 | MS.gene34943:CDS |
| CACTTGCAGATATCTTGAAA+TGG | 0.455203 | 4.1:-16671128 | MS.gene34943:intron |
| GGACAATGAAAGCAAGCTCT+TGG | 0.461016 | 4.1:+16670676 | None:intergenic |
| TATCACAAGCATTGTGGTGA+TGG | 0.477503 | 4.1:+16671164 | None:intergenic |
| CAATGCTTGTGATATACCTA+TGG | 0.488547 | 4.1:-16671155 | MS.gene34943:CDS |
| CCACCAAGAATTTCATGAAG+TGG | 0.510908 | 4.1:+16671712 | None:intergenic |
| CCACTTCATGAAATTCTTGG+TGG | 0.515383 | 4.1:-16671712 | MS.gene34943:CDS |
| GTAATTGGTTCAATCTTCTG+TGG | 0.519552 | 4.1:+16670655 | None:intergenic |
| CTTCATGAAATTCTTGGTGG+AGG | 0.540204 | 4.1:-16671709 | MS.gene34943:CDS |
| TGGCTGATGTGTTGTTATGG+AGG | 0.568189 | 4.1:-16671287 | MS.gene34943:CDS |
| GGCTGATGTGTTGTTATGGA+GGG | 0.580296 | 4.1:-16671286 | MS.gene34943:CDS |
| ATTAGAGTCCAATAAAGTGT+TGG | 0.588796 | 4.1:+16670559 | None:intergenic |
| TATCTGCAAGTGTAGACCAT+AGG | 0.602747 | 4.1:+16671139 | None:intergenic |
| AATTTCATCATCAGAATCAG+AGG | 0.612944 | 4.1:+16671771 | None:intergenic |
| ATACCAGAAGAAATATTGGT+AGG | 0.628139 | 4.1:+16670598 | None:intergenic |
| ATGTTCCTTCACATATCGTG+TGG | 0.630823 | 4.1:-16670627 | MS.gene34943:CDS |
| CCTTCACATATCGTGTGGAA+CGG | 0.638584 | 4.1:-16670622 | MS.gene34943:CDS |
| CCGTTCCACACGATATGTGA+AGG | 0.648767 | 4.1:+16670622 | None:intergenic |
| TAGGTATATCACAAGCATTG+TGG | 0.704281 | 4.1:+16671158 | None:intergenic |
| AAAACAGTTTCTAGGAACTG+CGG | 0.706304 | 4.1:+16670714 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAATTTAAAAATGTCATT+TGG | + | chr4.1:16671565-16671584 | None:intergenic | 10.0% |
| !! | AGTTACAATTTAAGAATTTA+AGG | + | chr4.1:16670849-16670868 | None:intergenic | 15.0% |
| !! | TTATTAATTCACAATTATGA+GGG | + | chr4.1:16671265-16671284 | None:intergenic | 15.0% |
| !! | TTTATTAATTCACAATTATG+AGG | + | chr4.1:16671266-16671285 | None:intergenic | 15.0% |
| !!! | TAAATTTTATATTTCAGGAA+TGG | - | chr4.1:16671612-16671631 | MS.gene34943:intron | 15.0% |
| !!! | TGATTTTATTTTTGTGTATA+TGG | + | chr4.1:16670822-16670841 | None:intergenic | 15.0% |
| !! | ATGAATTGTTCATAATGATT+TGG | - | chr4.1:16671025-16671044 | MS.gene34943:intron | 20.0% |
| !! | CCTGAAATATAAAATTTAAC+AGG | + | chr4.1:16671610-16671629 | None:intergenic | 20.0% |
| !! | GTGAATTAATAAAATGTTTG+AGG | - | chr4.1:16671273-16671292 | MS.gene34943:CDS | 20.0% |
| !! | TAAACTAATTAGAATGATAG+TGG | - | chr4.1:16671514-16671533 | MS.gene34943:intron | 20.0% |
| !! | TTAAATTGTAACTTACTCTA+TGG | - | chr4.1:16670856-16670875 | MS.gene34943:intron | 20.0% |
| !!! | ATATGTAACAGCTTTTATTA+AGG | - | chr4.1:16671472-16671491 | MS.gene34943:intron | 20.0% |
| !!! | CCTGTTAAATTTTATATTTC+AGG | - | chr4.1:16671607-16671626 | MS.gene34943:intron | 20.0% |
| ! | ATTCTTGTAAAACAGTTTCT+AGG | + | chr4.1:16671647-16671666 | None:intergenic | 25.0% |
| ! | GGAAAATGAAAGTTAACAAA+AGG | - | chr4.1:16670761-16670780 | MS.gene34943:intron | 25.0% |
| ! | TATGATACCAGAAGAAATAT+TGG | + | chr4.1:16671759-16671778 | None:intergenic | 25.0% |
| ! | TATTGAGGCAAATAAGATAA+TGG | + | chr4.1:16671395-16671414 | None:intergenic | 25.0% |
| !! | ATTAATTTGGTTCCTATTTG+AGG | - | chr4.1:16671124-16671143 | MS.gene34943:intron | 25.0% |
| !!! | AAAATGTCATTTGGTTTGTA+AGG | + | chr4.1:16671556-16671575 | None:intergenic | 25.0% |
| !!! | TTCATGCTATTTTTGTTTGT+GGG | + | chr4.1:16670741-16670760 | None:intergenic | 25.0% |
| AATTTCATCATCAGAATCAG+AGG | + | chr4.1:16670582-16670601 | None:intergenic | 30.0% | |
| ATACCAGAAGAAATATTGGT+AGG | + | chr4.1:16671755-16671774 | None:intergenic | 30.0% | |
| ATTTGTTCTGGCAAAATACA+AGG | + | chr4.1:16670905-16670924 | None:intergenic | 30.0% | |
| CACAAACAAAAATAGCATGA+AGG | - | chr4.1:16670740-16670759 | MS.gene34943:intron | 30.0% | |
| CACAAATACCAACACTTTAT+TGG | - | chr4.1:16671783-16671802 | MS.gene34943:CDS | 30.0% | |
| GAAGGAACATTCTTAGTAAT+TGG | + | chr4.1:16671713-16671732 | None:intergenic | 30.0% | |
| GTGTTCAAAATGACTTATTG+AGG | + | chr4.1:16671410-16671429 | None:intergenic | 30.0% | |
| TGCTTGGGATAACATTAATT+TGG | - | chr4.1:16671111-16671130 | MS.gene34943:intron | 30.0% | |
| TTTAACAGGCAAAGAAAATG+TGG | + | chr4.1:16671596-16671615 | None:intergenic | 30.0% | |
| TTTGTTCTGGCAAAATACAA+GGG | + | chr4.1:16670904-16670923 | None:intergenic | 30.0% | |
| ! | CAAATAAGATAATGGTAGGA+TGG | + | chr4.1:16671387-16671406 | None:intergenic | 30.0% |
| ! | TATTTTGCCAGAACAAATGA+AGG | - | chr4.1:16670907-16670926 | MS.gene34943:intron | 30.0% |
| ! | TCTGATTCTGATGATGAAAT+TGG | - | chr4.1:16670581-16670600 | MS.gene34943:CDS | 30.0% |
| !! | TTTGGTTGATAAATGTGTAG+TGG | - | chr4.1:16671043-16671062 | MS.gene34943:intron | 30.0% |
| !!! | CTTCATGCTATTTTTGTTTG+TGG | + | chr4.1:16670742-16670761 | None:intergenic | 30.0% |
| !!! | TCATGCTATTTTTGTTTGTG+GGG | + | chr4.1:16670740-16670759 | None:intergenic | 30.0% |
| AAGCCACTTCATGAAATTCT+TGG | - | chr4.1:16670635-16670654 | MS.gene34943:CDS | 35.0% | |
| ACATGAGCTGATAACTTTGA+AGG | - | chr4.1:16671428-16671447 | MS.gene34943:intron | 35.0% | |
| CAATGCTTGTGATATACCTA+TGG | - | chr4.1:16671195-16671214 | MS.gene34943:CDS | 35.0% | |
| CACTTGCAGATATCTTGAAA+TGG | - | chr4.1:16671222-16671241 | MS.gene34943:CDS | 35.0% | |
| GTAAGAGAAAGTGACAAAGA+TGG | + | chr4.1:16670677-16670696 | None:intergenic | 35.0% | |
| TGTACTCAACAACCTCAAAT+AGG | + | chr4.1:16671139-16671158 | None:intergenic | 35.0% | |
| TTATAGTCCGGACTCAATTA+AGG | - | chr4.1:16671339-16671358 | MS.gene34943:intron | 35.0% | |
| ! | AAAACAGTTTCTAGGAACTG+CGG | + | chr4.1:16671639-16671658 | None:intergenic | 35.0% |
| ! | GAGGCAAATAAGATAATGGT+AGG | + | chr4.1:16671391-16671410 | None:intergenic | 35.0% |
| ! | GTAATTGGTTCAATCTTCTG+TGG | + | chr4.1:16671698-16671717 | None:intergenic | 35.0% |
| ! | TAGGTATATCACAAGCATTG+TGG | + | chr4.1:16671195-16671214 | None:intergenic | 35.0% |
| ! | TCCGGACTATAAGTACTTTT+TGG | + | chr4.1:16671331-16671350 | None:intergenic | 35.0% |
| !! | GCCAAAAAGTACTTATAGTC+CGG | - | chr4.1:16671327-16671346 | MS.gene34943:intron | 35.0% |
| AGTGAGTCCTTAATTGAGTC+CGG | + | chr4.1:16671349-16671368 | None:intergenic | 40.0% | |
| ATGTTCCTTCACATATCGTG+TGG | - | chr4.1:16671723-16671742 | MS.gene34943:CDS | 40.0% | |
| CCACCAAGAATTTCATGAAG+TGG | + | chr4.1:16670641-16670660 | None:intergenic | 40.0% | |
| CCACTTCATGAAATTCTTGG+TGG | - | chr4.1:16670638-16670657 | MS.gene34943:CDS | 40.0% | |
| CCTAACACCTTCATTTGTTC+TGG | + | chr4.1:16670917-16670936 | None:intergenic | 40.0% | |
| CTTCATGAAATTCTTGGTGG+AGG | - | chr4.1:16670641-16670660 | MS.gene34943:CDS | 40.0% | |
| GAAATTCTTGGTGGAGGAAA+AGG | - | chr4.1:16670647-16670666 | MS.gene34943:CDS | 40.0% | |
| GCAACATATATGCATGCTAG+TGG | + | chr4.1:16671309-16671328 | None:intergenic | 40.0% | |
| GGACCTACCAATATTTCTTC+TGG | - | chr4.1:16671749-16671768 | MS.gene34943:CDS | 40.0% | |
| TATCTGCAAGTGTAGACCAT+AGG | + | chr4.1:16671214-16671233 | None:intergenic | 40.0% | |
| ! | TAGTGGCTGATGTGTTGTTA+TGG | - | chr4.1:16671060-16671079 | MS.gene34943:intron | 40.0% |
| ! | TATCACAAGCATTGTGGTGA+TGG | + | chr4.1:16671189-16671208 | None:intergenic | 40.0% |
| ! | TATCAGCTGCGTTTTTGCTT+GGG | - | chr4.1:16671096-16671115 | MS.gene34943:intron | 40.0% |
| ! | TCATGAAGTGGCTTTTCATG+TGG | + | chr4.1:16670629-16670648 | None:intergenic | 40.0% |
| !! | CCAGAACAAATGAAGGTGTT+AGG | - | chr4.1:16670914-16670933 | MS.gene34943:intron | 40.0% |
| CCTTCACATATCGTGTGGAA+CGG | - | chr4.1:16671728-16671747 | MS.gene34943:CDS | 45.0% | |
| GGACAATGAAAGCAAGCTCT+TGG | + | chr4.1:16671677-16671696 | None:intergenic | 45.0% | |
| ! | GGCTGATGTGTTGTTATGGA+GGG | - | chr4.1:16671064-16671083 | MS.gene34943:intron | 45.0% |
| ! | GTATCAGCTGCGTTTTTGCT+TGG | - | chr4.1:16671095-16671114 | MS.gene34943:intron | 45.0% |
| ! | TGGCTGATGTGTTGTTATGG+AGG | - | chr4.1:16671063-16671082 | MS.gene34943:intron | 45.0% |
| !!! | ATTTTATTTATTATTTGATT+TGG | - | chr4.1:16670697-16670716 | MS.gene34943:CDS | 5.0% |
| CCGTTCCACACGATATGTGA+AGG | + | chr4.1:16671731-16671750 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 16670560 | 16671812 | 16670560 | ID=MS.gene34943 |
| chr4.1 | mRNA | 16670560 | 16671812 | 16670560 | ID=MS.gene34943.t1;Parent=MS.gene34943 |
| chr4.1 | exon | 16671704 | 16671812 | 16671704 | ID=MS.gene34943.t1.exon1;Parent=MS.gene34943.t1 |
| chr4.1 | CDS | 16671704 | 16671812 | 16671704 | ID=cds.MS.gene34943.t1;Parent=MS.gene34943.t1 |
| chr4.1 | exon | 16671129 | 16671309 | 16671129 | ID=MS.gene34943.t1.exon2;Parent=MS.gene34943.t1 |
| chr4.1 | CDS | 16671129 | 16671309 | 16671129 | ID=cds.MS.gene34943.t1;Parent=MS.gene34943.t1 |
| chr4.1 | exon | 16670560 | 16670743 | 16670560 | ID=MS.gene34943.t1.exon3;Parent=MS.gene34943.t1 |
| chr4.1 | CDS | 16670560 | 16670743 | 16670560 | ID=cds.MS.gene34943.t1;Parent=MS.gene34943.t1 |
| Gene Sequence |
| Protein sequence |
