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.gene08330.t1 | RHN42365.1 | 96.6 | 146 | 5 | 0 | 1 | 146 | 1 | 146 | 1.10E-71 | 279.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08330.t1 | Q9LJQ5 | 47.6 | 143 | 72 | 2 | 6 | 146 | 7 | 148 | 5.0e-33 | 142.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08330.t1 | A0A396GU97 | 96.6 | 146 | 5 | 0 | 1 | 146 | 1 | 146 | 7.9e-72 | 279.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene22220 | MS.gene08330 | PPI |
| MS.gene08330 | MS.gene038238 | PPI |
| MS.gene08330 | MS.gene019156 | PPI |
| MS.gene46954 | MS.gene08330 | PPI |
| MS.gene08330 | MS.gene47993 | PPI |
| MS.gene08330 | MS.gene47676 | PPI |
| MS.gene017030 | MS.gene08330 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08330.t1 | MTR_1g109630 | 45.378 | 119 | 61 | 1 | 26 | 144 | 13 | 127 | 8.20e-34 | 118 |
| MS.gene08330.t1 | MTR_3g449880 | 37.956 | 137 | 85 | 0 | 9 | 145 | 31 | 167 | 1.11e-30 | 110 |
| MS.gene08330.t1 | MTR_8g099060 | 36.800 | 125 | 79 | 0 | 21 | 145 | 58 | 182 | 4.06e-25 | 97.1 |
| MS.gene08330.t1 | MTR_1g099500 | 31.944 | 144 | 96 | 1 | 4 | 145 | 32 | 175 | 1.71e-24 | 95.1 |
| MS.gene08330.t1 | MTR_5g090340 | 41.732 | 127 | 72 | 1 | 21 | 145 | 87 | 213 | 4.53e-24 | 94.7 |
| MS.gene08330.t1 | MTR_5g090340 | 41.732 | 127 | 72 | 1 | 21 | 145 | 90 | 216 | 4.56e-24 | 94.7 |
| MS.gene08330.t1 | MTR_8g028450 | 37.008 | 127 | 80 | 0 | 21 | 147 | 62 | 188 | 6.53e-24 | 94.0 |
| MS.gene08330.t1 | MTR_3g062910 | 28.302 | 159 | 98 | 2 | 3 | 147 | 17 | 173 | 8.65e-23 | 90.5 |
| MS.gene08330.t1 | MTR_3g449880 | 37.963 | 108 | 67 | 0 | 38 | 145 | 38 | 145 | 9.18e-21 | 84.7 |
| MS.gene08330.t1 | MTR_4g014700 | 30.303 | 132 | 92 | 0 | 17 | 148 | 3 | 134 | 5.09e-13 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08330.t1 | AT3G18260 | 47.222 | 144 | 73 | 2 | 5 | 146 | 6 | 148 | 1.47e-45 | 148 |
| MS.gene08330.t1 | AT2G46170 | 40.714 | 140 | 83 | 0 | 9 | 148 | 40 | 179 | 7.00e-31 | 110 |
| MS.gene08330.t1 | AT2G46170 | 41.007 | 139 | 82 | 0 | 7 | 145 | 38 | 176 | 4.57e-30 | 109 |
| MS.gene08330.t1 | AT3G10260 | 32.168 | 143 | 97 | 0 | 3 | 145 | 27 | 169 | 4.41e-27 | 102 |
| MS.gene08330.t1 | AT3G10260 | 32.168 | 143 | 97 | 0 | 3 | 145 | 27 | 169 | 4.41e-27 | 102 |
| MS.gene08330.t1 | AT3G10260 | 32.168 | 143 | 97 | 0 | 3 | 145 | 47 | 189 | 6.95e-27 | 101 |
| MS.gene08330.t1 | AT4G11220 | 34.959 | 123 | 80 | 0 | 21 | 143 | 69 | 191 | 1.60e-25 | 98.2 |
| MS.gene08330.t1 | AT3G61560 | 38.583 | 127 | 78 | 0 | 21 | 147 | 52 | 178 | 9.64e-25 | 94.7 |
| MS.gene08330.t1 | AT4G23630 | 34.400 | 125 | 82 | 0 | 21 | 145 | 73 | 197 | 1.18e-24 | 96.3 |
| MS.gene08330.t1 | AT4G23630 | 34.400 | 125 | 82 | 0 | 21 | 145 | 73 | 197 | 1.18e-24 | 96.3 |
| MS.gene08330.t1 | AT1G64090 | 38.400 | 125 | 77 | 0 | 21 | 145 | 48 | 172 | 1.25e-24 | 95.5 |
| MS.gene08330.t1 | AT3G61560 | 38.583 | 127 | 78 | 0 | 21 | 147 | 52 | 178 | 1.78e-24 | 95.1 |
| MS.gene08330.t1 | AT3G61560 | 38.583 | 127 | 78 | 0 | 21 | 147 | 52 | 178 | 1.78e-24 | 95.1 |
| MS.gene08330.t1 | AT5G41600 | 35.200 | 125 | 81 | 0 | 21 | 145 | 52 | 176 | 3.59e-24 | 94.4 |
| MS.gene08330.t1 | AT1G64090 | 34.043 | 141 | 77 | 1 | 21 | 145 | 48 | 188 | 5.42e-21 | 86.3 |
| MS.gene08330.t1 | AT1G68230 | 30.370 | 135 | 88 | 2 | 13 | 145 | 7 | 137 | 4.93e-14 | 65.9 |
| MS.gene08330.t1 | AT1G68230 | 29.630 | 135 | 89 | 2 | 13 | 145 | 7 | 137 | 8.65e-14 | 66.2 |
| MS.gene08330.t1 | AT4G01230 | 42.857 | 84 | 48 | 0 | 7 | 90 | 40 | 123 | 2.83e-13 | 65.5 |
| MS.gene08330.t1 | AT3G54120 | 31.579 | 133 | 91 | 0 | 14 | 146 | 1 | 133 | 3.66e-13 | 64.3 |
| MS.gene08330.t1 | AT3G19460 | 30.579 | 121 | 83 | 1 | 29 | 149 | 14 | 133 | 7.04e-13 | 63.9 |
| MS.gene08330.t1 | AT3G19460 | 30.579 | 121 | 83 | 1 | 29 | 149 | 14 | 133 | 7.04e-13 | 63.9 |
| MS.gene08330.t1 | AT3G19460 | 31.034 | 116 | 79 | 1 | 29 | 144 | 14 | 128 | 2.72e-12 | 62.0 |
| MS.gene08330.t1 | AT3G19460 | 31.034 | 116 | 79 | 1 | 29 | 144 | 14 | 128 | 2.72e-12 | 62.0 |
| MS.gene08330.t1 | AT3G19460 | 31.034 | 116 | 79 | 1 | 29 | 144 | 14 | 128 | 2.72e-12 | 62.0 |
Find 29 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTTGGGATAACATTAATT+TGG | 0.217906 | 4.1:-16779540 | MS.gene08330:CDS |
| ATTCTTGTAAAACAGTTTCT+AGG | 0.234459 | 4.1:+16779007 | None:intergenic |
| GAAGGAACATTCTTAGTAAT+TGG | 0.237845 | 4.1:+16778941 | None:intergenic |
| TCTGATTCTGATGATGAAAT+TGG | 0.270683 | 4.1:-16780070 | MS.gene08330:CDS |
| AAGCCACTTCATGAAATTCT+TGG | 0.343549 | 4.1:-16780016 | MS.gene08330:CDS |
| TGTACTCAACAACCTCAAAT+AGG | 0.360635 | 4.1:+16779515 | None:intergenic |
| GGACCTACCAATATTTCTTC+TGG | 0.380270 | 4.1:-16778902 | MS.gene08330:CDS |
| TATGATACCAGAAGAAATAT+TGG | 0.384599 | 4.1:+16778895 | None:intergenic |
| ATTAATTTGGTTCCTATTTG+AGG | 0.387542 | 4.1:-16779527 | MS.gene08330:CDS |
| GAAATTCTTGGTGGAGGAAA+AGG | 0.413815 | 4.1:-16780004 | MS.gene08330:intron |
| TAGTGGCTGATGTGTTGTTA+TGG | 0.416856 | 4.1:-16779591 | MS.gene08330:CDS |
| CACTTGCAGATATCTTGAAA+TGG | 0.455203 | 4.1:-16779429 | MS.gene08330:intron |
| GGACAATGAAAGCAAGCTCT+TGG | 0.461016 | 4.1:+16778977 | None:intergenic |
| TATCACAAGCATTGTGGTGA+TGG | 0.477503 | 4.1:+16779465 | None:intergenic |
| CAATGCTTGTGATATACCTA+TGG | 0.488547 | 4.1:-16779456 | MS.gene08330:CDS |
| CCACCAAGAATTTCATGAAG+TGG | 0.510908 | 4.1:+16780013 | None:intergenic |
| CCACTTCATGAAATTCTTGG+TGG | 0.515383 | 4.1:-16780013 | MS.gene08330:CDS |
| GTAATTGGTTCAATCTTCTG+TGG | 0.519552 | 4.1:+16778956 | None:intergenic |
| CTTCATGAAATTCTTGGTGG+AGG | 0.540204 | 4.1:-16780010 | MS.gene08330:CDS |
| TGGCTGATGTGTTGTTATGG+AGG | 0.568189 | 4.1:-16779588 | MS.gene08330:CDS |
| GGCTGATGTGTTGTTATGGA+GGG | 0.580296 | 4.1:-16779587 | MS.gene08330:CDS |
| TATCTGCAAGTGTAGACCAT+AGG | 0.602747 | 4.1:+16779440 | None:intergenic |
| AATTTCATCATCAGAATCAG+AGG | 0.612944 | 4.1:+16780072 | None:intergenic |
| ATACCAGAAGAAATATTGGT+AGG | 0.628139 | 4.1:+16778899 | None:intergenic |
| ATGTTCCTTCACATATCGTG+TGG | 0.630823 | 4.1:-16778928 | MS.gene08330:CDS |
| CCTTCACATATCGTGTGGAA+CGG | 0.638584 | 4.1:-16778923 | MS.gene08330:CDS |
| CCGTTCCACACGATATGTGA+AGG | 0.648767 | 4.1:+16778923 | None:intergenic |
| AAAACAGTTTCTAGGAACTG+CGG | 0.676491 | 4.1:+16779015 | None:intergenic |
| TAGGTATATCACAAGCATTG+TGG | 0.704281 | 4.1:+16779459 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAATTTAAAAATGTCATT+TGG | + | chr4.1:16779884-16779903 | None:intergenic | 10.0% |
| !! | AGTTACAATTTAAGAATTTA+AGG | + | chr4.1:16779168-16779187 | None:intergenic | 15.0% |
| !! | TTATTAATTCACAATTATGA+GGG | + | chr4.1:16779584-16779603 | None:intergenic | 15.0% |
| !! | TTTATTAATTCACAATTATG+AGG | + | chr4.1:16779585-16779604 | None:intergenic | 15.0% |
| !!! | TGATTTTATTTTTGTGTATA+TGG | + | chr4.1:16779141-16779160 | None:intergenic | 15.0% |
| !! | ATGAATTGTTCATAATGATT+TGG | - | chr4.1:16779344-16779363 | MS.gene08330:intron | 20.0% |
| !! | CCTGAAAAATAAAATTTAAC+AGG | + | chr4.1:16779929-16779948 | None:intergenic | 20.0% |
| !! | GTGAATTAATAAAATGTTTG+AGG | - | chr4.1:16779592-16779611 | MS.gene08330:intron | 20.0% |
| !! | TAAACTAATTAGAATGATAG+TGG | - | chr4.1:16779833-16779852 | MS.gene08330:intron | 20.0% |
| !! | TTAAATTGTAACTTACTCTA+TGG | - | chr4.1:16779175-16779194 | MS.gene08330:intron | 20.0% |
| !!! | ATATGTAACAGCTTTTATTA+AGG | - | chr4.1:16779791-16779810 | MS.gene08330:intron | 20.0% |
| !!! | CCTGTTAAATTTTATTTTTC+AGG | - | chr4.1:16779926-16779945 | MS.gene08330:intron | 20.0% |
| !!! | CTATCATTCTAATTAGTTTA+TGG | + | chr4.1:16779833-16779852 | None:intergenic | 20.0% |
| ! | ATTCTTGTAAAACAGTTTCT+AGG | + | chr4.1:16779966-16779985 | None:intergenic | 25.0% |
| ! | GGAAAATGAAAGTTAACAAA+AGG | - | chr4.1:16779080-16779099 | MS.gene08330:intron | 25.0% |
| ! | TATGATACCAGAAGAAATAT+TGG | + | chr4.1:16780078-16780097 | None:intergenic | 25.0% |
| ! | TATTGAGGCAAATAAGATAA+TGG | + | chr4.1:16779714-16779733 | None:intergenic | 25.0% |
| !! | ATTAATTTGGTTCCTATTTG+AGG | - | chr4.1:16779443-16779462 | MS.gene08330:CDS | 25.0% |
| !!! | AAAATGTCATTTGGTTTGTA+AGG | + | chr4.1:16779875-16779894 | None:intergenic | 25.0% |
| !!! | TTCATGCTATTTTTGTTTGT+GGG | + | chr4.1:16779060-16779079 | None:intergenic | 25.0% |
| AATTTCATCATCAGAATCAG+AGG | + | chr4.1:16778901-16778920 | None:intergenic | 30.0% | |
| ATACCAGAAGAAATATTGGT+AGG | + | chr4.1:16780074-16780093 | None:intergenic | 30.0% | |
| ATTTGTTCTGGCAAAATACA+AGG | + | chr4.1:16779224-16779243 | None:intergenic | 30.0% | |
| CACAAACAAAAATAGCATGA+AGG | - | chr4.1:16779059-16779078 | MS.gene08330:intron | 30.0% | |
| GAAGGAACATTCTTAGTAAT+TGG | + | chr4.1:16780032-16780051 | None:intergenic | 30.0% | |
| TGCTTGGGATAACATTAATT+TGG | - | chr4.1:16779430-16779449 | MS.gene08330:CDS | 30.0% | |
| TTTAACAGGCAAAGAAAATG+TGG | + | chr4.1:16779915-16779934 | None:intergenic | 30.0% | |
| TTTGTTCTGGCAAAATACAA+GGG | + | chr4.1:16779223-16779242 | None:intergenic | 30.0% | |
| ! | CAAATAAGATAATGGTAGGA+TGG | + | chr4.1:16779706-16779725 | None:intergenic | 30.0% |
| ! | TATTTTGCCAGAACAAATGA+AGG | - | chr4.1:16779226-16779245 | MS.gene08330:intron | 30.0% |
| ! | TCTGATTCTGATGATGAAAT+TGG | - | chr4.1:16778900-16778919 | MS.gene08330:CDS | 30.0% |
| !! | TTTGGTTGATAAATGTGTAG+TGG | - | chr4.1:16779362-16779381 | MS.gene08330:intron | 30.0% |
| !!! | CTTCATGCTATTTTTGTTTG+TGG | + | chr4.1:16779061-16779080 | None:intergenic | 30.0% |
| !!! | TCATGCTATTTTTGTTTGTG+GGG | + | chr4.1:16779059-16779078 | None:intergenic | 30.0% |
| AAGCCACTTCATGAAATTCT+TGG | - | chr4.1:16778954-16778973 | MS.gene08330:CDS | 35.0% | |
| ACATGAGCTGATAACTTTGA+AGG | - | chr4.1:16779747-16779766 | MS.gene08330:intron | 35.0% | |
| CAATGCTTGTGATATACCTA+TGG | - | chr4.1:16779514-16779533 | MS.gene08330:CDS | 35.0% | |
| CACTTGCAGATATCTTGAAA+TGG | - | chr4.1:16779541-16779560 | MS.gene08330:CDS | 35.0% | |
| GTAAGAGAAAGTGACAAAGA+TGG | + | chr4.1:16778996-16779015 | None:intergenic | 35.0% | |
| GTGTTCAACATGACTTATTG+AGG | + | chr4.1:16779729-16779748 | None:intergenic | 35.0% | |
| TGTACTCAACAACCTCAAAT+AGG | + | chr4.1:16779458-16779477 | None:intergenic | 35.0% | |
| TTATAGTCCGGACTCAATTA+AGG | - | chr4.1:16779658-16779677 | MS.gene08330:intron | 35.0% | |
| ! | AAAACAGTTTCTAGGAACTG+CGG | + | chr4.1:16779958-16779977 | None:intergenic | 35.0% |
| ! | GAGGCAAATAAGATAATGGT+AGG | + | chr4.1:16779710-16779729 | None:intergenic | 35.0% |
| ! | GTAATTGGTTCAATCTTCTG+TGG | + | chr4.1:16780017-16780036 | None:intergenic | 35.0% |
| ! | TAGGTATATCACAAGCATTG+TGG | + | chr4.1:16779514-16779533 | None:intergenic | 35.0% |
| ! | TCCGGACTATAAGTACTTTT+TGG | + | chr4.1:16779650-16779669 | None:intergenic | 35.0% |
| !! | GCCAAAAAGTACTTATAGTC+CGG | - | chr4.1:16779646-16779665 | MS.gene08330:intron | 35.0% |
| AGTGAGTCCTTAATTGAGTC+CGG | + | chr4.1:16779668-16779687 | None:intergenic | 40.0% | |
| ATGTTCCTTCACATATCGTG+TGG | - | chr4.1:16780042-16780061 | MS.gene08330:CDS | 40.0% | |
| CCACCAAGAATTTCATGAAG+TGG | + | chr4.1:16778960-16778979 | None:intergenic | 40.0% | |
| CCACTTCATGAAATTCTTGG+TGG | - | chr4.1:16778957-16778976 | MS.gene08330:CDS | 40.0% | |
| CCTAACACCTTCATTTGTTC+TGG | + | chr4.1:16779236-16779255 | None:intergenic | 40.0% | |
| CTTCATGAAATTCTTGGTGG+AGG | - | chr4.1:16778960-16778979 | MS.gene08330:CDS | 40.0% | |
| GAAATTCTTGGTGGAGGAAA+AGG | - | chr4.1:16778966-16778985 | MS.gene08330:CDS | 40.0% | |
| GCAACATATATGCATGCTAG+TGG | + | chr4.1:16779628-16779647 | None:intergenic | 40.0% | |
| GGACCTACCAATATTTCTTC+TGG | - | chr4.1:16780068-16780087 | MS.gene08330:CDS | 40.0% | |
| TATCTGCAAGTGTAGACCAT+AGG | + | chr4.1:16779533-16779552 | None:intergenic | 40.0% | |
| ! | TAGTGGCTGATGTGTTGTTA+TGG | - | chr4.1:16779379-16779398 | MS.gene08330:intron | 40.0% |
| ! | TATCACAAGCATTGTGGTGA+TGG | + | chr4.1:16779508-16779527 | None:intergenic | 40.0% |
| ! | TATCAGCTGCGTTTTTGCTT+GGG | - | chr4.1:16779415-16779434 | MS.gene08330:intron | 40.0% |
| ! | TCATGAAGTGGCTTTTCATG+TGG | + | chr4.1:16778948-16778967 | None:intergenic | 40.0% |
| !! | CCAGAACAAATGAAGGTGTT+AGG | - | chr4.1:16779233-16779252 | MS.gene08330:intron | 40.0% |
| CCTTCACATATCGTGTGGAA+CGG | - | chr4.1:16780047-16780066 | MS.gene08330:CDS | 45.0% | |
| GGACAATGAAAGCAAGCTCT+TGG | + | chr4.1:16779996-16780015 | None:intergenic | 45.0% | |
| ! | GGCTGATGTGTTGTTATGGA+GGG | - | chr4.1:16779383-16779402 | MS.gene08330:intron | 45.0% |
| ! | GTATCAGCTGCGTTTTTGCT+TGG | - | chr4.1:16779414-16779433 | MS.gene08330:intron | 45.0% |
| ! | TGGCTGATGTGTTGTTATGG+AGG | - | chr4.1:16779382-16779401 | MS.gene08330:intron | 45.0% |
| !!! | ATTTTATTTATTATTTGATT+TGG | - | chr4.1:16779016-16779035 | MS.gene08330:CDS | 5.0% |
| CCGTTCCACACGATATGTGA+AGG | + | chr4.1:16780050-16780069 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 16778879 | 16780113 | 16778879 | ID=MS.gene08330 |
| chr4.1 | mRNA | 16778879 | 16780113 | 16778879 | ID=MS.gene08330.t1;Parent=MS.gene08330 |
| chr4.1 | exon | 16780005 | 16780113 | 16780005 | ID=MS.gene08330.t1.exon1;Parent=MS.gene08330.t1 |
| chr4.1 | CDS | 16780005 | 16780113 | 16780005 | ID=cds.MS.gene08330.t1;Parent=MS.gene08330.t1 |
| chr4.1 | exon | 16779430 | 16779610 | 16779430 | ID=MS.gene08330.t1.exon2;Parent=MS.gene08330.t1 |
| chr4.1 | CDS | 16779430 | 16779610 | 16779430 | ID=cds.MS.gene08330.t1;Parent=MS.gene08330.t1 |
| chr4.1 | exon | 16778879 | 16779044 | 16778879 | ID=MS.gene08330.t1.exon3;Parent=MS.gene08330.t1 |
| chr4.1 | CDS | 16778879 | 16779044 | 16778879 | ID=cds.MS.gene08330.t1;Parent=MS.gene08330.t1 |
| Gene Sequence |
| Protein sequence |
