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.gene01201.t1 | XP_003593250.1 | 99.1 | 112 | 1 | 0 | 1 | 112 | 1 | 112 | 5.40E-60 | 240 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene01201.t1 | O04287 | 89.3 | 112 | 12 | 0 | 1 | 112 | 1 | 112 | 2.2e-57 | 222.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene01201.t1 | B7FFD7 | 99.1 | 112 | 1 | 0 | 1 | 112 | 1 | 112 | 3.9e-60 | 240.0 |
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.gene21928 | MS.gene01201 | PPI |
| MS.gene22270 | MS.gene01201 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene01201.t1 | MTR_2g009390 | 99.107 | 112 | 1 | 0 | 1 | 112 | 1 | 112 | 2.57e-79 | 228 |
| MS.gene01201.t1 | MTR_8g080980 | 45.455 | 110 | 54 | 4 | 2 | 110 | 38 | 142 | 1.05e-19 | 83.2 |
| MS.gene01201.t1 | MTR_8g080980 | 36.036 | 111 | 65 | 3 | 3 | 110 | 272 | 379 | 6.62e-14 | 66.6 |
| MS.gene01201.t1 | MTR_5g080300 | 40.000 | 110 | 63 | 3 | 2 | 110 | 12 | 119 | 1.25e-19 | 79.7 |
| MS.gene01201.t1 | MTR_8g038785 | 41.905 | 105 | 50 | 3 | 11 | 111 | 180 | 277 | 5.74e-18 | 78.2 |
| MS.gene01201.t1 | MTR_7g053470 | 45.263 | 95 | 47 | 3 | 16 | 110 | 49 | 138 | 3.39e-17 | 75.9 |
| MS.gene01201.t1 | MTR_8g012340 | 46.316 | 95 | 46 | 3 | 16 | 110 | 55 | 144 | 7.23e-17 | 75.1 |
| MS.gene01201.t1 | MTR_4g094785 | 36.364 | 110 | 56 | 4 | 11 | 110 | 133 | 238 | 3.46e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene01201.t1 | AT5G64350 | 85.714 | 112 | 16 | 0 | 1 | 112 | 1 | 112 | 1.32e-70 | 206 |
| MS.gene01201.t1 | AT3G55520 | 35.780 | 109 | 69 | 1 | 2 | 110 | 12 | 119 | 1.46e-17 | 74.3 |
| MS.gene01201.t1 | AT3G55520 | 35.780 | 109 | 69 | 1 | 2 | 110 | 12 | 119 | 1.46e-17 | 74.3 |
| MS.gene01201.t1 | AT3G55520 | 35.780 | 109 | 69 | 1 | 2 | 110 | 12 | 119 | 1.46e-17 | 74.3 |
| MS.gene01201.t1 | AT5G48570 | 40.000 | 110 | 60 | 4 | 2 | 110 | 47 | 151 | 9.66e-16 | 72.0 |
| MS.gene01201.t1 | AT3G25230 | 40.367 | 109 | 59 | 4 | 2 | 109 | 39 | 142 | 4.69e-15 | 70.1 |
| MS.gene01201.t1 | AT3G25230 | 40.367 | 109 | 59 | 4 | 2 | 109 | 39 | 142 | 6.03e-15 | 69.7 |
| MS.gene01201.t1 | AT4G25340 | 41.176 | 102 | 53 | 4 | 12 | 112 | 382 | 477 | 5.41e-14 | 67.0 |
| MS.gene01201.t1 | AT5G45680 | 40.367 | 109 | 51 | 4 | 11 | 109 | 101 | 205 | 4.06e-13 | 63.2 |
| MS.gene01201.t1 | AT5G05420 | 40.196 | 102 | 53 | 4 | 12 | 112 | 49 | 143 | 9.03e-13 | 60.8 |
Find 31 sgRNAs with CRISPR-Local
Find 81 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGCTAGTGGCTTTCCTGCTT+GGG | 0.208113 | 2.4:+73744115 | MS.gene01201:CDS |
| TGCTCTCCTGATTATGCTTA+TGG | 0.301017 | 2.4:+73744092 | MS.gene01201:CDS |
| GTGACCTTTCTCAGAAGTTC+TGG | 0.322760 | 2.4:+73742985 | MS.gene01201:CDS |
| TCGGAGAAGTTGCTCGTCTT+CGG | 0.329775 | 2.4:+73743512 | MS.gene01201:CDS |
| AATACAACCCAACTCTGTTT+TGG | 0.332199 | 2.4:+73744139 | MS.gene01201:CDS |
| GCGCTAGTGGCTTTCCTGCT+TGG | 0.337892 | 2.4:+73744114 | MS.gene01201:CDS |
| CGGAGAAGTTGCTCGTCTTC+GGG | 0.345948 | 2.4:+73743513 | MS.gene01201:CDS |
| AATCCATTCACTTTCAAAAT+CGG | 0.376739 | 2.4:+73743115 | MS.gene01201:CDS |
| GTTGGCTTAGGACCGTTTCC+AGG | 0.437240 | 2.4:-73742744 | None:intergenic |
| GAGAGTGTGCTCACCGTATC+CGG | 0.439075 | 2.4:-73742796 | None:intergenic |
| CTAGCGCCATAAGCATAATC+AGG | 0.449393 | 2.4:-73744098 | None:intergenic |
| TCAAACTCCAAAACAGAGTT+GGG | 0.461799 | 2.4:-73744146 | None:intergenic |
| CTCAAACTCCAAAACAGAGT+TGG | 0.473985 | 2.4:-73744147 | None:intergenic |
| GGTGTCATTGGCATGCAAAT+CGG | 0.478078 | 2.4:+73743493 | MS.gene01201:CDS |
| AAAGTGAATGGATTCTGGCC+AGG | 0.495829 | 2.4:-73743106 | None:intergenic |
| ACCTTTCTCAGAAGTTCTGG+AGG | 0.508162 | 2.4:+73742988 | MS.gene01201:CDS |
| CAAATCGTTCGACCTGGAAA+CGG | 0.515678 | 2.4:+73742732 | MS.gene01201:CDS |
| ACTGTCCACTGCACCGGATA+CGG | 0.518197 | 2.4:+73742783 | MS.gene01201:CDS |
| ACCTCCAGAACTTCTGAGAA+AGG | 0.525297 | 2.4:-73742989 | None:intergenic |
| TTCACTTTCAAAATCGGCAA+AGG | 0.528436 | 2.4:+73743121 | MS.gene01201:CDS |
| GGATGGGATGAAGGTGTCAT+TGG | 0.529844 | 2.4:+73743481 | MS.gene01201:intron |
| TATTACAGTACAAAAGATCC+TGG | 0.543772 | 2.4:+73743088 | MS.gene01201:intron |
| GATTATGCTTATGGCGCTAG+TGG | 0.545830 | 2.4:+73744101 | MS.gene01201:CDS |
| AACGGTCCTAAGCCAACTCC+TGG | 0.550713 | 2.4:+73742750 | MS.gene01201:CDS |
| AACGTCACTGTCCACTGCAC+CGG | 0.551030 | 2.4:+73742777 | MS.gene01201:CDS |
| TTGTGTGTAGGATGGGATGA+AGG | 0.556041 | 2.4:+73743472 | MS.gene01201:intron |
| TTGGGTTGTATTCCCCAAGC+AGG | 0.558631 | 2.4:-73744128 | None:intergenic |
| GCTAGTGGCTTTCCTGCTTG+GGG | 0.575669 | 2.4:+73744116 | MS.gene01201:CDS |
| GGCAAAGGTTCTGTCATCAA+AGG | 0.586910 | 2.4:+73743136 | MS.gene01201:CDS |
| GCTCACCGTATCCGGTGCAG+TGG | 0.598896 | 2.4:-73742788 | None:intergenic |
| GAGAAGCAAATCGTTCGACC+TGG | 0.621651 | 2.4:+73742726 | MS.gene01201:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTTAATTCAAATTATAAG+GGG | - | chr2.4:73742871-73742890 | None:intergenic | 10.0% |
| !! | ACAATATTAAAAACAAAAAA+TGG | - | chr2.4:73743046-73743065 | None:intergenic | 10.0% |
| !! | CTAATTTAATTCAAATTATA+AGG | - | chr2.4:73742873-73742892 | None:intergenic | 10.0% |
| !! | TAAAATGAAAGATAAGAAAT+GGG | - | chr2.4:73742844-73742863 | None:intergenic | 15.0% |
| !! | TTAAAATGAAAGATAAGAAA+TGG | - | chr2.4:73742845-73742864 | None:intergenic | 15.0% |
| !! | AAAATGAAAGATAAGAAATG+GGG | - | chr2.4:73742843-73742862 | None:intergenic | 20.0% |
| !! | AATGGAAATTCAACATATTA+AGG | - | chr2.4:73743858-73743877 | None:intergenic | 20.0% |
| !! | GTTGATACTTTGTTAAATAA+TGG | + | chr2.4:73744023-73744042 | MS.gene01201:intron | 20.0% |
| !!! | AGAGTTTTTTTTTACACTAT+CGG | + | chr2.4:73743185-73743204 | MS.gene01201:intron | 20.0% |
| !!! | TACTACTTTTACTTTATTTC+TGG | + | chr2.4:73743367-73743386 | MS.gene01201:intron | 20.0% |
| ! | AAACAAAAAATGGAATGACA+AGG | - | chr2.4:73743036-73743055 | None:intergenic | 25.0% |
| ! | AACAAAAAATGGAATGACAA+GGG | - | chr2.4:73743035-73743054 | None:intergenic | 25.0% |
| ! | AATCCATTCACTTTCAAAAT+CGG | + | chr2.4:73743115-73743134 | MS.gene01201:CDS | 25.0% |
| ! | ATTTCTATGGTAAGTGTTTA+TGG | + | chr2.4:73743796-73743815 | MS.gene01201:intron | 25.0% |
| !!! | AAATGGGGTTTTTAGTTTTA+GGG | - | chr2.4:73742828-73742847 | None:intergenic | 25.0% |
| !!! | TTATAACTTGTTACCACTTT+GGG | + | chr2.4:73743564-73743583 | MS.gene01201:intron | 25.0% |
| !!! | TTTATAACTTGTTACCACTT+TGG | + | chr2.4:73743563-73743582 | MS.gene01201:intron | 25.0% |
| CAACATATTAAGGTCATGTT+TGG | - | chr2.4:73743848-73743867 | None:intergenic | 30.0% | |
| CTTATACGTAAGCATTTCTA+TGG | + | chr2.4:73743783-73743802 | MS.gene01201:intron | 30.0% | |
| TATTACAGTACAAAAGATCC+TGG | + | chr2.4:73743088-73743107 | MS.gene01201:intron | 30.0% | |
| !! | TTTTGAAAGTGAATGGATTC+TGG | - | chr2.4:73743114-73743133 | None:intergenic | 30.0% |
| !!! | GAAATGGGGTTTTTAGTTTT+AGG | - | chr2.4:73742829-73742848 | None:intergenic | 30.0% |
| AGATCTACTCGTTCTTTGTT+TGG | + | chr2.4:73742891-73742910 | MS.gene01201:intron | 35.0% | |
| CAATGTACATTCAGATGTGT+TGG | + | chr2.4:73743413-73743432 | MS.gene01201:intron | 35.0% | |
| GTGAGTAAAACAAACAGCAA+TGG | - | chr2.4:73743876-73743895 | None:intergenic | 35.0% | |
| TATCAACAAGGTCAATGACA+GGG | - | chr2.4:73744063-73744082 | None:intergenic | 35.0% | |
| TCAAACTCCAAAACAGAGTT+GGG | - | chr2.4:73744149-73744168 | None:intergenic | 35.0% | |
| TTACACACTTGTGAGACTTT+AGG | - | chr2.4:73743277-73743296 | None:intergenic | 35.0% | |
| TTATCAACAAGGTCAATGAC+AGG | - | chr2.4:73744064-73744083 | None:intergenic | 35.0% | |
| TTCACTTTCAAAATCGGCAA+AGG | + | chr2.4:73743121-73743140 | MS.gene01201:CDS | 35.0% | |
| ! | AATACAACCCAACTCTGTTT+TGG | + | chr2.4:73744139-73744158 | MS.gene01201:CDS | 35.0% |
| ! | GTTTTACTCACACACATACA+AGG | + | chr2.4:73743885-73743904 | MS.gene01201:intron | 35.0% |
| ! | TATTGCGATGATGATGAACA+GGG | + | chr2.4:73742955-73742974 | MS.gene01201:intron | 35.0% |
| ! | TGATGATGAACAGGGAAAAA+CGG | + | chr2.4:73742963-73742982 | MS.gene01201:intron | 35.0% |
| ! | TTATTGCGATGATGATGAAC+AGG | + | chr2.4:73742954-73742973 | MS.gene01201:intron | 35.0% |
| !!! | TGTTTTGGAGTTTGAGATTG+AGG | + | chr2.4:73744154-73744173 | MS.gene01201:CDS | 35.0% |
| !!! | TTGCCGATTTTGAAAGTGAA+TGG | - | chr2.4:73743121-73743140 | None:intergenic | 35.0% |
| ACTATCTGTTGTGTGTAGGA+TGG | + | chr2.4:73743464-73743483 | MS.gene01201:intron | 40.0% | |
| CAATTCAATCAAGCCCAAAG+TGG | - | chr2.4:73743580-73743599 | None:intergenic | 40.0% | |
| CACTTTGGGCTTGATTGAAT+TGG | + | chr2.4:73743578-73743597 | MS.gene01201:intron | 40.0% | |
| CTATCTGTTGTGTGTAGGAT+GGG | + | chr2.4:73743465-73743484 | MS.gene01201:intron | 40.0% | |
| CTCAAACTCCAAAACAGAGT+TGG | - | chr2.4:73744150-73744169 | None:intergenic | 40.0% | |
| GCACTGCAAGATTATCAACA+AGG | - | chr2.4:73744075-73744094 | None:intergenic | 40.0% | |
| TCCAACTATCTGTTGTGTGT+AGG | + | chr2.4:73743460-73743479 | MS.gene01201:intron | 40.0% | |
| TCCTACACACAACAGATAGT+TGG | - | chr2.4:73743464-73743483 | None:intergenic | 40.0% | |
| TGCTCTCCTGATTATGCTTA+TGG | + | chr2.4:73744092-73744111 | MS.gene01201:CDS | 40.0% | |
| !! | CTTGTGAGACTTTAGGACTT+AGG | - | chr2.4:73743270-73743289 | None:intergenic | 40.0% |
| ATACACGCGACTCGATTAAG+TGG | - | chr2.4:73743918-73743937 | None:intergenic | 45.0% | |
| CAAATCGTTCGACCTGGAAA+CGG | + | chr2.4:73742732-73742751 | MS.gene01201:CDS | 45.0% | |
| CTAGCGCCATAAGCATAATC+AGG | - | chr2.4:73744101-73744120 | None:intergenic | 45.0% | |
| GATTATGCTTATGGCGCTAG+TGG | + | chr2.4:73744101-73744120 | MS.gene01201:CDS | 45.0% | |
| GGCAAAGGTTCTGTCATCAA+AGG | + | chr2.4:73743136-73743155 | MS.gene01201:CDS | 45.0% | |
| GTGACCTTTCTCAGAAGTTC+TGG | + | chr2.4:73742985-73743004 | MS.gene01201:CDS | 45.0% | |
| TTGTGTGTAGGATGGGATGA+AGG | + | chr2.4:73743472-73743491 | MS.gene01201:intron | 45.0% | |
| ! | AAAGTGAATGGATTCTGGCC+AGG | - | chr2.4:73743109-73743128 | None:intergenic | 45.0% |
| ! | ACCTCCAGAACTTCTGAGAA+AGG | - | chr2.4:73742992-73743011 | None:intergenic | 45.0% |
| ! | ACCTTTCTCAGAAGTTCTGG+AGG | + | chr2.4:73742988-73743007 | MS.gene01201:CDS | 45.0% |
| !! | GAGACTTTAGGACTTAGGAG+TGG | - | chr2.4:73743265-73743284 | None:intergenic | 45.0% |
| !! | GGTGTCATTGGCATGCAAAT+CGG | + | chr2.4:73743493-73743512 | MS.gene01201:CDS | 45.0% |
| !! | TTCTCAGAAGTTCTGGAGGT+TGG | + | chr2.4:73742992-73743011 | MS.gene01201:intron | 45.0% |
| !! | TTTTGACCAGGAGTTGGCTT+AGG | - | chr2.4:73742759-73742778 | None:intergenic | 45.0% |
| !! | TAATTTAATTCAAATTATAA+GGG | - | chr2.4:73742872-73742891 | None:intergenic | 5.0% |
| AAGGTCATGTTTGGATGCGC+AGG | - | chr2.4:73743839-73743858 | None:intergenic | 50.0% | |
| GAGAAGCAAATCGTTCGACC+TGG | + | chr2.4:73742726-73742745 | MS.gene01201:CDS | 50.0% | |
| TCGGAGAAGTTGCTCGTCTT+CGG | + | chr2.4:73743512-73743531 | MS.gene01201:CDS | 50.0% | |
| TGGATGCGCAGGTCAACTAA+GGG | - | chr2.4:73743828-73743847 | None:intergenic | 50.0% | |
| TTGGATGCGCAGGTCAACTA+AGG | - | chr2.4:73743829-73743848 | None:intergenic | 50.0% | |
| ! | TTGGGTTGTATTCCCCAAGC+AGG | - | chr2.4:73744131-73744150 | None:intergenic | 50.0% |
| !! | GGATGGGATGAAGGTGTCAT+TGG | + | chr2.4:73743481-73743500 | MS.gene01201:intron | 50.0% |
| !! | GTGACGTTTTGACCAGGAGT+TGG | - | chr2.4:73742765-73742784 | None:intergenic | 50.0% |
| !! | TGGACAGTGACGTTTTGACC+AGG | - | chr2.4:73742771-73742790 | None:intergenic | 50.0% |
| AACGGTCCTAAGCCAACTCC+TGG | + | chr2.4:73742750-73742769 | MS.gene01201:CDS | 55.0% | |
| AACGTCACTGTCCACTGCAC+CGG | + | chr2.4:73742777-73742796 | MS.gene01201:CDS | 55.0% | |
| ACTGTCCACTGCACCGGATA+CGG | + | chr2.4:73742783-73742802 | MS.gene01201:CDS | 55.0% | |
| CGCTAGTGGCTTTCCTGCTT+GGG | + | chr2.4:73744115-73744134 | MS.gene01201:CDS | 55.0% | |
| CGGAGAAGTTGCTCGTCTTC+GGG | + | chr2.4:73743513-73743532 | MS.gene01201:CDS | 55.0% | |
| GCTAGTGGCTTTCCTGCTTG+GGG | + | chr2.4:73744116-73744135 | MS.gene01201:CDS | 55.0% | |
| ! | GAGAGTGTGCTCACCGTATC+CGG | - | chr2.4:73742799-73742818 | None:intergenic | 55.0% |
| ! | GTTGGCTTAGGACCGTTTCC+AGG | - | chr2.4:73742747-73742766 | None:intergenic | 55.0% |
| GCGCTAGTGGCTTTCCTGCT+TGG | + | chr2.4:73744114-73744133 | MS.gene01201:CDS | 60.0% | |
| GCTCACCGTATCCGGTGCAG+TGG | - | chr2.4:73742791-73742810 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.4 | gene | 73742717 | 73744193 | 73742717 | ID=MS.gene01201 |
| chr2.4 | mRNA | 73742717 | 73744193 | 73742717 | ID=MS.gene01201.t1;Parent=MS.gene01201 |
| chr2.4 | exon | 73742717 | 73742804 | 73742717 | ID=MS.gene01201.t1.exon1;Parent=MS.gene01201.t1 |
| chr2.4 | CDS | 73742717 | 73742804 | 73742717 | ID=cds.MS.gene01201.t1;Parent=MS.gene01201.t1 |
| chr2.4 | exon | 73742976 | 73743009 | 73742976 | ID=MS.gene01201.t1.exon2;Parent=MS.gene01201.t1 |
| chr2.4 | CDS | 73742976 | 73743009 | 73742976 | ID=cds.MS.gene01201.t1;Parent=MS.gene01201.t1 |
| chr2.4 | exon | 73743096 | 73743157 | 73743096 | ID=MS.gene01201.t1.exon3;Parent=MS.gene01201.t1 |
| chr2.4 | CDS | 73743096 | 73743157 | 73743096 | ID=cds.MS.gene01201.t1;Parent=MS.gene01201.t1 |
| chr2.4 | exon | 73743482 | 73743534 | 73743482 | ID=MS.gene01201.t1.exon4;Parent=MS.gene01201.t1 |
| chr2.4 | CDS | 73743482 | 73743534 | 73743482 | ID=cds.MS.gene01201.t1;Parent=MS.gene01201.t1 |
| chr2.4 | exon | 73744092 | 73744193 | 73744092 | ID=MS.gene01201.t1.exon5;Parent=MS.gene01201.t1 |
| chr2.4 | CDS | 73744092 | 73744193 | 73744092 | ID=cds.MS.gene01201.t1;Parent=MS.gene01201.t1 |
| Gene Sequence |
| Protein sequence |
