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.gene90682.t1 | XP_013466107.1 | 100 | 93 | 0 | 0 | 1 | 93 | 1 | 93 | 4.10E-45 | 190.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90682.t1 | F4JVB8 | 58.2 | 91 | 38 | 0 | 3 | 93 | 10 | 100 | 1.1e-25 | 117.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90682.t1 | A0A072VEW4 | 100.0 | 93 | 0 | 0 | 1 | 93 | 1 | 93 | 3.0e-45 | 190.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene90682.t1 | TF | MYB-related |
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.gene90682.t1 | MTR_1g022290 | 100.000 | 93 | 0 | 0 | 1 | 93 | 1 | 93 | 1.72e-66 | 194 |
| MS.gene90682.t1 | MTR_3g111880 | 73.404 | 94 | 21 | 2 | 1 | 93 | 1 | 91 | 1.04e-44 | 139 |
| MS.gene90682.t1 | MTR_3g116720 | 73.134 | 67 | 18 | 0 | 5 | 71 | 14 | 80 | 2.79e-34 | 112 |
| MS.gene90682.t1 | MTR_3g013440 | 57.447 | 94 | 33 | 3 | 1 | 93 | 4 | 91 | 3.18e-32 | 108 |
| MS.gene90682.t1 | MTR_5g020170 | 65.217 | 69 | 24 | 0 | 2 | 70 | 14 | 82 | 2.31e-28 | 98.6 |
| MS.gene90682.t1 | MTR_7g089210 | 60.256 | 78 | 25 | 1 | 9 | 86 | 14 | 85 | 2.83e-28 | 98.2 |
| MS.gene90682.t1 | MTR_6g004250 | 58.571 | 70 | 29 | 0 | 2 | 71 | 5 | 74 | 3.99e-28 | 97.4 |
| MS.gene90682.t1 | MTR_3g111920 | 49.398 | 83 | 39 | 1 | 6 | 85 | 2 | 84 | 3.78e-26 | 92.4 |
| MS.gene90682.t1 | MTR_8g077380 | 55.224 | 67 | 29 | 1 | 4 | 70 | 2 | 67 | 7.89e-26 | 91.3 |
| MS.gene90682.t1 | MTR_8g077390 | 55.224 | 67 | 29 | 1 | 4 | 70 | 2 | 67 | 7.89e-26 | 91.3 |
| MS.gene90682.t1 | MTR_8g077360 | 55.224 | 67 | 29 | 1 | 4 | 70 | 2 | 67 | 7.93e-26 | 91.3 |
| MS.gene90682.t1 | MTR_1g033600 | 50.602 | 83 | 41 | 0 | 1 | 83 | 6 | 88 | 4.88e-25 | 91.3 |
| MS.gene90682.t1 | MTR_8g077420 | 56.338 | 71 | 30 | 1 | 4 | 74 | 2 | 71 | 5.12e-24 | 86.7 |
| MS.gene90682.t1 | MTR_5g020540 | 61.905 | 63 | 23 | 1 | 5 | 67 | 2 | 63 | 7.42e-24 | 86.3 |
| MS.gene90682.t1 | MTR_8g063870 | 44.660 | 103 | 44 | 3 | 4 | 93 | 5 | 107 | 5.40e-22 | 86.7 |
| MS.gene90682.t1 | MTR_5g081860 | 55.882 | 68 | 30 | 0 | 2 | 69 | 22 | 89 | 2.21e-21 | 85.1 |
| MS.gene90682.t1 | MTR_8g063600 | 53.623 | 69 | 32 | 0 | 1 | 69 | 4 | 72 | 1.77e-20 | 82.8 |
| MS.gene90682.t1 | MTR_3g462790 | 52.113 | 71 | 34 | 0 | 4 | 74 | 40 | 110 | 3.61e-20 | 82.4 |
| MS.gene90682.t1 | MTR_5g069710 | 51.389 | 72 | 34 | 1 | 4 | 75 | 26 | 96 | 4.00e-20 | 82.4 |
| MS.gene90682.t1 | MTR_7g067080 | 50.000 | 72 | 36 | 0 | 2 | 73 | 30 | 101 | 1.72e-19 | 80.5 |
| MS.gene90682.t1 | MTR_4g111975 | 48.000 | 75 | 35 | 2 | 1 | 71 | 1 | 75 | 1.42e-17 | 75.5 |
| MS.gene90682.t1 | MTR_1g111830 | 42.254 | 71 | 41 | 0 | 7 | 77 | 24 | 94 | 2.33e-16 | 71.2 |
| MS.gene90682.t1 | MTR_1g086180 | 49.153 | 59 | 29 | 1 | 5 | 62 | 9 | 67 | 2.71e-14 | 62.8 |
| MS.gene90682.t1 | MTR_7g110580 | 47.619 | 63 | 32 | 1 | 3 | 64 | 4 | 66 | 2.08e-13 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90682.t1 | AT4G39250 | 58.621 | 87 | 36 | 0 | 7 | 93 | 14 | 100 | 5.85e-36 | 117 |
| MS.gene90682.t1 | AT1G75250 | 72.464 | 69 | 19 | 0 | 2 | 70 | 7 | 75 | 2.03e-33 | 112 |
| MS.gene90682.t1 | AT1G75250 | 72.464 | 69 | 19 | 0 | 2 | 70 | 7 | 75 | 2.42e-33 | 111 |
| MS.gene90682.t1 | AT2G21650 | 55.682 | 88 | 38 | 1 | 7 | 93 | 14 | 101 | 1.23e-31 | 107 |
| MS.gene90682.t1 | AT1G19510 | 69.841 | 63 | 19 | 0 | 10 | 72 | 15 | 77 | 1.54e-28 | 99.0 |
| MS.gene90682.t1 | AT2G18328 | 65.079 | 63 | 22 | 0 | 10 | 72 | 14 | 76 | 5.19e-27 | 94.7 |
| MS.gene90682.t1 | AT5G05790 | 52.632 | 76 | 35 | 1 | 4 | 79 | 28 | 102 | 2.40e-21 | 85.1 |
| MS.gene90682.t1 | AT5G05790 | 52.632 | 76 | 35 | 1 | 4 | 79 | 28 | 102 | 2.40e-21 | 85.1 |
| MS.gene90682.t1 | AT5G58900 | 53.030 | 66 | 31 | 0 | 4 | 69 | 31 | 96 | 2.56e-20 | 82.4 |
| MS.gene90682.t1 | AT2G38090 | 55.556 | 63 | 28 | 0 | 7 | 69 | 29 | 91 | 3.17e-20 | 82.4 |
| MS.gene90682.t1 | AT3G11280 | 49.315 | 73 | 37 | 0 | 7 | 79 | 33 | 105 | 3.28e-19 | 79.3 |
| MS.gene90682.t1 | AT3G11280 | 49.315 | 73 | 37 | 0 | 7 | 79 | 33 | 105 | 3.28e-19 | 79.3 |
| MS.gene90682.t1 | AT4G36570 | 72.727 | 44 | 12 | 0 | 7 | 50 | 12 | 55 | 4.90e-19 | 73.9 |
| MS.gene90682.t1 | AT5G08520 | 43.590 | 78 | 44 | 0 | 1 | 78 | 6 | 83 | 1.11e-16 | 72.8 |
| MS.gene90682.t1 | AT1G49010 | 43.836 | 73 | 38 | 1 | 2 | 71 | 3 | 75 | 7.95e-16 | 70.9 |
| MS.gene90682.t1 | AT5G23650 | 46.377 | 69 | 37 | 0 | 1 | 69 | 7 | 75 | 4.82e-14 | 65.9 |
| MS.gene90682.t1 | AT5G01200 | 43.662 | 71 | 39 | 1 | 5 | 74 | 28 | 98 | 1.55e-13 | 63.9 |
| MS.gene90682.t1 | AT5G04760 | 40.299 | 67 | 39 | 1 | 3 | 69 | 2 | 67 | 6.35e-13 | 62.0 |
Find 25 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGCAGCATTTCTGTATT+TGG | 0.079428 | 1.4:+2064836 | None:intergenic |
| GCTAGCTTCTGCCACCTATC+TGG | 0.154946 | 1.4:+2064957 | None:intergenic |
| AGAAATGCTGCAACAATTAA+AGG | 0.224298 | 1.4:-2064828 | MS.gene90682:CDS |
| CTAGCTTCTGCCACCTATCT+GGG | 0.322954 | 1.4:+2064958 | None:intergenic |
| GTTGCAGCATTTCTGTATTT+GGG | 0.335288 | 1.4:+2064837 | None:intergenic |
| CAAAAGATTTGAGAATGCTT+TGG | 0.369296 | 1.4:-2065000 | MS.gene90682:CDS |
| TGGGGTGTCCTTATCATAGA+TGG | 0.425086 | 1.4:+2064977 | None:intergenic |
| TGAAGATTTGAAGCAAATTG+AGG | 0.447717 | 1.4:-2064877 | MS.gene90682:CDS |
| TGCTTTGGCCATCTATGATA+AGG | 0.453055 | 1.4:-2064985 | MS.gene90682:CDS |
| ATAGGTGGCAGAAGCTAGCA+AGG | 0.504876 | 1.4:-2064953 | MS.gene90682:CDS |
| CAGAAGCTAGCAAGGGCTGT+TGG | 0.521879 | 1.4:-2064945 | MS.gene90682:CDS |
| GCATTTCTGTATTTGGGCAA+AGG | 0.525051 | 1.4:+2064843 | None:intergenic |
| ATGATAAGGACACCCCAGAT+AGG | 0.538561 | 1.4:-2064971 | MS.gene90682:CDS |
| TTCTGTCAATACTTCACTGA+AGG | 0.539972 | 1.4:+2064186 | None:intergenic |
| AAGCTAGCAAGGGCTGTTGG+AGG | 0.552500 | 1.4:-2064942 | MS.gene90682:CDS |
| GAATGTCCTCAAGTTCAGCT+TGG | 0.559569 | 1.4:-2065037 | MS.gene90682:CDS |
| AGCTAGCAAGGGCTGTTGGA+GGG | 0.566835 | 1.4:-2064941 | MS.gene90682:CDS |
| AGACAGTTGAGGAAGTGAAA+AGG | 0.586038 | 1.4:-2064917 | MS.gene90682:CDS |
| TGTTGTCCAAGCTGAACTTG+AGG | 0.595382 | 1.4:+2065031 | None:intergenic |
| GATTTGAAGCAAATTGAGGA+AGG | 0.610917 | 1.4:-2064873 | MS.gene90682:CDS |
| TAGCTTCTGCCACCTATCTG+GGG | 0.629096 | 1.4:+2064959 | None:intergenic |
| TAGGTGGCAGAAGCTAGCAA+GGG | 0.655725 | 1.4:-2064952 | MS.gene90682:CDS |
| ATAAGGACACCCCAGATAGG+TGG | 0.660087 | 1.4:-2064968 | MS.gene90682:CDS |
| ATTACAGTGACGAAGAACAA+AGG | 0.662329 | 1.4:-2064800 | MS.gene90682:intron |
| TGTTGGAGGGAAGACAGTTG+AGG | 0.663833 | 1.4:-2064928 | MS.gene90682:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATATTTTGTATATCTAATT+TGG | - | chr1.4:2064769-2064788 | MS.gene90682:intron | 10.0% |
| !!! | TATCTACAATTTTTTTTTTA+AGG | + | chr1.4:2064478-2064497 | None:intergenic | 10.0% |
| !!! | TAATGTAGATTTTTATTACT+AGG | + | chr1.4:2064812-2064831 | None:intergenic | 15.0% |
| !!! | TTTTTTCACTAAATTTAATG+AGG | - | chr1.4:2064729-2064748 | MS.gene90682:intron | 15.0% |
| !!! | CTTCTTCTTGTTTATAAATA+TGG | - | chr1.4:2064955-2064974 | MS.gene90682:CDS | 20.0% |
| ! | CGTATAAAACAGTAAGTTTA+TGG | + | chr1.4:2064918-2064937 | None:intergenic | 25.0% |
| !! | ATGGAGAAGATTTTTATTGT+GGG | - | chr1.4:2064974-2064993 | MS.gene90682:CDS | 25.0% |
| !! | GTTCGTCTTACTAATATTTT+TGG | - | chr1.4:2064568-2064587 | MS.gene90682:intron | 25.0% |
| !! | TATGGAGAAGATTTTTATTG+TGG | - | chr1.4:2064973-2064992 | MS.gene90682:CDS | 25.0% |
| AGAAATGCTGCAACAATTAA+AGG | - | chr1.4:2064406-2064425 | MS.gene90682:intron | 30.0% | |
| AGCAACACAAATTTAAAGAG+AGG | - | chr1.4:2064685-2064704 | MS.gene90682:intron | 30.0% | |
| AGTCATTAGAAACTCATACA+CGG | - | chr1.4:2064511-2064530 | MS.gene90682:intron | 30.0% | |
| CAAAAGATTTGAGAATGCTT+TGG | - | chr1.4:2064234-2064253 | MS.gene90682:intron | 30.0% | |
| GTCTATTGTATTTGTAATGC+AGG | - | chr1.4:2065011-2065030 | MS.gene90682:CDS | 30.0% | |
| ! | TGAAGATTTGAAGCAAATTG+AGG | - | chr1.4:2064357-2064376 | MS.gene90682:intron | 30.0% |
| ATTACAGTGACGAAGAACAA+AGG | - | chr1.4:2064434-2064453 | MS.gene90682:intron | 35.0% | |
| GTTGCAGCATTTCTGTATTT+GGG | + | chr1.4:2064400-2064419 | None:intergenic | 35.0% | |
| TGTTGCAGCATTTCTGTATT+TGG | + | chr1.4:2064401-2064420 | None:intergenic | 35.0% | |
| TTCATTTACACACACCACAA+AGG | - | chr1.4:2064877-2064896 | MS.gene90682:CDS | 35.0% | |
| ! | GATTTGAAGCAAATTGAGGA+AGG | - | chr1.4:2064361-2064380 | MS.gene90682:intron | 35.0% |
| AGACAGTTGAGGAAGTGAAA+AGG | - | chr1.4:2064317-2064336 | MS.gene90682:intron | 40.0% | |
| AGTAAGTTTATGGTCCCTCA+TGG | + | chr1.4:2064908-2064927 | None:intergenic | 40.0% | |
| GCATTTCTGTATTTGGGCAA+AGG | + | chr1.4:2064394-2064413 | None:intergenic | 40.0% | |
| TGCTTTGGCCATCTATGATA+AGG | - | chr1.4:2064249-2064268 | MS.gene90682:intron | 40.0% | |
| ATACACGGATAGACGAGTCA+GGG | - | chr1.4:2064526-2064545 | MS.gene90682:intron | 45.0% | |
| ATGATAAGGACACCCCAGAT+AGG | - | chr1.4:2064263-2064282 | MS.gene90682:intron | 45.0% | |
| TGTTGTCCAAGCTGAACTTG+AGG | + | chr1.4:2064206-2064225 | None:intergenic | 45.0% | |
| ! | ACCACAAAGGTACAACCATG+AGG | - | chr1.4:2064890-2064909 | MS.gene90682:CDS | 45.0% |
| ! | CCACAAAGGTACAACCATGA+GGG | - | chr1.4:2064891-2064910 | MS.gene90682:CDS | 45.0% |
| ! | TGGGGTGTCCTTATCATAGA+TGG | + | chr1.4:2064260-2064279 | None:intergenic | 45.0% |
| ATAAGGACACCCCAGATAGG+TGG | - | chr1.4:2064266-2064285 | MS.gene90682:intron | 50.0% | |
| ATAGGTGGCAGAAGCTAGCA+AGG | - | chr1.4:2064281-2064300 | MS.gene90682:intron | 50.0% | |
| CATACACGGATAGACGAGTC+AGG | - | chr1.4:2064525-2064544 | MS.gene90682:intron | 50.0% | |
| CCCTCATGGTTGTACCTTTG+TGG | + | chr1.4:2064894-2064913 | None:intergenic | 50.0% | |
| CTAGCTTCTGCCACCTATCT+GGG | + | chr1.4:2064279-2064298 | None:intergenic | 50.0% | |
| GTAAGACGAACGAAGTGACC+TGG | + | chr1.4:2064559-2064578 | None:intergenic | 50.0% | |
| TAGCTTCTGCCACCTATCTG+GGG | + | chr1.4:2064278-2064297 | None:intergenic | 50.0% | |
| TAGGTGGCAGAAGCTAGCAA+GGG | - | chr1.4:2064282-2064301 | MS.gene90682:intron | 50.0% | |
| TGTTGGAGGGAAGACAGTTG+AGG | - | chr1.4:2064306-2064325 | MS.gene90682:intron | 50.0% | |
| ! | ACGAGTCAGGGTTTGAAACC+AGG | - | chr1.4:2064538-2064557 | MS.gene90682:intron | 50.0% |
| AAGCTAGCAAGGGCTGTTGG+AGG | - | chr1.4:2064292-2064311 | MS.gene90682:intron | 55.0% | |
| AGCTAGCAAGGGCTGTTGGA+GGG | - | chr1.4:2064293-2064312 | MS.gene90682:intron | 55.0% | |
| CAGAAGCTAGCAAGGGCTGT+TGG | - | chr1.4:2064289-2064308 | MS.gene90682:intron | 55.0% | |
| ! | GCTAGCTTCTGCCACCTATC+TGG | + | chr1.4:2064280-2064299 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 2064199 | 2065057 | 2064199 | ID=MS.gene90682 |
| chr1.4 | mRNA | 2064199 | 2065057 | 2064199 | ID=MS.gene90682.t1;Parent=MS.gene90682 |
| chr1.4 | exon | 2064801 | 2065057 | 2064801 | ID=MS.gene90682.t1.exon1;Parent=MS.gene90682.t1 |
| chr1.4 | CDS | 2064801 | 2065057 | 2064801 | ID=cds.MS.gene90682.t1;Parent=MS.gene90682.t1 |
| chr1.4 | exon | 2064199 | 2064223 | 2064199 | ID=MS.gene90682.t1.exon2;Parent=MS.gene90682.t1 |
| chr1.4 | CDS | 2064199 | 2064223 | 2064199 | ID=cds.MS.gene90682.t1;Parent=MS.gene90682.t1 |
| Gene Sequence |
| Protein sequence |
