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.gene49321.t1 | RHN80077.1 | 98.6 | 141 | 2 | 0 | 1 | 141 | 1 | 141 | 8.60E-63 | 249.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49321.t1 | O80942 | 44.1 | 68 | 35 | 1 | 38 | 102 | 37 | 104 | 1.2e-07 | 57.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49321.t1 | A0A396K003 | 98.6 | 141 | 2 | 0 | 1 | 141 | 1 | 141 | 6.2e-63 | 249.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene49321.t1 | TF | C2H2 |
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.gene49321.t1 | MTR_1g070250 | 99.194 | 124 | 1 | 0 | 1 | 124 | 1 | 124 | 6.26e-89 | 257 |
| MS.gene49321.t1 | MTR_1g075430 | 68.000 | 50 | 14 | 1 | 22 | 71 | 4 | 51 | 8.24e-16 | 70.9 |
| MS.gene49321.t1 | MTR_4g064873 | 62.745 | 51 | 18 | 1 | 28 | 78 | 11 | 60 | 3.12e-15 | 68.9 |
| MS.gene49321.t1 | MTR_1g044225 | 47.692 | 65 | 34 | 0 | 16 | 80 | 4 | 68 | 2.00e-14 | 66.6 |
| MS.gene49321.t1 | MTR_7g063220 | 61.364 | 44 | 17 | 0 | 35 | 78 | 21 | 64 | 2.16e-14 | 65.9 |
| MS.gene49321.t1 | MTR_5g014400 | 36.538 | 104 | 50 | 2 | 38 | 125 | 80 | 183 | 2.95e-13 | 65.1 |
| MS.gene49321.t1 | MTR_2g076060 | 44.928 | 69 | 32 | 1 | 18 | 80 | 24 | 92 | 3.03e-12 | 62.0 |
| MS.gene49321.t1 | MTR_1g070265 | 52.727 | 55 | 13 | 2 | 26 | 67 | 10 | 64 | 1.23e-11 | 59.7 |
| MS.gene49321.t1 | MTR_5g008280 | 44.615 | 65 | 32 | 1 | 3 | 67 | 15 | 75 | 1.81e-11 | 60.8 |
| MS.gene49321.t1 | MTR_5g080660 | 51.852 | 54 | 21 | 1 | 34 | 87 | 43 | 91 | 4.90e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49321.t1 | AT5G43540 | 47.059 | 68 | 33 | 1 | 40 | 107 | 35 | 99 | 5.19e-14 | 65.1 |
| MS.gene49321.t1 | AT3G23130 | 60.870 | 46 | 15 | 1 | 25 | 67 | 29 | 74 | 2.67e-13 | 64.3 |
| MS.gene49321.t1 | AT3G09290 | 67.568 | 37 | 12 | 0 | 31 | 67 | 26 | 62 | 4.60e-12 | 60.5 |
| MS.gene49321.t1 | AT3G53820 | 64.103 | 39 | 14 | 0 | 37 | 75 | 18 | 56 | 8.45e-12 | 59.3 |
| MS.gene49321.t1 | AT2G37740 | 40.506 | 79 | 44 | 1 | 27 | 102 | 26 | 104 | 1.09e-11 | 61.2 |
Find 24 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTATCTTGTCTTTATTTAA+TGG | 0.196520 | 1.1:+52609491 | None:intergenic |
| CATGATCATCGTCGTTGTTT+TGG | 0.273789 | 1.1:+52609918 | None:intergenic |
| TGAACTAGGAGGAGCAAAAT+TGG | 0.301135 | 1.1:+52609760 | None:intergenic |
| TTCACAACTGCTCAAGCTTT+AGG | 0.324072 | 1.1:-52609842 | MS.gene49321:CDS |
| CATGATAACTATGGAGATCT+TGG | 0.334975 | 1.1:-52609719 | MS.gene49321:CDS |
| CATGATCATCACATGGGAAT+TGG | 0.389791 | 1.1:-52609899 | MS.gene49321:CDS |
| GTTGAAAATCAAAGGATGTT+TGG | 0.395967 | 1.1:-52609548 | MS.gene49321:intron |
| AAAGGATGTTTGGACAAGAT+TGG | 0.405928 | 1.1:-52609538 | MS.gene49321:intron |
| GTAGTTGATCATGATAACTA+TGG | 0.421306 | 1.1:-52609728 | MS.gene49321:CDS |
| AGCTCTTCGAGTCTTCTTGA+AGG | 0.511682 | 1.1:+52609972 | None:intergenic |
| TCCAAGTCATCTTGCAAGAG+GGG | 0.518624 | 1.1:-52609678 | MS.gene49321:CDS |
| ACTACTAATTTGCTTGAACT+AGG | 0.523496 | 1.1:+52609746 | None:intergenic |
| GATGTTTGGACAAGATTGGA+GGG | 0.531657 | 1.1:-52609534 | MS.gene49321:CDS |
| ACAACTGCTCAAGCTTTAGG+TGG | 0.547877 | 1.1:-52609839 | MS.gene49321:CDS |
| GGATGTTTGGACAAGATTGG+AGG | 0.555829 | 1.1:-52609535 | MS.gene49321:CDS |
| CGATGATCATGATCATCACA+TGG | 0.555921 | 1.1:-52609906 | MS.gene49321:CDS |
| ATCCAAGTCATCTTGCAAGA+GGG | 0.566204 | 1.1:-52609679 | MS.gene49321:CDS |
| TACCTCAGGAGTAGTTGTTG+TGG | 0.580075 | 1.1:+52609634 | None:intergenic |
| ACTAATTTGCTTGAACTAGG+AGG | 0.604445 | 1.1:+52609749 | None:intergenic |
| ATGTTTGGACAAGATTGGAG+GGG | 0.612835 | 1.1:-52609533 | MS.gene49321:CDS |
| AATCCAAGTCATCTTGCAAG+AGG | 0.624664 | 1.1:-52609680 | MS.gene49321:CDS |
| CCAAGTCATCTTGCAAGAGG+GGG | 0.654928 | 1.1:-52609677 | MS.gene49321:CDS |
| ATCCACAACAACTACTCCTG+AGG | 0.666114 | 1.1:-52609636 | MS.gene49321:intron |
| GATGATCATGATCATCACAT+GGG | 0.724317 | 1.1:-52609905 | MS.gene49321:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTAGTTGATCATGATAACTA+TGG | - | chr1.1:52609761-52609780 | MS.gene49321:CDS | 30.0% | |
| GTTGAAAATCAAAGGATGTT+TGG | - | chr1.1:52609941-52609960 | MS.gene49321:CDS | 30.0% | |
| TAATTAAGAGAATCTACCTC+AGG | + | chr1.1:52609872-52609891 | None:intergenic | 30.0% | |
| TGTTGTGTGTTGAAAATCAA+AGG | - | chr1.1:52609933-52609952 | MS.gene49321:CDS | 30.0% | |
| !! | ACTACTAATTTGCTTGAACT+AGG | + | chr1.1:52609746-52609765 | None:intergenic | 30.0% |
| AAAGGATGTTTGGACAAGAT+TGG | - | chr1.1:52609951-52609970 | MS.gene49321:CDS | 35.0% | |
| CATGATAACTATGGAGATCT+TGG | - | chr1.1:52609770-52609789 | MS.gene49321:CDS | 35.0% | |
| GATGATCATGATCATCACAT+GGG | - | chr1.1:52609584-52609603 | MS.gene49321:intron | 35.0% | |
| TCACTATATTGCACATGTGA+AGG | + | chr1.1:52609911-52609930 | None:intergenic | 35.0% | |
| !! | ACTAATTTGCTTGAACTAGG+AGG | + | chr1.1:52609743-52609762 | None:intergenic | 35.0% |
| !!! | AGGAGCAAAATTGGTTTTAG+TGG | + | chr1.1:52609723-52609742 | None:intergenic | 35.0% |
| AATCCAAGTCATCTTGCAAG+AGG | - | chr1.1:52609809-52609828 | MS.gene49321:CDS | 40.0% | |
| ATCCAAGTCATCTTGCAAGA+GGG | - | chr1.1:52609810-52609829 | MS.gene49321:CDS | 40.0% | |
| ATGTTTGGACAAGATTGGAG+GGG | - | chr1.1:52609956-52609975 | MS.gene49321:CDS | 40.0% | |
| CATGATCATCACATGGGAAT+TGG | - | chr1.1:52609590-52609609 | MS.gene49321:intron | 40.0% | |
| CGATGATCATGATCATCACA+TGG | - | chr1.1:52609583-52609602 | MS.gene49321:intron | 40.0% | |
| GATGTTTGGACAAGATTGGA+GGG | - | chr1.1:52609955-52609974 | MS.gene49321:CDS | 40.0% | |
| TGAACTAGGAGGAGCAAAAT+TGG | + | chr1.1:52609732-52609751 | None:intergenic | 40.0% | |
| TTCACAACTGCTCAAGCTTT+AGG | - | chr1.1:52609647-52609666 | MS.gene49321:CDS | 40.0% | |
| ! | CATGATCATCGTCGTTGTTT+TGG | + | chr1.1:52609574-52609593 | None:intergenic | 40.0% |
| ! | GAGTGTGTGTTTTGCAAAAG+AGG | - | chr1.1:52609623-52609642 | MS.gene49321:intron | 40.0% |
| AGCTCTTCGAGTCTTCTTGA+AGG | + | chr1.1:52609520-52609539 | None:intergenic | 45.0% | |
| ATCCACAACAACTACTCCTG+AGG | - | chr1.1:52609853-52609872 | MS.gene49321:CDS | 45.0% | |
| GGATGTTTGGACAAGATTGG+AGG | - | chr1.1:52609954-52609973 | MS.gene49321:CDS | 45.0% | |
| TACCTCAGGAGTAGTTGTTG+TGG | + | chr1.1:52609858-52609877 | None:intergenic | 45.0% | |
| TCCAAGTCATCTTGCAAGAG+GGG | - | chr1.1:52609811-52609830 | MS.gene49321:CDS | 45.0% | |
| !! | ACAACTGCTCAAGCTTTAGG+TGG | - | chr1.1:52609650-52609669 | MS.gene49321:CDS | 45.0% |
| CCAAGTCATCTTGCAAGAGG+GGG | - | chr1.1:52609812-52609831 | MS.gene49321:CDS | 50.0% | |
| CCCCCTCTTGCAAGATGACT+TGG | + | chr1.1:52609815-52609834 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.1 | gene | 52609503 | 52610008 | 52609503 | ID=MS.gene49321 |
| chr1.1 | mRNA | 52609503 | 52610008 | 52609503 | ID=MS.gene49321.t1;Parent=MS.gene49321 |
| chr1.1 | exon | 52609637 | 52610008 | 52609637 | ID=MS.gene49321.t1.exon1;Parent=MS.gene49321.t1 |
| chr1.1 | CDS | 52609637 | 52610008 | 52609637 | ID=cds.MS.gene49321.t1;Parent=MS.gene49321.t1 |
| chr1.1 | exon | 52609503 | 52609556 | 52609503 | ID=MS.gene49321.t1.exon2;Parent=MS.gene49321.t1 |
| chr1.1 | CDS | 52609503 | 52609556 | 52609503 | ID=cds.MS.gene49321.t1;Parent=MS.gene49321.t1 |
| Gene Sequence |
| Protein sequence |
