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.gene24087.t1 | RHN77685.1 | 93.6 | 140 | 8 | 1 | 1 | 140 | 392 | 530 | 1.60E-64 | 255.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24087.t1 | Q9SGQ6 | 52.8 | 127 | 59 | 1 | 1 | 126 | 646 | 772 | 1.7e-30 | 133.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24087.t1 | A0A396JN30 | 93.6 | 140 | 8 | 1 | 1 | 140 | 392 | 530 | 1.1e-64 | 255.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051492 | MS.gene24087 | 0.814455 | 1.53E-51 | -1.69E-46 |
| MS.gene052677 | MS.gene24087 | 0.803769 | 2.98E-49 | -1.69E-46 |
| MS.gene053296 | MS.gene24087 | 0.805812 | 1.11E-49 | -1.69E-46 |
| MS.gene05410 | MS.gene24087 | 0.802536 | 5.36E-49 | -1.69E-46 |
| MS.gene055827 | MS.gene24087 | 0.804346 | 2.26E-49 | -1.69E-46 |
| MS.gene058081 | MS.gene24087 | 0.829515 | 4.93E-55 | -1.69E-46 |
| MS.gene059439 | MS.gene24087 | 0.810682 | 1.02E-50 | -1.69E-46 |
| MS.gene060011 | MS.gene24087 | 0.801023 | 1.09E-48 | -1.69E-46 |
| MS.gene060373 | MS.gene24087 | 0.810561 | 1.08E-50 | -1.69E-46 |
| MS.gene060520 | MS.gene24087 | 0.802576 | 5.25E-49 | -1.69E-46 |
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.gene24087.t1 | MTR_6g069480 | 85.401 | 137 | 19 | 1 | 1 | 137 | 472 | 607 | 8.99e-78 | 241 |
| MS.gene24087.t1 | MTR_6g069480 | 85.401 | 137 | 19 | 1 | 1 | 137 | 666 | 801 | 2.96e-76 | 241 |
| MS.gene24087.t1 | MTR_6g069480 | 85.401 | 137 | 19 | 1 | 1 | 137 | 689 | 824 | 3.13e-76 | 241 |
| MS.gene24087.t1 | MTR_6g069480 | 85.401 | 137 | 19 | 1 | 1 | 137 | 698 | 833 | 3.15e-76 | 242 |
| MS.gene24087.t1 | MTR_1g026480 | 93.578 | 109 | 6 | 1 | 1 | 109 | 103 | 210 | 4.41e-67 | 204 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24087.t1 | AT1G76280 | 52.756 | 127 | 59 | 1 | 1 | 126 | 674 | 800 | 7.82e-38 | 136 |
| MS.gene24087.t1 | AT1G76280 | 52.756 | 127 | 59 | 1 | 1 | 126 | 678 | 804 | 8.48e-38 | 136 |
| MS.gene24087.t1 | AT1G76280 | 52.756 | 127 | 59 | 1 | 1 | 126 | 646 | 772 | 8.77e-38 | 135 |
Find 24 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCACAATTGCTCTCCTATTA+TGG | 0.249764 | 1.2:+59481 | None:intergenic |
| AACCTGACGTTAGCCTCTTT+TGG | 0.259450 | 1.2:+59504 | None:intergenic |
| TCTGAAGATAAAGTTGCAAT+AGG | 0.325114 | 1.2:-59620 | MS.gene24087:CDS |
| CTAACGTCAGGTTCCATAAT+AGG | 0.331585 | 1.2:-59494 | MS.gene24087:CDS |
| TACAGCAGTAGAAGCATTGC+AGG | 0.375121 | 1.2:-59771 | MS.gene24087:CDS |
| TACTGCTGTATTGTGAAAAC+TGG | 0.375269 | 1.2:+59784 | None:intergenic |
| TGGTCAGCTGACTCACATAT+TGG | 0.396723 | 1.2:+59560 | None:intergenic |
| AGTCAGCTGACCAGAGCCTA+TGG | 0.424315 | 1.2:-59550 | MS.gene24087:CDS |
| AAGACGTAGCCGCATGTTGT+TGG | 0.442831 | 1.2:+59824 | None:intergenic |
| TAGCCGCATGTTGTTGGATC+AGG | 0.451269 | 1.2:+59830 | None:intergenic |
| CTGAAGATAAAGTTGCAATA+GGG | 0.461654 | 1.2:-59619 | MS.gene24087:CDS |
| TAGGGTTGTTGAATTTAAGA+TGG | 0.471021 | 1.2:-59601 | MS.gene24087:CDS |
| TTGCTTGTGATGTCTGTAGA+TGG | 0.471898 | 1.2:-59740 | MS.gene24087:CDS |
| TTAAGATGGTGTGCCATGAT+TGG | 0.474986 | 1.2:-59587 | MS.gene24087:CDS |
| TAAGATGGTGTGCCATGATT+GGG | 0.507685 | 1.2:-59586 | MS.gene24087:CDS |
| GGATGTAATTGAGTTTATTG+TGG | 0.517625 | 1.2:-59879 | MS.gene24087:CDS |
| TCGAGTGGCGATTCCAAAAG+AGG | 0.533718 | 1.2:-59517 | MS.gene24087:CDS |
| ACATATTGGAAACCCAATCA+TGG | 0.558144 | 1.2:+59574 | None:intergenic |
| TTCCAAAAGAGGCTAACGTC+AGG | 0.576549 | 1.2:-59506 | MS.gene24087:CDS |
| GTCAGCTGACCAGAGCCTAT+GGG | 0.596357 | 1.2:-59549 | MS.gene24087:CDS |
| CAGAAGCTAAATCTTCATAG+AGG | 0.601928 | 1.2:+59672 | None:intergenic |
| CAGCCTGATCCAACAACATG+CGG | 0.658980 | 1.2:-59833 | MS.gene24087:CDS |
| GCAGCAACATACTTCAAGAG+AGG | 0.665988 | 1.2:-59718 | MS.gene24087:CDS |
| TATGGGCTAAAAGACTCGAG+TGG | 0.705967 | 1.2:-59532 | MS.gene24087:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGAAGATAAAGTTGCAATA+GGG | - | chr1.2:59743-59762 | MS.gene24087:CDS | 30.0% | |
| GGATGTAATTGAGTTTATTG+TGG | - | chr1.2:59483-59502 | MS.gene24087:CDS | 30.0% | |
| TAGGGTTGTTGAATTTAAGA+TGG | - | chr1.2:59761-59780 | MS.gene24087:CDS | 30.0% | |
| TCTGAAGATAAAGTTGCAAT+AGG | - | chr1.2:59742-59761 | MS.gene24087:CDS | 30.0% | |
| ! | TCAAGAGAGGAAAATTTTTG+TGG | - | chr1.2:59657-59676 | MS.gene24087:CDS | 30.0% |
| ACATATTGGAAACCCAATCA+TGG | + | chr1.2:59791-59810 | None:intergenic | 35.0% | |
| CAGAAGCTAAATCTTCATAG+AGG | + | chr1.2:59693-59712 | None:intergenic | 35.0% | |
| TACTGCTGTATTGTGAAAAC+TGG | + | chr1.2:59581-59600 | None:intergenic | 35.0% | |
| TCACAATTGCTCTCCTATTA+TGG | + | chr1.2:59884-59903 | None:intergenic | 35.0% | |
| CTAACGTCAGGTTCCATAAT+AGG | - | chr1.2:59868-59887 | MS.gene24087:CDS | 40.0% | |
| TAAGATGGTGTGCCATGATT+GGG | - | chr1.2:59776-59795 | MS.gene24087:CDS | 40.0% | |
| TTAAGATGGTGTGCCATGAT+TGG | - | chr1.2:59775-59794 | MS.gene24087:CDS | 40.0% | |
| TTGCTTGTGATGTCTGTAGA+TGG | - | chr1.2:59622-59641 | MS.gene24087:CDS | 40.0% | |
| !! | GATCAGGCTGAACTTTTTCT+TGG | + | chr1.2:59519-59538 | None:intergenic | 40.0% |
| GCAGCAACATACTTCAAGAG+AGG | - | chr1.2:59644-59663 | MS.gene24087:CDS | 45.0% | |
| TTCCAAAAGAGGCTAACGTC+AGG | - | chr1.2:59856-59875 | MS.gene24087:CDS | 45.0% | |
| ! | ACTCGAGTCTTTTAGCCCAT+AGG | + | chr1.2:59831-59850 | None:intergenic | 45.0% |
| ! | TATGGGCTAAAAGACTCGAG+TGG | - | chr1.2:59830-59849 | MS.gene24087:CDS | 45.0% |
| ! | TGGTCAGCTGACTCACATAT+TGG | + | chr1.2:59805-59824 | None:intergenic | 45.0% |
| !! | AACCTGACGTTAGCCTCTTT+TGG | + | chr1.2:59861-59880 | None:intergenic | 45.0% |
| !! | TACAGCAGTAGAAGCATTGC+AGG | - | chr1.2:59591-59610 | MS.gene24087:CDS | 45.0% |
| AAGACGTAGCCGCATGTTGT+TGG | + | chr1.2:59541-59560 | None:intergenic | 50.0% | |
| CAGCCTGATCCAACAACATG+CGG | - | chr1.2:59529-59548 | MS.gene24087:CDS | 50.0% | |
| TAGCCGCATGTTGTTGGATC+AGG | + | chr1.2:59535-59554 | None:intergenic | 50.0% | |
| TCGAGTGGCGATTCCAAAAG+AGG | - | chr1.2:59845-59864 | MS.gene24087:CDS | 50.0% | |
| ! | GTCTTTTAGCCCATAGGCTC+TGG | + | chr1.2:59825-59844 | None:intergenic | 50.0% |
| AGTCAGCTGACCAGAGCCTA+TGG | - | chr1.2:59812-59831 | MS.gene24087:CDS | 55.0% | |
| GTCAGCTGACCAGAGCCTAT+GGG | - | chr1.2:59813-59832 | MS.gene24087:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 59481 | 59903 | 59481 | ID=MS.gene24087 |
| chr1.2 | mRNA | 59481 | 59903 | 59481 | ID=MS.gene24087.t1;Parent=MS.gene24087 |
| chr1.2 | exon | 59481 | 59903 | 59481 | ID=MS.gene24087.t1.exon1;Parent=MS.gene24087.t1 |
| chr1.2 | CDS | 59481 | 59903 | 59481 | ID=cds.MS.gene24087.t1;Parent=MS.gene24087.t1 |
| Gene Sequence |
| Protein sequence |
