Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0305030 | XP_013465029.1 | 97.468 | 79 | 2 | 0 | 1 | 79 | 9 | 87 | 3.29e-50 | 162 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0305030 | A0A072VAJ9 | 97.468 | 79 | 2 | 0 | 1 | 79 | 9 | 87 | 1.57e-50 | 162 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0020390 | Msa0305030 | 0.811202 | 7.876294e-51 | -8.615850e-47 |
| Msa0220250 | Msa0305030 | 0.946940 | 1.763643e-105 | -8.615850e-47 |
| Msa0257490 | Msa0305030 | 0.800269 | 1.559846e-48 | -8.615850e-47 |
| Msa0261550 | Msa0305030 | 0.835531 | 1.589694e-56 | -8.615850e-47 |
| Msa0304510 | Msa0305030 | 0.802001 | 6.900735e-49 | -8.615850e-47 |
| Msa0305030 | Msa0642970 | 0.816556 | 5.203717e-52 | -8.615850e-47 |
| Msa0305030 | Msa0698540 | 0.804209 | 2.410386e-49 | -8.615850e-47 |
| Msa0305030 | Msa0737600 | 0.803514 | 3.361372e-49 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0305030 | MtrunA17_Chr2g0323761 | 97.468 | 79 | 2 | 0 | 1 | 79 | 9 | 87 | 3.03e-54 | 162 |
| Msa0305030 | MtrunA17_Chr2g0323741 | 79.268 | 82 | 14 | 2 | 1 | 79 | 9 | 90 | 1.28e-41 | 130 |
| Msa0305030 | MtrunA17_Chr2g0323751 | 74.699 | 83 | 17 | 2 | 1 | 79 | 9 | 91 | 3.21e-39 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0305030 | AT4G28240.1 | 42.857 | 84 | 37 | 3 | 1 | 79 | 9 | 86 | 1.11e-13 | 60.5 |
Find 29 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAGAGACGAGTTCGGTTT+TGG | 0.261084 | 2_3:-62442791 | None:intergenic |
| TCCGATCTCCGGCCGTTGTC+CGG | 0.378956 | 2_3:+62442828 | Msa0305030:CDS |
| AAGTTATGTACATGAATTGC+TGG | 0.397828 | 2_3:+62442919 | Msa0305030:CDS |
| GCGCAAGGCCACACCGATCC+AGG | 0.445476 | 2_3:+62442735 | Msa0305030:CDS |
| CCGGAGATCGGATAAACTTC+CGG | 0.452248 | 2_3:-62442817 | None:intergenic |
| GTTGTCCGGCGTTGTTGTAT+CGG | 0.459575 | 2_3:+62442842 | Msa0305030:CDS |
| CAACAACGCCGGACAACGGC+CGG | 0.460383 | 2_3:-62442836 | None:intergenic |
| CGGCGGAGAAGAGACGAGTT+CGG | 0.469225 | 2_3:-62442797 | None:intergenic |
| GTGGCCTTGCGCCACCGCTA+CGG | 0.494254 | 2_3:-62442724 | None:intergenic |
| TTTGCACTTGTGGCCTGGAT+CGG | 0.503366 | 2_3:-62442748 | None:intergenic |
| GAAGAACCGATGATTCTCTT+CGG | 0.508064 | 2_3:+62442895 | Msa0305030:CDS |
| GCCGGACAACGGCCGGAGAT+CGG | 0.526728 | 2_3:-62442829 | None:intergenic |
| TACATGAATTGCTGGGGTCA+AGG | 0.532348 | 2_3:+62442927 | Msa0305030:CDS |
| AGTTATGTACATGAATTGCT+GGG | 0.535583 | 2_3:+62442920 | Msa0305030:CDS |
| CCGGAAGTTTATCCGATCTC+CGG | 0.544467 | 2_3:+62442817 | Msa0305030:CDS |
| GCAACCGTAGCGGTGGCGCA+AGG | 0.545121 | 2_3:+62442720 | Msa0305030:CDS |
| AACTTTCCGAAGAGAATCAT+CGG | 0.563956 | 2_3:-62442901 | None:intergenic |
| GATACAACAACGCCGGACAA+CGG | 0.584437 | 2_3:-62442840 | None:intergenic |
| GATGGCGGCAACCGTAGCGG+TGG | 0.585060 | 2_3:+62442713 | None:intergenic |
| CGAACTCGTCTCTTCTCCGC+CGG | 0.599264 | 2_3:+62442798 | Msa0305030:CDS |
| CACAAGTGCAAAACAGCCGT+TGG | 0.609626 | 2_3:+62442759 | Msa0305030:CDS |
| GTCCGGCGTTGTTGTATCGG+AGG | 0.610205 | 2_3:+62442845 | Msa0305030:CDS |
| TGTATCGGAGGTGAGTTCTG+AGG | 0.621033 | 2_3:+62442857 | Msa0305030:CDS |
| ATCGGAGGTGAGTTCTGAGG+CGG | 0.654083 | 2_3:+62442860 | Msa0305030:CDS |
| TTGGATGGCGGCAACCGTAG+CGG | 0.657920 | 2_3:+62442710 | None:intergenic |
| CACCTCCGATACAACAACGC+CGG | 0.661000 | 2_3:-62442847 | None:intergenic |
| ACTTGTGGCCTGGATCGGTG+TGG | 0.680459 | 2_3:-62442743 | None:intergenic |
| GTTATGTACATGAATTGCTG+GGG | 0.680638 | 2_3:+62442921 | Msa0305030:CDS |
| GAGATCGGATAAACTTCCGG+CGG | 0.743399 | 2_3:-62442814 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGTTATGTACATGAATTGC+TGG | + | chr2_3:62442919-62442938 | Msa0305030:CDS | 30.0% | |
| AGTTATGTACATGAATTGCT+GGG | + | chr2_3:62442920-62442939 | Msa0305030:CDS | 30.0% | |
| !! | GTTTTGGTGAATAGATCCAA+CGG | - | chr2_3:62442778-62442797 | None:intergenic | 35.0% |
| AACTTTCCGAAGAGAATCAT+CGG | - | chr2_3:62442904-62442923 | None:intergenic | 35.0% | |
| GTTATGTACATGAATTGCTG+GGG | + | chr2_3:62442921-62442940 | Msa0305030:CDS | 35.0% | |
| GAAGAACCGATGATTCTCTT+CGG | + | chr2_3:62442895-62442914 | Msa0305030:CDS | 40.0% | |
| ! | AGAAGAGACGAGTTCGGTTT+TGG | - | chr2_3:62442794-62442813 | None:intergenic | 45.0% |
| TACATGAATTGCTGGGGTCA+AGG | + | chr2_3:62442927-62442946 | Msa0305030:CDS | 45.0% | |
| TTTGCACTTGTGGCCTGGAT+CGG | - | chr2_3:62442751-62442770 | None:intergenic | 50.0% | |
| !! | CAACGGCTGTTTTGCACTTG+TGG | - | chr2_3:62442761-62442780 | None:intergenic | 50.0% |
| CACAAGTGCAAAACAGCCGT+TGG | + | chr2_3:62442759-62442778 | Msa0305030:CDS | 50.0% | |
| GAGATCGGATAAACTTCCGG+CGG | - | chr2_3:62442817-62442836 | None:intergenic | 50.0% | |
| CCGGAGATCGGATAAACTTC+CGG | - | chr2_3:62442820-62442839 | None:intergenic | 50.0% | |
| CCGGAAGTTTATCCGATCTC+CGG | + | chr2_3:62442817-62442836 | Msa0305030:CDS | 50.0% | |
| GATACAACAACGCCGGACAA+CGG | - | chr2_3:62442843-62442862 | None:intergenic | 50.0% | |
| GTTGTCCGGCGTTGTTGTAT+CGG | + | chr2_3:62442842-62442861 | Msa0305030:CDS | 50.0% | |
| TGTATCGGAGGTGAGTTCTG+AGG | + | chr2_3:62442857-62442876 | Msa0305030:CDS | 50.0% | |
| !! | GCTGTTTTGCACTTGTGGCC+TGG | - | chr2_3:62442756-62442775 | None:intergenic | 55.0% |
| CACCTCCGATACAACAACGC+CGG | - | chr2_3:62442850-62442869 | None:intergenic | 55.0% | |
| !! | ATCGGAGGTGAGTTCTGAGG+CGG | + | chr2_3:62442860-62442879 | Msa0305030:CDS | 55.0% |
| ACTTGTGGCCTGGATCGGTG+TGG | - | chr2_3:62442746-62442765 | None:intergenic | 60.0% | |
| CGGCGGAGAAGAGACGAGTT+CGG | - | chr2_3:62442800-62442819 | None:intergenic | 60.0% | |
| CGAACTCGTCTCTTCTCCGC+CGG | + | chr2_3:62442798-62442817 | Msa0305030:CDS | 60.0% | |
| GTCCGGCGTTGTTGTATCGG+AGG | + | chr2_3:62442845-62442864 | Msa0305030:CDS | 60.0% | |
| TCCGATCTCCGGCCGTTGTC+CGG | + | chr2_3:62442828-62442847 | Msa0305030:CDS | 65.0% | |
| CAACAACGCCGGACAACGGC+CGG | - | chr2_3:62442839-62442858 | None:intergenic | 65.0% | |
| GCAACCGTAGCGGTGGCGCA+AGG | + | chr2_3:62442720-62442739 | Msa0305030:CDS | 70.0% | |
| ! | GTGGCCTTGCGCCACCGCTA+CGG | - | chr2_3:62442727-62442746 | None:intergenic | 70.0% |
| GCGCAAGGCCACACCGATCC+AGG | + | chr2_3:62442735-62442754 | Msa0305030:CDS | 70.0% | |
| GCCGGACAACGGCCGGAGAT+CGG | - | chr2_3:62442832-62442851 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 62442714 | 62442953 | 62442714 | ID=Msa0305030;Name=Msa0305030 |
| chr2_3 | mRNA | 62442714 | 62442953 | 62442714 | ID=Msa0305030-mRNA-1;Parent=Msa0305030;Name=Msa0305030-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|79 |
| chr2_3 | exon | 62442714 | 62442953 | 62442714 | ID=Msa0305030-mRNA-1:exon:20807;Parent=Msa0305030-mRNA-1 |
| chr2_3 | CDS | 62442714 | 62442953 | 62442714 | ID=Msa0305030-mRNA-1:cds;Parent=Msa0305030-mRNA-1 |
| Gene Sequence |
| Protein sequence |
