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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602920 | XP_024636636.1 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 3.47e-32 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602920 | sp|P0DO45|ATP6B_ARATH | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.07e-29 | 99.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602920 | G7JTP1 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 1.66e-32 | 115 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003780 | Msa0602920 | 0.810447 | 1.147682e-50 | -8.615850e-47 |
| Msa0037250 | Msa0602920 | 0.803330 | 3.671160e-49 | -8.615850e-47 |
| Msa0056470 | Msa0602920 | 0.825437 | 4.690682e-54 | -8.615850e-47 |
| Msa0082280 | Msa0602920 | 0.807018 | 6.202538e-50 | -8.615850e-47 |
| Msa0602920 | Msa0622750 | 0.813003 | 3.188404e-51 | -8.615850e-47 |
| Msa0602920 | Msa0623200 | 0.803784 | 2.954706e-49 | -8.615850e-47 |
| Msa0602920 | Msa0643980 | 0.934967 | 1.775051e-96 | -8.615850e-47 |
| Msa0602920 | Msa0661300 | 0.829810 | 4.179793e-55 | -8.615850e-47 |
| Msa0602920 | Msa0666560 | -0.827930 | 1.191424e-54 | -8.615850e-47 |
| Msa0602920 | Msa0687630 | 0.816560 | 5.192587e-52 | -8.615850e-47 |
| Msa0602920 | Msa0698780 | 0.807367 | 5.232101e-50 | -8.615850e-47 |
| Msa0602920 | Msa0709780 | 0.802212 | 6.243570e-49 | -8.615850e-47 |
| Msa0602920 | Msa0785130 | 0.804782 | 1.831403e-49 | -8.615850e-47 |
| Msa0602920 | Msa0808800 | 0.802414 | 5.674668e-49 | -8.615850e-47 |
| Msa0602920 | Msa0966270 | 0.828525 | 8.565886e-55 | -8.615850e-47 |
| Msa0602920 | Msa1019240 | 0.817404 | 3.356356e-52 | -8.615850e-47 |
| Msa0602920 | Msa1019260 | 0.828842 | 7.178632e-55 | -8.615850e-47 |
| Msa0602920 | Msa1081150 | 0.806329 | 8.671580e-50 | -8.615850e-47 |
| Msa0602920 | Msa1085470 | 0.830833 | 2.350215e-55 | -8.615850e-47 |
| Msa0602920 | Msa1104140 | 0.806263 | 8.955945e-50 | -8.615850e-47 |
| Msa0602920 | Msa1104210 | 0.834743 | 2.512412e-56 | -8.615850e-47 |
| Msa0602920 | Msa1123570 | 0.800306 | 1.533553e-48 | -8.615850e-47 |
| Msa0602920 | Msa1126510 | 0.831472 | 1.637239e-55 | -8.615850e-47 |
| Msa0602920 | Msa1126770 | 0.814163 | 1.771998e-51 | -8.615850e-47 |
| Msa0602920 | Msa1126830 | 0.803062 | 4.169273e-49 | -8.615850e-47 |
| Msa0602920 | Msa1131560 | 0.804802 | 1.813740e-49 | -8.615850e-47 |
| Msa0602920 | Msa1165940 | 0.803083 | 4.129457e-49 | -8.615850e-47 |
| Msa0602920 | Msa1166860 | 0.846656 | 1.893573e-59 | -8.615850e-47 |
| Msa0602920 | Msa1166870 | 0.816677 | 4.888640e-52 | -8.615850e-47 |
| Msa0602920 | Msa1227690 | 0.807333 | 5.319678e-50 | -8.615850e-47 |
| Msa0602920 | Msa1305050 | 0.807802 | 4.230887e-50 | -8.615850e-47 |
| Msa0602920 | Msa1338190 | 0.811583 | 6.511925e-51 | -8.615850e-47 |
| Msa0602920 | Msa1363330 | 0.814997 | 1.158364e-51 | -8.615850e-47 |
| Msa0602920 | Msa1369190 | 0.812909 | 3.344077e-51 | -8.615850e-47 |
| Msa0602920 | Msa1370860 | 0.813107 | 3.026390e-51 | -8.615850e-47 |
| Msa0602920 | Msa1386600 | 0.815461 | 9.138176e-52 | -8.615850e-47 |
| Msa0602920 | Msa1433310 | 0.808880 | 2.491942e-50 | -8.615850e-47 |
| Msa0602920 | Msa1442850 | 0.806820 | 6.830677e-50 | -8.615850e-47 |
| Msa0602920 | Msa1448690 | 0.802478 | 5.503994e-49 | -8.615850e-47 |
| Msa0602920 | Msa1462860 | 0.813714 | 2.225927e-51 | -8.615850e-47 |
| Msa0140850 | Msa0602920 | 0.816235 | 6.139782e-52 | -8.615850e-47 |
| Msa0146340 | Msa0602920 | 0.832252 | 1.051246e-55 | -8.615850e-47 |
| Msa0199690 | Msa0602920 | 0.800524 | 1.384419e-48 | -8.615850e-47 |
| Msa0369450 | Msa0602920 | 0.813332 | 2.700391e-51 | -8.615850e-47 |
| Msa0414800 | Msa0602920 | 0.810143 | 1.334437e-50 | -8.615850e-47 |
| Msa0423750 | Msa0602920 | 0.806147 | 9.473541e-50 | -8.615850e-47 |
| Msa0427150 | Msa0602920 | 0.854445 | 1.225508e-61 | -8.615850e-47 |
| Msa0434920 | Msa0602920 | 0.802151 | 6.428808e-49 | -8.615850e-47 |
| Msa0443390 | Msa0602920 | 0.826700 | 2.349274e-54 | -8.615850e-47 |
| Msa0458060 | Msa0602920 | 0.810750 | 9.867957e-51 | -8.615850e-47 |
| Msa0471590 | Msa0602920 | 0.819012 | 1.451864e-52 | -8.615850e-47 |
| Msa0268130 | Msa0602920 | 0.802287 | 6.027996e-49 | -8.615850e-47 |
| Msa0298990 | Msa0602920 | 0.804953 | 1.686314e-49 | -8.615850e-47 |
| Msa0304590 | Msa0602920 | 0.825908 | 3.626957e-54 | -8.615850e-47 |
| Msa0304660 | Msa0602920 | 0.808744 | 2.664549e-50 | -8.615850e-47 |
| Msa0322890 | Msa0602920 | 0.821909 | 3.142083e-53 | -8.615850e-47 |
| Msa0327330 | Msa0602920 | 0.812380 | 4.365111e-51 | -8.615850e-47 |
| Msa0331700 | Msa0602920 | 0.810677 | 1.023350e-50 | -8.615850e-47 |
| Msa0348830 | Msa0602920 | 0.813787 | 2.144983e-51 | -8.615850e-47 |
| Msa0526540 | Msa0602920 | 0.815963 | 7.061064e-52 | -8.615850e-47 |
| Msa0547940 | Msa0602920 | 0.992005 | 9.233915e-191 | -8.615850e-47 |
| Msa0576940 | Msa0602920 | 0.818820 | 1.605909e-52 | -8.615850e-47 |
| Msa0581070 | Msa0602920 | 0.816508 | 5.333751e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602920 | MtrunA17_Chr4g0030851 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 3.19e-36 | 115 |
| Msa0602920 | MtrunA17_Chr2g0327811 | 89.091 | 55 | 6 | 0 | 1 | 55 | 1 | 55 | 7.42e-32 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602920 | AT3G46430.1 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
| Msa0602920 | AT5G59613.1 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
| Msa0602920 | AT5G59613.2 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
Find 16 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTCTCTCTTGAAGAAAAC+TGG | 0.292105 | 4_2:-46989973 | None:intergenic |
| TTTGTGATGCTGAACGAATT+TGG | 0.293620 | 4_2:-46990197 | None:intergenic |
| GGTAAGACCAAGAGAGAATT+TGG | 0.344448 | 4_2:-46990049 | None:intergenic |
| AAATTCTCTCTTGGTCTTAC+CGG | 0.355061 | 4_2:+46990051 | Msa0602920:CDS |
| CTTGTCACCAAATTCTCTCT+TGG | 0.398915 | 4_2:+46990042 | Msa0602920:CDS |
| CTCGTTGGATTCGCCGTCAC+CGG | 0.441426 | 4_2:+46990015 | Msa0602920:CDS |
| AGAGAGAATGGAAACGTACT+TGG | 0.486234 | 4_2:+46989986 | Msa0602920:CDS |
| CTCTTGAAGAAAACTGGCCA+TGG | 0.493329 | 4_2:-46989967 | None:intergenic |
| TCTTCGTCACACCAAAGTTA+CGG | 0.513023 | 4_2:-46989865 | None:intergenic |
| AATTCGTTCAGCATCACAAA+AGG | 0.536789 | 4_2:+46990200 | Msa0602920:CDS |
| ACGGCGAATCCAACGAGGAA+TGG | 0.540309 | 4_2:-46990009 | None:intergenic |
| GAATTTGGTGACAAGAGCTC+CGG | 0.557010 | 4_2:-46990034 | None:intergenic |
| CGTACTTGGCCATTCCTCGT+TGG | 0.562709 | 4_2:+46990000 | Msa0602920:CDS |
| AAATGAGACAGTTCGATCCA+TGG | 0.569004 | 4_2:+46989950 | Msa0602920:exon |
| GGTGACAAGAGCTCCGGTGA+CGG | 0.581739 | 4_2:-46990028 | None:intergenic |
| CGGTGACGGCGAATCCAACG+AGG | 0.732353 | 4_2:-46990014 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTATTTGTAGAATTA+GGG | + | chr4_2:46990102-46990121 | Msa0602920:intron | 10.0% |
| !! | CTAATTCTACAAATAAAAAA+AGG | - | chr4_2:46990103-46990122 | None:intergenic | 15.0% |
| !!! | CTTTTTTTATTTGTAGAATT+AGG | + | chr4_2:46990101-46990120 | Msa0602920:intron | 15.0% |
| !! | TACGGTTTTTGTTACAAAAA+TGG | - | chr4_2:46989850-46989869 | None:intergenic | 25.0% |
| ! | AGAGAAATAGAATGAATTAC+CGG | - | chr4_2:46990073-46990092 | None:intergenic | 25.0% |
| CAAAAATGGTAGAGTTTAGA+TGG | - | chr4_2:46989836-46989855 | None:intergenic | 30.0% | |
| TGTAACAAAAACCGTAACTT+TGG | + | chr4_2:46989854-46989873 | Msa0602920:five_prime_UTR | 30.0% | |
| CATTCTCTCTTGAAGAAAAC+TGG | - | chr4_2:46989976-46989995 | None:intergenic | 35.0% | |
| ! | CAGTTTTCTTCAAGAGAGAA+TGG | + | chr4_2:46989974-46989993 | Msa0602920:CDS | 35.0% |
| !! | AAATTCTCTCTTGGTCTTAC+CGG | + | chr4_2:46990051-46990070 | Msa0602920:CDS | 35.0% |
| CTGCAACAGAAACAAAATGA+AGG | - | chr4_2:46990159-46990178 | None:intergenic | 35.0% | |
| !!! | TCATTTTGTTTCTGTTGCAG+AGG | + | chr4_2:46990159-46990178 | Msa0602920:intron | 35.0% |
| TTTGTGATGCTGAACGAATT+TGG | - | chr4_2:46990200-46990219 | None:intergenic | 35.0% | |
| AATTCGTTCAGCATCACAAA+AGG | + | chr4_2:46990200-46990219 | Msa0602920:CDS | 35.0% | |
| TCTTCGTCACACCAAAGTTA+CGG | - | chr4_2:46989868-46989887 | None:intergenic | 40.0% | |
| AAATGAGACAGTTCGATCCA+TGG | + | chr4_2:46989950-46989969 | Msa0602920:exon | 40.0% | |
| AGAGAGAATGGAAACGTACT+TGG | + | chr4_2:46989986-46990005 | Msa0602920:CDS | 40.0% | |
| CTTGTCACCAAATTCTCTCT+TGG | + | chr4_2:46990042-46990061 | Msa0602920:CDS | 40.0% | |
| GGTAAGACCAAGAGAGAATT+TGG | - | chr4_2:46990052-46990071 | None:intergenic | 40.0% | |
| CTCTTGAAGAAAACTGGCCA+TGG | - | chr4_2:46989970-46989989 | None:intergenic | 45.0% | |
| ! | GAATTTGGTGACAAGAGCTC+CGG | - | chr4_2:46990037-46990056 | None:intergenic | 45.0% |
| CGTACTTGGCCATTCCTCGT+TGG | + | chr4_2:46990000-46990019 | Msa0602920:CDS | 55.0% | |
| ACGGCGAATCCAACGAGGAA+TGG | - | chr4_2:46990012-46990031 | None:intergenic | 55.0% | |
| CTCGTTGGATTCGCCGTCAC+CGG | + | chr4_2:46990015-46990034 | Msa0602920:CDS | 60.0% | |
| GGTGACAAGAGCTCCGGTGA+CGG | - | chr4_2:46990031-46990050 | None:intergenic | 60.0% | |
| ! | CGGTGACGGCGAATCCAACG+AGG | - | chr4_2:46990017-46990036 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 46989821 | 46990225 | 46989821 | ID=Msa0602920;Name=Msa0602920 |
| chr4_2 | mRNA | 46989821 | 46990225 | 46989821 | ID=Msa0602920-mRNA-1;Parent=Msa0602920;Name=Msa0602920-mRNA-1;_AED=0.28;_eAED=0.28;_QI=131|1|0.5|1|1|1|2|0|55 |
| chr4_2 | exon | 46989821 | 46990072 | 46989821 | ID=Msa0602920-mRNA-1:exon:10749;Parent=Msa0602920-mRNA-1 |
| chr4_2 | exon | 46990179 | 46990225 | 46990179 | ID=Msa0602920-mRNA-1:exon:10750;Parent=Msa0602920-mRNA-1 |
| chr4_2 | five_prime_UTR | 46989821 | 46989951 | 46989821 | ID=Msa0602920-mRNA-1:five_prime_utr;Parent=Msa0602920-mRNA-1 |
| chr4_2 | CDS | 46989952 | 46990072 | 46989952 | ID=Msa0602920-mRNA-1:cds;Parent=Msa0602920-mRNA-1 |
| chr4_2 | CDS | 46990179 | 46990225 | 46990179 | ID=Msa0602920-mRNA-1:cds;Parent=Msa0602920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
