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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017860 | XP_013448450.1 | 81.651 | 109 | 20 | 0 | 1 | 109 | 1 | 109 | 5.08e-58 | 184 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017860 | sp|O03982|HIP39_ARATH | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 7.38e-20 | 82.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017860 | A0A072TYH4 | 81.651 | 109 | 20 | 0 | 1 | 109 | 1 | 109 | 2.43e-58 | 184 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1017860 | Msa1146290 | 0.853626 | 2.110365e-61 | -8.615850e-47 |
| Msa0306900 | Msa1017860 | 0.844096 | 9.343221e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017860 | MtrunA17_Chr7g0233251 | 81.651 | 109 | 20 | 0 | 1 | 109 | 1 | 109 | 4.68e-62 | 184 |
| Msa1017860 | MtrunA17_Chr7g0233191 | 79.091 | 110 | 23 | 0 | 1 | 110 | 1 | 110 | 8.40e-61 | 181 |
| Msa1017860 | MtrunA17_Chr7g0233201 | 77.273 | 110 | 25 | 0 | 1 | 110 | 1 | 110 | 7.38e-60 | 179 |
| Msa1017860 | MtrunA17_Chr7g0233211 | 77.273 | 110 | 25 | 0 | 1 | 110 | 1 | 110 | 8.42e-60 | 179 |
| Msa1017860 | MtrunA17_Chr7g0233231 | 77.273 | 110 | 25 | 0 | 1 | 110 | 1 | 110 | 3.32e-59 | 177 |
| Msa1017860 | MtrunA17_Chr7g0233181 | 79.808 | 104 | 21 | 0 | 1 | 104 | 1 | 104 | 2.10e-56 | 170 |
| Msa1017860 | MtrunA17_Chr6g0469541 | 73.636 | 110 | 29 | 0 | 1 | 110 | 1 | 110 | 3.37e-55 | 167 |
| Msa1017860 | MtrunA17_Chr6g0469591 | 57.944 | 107 | 43 | 1 | 1 | 105 | 1 | 107 | 9.89e-35 | 115 |
| Msa1017860 | MtrunA17_Chr6g0469571 | 57.009 | 107 | 44 | 1 | 1 | 105 | 1 | 107 | 1.17e-34 | 115 |
| Msa1017860 | MtrunA17_Chr6g0469551 | 56.075 | 107 | 45 | 1 | 1 | 105 | 1 | 107 | 3.51e-34 | 114 |
| Msa1017860 | MtrunA17_Chr6g0469671 | 61.194 | 67 | 26 | 0 | 1 | 67 | 1 | 67 | 7.47e-26 | 92.8 |
| Msa1017860 | MtrunA17_Chr6g0469651 | 65.672 | 67 | 23 | 0 | 1 | 67 | 1 | 67 | 8.92e-26 | 93.6 |
| Msa1017860 | MtrunA17_Chr1g0202541 | 64.179 | 67 | 24 | 0 | 1 | 67 | 1 | 67 | 2.09e-25 | 92.8 |
| Msa1017860 | MtrunA17_Chr1g0202561 | 67.164 | 67 | 22 | 0 | 1 | 67 | 1 | 67 | 3.32e-25 | 92.4 |
| Msa1017860 | MtrunA17_Chr6g0469681 | 61.194 | 67 | 26 | 0 | 1 | 67 | 1 | 67 | 5.21e-25 | 91.3 |
| Msa1017860 | MtrunA17_Chr8g0387471 | 59.722 | 72 | 29 | 0 | 1 | 72 | 1 | 72 | 2.78e-24 | 89.7 |
| Msa1017860 | MtrunA17_Chr1g0202501 | 43.103 | 116 | 54 | 2 | 1 | 104 | 1 | 116 | 1.01e-22 | 85.5 |
| Msa1017860 | MtrunA17_Chr1g0202581 | 59.701 | 67 | 26 | 1 | 1 | 67 | 1 | 66 | 1.17e-21 | 83.2 |
| Msa1017860 | MtrunA17_Chr1g0204291 | 59.701 | 67 | 26 | 1 | 1 | 67 | 1 | 66 | 2.08e-21 | 82.4 |
| Msa1017860 | MtrunA17_Chr7g0248671 | 58.209 | 67 | 28 | 0 | 1 | 67 | 1 | 67 | 3.75e-21 | 82.8 |
| Msa1017860 | MtrunA17_Chr8g0348361 | 60.870 | 46 | 18 | 0 | 22 | 67 | 22 | 67 | 6.21e-13 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1017860 | AT1G01490.1 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 7.50e-21 | 82.4 |
| Msa1017860 | AT1G01490.2 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 7.50e-21 | 82.4 |
| Msa1017860 | AT1G01490.4 | 57.576 | 66 | 27 | 1 | 3 | 67 | 30 | 95 | 1.99e-19 | 79.3 |
| Msa1017860 | AT5G52760.1 | 37.037 | 108 | 66 | 2 | 2 | 109 | 4 | 109 | 1.82e-14 | 64.7 |
| Msa1017860 | AT5G52740.1 | 46.269 | 67 | 34 | 1 | 1 | 67 | 1 | 65 | 8.16e-13 | 60.5 |
| Msa1017860 | AT5G52750.1 | 43.939 | 66 | 37 | 0 | 3 | 68 | 5 | 70 | 1.76e-11 | 57.4 |
Find 19 sgRNAs with CRISPR-Local
Find 84 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCTTGGACACTGCCTTTAC+TGG | 0.181442 | 7_1:+37433125 | None:intergenic |
| CGAGAAGAAATTGACATTAA+AGG | 0.241272 | 7_1:-37433159 | Msa1017860:CDS |
| AAGACAGCATCCAGCCTTTC+AGG | 0.250035 | 7_1:-37433665 | Msa1017860:intron |
| GAGAAGAAATTGACATTAAA+GGG | 0.319300 | 7_1:-37433158 | Msa1017860:CDS |
| TAGGTTTCAAAGTATTGAAT+TGG | 0.328085 | 7_1:+37433017 | None:intergenic |
| CAGTGTCCAAGCTAAGAAAA+TGG | 0.399021 | 7_1:-37433115 | Msa1017860:CDS |
| TTAACAGAAAGTAGTGTTGA+AGG | 0.440878 | 7_1:-37433726 | Msa1017860:intron |
| TCAATATGTACCTGAAAGGC+TGG | 0.458728 | 7_1:+37433655 | None:intergenic |
| TTCTGTTGAATCTCTGAAAG+AGG | 0.462287 | 7_1:-37433075 | Msa1017860:CDS |
| GGGGTCATCTGATAGTAATA+CGG | 0.532976 | 7_1:+37432993 | None:intergenic |
| AATCTCGAAAATATTGTGGT+GGG | 0.543098 | 7_1:+37432973 | None:intergenic |
| TAATCTCGAAAATATTGTGG+TGG | 0.564645 | 7_1:+37432972 | None:intergenic |
| AAATTCAATATGTACCTGAA+AGG | 0.592630 | 7_1:+37433651 | None:intergenic |
| ATCTCGAAAATATTGTGGTG+GGG | 0.596272 | 7_1:+37432974 | None:intergenic |
| CATCTGATAGTAATACGGAT+AGG | 0.615334 | 7_1:+37432998 | None:intergenic |
| TAGTAATCTCGAAAATATTG+TGG | 0.619288 | 7_1:+37432969 | None:intergenic |
| AGAAGAAATTGACATTAAAG+GGG | 0.621172 | 7_1:-37433157 | Msa1017860:CDS |
| ACAGAAAGTAGTGTTGAAGG+TGG | 0.627460 | 7_1:-37433723 | Msa1017860:intron |
| GAAGAAATTGACATTAAAGG+GGG | 0.651809 | 7_1:-37433156 | Msa1017860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTTATTTTTATTTTGC+AGG | - | chr7_1:37433643-37433662 | Msa1017860:intron | 10.0% |
| !!! | TTTTTTATTTTTATTTTGCA+GGG | - | chr7_1:37433644-37433663 | Msa1017860:intron | 10.0% |
| !!! | ATTTTTTATTTTTATTTTGC+AGG | - | chr7_1:37433643-37433662 | Msa1017860:intron | 10.0% |
| !!! | TTTTTTATTTTTATTTTGCA+GGG | - | chr7_1:37433644-37433663 | Msa1017860:intron | 10.0% |
| !!! | TTTTTATTTTTATTTTGCAG+GGG | - | chr7_1:37433645-37433664 | Msa1017860:intron | 15.0% |
| !!! | TTTTTATTTTTATTTTGCAG+GGG | - | chr7_1:37433645-37433664 | Msa1017860:intron | 15.0% |
| !! | AAGGATATAACAACAAAAAA+GGG | + | chr7_1:37433054-37433073 | None:intergenic | 20.0% |
| !! | AAAGGATATAACAACAAAAA+AGG | + | chr7_1:37433055-37433074 | None:intergenic | 20.0% |
| !!! | TATCCTTTCATATTTTAGAA+TGG | - | chr7_1:37433067-37433086 | Msa1017860:CDS | 20.0% |
| !! | AAAAATAAAATCGATCATGA+TGG | + | chr7_1:37433367-37433386 | None:intergenic | 20.0% |
| !! | CACAAAAGTCAAATTAAATT+AGG | + | chr7_1:37433587-37433606 | None:intergenic | 20.0% |
| !! | AAGGATATAACAACAAAAAA+GGG | + | chr7_1:37433054-37433073 | None:intergenic | 20.0% |
| !! | AAAGGATATAACAACAAAAA+AGG | + | chr7_1:37433055-37433074 | None:intergenic | 20.0% |
| !!! | TATCCTTTCATATTTTAGAA+TGG | - | chr7_1:37433067-37433086 | Msa1017860:CDS | 20.0% |
| !! | AAAAATAAAATCGATCATGA+TGG | + | chr7_1:37433367-37433386 | None:intergenic | 20.0% |
| !! | CACAAAAGTCAAATTAAATT+AGG | + | chr7_1:37433587-37433606 | None:intergenic | 20.0% |
| !!! | CTTCCATTCTAAAATATGAA+AGG | + | chr7_1:37433073-37433092 | None:intergenic | 25.0% |
| ! | AAATTCAATATGTACCTGAA+AGG | + | chr7_1:37433204-37433223 | None:intergenic | 25.0% |
| ! | TAAGTTGTGTTCAAAAGTTT+AGG | - | chr7_1:37433274-37433293 | Msa1017860:intron | 25.0% |
| ! | AAGTTGTGTTCAAAAGTTTA+GGG | - | chr7_1:37433275-37433294 | Msa1017860:intron | 25.0% |
| ! | TGAAGATGATAAAAGATTAC+AGG | + | chr7_1:37433335-37433354 | None:intergenic | 25.0% |
| ! | AATGAATCTTTCGTGTTATA+TGG | + | chr7_1:37433626-37433645 | None:intergenic | 25.0% |
| ! | GAGAAGAAATTGACATTAAA+GGG | - | chr7_1:37433694-37433713 | Msa1017860:CDS | 25.0% |
| ! | AGAAGAAATTGACATTAAAG+GGG | - | chr7_1:37433695-37433714 | Msa1017860:CDS | 25.0% |
| !!! | TAGGTTTCAAAGTATTGAAT+TGG | + | chr7_1:37433838-37433857 | None:intergenic | 25.0% |
| ! | TAGTAATCTCGAAAATATTG+TGG | + | chr7_1:37433886-37433905 | None:intergenic | 25.0% |
| !!! | CTTCCATTCTAAAATATGAA+AGG | + | chr7_1:37433073-37433092 | None:intergenic | 25.0% |
| ! | AAATTCAATATGTACCTGAA+AGG | + | chr7_1:37433204-37433223 | None:intergenic | 25.0% |
| ! | TAAGTTGTGTTCAAAAGTTT+AGG | - | chr7_1:37433274-37433293 | Msa1017860:intron | 25.0% |
| ! | AAGTTGTGTTCAAAAGTTTA+GGG | - | chr7_1:37433275-37433294 | Msa1017860:intron | 25.0% |
| ! | TGAAGATGATAAAAGATTAC+AGG | + | chr7_1:37433335-37433354 | None:intergenic | 25.0% |
| ! | AATGAATCTTTCGTGTTATA+TGG | + | chr7_1:37433626-37433645 | None:intergenic | 25.0% |
| ! | GAGAAGAAATTGACATTAAA+GGG | - | chr7_1:37433694-37433713 | Msa1017860:CDS | 25.0% |
| ! | AGAAGAAATTGACATTAAAG+GGG | - | chr7_1:37433695-37433714 | Msa1017860:CDS | 25.0% |
| !!! | TAGGTTTCAAAGTATTGAAT+TGG | + | chr7_1:37433838-37433857 | None:intergenic | 25.0% |
| ! | TAGTAATCTCGAAAATATTG+TGG | + | chr7_1:37433886-37433905 | None:intergenic | 25.0% |
| ! | TTTAGAATGGAAGTAATTGC+TGG | - | chr7_1:37433080-37433099 | Msa1017860:CDS | 30.0% |
| ! | TTAACAGAAAGTAGTGTTGA+AGG | - | chr7_1:37433126-37433145 | Msa1017860:CDS | 30.0% |
| AGTTGTGTTCAAAAGTTTAG+GGG | - | chr7_1:37433276-37433295 | Msa1017860:intron | 30.0% | |
| !!! | TAGGTTTTATTCTCAAACGA+CGG | + | chr7_1:37433568-37433587 | None:intergenic | 30.0% |
| CGAGAAGAAATTGACATTAA+AGG | - | chr7_1:37433693-37433712 | Msa1017860:CDS | 30.0% | |
| GAAGAAATTGACATTAAAGG+GGG | - | chr7_1:37433696-37433715 | Msa1017860:CDS | 30.0% | |
| AATCTCGAAAATATTGTGGT+GGG | + | chr7_1:37433882-37433901 | None:intergenic | 30.0% | |
| TAATCTCGAAAATATTGTGG+TGG | + | chr7_1:37433883-37433902 | None:intergenic | 30.0% | |
| ! | TTTAGAATGGAAGTAATTGC+TGG | - | chr7_1:37433080-37433099 | Msa1017860:CDS | 30.0% |
| ! | TTAACAGAAAGTAGTGTTGA+AGG | - | chr7_1:37433126-37433145 | Msa1017860:CDS | 30.0% |
| AGTTGTGTTCAAAAGTTTAG+GGG | - | chr7_1:37433276-37433295 | Msa1017860:intron | 30.0% | |
| !!! | TAGGTTTTATTCTCAAACGA+CGG | + | chr7_1:37433568-37433587 | None:intergenic | 30.0% |
| CGAGAAGAAATTGACATTAA+AGG | - | chr7_1:37433693-37433712 | Msa1017860:CDS | 30.0% | |
| GAAGAAATTGACATTAAAGG+GGG | - | chr7_1:37433696-37433715 | Msa1017860:CDS | 30.0% | |
| AATCTCGAAAATATTGTGGT+GGG | + | chr7_1:37433882-37433901 | None:intergenic | 30.0% | |
| TAATCTCGAAAATATTGTGG+TGG | + | chr7_1:37433883-37433902 | None:intergenic | 30.0% | |
| GTTGTGTTCAAAAGTTTAGG+GGG | - | chr7_1:37433277-37433296 | Msa1017860:intron | 35.0% | |
| TTGTGTTCAAAAGTTTAGGG+GGG | - | chr7_1:37433278-37433297 | Msa1017860:intron | 35.0% | |
| TACACTTGCTCAAAACAGAA+AGG | - | chr7_1:37433411-37433430 | Msa1017860:intron | 35.0% | |
| ! | TTGACACCATTTTCTTAGCT+TGG | + | chr7_1:37433746-37433765 | None:intergenic | 35.0% |
| ! | TTCTGTTGAATCTCTGAAAG+AGG | - | chr7_1:37433777-37433796 | Msa1017860:intron | 35.0% |
| CATCTGATAGTAATACGGAT+AGG | + | chr7_1:37433857-37433876 | None:intergenic | 35.0% | |
| ATCTCGAAAATATTGTGGTG+GGG | + | chr7_1:37433881-37433900 | None:intergenic | 35.0% | |
| GTTGTGTTCAAAAGTTTAGG+GGG | - | chr7_1:37433277-37433296 | Msa1017860:intron | 35.0% | |
| TTGTGTTCAAAAGTTTAGGG+GGG | - | chr7_1:37433278-37433297 | Msa1017860:intron | 35.0% | |
| TACACTTGCTCAAAACAGAA+AGG | - | chr7_1:37433411-37433430 | Msa1017860:intron | 35.0% | |
| ! | TTGACACCATTTTCTTAGCT+TGG | + | chr7_1:37433746-37433765 | None:intergenic | 35.0% |
| ! | TTCTGTTGAATCTCTGAAAG+AGG | - | chr7_1:37433777-37433796 | Msa1017860:intron | 35.0% |
| CATCTGATAGTAATACGGAT+AGG | + | chr7_1:37433857-37433876 | None:intergenic | 35.0% | |
| ATCTCGAAAATATTGTGGTG+GGG | + | chr7_1:37433881-37433900 | None:intergenic | 35.0% | |
| ! | ACAGAAAGTAGTGTTGAAGG+TGG | - | chr7_1:37433129-37433148 | Msa1017860:CDS | 40.0% |
| TCAATATGTACCTGAAAGGC+TGG | + | chr7_1:37433200-37433219 | None:intergenic | 40.0% | |
| CAGTGTCCAAGCTAAGAAAA+TGG | - | chr7_1:37433737-37433756 | Msa1017860:intron | 40.0% | |
| GGGGTCATCTGATAGTAATA+CGG | + | chr7_1:37433862-37433881 | None:intergenic | 40.0% | |
| ! | ACAGAAAGTAGTGTTGAAGG+TGG | - | chr7_1:37433129-37433148 | Msa1017860:CDS | 40.0% |
| TCAATATGTACCTGAAAGGC+TGG | + | chr7_1:37433200-37433219 | None:intergenic | 40.0% | |
| CAGTGTCCAAGCTAAGAAAA+TGG | - | chr7_1:37433737-37433756 | Msa1017860:intron | 40.0% | |
| GGGGTCATCTGATAGTAATA+CGG | + | chr7_1:37433862-37433881 | None:intergenic | 40.0% | |
| GGGGGATATTGATCCAGTAA+AGG | - | chr7_1:37433714-37433733 | Msa1017860:CDS | 45.0% | |
| GGGGGATATTGATCCAGTAA+AGG | - | chr7_1:37433714-37433733 | Msa1017860:CDS | 45.0% | |
| !!! | ATATATTTTTTTATAAAGTT+AGG | + | chr7_1:37433479-37433498 | None:intergenic | 5.0% |
| !! | TAACTTTATAAAAAAATATA+TGG | - | chr7_1:37433478-37433497 | Msa1017860:intron | 5.0% |
| !!! | ATATATTTTTTTATAAAGTT+AGG | + | chr7_1:37433479-37433498 | None:intergenic | 5.0% |
| !! | TAACTTTATAAAAAAATATA+TGG | - | chr7_1:37433478-37433497 | Msa1017860:intron | 5.0% |
| AAGACAGCATCCAGCCTTTC+AGG | - | chr7_1:37433187-37433206 | Msa1017860:CDS | 50.0% | |
| AGCTTGGACACTGCCTTTAC+TGG | + | chr7_1:37433730-37433749 | None:intergenic | 50.0% | |
| AAGACAGCATCCAGCCTTTC+AGG | - | chr7_1:37433187-37433206 | Msa1017860:CDS | 50.0% | |
| AGCTTGGACACTGCCTTTAC+TGG | + | chr7_1:37433730-37433749 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 37432959 | 37433915 | 37432959 | ID=Msa1017860;Name=Msa1017860 |
| chr7_1 | mRNA | 37432959 | 37433915 | 37432959 | ID=Msa1017860-mRNA-1;Parent=Msa1017860;Name=Msa1017860-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0|0|0.66|1|1|3|0|110 |
| chr7_1 | exon | 37433910 | 37433915 | 37433910 | ID=Msa1017860-mRNA-1:exon:7232;Parent=Msa1017860-mRNA-1 |
| chr7_1 | exon | 37433666 | 37433741 | 37433666 | ID=Msa1017860-mRNA-1:exon:7231;Parent=Msa1017860-mRNA-1 |
| chr7_1 | exon | 37432959 | 37433209 | 37432959 | ID=Msa1017860-mRNA-1:exon:7230;Parent=Msa1017860-mRNA-1 |
| chr7_1 | CDS | 37433910 | 37433915 | 37433910 | ID=Msa1017860-mRNA-1:cds;Parent=Msa1017860-mRNA-1 |
| chr7_1 | CDS | 37433666 | 37433741 | 37433666 | ID=Msa1017860-mRNA-1:cds;Parent=Msa1017860-mRNA-1 |
| chr7_1 | CDS | 37432959 | 37433209 | 37432959 | ID=Msa1017860-mRNA-1:cds;Parent=Msa1017860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
