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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0199830 | XP_003594766.3 | 64.865 | 111 | 3 | 1 | 1 | 111 | 1 | 75 | 1.05e-28 | 110 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0199830 | A0A392NIK9 | 53.153 | 111 | 16 | 1 | 1 | 111 | 1 | 75 | 3.43e-18 | 82.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0199830 | Msa0280580 | 0.806249 | 9.013946e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0199830 | MtrunA17_Chr2g0294531 | 41.071 | 112 | 30 | 1 | 1 | 112 | 1 | 76 | 5.52e-20 | 77.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 53 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTGCACCGGCGTTGATTT+TGG | 0.206885 | 2_1:-19208289 | None:intergenic |
| GGGAGGGGAGGGGAGGGTTT+TGG | 0.212662 | 2_1:+19207882 | Msa0199830:CDS |
| TTAGGCTTTGTTTGGGAGTT+TGG | 0.225567 | 2_1:+19207857 | Msa0199830:CDS |
| TTTGGAGGGGAGGGGAGGGG+AGG | 0.254388 | 2_1:+19207875 | Msa0199830:CDS |
| AGTACCATGGTTGGTGGATT+TGG | 0.268216 | 2_1:-19207824 | None:intergenic |
| GGGAGTTTGGAGGGGAGGGG+AGG | 0.289218 | 2_1:+19207870 | Msa0199830:CDS |
| GAGTTTGGAGGGGAGGGGAG+GGG | 0.299317 | 2_1:+19207872 | Msa0199830:CDS |
| AAATTCATTTAGGCTTTGTT+TGG | 0.328746 | 2_1:+19207849 | Msa0199830:CDS |
| TTTGGGAGTTTGGAGGGGAG+GGG | 0.336426 | 2_1:+19207867 | Msa0199830:CDS |
| GTTTGGGAGTTTGGAGGGGA+GGG | 0.354818 | 2_1:+19207866 | Msa0199830:CDS |
| TGTTTGGGAGTTTGGAGGGG+AGG | 0.355934 | 2_1:+19207865 | Msa0199830:CDS |
| GGAGTTTGGAGGGGAGGGGA+GGG | 0.360686 | 2_1:+19207871 | Msa0199830:CDS |
| GCCTTAACAACCATGGTAAC+GGG | 0.361815 | 2_1:+19208247 | Msa0199830:intron |
| CCCCGTTACCATGGTTGTTA+AGG | 0.378195 | 2_1:-19208248 | None:intergenic |
| ACATTGGGAGGAGAGGGCTT+TGG | 0.379962 | 2_1:+19207938 | Msa0199830:CDS |
| GCTTTGTTTGGGAGTTTGGA+GGG | 0.388556 | 2_1:+19207861 | Msa0199830:CDS |
| ATGGTACTGGAAATTCATTT+AGG | 0.401075 | 2_1:+19207839 | Msa0199830:CDS |
| GGCTTTGTTTGGGAGTTTGG+AGG | 0.401752 | 2_1:+19207860 | Msa0199830:CDS |
| TTGGAGGGGAGGGGAGGGGA+GGG | 0.405392 | 2_1:+19207876 | Msa0199830:CDS |
| ATCAACGCCGGTGCAAATGC+CGG | 0.417551 | 2_1:+19208294 | Msa0199830:CDS |
| AATTCATTTAGGCTTTGTTT+GGG | 0.432275 | 2_1:+19207850 | Msa0199830:CDS |
| TCAACGCCGGTGCAAATGCC+GGG | 0.434183 | 2_1:+19208295 | Msa0199830:CDS |
| CTTTGTTTGGGAGTTTGGAG+GGG | 0.437713 | 2_1:+19207862 | Msa0199830:CDS |
| AAATCCACCAACCATGGTAC+TGG | 0.464639 | 2_1:+19207826 | Msa0199830:CDS |
| GCGGTGTTTGTTACGGTCCC+CGG | 0.472456 | 2_1:-19208313 | None:intergenic |
| CACCGCACCACCAATAGTTA+TGG | 0.478897 | 2_1:+19208330 | Msa0199830:CDS |
| TGGTGGTGCGGTGTTTGTTA+CGG | 0.482221 | 2_1:-19208320 | None:intergenic |
| TTGGGAGGAGAGGGCTTTGG+AGG | 0.482407 | 2_1:+19207941 | Msa0199830:CDS |
| AGTGCGGCCACCATAACTAT+TGG | 0.482716 | 2_1:-19208340 | None:intergenic |
| TGGAAGAAATAGAAGACATT+GGG | 0.497892 | 2_1:+19207923 | Msa0199830:CDS |
| ACGGTCCCCGGCATTTGCAC+CGG | 0.498453 | 2_1:-19208301 | None:intergenic |
| TAGAAGACATTGGGAGGAGA+GGG | 0.505993 | 2_1:+19207932 | Msa0199830:CDS |
| ATTTCCAGTACCATGGTTGG+TGG | 0.513143 | 2_1:-19207830 | None:intergenic |
| AGCCTTAACAACCATGGTAA+CGG | 0.529548 | 2_1:+19208246 | Msa0199830:intron |
| GTGGAAGAAATAGAAGACAT+TGG | 0.540645 | 2_1:+19207922 | Msa0199830:CDS |
| AACGGGGACCAAAATTTCTC+CGG | 0.541630 | 2_1:+19208264 | Msa0199830:CDS |
| AAACCTCATCGCAATGCTTG+AGG | 0.561734 | 2_1:+19207780 | Msa0199830:CDS |
| TGAATTTCCAGTACCATGGT+TGG | 0.563510 | 2_1:-19207833 | None:intergenic |
| ATAGAAGACATTGGGAGGAG+AGG | 0.564987 | 2_1:+19207931 | Msa0199830:CDS |
| CACCATAACTATTGGTGGTG+CGG | 0.572312 | 2_1:-19208332 | None:intergenic |
| AAGAAATAGAAGACATTGGG+AGG | 0.586992 | 2_1:+19207926 | Msa0199830:CDS |
| TGGCCGCACTATTAATAACA+AGG | 0.609381 | 2_1:+19208353 | Msa0199830:CDS |
| TAAATGAATTTCCAGTACCA+TGG | 0.609714 | 2_1:-19207837 | None:intergenic |
| TACCCTTGTTATTAATAGTG+CGG | 0.610643 | 2_1:-19208356 | None:intergenic |
| CGCACCACCAATAGTTATGG+TGG | 0.610700 | 2_1:+19208333 | Msa0199830:CDS |
| CAGCCTCAAGCATTGCGATG+AGG | 0.612561 | 2_1:-19207783 | None:intergenic |
| GCGGCCACCATAACTATTGG+TGG | 0.630307 | 2_1:-19208337 | None:intergenic |
| TCCGGTGCCAAAATCAACGC+CGG | 0.633624 | 2_1:+19208282 | Msa0199830:CDS |
| CAACGCCGGTGCAAATGCCG+GGG | 0.636406 | 2_1:+19208296 | Msa0199830:CDS |
| GCTTCCAAATCCACCAACCA+TGG | 0.636574 | 2_1:+19207820 | Msa0199830:CDS |
| CCTTAACAACCATGGTAACG+GGG | 0.661779 | 2_1:+19208248 | Msa0199830:CDS |
| GGCCGCACTATTAATAACAA+GGG | 0.679607 | 2_1:+19208354 | Msa0199830:CDS |
| AAACAAAGCCTTAACAACCA+TGG | 0.691518 | 2_1:+19208240 | Msa0199830:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTCATTTAGGCTTTGTT+TGG | + | chr2_1:19207849-19207868 | Msa0199830:CDS | 25.0% |
| !!! | AATTCATTTAGGCTTTGTTT+GGG | + | chr2_1:19207850-19207869 | Msa0199830:CDS | 25.0% |
| ! | AATAAAAAATCTCCCTCATT+TGG | + | chr2_1:19207980-19207999 | Msa0199830:intron | 25.0% |
| ! | ATAAAAAATCTCCCTCATTT+GGG | + | chr2_1:19207981-19208000 | Msa0199830:intron | 25.0% |
| TAAATGAATTTCCAGTACCA+TGG | - | chr2_1:19207840-19207859 | None:intergenic | 30.0% | |
| ! | ATGGTACTGGAAATTCATTT+AGG | + | chr2_1:19207839-19207858 | Msa0199830:CDS | 30.0% |
| TGGAAGAAATAGAAGACATT+GGG | + | chr2_1:19207923-19207942 | Msa0199830:CDS | 30.0% | |
| TAAAAAATCTCCCTCATTTG+GGG | + | chr2_1:19207982-19208001 | Msa0199830:intron | 30.0% | |
| !! | TACCCTTGTTATTAATAGTG+CGG | - | chr2_1:19208359-19208378 | None:intergenic | 30.0% |
| GTGGAAGAAATAGAAGACAT+TGG | + | chr2_1:19207922-19207941 | Msa0199830:CDS | 35.0% | |
| AAGAAATAGAAGACATTGGG+AGG | + | chr2_1:19207926-19207945 | Msa0199830:CDS | 35.0% | |
| AAAAAATCTCCCTCATTTGG+GGG | + | chr2_1:19207983-19208002 | Msa0199830:intron | 35.0% | |
| GGGAACTCAAAAATTGCATT+GGG | + | chr2_1:19208003-19208022 | Msa0199830:intron | 35.0% | |
| GGAACTCAAAAATTGCATTG+GGG | + | chr2_1:19208004-19208023 | Msa0199830:intron | 35.0% | |
| GAACTCAAAAATTGCATTGG+GGG | + | chr2_1:19208005-19208024 | Msa0199830:intron | 35.0% | |
| !! | TGGTTGTTAAGGCTTTGTTT+GGG | - | chr2_1:19208240-19208259 | None:intergenic | 35.0% |
| !! | ATGGTTGTTAAGGCTTTGTT+TGG | - | chr2_1:19208241-19208260 | None:intergenic | 35.0% |
| AAACAAAGCCTTAACAACCA+TGG | + | chr2_1:19208240-19208259 | Msa0199830:intron | 35.0% | |
| ! | GATGAGGTTTTTGATCACAC+GGG | - | chr2_1:19207770-19207789 | None:intergenic | 40.0% |
| ! | CGATGAGGTTTTTGATCACA+CGG | - | chr2_1:19207771-19207790 | None:intergenic | 40.0% |
| TGAATTTCCAGTACCATGGT+TGG | - | chr2_1:19207836-19207855 | None:intergenic | 40.0% | |
| !! | TTAGGCTTTGTTTGGGAGTT+TGG | + | chr2_1:19207857-19207876 | Msa0199830:CDS | 40.0% |
| !!! | GAGGGTTTTGGAAAAAAGGA+AGG | + | chr2_1:19207894-19207913 | Msa0199830:CDS | 40.0% |
| !!! | TTTTGAGTTCCCCCAAATGA+GGG | - | chr2_1:19207995-19208014 | None:intergenic | 40.0% |
| !!! | TTTTTGAGTTCCCCCAAATG+AGG | - | chr2_1:19207996-19208015 | None:intergenic | 40.0% |
| GGGGAACTCAAAAATTGCAT+TGG | + | chr2_1:19208002-19208021 | Msa0199830:intron | 40.0% | |
| TCAAAAATTGCATTGGGGGA+GGG | + | chr2_1:19208009-19208028 | Msa0199830:intron | 40.0% | |
| !! | TAAGGCTTTGTTTGGGAGTT+TGG | - | chr2_1:19208233-19208252 | None:intergenic | 40.0% |
| AGCCTTAACAACCATGGTAA+CGG | + | chr2_1:19208246-19208265 | Msa0199830:intron | 40.0% | |
| !! | TTTTGGCACCGGAGAAATTT+TGG | - | chr2_1:19208275-19208294 | None:intergenic | 40.0% |
| TGGCCGCACTATTAATAACA+AGG | + | chr2_1:19208353-19208372 | Msa0199830:CDS | 40.0% | |
| GGCCGCACTATTAATAACAA+GGG | + | chr2_1:19208354-19208373 | Msa0199830:CDS | 40.0% | |
| AAACCTCATCGCAATGCTTG+AGG | + | chr2_1:19207780-19207799 | Msa0199830:CDS | 45.0% | |
| !! | AGTACCATGGTTGGTGGATT+TGG | - | chr2_1:19207827-19207846 | None:intergenic | 45.0% |
| AAATCCACCAACCATGGTAC+TGG | + | chr2_1:19207826-19207845 | Msa0199830:CDS | 45.0% | |
| ATTTCCAGTACCATGGTTGG+TGG | - | chr2_1:19207833-19207852 | None:intergenic | 45.0% | |
| !! | GCTTTGTTTGGGAGTTTGGA+GGG | + | chr2_1:19207861-19207880 | Msa0199830:CDS | 45.0% |
| ! | CTTTGTTTGGGAGTTTGGAG+GGG | + | chr2_1:19207862-19207881 | Msa0199830:CDS | 45.0% |
| !!! | AGGGGAGGGTTTTGGAAAAA+AGG | + | chr2_1:19207890-19207909 | Msa0199830:CDS | 45.0% |
| GGAAAAAAGGAAGGAGCAAG+TGG | + | chr2_1:19207903-19207922 | Msa0199830:CDS | 45.0% | |
| ATAGAAGACATTGGGAGGAG+AGG | + | chr2_1:19207931-19207950 | Msa0199830:CDS | 45.0% | |
| TAGAAGACATTGGGAGGAGA+GGG | + | chr2_1:19207932-19207951 | Msa0199830:CDS | 45.0% | |
| CTCAAAAATTGCATTGGGGG+AGG | + | chr2_1:19208008-19208027 | Msa0199830:intron | 45.0% | |
| ! | CTTTGTTTGGGAGTTTGGAG+GGG | - | chr2_1:19207862-19207881 | None:intergenic | 45.0% |
| !! | GCTTTGTTTGGGAGTTTGGA+GGG | - | chr2_1:19207861-19207880 | None:intergenic | 45.0% |
| GCCTTAACAACCATGGTAAC+GGG | + | chr2_1:19208247-19208266 | Msa0199830:intron | 45.0% | |
| ! | CCTTAACAACCATGGTAACG+GGG | + | chr2_1:19208248-19208267 | Msa0199830:CDS | 45.0% |
| !! | AATTTTGGTCCCCGTTACCA+TGG | - | chr2_1:19208260-19208279 | None:intergenic | 45.0% |
| AACGGGGACCAAAATTTCTC+CGG | + | chr2_1:19208264-19208283 | Msa0199830:CDS | 45.0% | |
| !!! | ATTTGCACCGGCGTTGATTT+TGG | - | chr2_1:19208292-19208311 | None:intergenic | 45.0% |
| !! | CACCATAACTATTGGTGGTG+CGG | - | chr2_1:19208335-19208354 | None:intergenic | 45.0% |
| GCTTCCAAATCCACCAACCA+TGG | + | chr2_1:19207820-19207839 | Msa0199830:CDS | 50.0% | |
| !! | GGCTTTGTTTGGGAGTTTGG+AGG | + | chr2_1:19207860-19207879 | Msa0199830:CDS | 50.0% |
| ! | ATTGCATTGGGGGAGGGTTT+TGG | + | chr2_1:19208015-19208034 | Msa0199830:intron | 50.0% |
| ! | TTGCATTGGGGGAGGGTTTT+GGG | + | chr2_1:19208016-19208035 | Msa0199830:intron | 50.0% |
| !!! | AGGGTTTTGGGGGGTTATAG+AGG | + | chr2_1:19208028-19208047 | Msa0199830:intron | 50.0% |
| !!! | GGGTTTTGGGGGGTTATAGA+GGG | + | chr2_1:19208029-19208048 | Msa0199830:intron | 50.0% |
| TTTGGGAGTTTGGAGGGGAA+GGG | - | chr2_1:19208223-19208242 | None:intergenic | 50.0% | |
| !! | GGCTTTGTTTGGGAGTTTGG+AGG | - | chr2_1:19207860-19207879 | None:intergenic | 50.0% |
| CCCCGTTACCATGGTTGTTA+AGG | - | chr2_1:19208251-19208270 | None:intergenic | 50.0% | |
| ! | TGGTGGTGCGGTGTTTGTTA+CGG | - | chr2_1:19208323-19208342 | None:intergenic | 50.0% |
| CACCGCACCACCAATAGTTA+TGG | + | chr2_1:19208330-19208349 | Msa0199830:CDS | 50.0% | |
| CGCACCACCAATAGTTATGG+TGG | + | chr2_1:19208333-19208352 | Msa0199830:CDS | 50.0% | |
| AGTGCGGCCACCATAACTAT+TGG | - | chr2_1:19208343-19208362 | None:intergenic | 50.0% | |
| ! | CAGCCTCAAGCATTGCGATG+AGG | - | chr2_1:19207786-19207805 | None:intergenic | 55.0% |
| TGTTTGGGAGTTTGGAGGGG+AGG | + | chr2_1:19207865-19207884 | Msa0199830:CDS | 55.0% | |
| GTTTGGGAGTTTGGAGGGGA+GGG | + | chr2_1:19207866-19207885 | Msa0199830:CDS | 55.0% | |
| TTTGGGAGTTTGGAGGGGAG+GGG | + | chr2_1:19207867-19207886 | Msa0199830:CDS | 55.0% | |
| ACATTGGGAGGAGAGGGCTT+TGG | + | chr2_1:19207938-19207957 | Msa0199830:CDS | 55.0% | |
| ! | TGCATTGGGGGAGGGTTTTG+GGG | + | chr2_1:19208017-19208036 | Msa0199830:intron | 55.0% |
| GTTTGGGAGTTTGGAGGGGA+AGG | - | chr2_1:19207866-19207885 | None:intergenic | 55.0% | |
| ! | TCCGGTGCCAAAATCAACGC+CGG | + | chr2_1:19208282-19208301 | Msa0199830:CDS | 55.0% |
| !!! | ACCGGCGTTGATTTTGGCAC+CGG | - | chr2_1:19208286-19208305 | None:intergenic | 55.0% |
| ATCAACGCCGGTGCAAATGC+CGG | + | chr2_1:19208294-19208313 | Msa0199830:CDS | 55.0% | |
| GCGGCCACCATAACTATTGG+TGG | - | chr2_1:19208340-19208359 | None:intergenic | 55.0% | |
| ! | TTGGGAGGAGAGGGCTTTGG+AGG | + | chr2_1:19207941-19207960 | Msa0199830:CDS | 60.0% |
| !! | GCATTGGGGGAGGGTTTTGG+GGG | + | chr2_1:19208018-19208037 | Msa0199830:intron | 60.0% |
| !!! | CATTGGGGGAGGGTTTTGGG+GGG | + | chr2_1:19208019-19208038 | Msa0199830:intron | 60.0% |
| ! | AAGGGAGGGGAGAGCTTTGG+GGG | - | chr2_1:19208205-19208224 | None:intergenic | 60.0% |
| GAAGGGAGGGGAGAGCTTTG+GGG | - | chr2_1:19208206-19208225 | None:intergenic | 60.0% | |
| GGAAGGGAGGGGAGAGCTTT+GGG | - | chr2_1:19208207-19208226 | None:intergenic | 60.0% | |
| GAGTTTGGAGGGGAAGGGAG+GGG | - | chr2_1:19208218-19208237 | None:intergenic | 60.0% | |
| GGAGTTTGGAGGGGAAGGGA+GGG | - | chr2_1:19208219-19208238 | None:intergenic | 60.0% | |
| TCAACGCCGGTGCAAATGCC+GGG | + | chr2_1:19208295-19208314 | Msa0199830:CDS | 60.0% | |
| ! | GCGGTGTTTGTTACGGTCCC+CGG | - | chr2_1:19208316-19208335 | None:intergenic | 60.0% |
| GGAGTTTGGAGGGGAGGGGA+GGG | + | chr2_1:19207871-19207890 | Msa0199830:CDS | 65.0% | |
| GAGTTTGGAGGGGAGGGGAG+GGG | + | chr2_1:19207872-19207891 | Msa0199830:CDS | 65.0% | |
| !! | AGGGAGGGGAGAGCTTTGGG+GGG | - | chr2_1:19208204-19208223 | None:intergenic | 65.0% |
| GGGAAGGGAGGGGAGAGCTT+TGG | - | chr2_1:19208208-19208227 | None:intergenic | 65.0% | |
| GGGAGTTTGGAGGGGAAGGG+AGG | - | chr2_1:19208220-19208239 | None:intergenic | 65.0% | |
| CAACGCCGGTGCAAATGCCG+GGG | + | chr2_1:19208296-19208315 | Msa0199830:CDS | 65.0% | |
| ACGGTCCCCGGCATTTGCAC+CGG | - | chr2_1:19208304-19208323 | None:intergenic | 65.0% | |
| GGGAGTTTGGAGGGGAGGGG+AGG | + | chr2_1:19207870-19207889 | Msa0199830:CDS | 70.0% | |
| TTTGGAGGGGAGGGGAGGGG+AGG | + | chr2_1:19207875-19207894 | Msa0199830:CDS | 70.0% | |
| TTGGAGGGGAGGGGAGGGGA+GGG | + | chr2_1:19207876-19207895 | Msa0199830:CDS | 70.0% | |
| ! | GGGAGGGGAGGGGAGGGTTT+TGG | + | chr2_1:19207882-19207901 | Msa0199830:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 19207760 | 19208383 | 19207760 | ID=Msa0199830;Name=Msa0199830 |
| chr2_1 | mRNA | 19207760 | 19208383 | 19207760 | ID=Msa0199830-mRNA-1;Parent=Msa0199830;Name=Msa0199830-mRNA-1;_AED=0.59;_eAED=1.00;_QI=0|0|0|0.5|1|1|2|0|112 |
| chr2_1 | exon | 19207760 | 19207962 | 19207760 | ID=Msa0199830-mRNA-1:exon:8018;Parent=Msa0199830-mRNA-1 |
| chr2_1 | exon | 19208248 | 19208383 | 19208248 | ID=Msa0199830-mRNA-1:exon:8019;Parent=Msa0199830-mRNA-1 |
| chr2_1 | CDS | 19207760 | 19207962 | 19207760 | ID=Msa0199830-mRNA-1:cds;Parent=Msa0199830-mRNA-1 |
| chr2_1 | CDS | 19208248 | 19208383 | 19208248 | ID=Msa0199830-mRNA-1:cds;Parent=Msa0199830-mRNA-1 |
| Gene Sequence |
| Protein sequence |
