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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015590.01.T01 | XP_003601098.1 | 95.062 | 81 | 4 | 0 | 1 | 81 | 281 | 361 | 6.49E-48 | 165 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015590.01.T01 | F4I4W2 | 80 | 80 | 16 | 0 | 1 | 80 | 250 | 329 | 1.64E-41 | 140 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015590.01.T01 | G7J3L5 | 95.062 | 81 | 4 | 0 | 1 | 81 | 281 | 361 | 3.10e-48 | 165 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0380015590.01 | MsG0480020002.01 | 0.814510 | 1.485376e-51 | 9.986650e-49 |
| MsG0380015590.01 | MsG0680031361.01 | 0.804390 | 2.210537e-49 | 1.138334e-46 |
| MsG0380015590.01 | MsG0780037965.01 | 0.802208 | 6.255591e-49 | 3.046306e-46 |
| MsG0380015590.01 | MsG0780040607.01 | 0.800337 | 1.511085e-48 | 7.018135e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015590.01.T01 | MTR_3g073010 | 95.062 | 81 | 4 | 0 | 1 | 81 | 281 | 361 | 7.86e-52 | 165 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380015590.01.T01 | AT1G37150 | 80.000 | 80 | 16 | 0 | 1 | 80 | 207 | 286 | 1.36e-42 | 139 |
| MsG0380015590.01.T01 | AT1G37150 | 80.000 | 80 | 16 | 0 | 1 | 80 | 250 | 329 | 1.67e-42 | 140 |
| MsG0380015590.01.T01 | AT2G25710 | 78.750 | 80 | 17 | 0 | 1 | 80 | 250 | 329 | 3.96e-41 | 137 |
| MsG0380015590.01.T01 | AT2G25710 | 78.750 | 80 | 17 | 0 | 1 | 80 | 250 | 329 | 3.96e-41 | 137 |
| MsG0380015590.01.T01 | AT2G25710 | 79.747 | 79 | 16 | 0 | 2 | 80 | 289 | 367 | 5.16e-41 | 137 |
| MsG0380015590.01.T01 | AT2G25710 | 79.747 | 79 | 16 | 0 | 2 | 80 | 289 | 367 | 5.16e-41 | 137 |
| MsG0380015590.01.T01 | AT1G37150 | 68.889 | 45 | 14 | 0 | 5 | 49 | 254 | 298 | 1.14e-16 | 72.8 |
| MsG0380015590.01.T01 | AT1G37150 | 69.767 | 43 | 13 | 0 | 2 | 44 | 168 | 210 | 1.18e-15 | 68.6 |
| MsG0380015590.01.T01 | AT1G37150 | 75.000 | 40 | 10 | 0 | 5 | 44 | 254 | 293 | 2.19e-15 | 68.9 |
| MsG0380015590.01.T01 | AT1G37150 | 75.000 | 40 | 10 | 0 | 5 | 44 | 254 | 293 | 2.19e-15 | 68.9 |
| MsG0380015590.01.T01 | AT1G37150 | 75.000 | 40 | 10 | 0 | 5 | 44 | 254 | 293 | 2.19e-15 | 68.9 |
| MsG0380015590.01.T01 | AT1G37150 | 76.316 | 38 | 9 | 0 | 5 | 42 | 254 | 291 | 3.04e-15 | 68.6 |
| MsG0380015590.01.T01 | AT1G37150 | 76.316 | 38 | 9 | 0 | 5 | 42 | 254 | 291 | 3.04e-15 | 68.6 |
Find 22 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGAACATGCGGTAACAATTC+AGG | 0.306394 | 3:+72244998 | MsG0380015590.01.T01:CDS |
| CAGGGTGGAGCTCACACATT+TGG | 0.389032 | 3:-72245357 | None:intergenic |
| TTCCATTACCTATTACCATC+AGG | 0.410856 | 3:-72245376 | None:intergenic |
| AGCTCCACCCTGATGGTAAT+AGG | 0.416462 | 3:+72245368 | MsG0380015590.01.T01:CDS |
| TTGTAGGGTTTGACGTCCTC+GGG | 0.435328 | 3:+72245307 | MsG0380015590.01.T01:intron |
| TTTGTAGGGTTTGACGTCCT+CGG | 0.435494 | 3:+72245306 | MsG0380015590.01.T01:intron |
| GACGTCCTCGGGATATTTGT+TGG | 0.437033 | 3:+72245318 | MsG0380015590.01.T01:CDS |
| TCTTGTAATATAGTTCCTCT+AGG | 0.468024 | 3:-72244614 | None:intergenic |
| TAACCTATTATGTTAAATGC+AGG | 0.475712 | 3:+72244582 | None:intergenic |
| CTTGTAATATAGTTCCTCTA+GGG | 0.500499 | 3:-72244613 | None:intergenic |
| TCCATTACCTATTACCATCA+GGG | 0.541073 | 3:-72245375 | None:intergenic |
| TCGGGATATTTGTTGGCAGT+CGG | 0.549135 | 3:+72245325 | MsG0380015590.01.T01:CDS |
| ATTACAAGACATGGTTGCAC+AGG | 0.556223 | 3:+72244628 | MsG0380015590.01.T01:CDS |
| ATATGTTGCCTGACCAGACA+AGG | 0.602815 | 3:-72245863 | None:intergenic |
| TACACAGCTCATGTCACAAG+AGG | 0.612533 | 3:+72245689 | MsG0380015590.01.T01:three_prime_UTR |
| ATGTGTGAGCTCCACCCTGA+TGG | 0.635556 | 3:+72245361 | MsG0380015590.01.T01:CDS |
| AGGAACTATATTACAAGACA+TGG | 0.642353 | 3:+72244619 | MsG0380015590.01.T01:CDS |
| TGCAGGATTTCAAACCCTAG+AGG | 0.679588 | 3:+72244599 | MsG0380015590.01.T01:CDS |
| ATTACCTATTACCATCAGGG+TGG | 0.691674 | 3:-72245372 | None:intergenic |
| GACTGCCAACAAATATCCCG+AGG | 0.701770 | 3:-72245323 | None:intergenic |
| GGACAAAGTAGTCGAACATG+CGG | 0.723999 | 3:+72244986 | MsG0380015590.01.T01:CDS |
| TATTGTACAAGAAAAGAACG+AGG | 0.782276 | 3:+72244965 | MsG0380015590.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCAATTTATATCATAATC+AGG | - | Chr3:72245590-72245609 | None:intergenic | 15.0% |
| !!! | TATTTTCTACAAATTAACTA+AGG | + | Chr3:72245726-72245745 | MsG0380015590.01.T01:three_prime_UTR | 15.0% |
| !! | ACAATATTAATTACTGAACT+CGG | + | Chr3:72244765-72244784 | MsG0380015590.01.T01:intron | 20.0% |
| !! | AGCAATATAGCTAAAAATTT+AGG | + | Chr3:72245752-72245771 | MsG0380015590.01.T01:three_prime_UTR | 20.0% |
| !! | TAATATTGTGAAAACATGTT+GGG | - | Chr3:72244754-72244773 | None:intergenic | 20.0% |
| !! | TTAATATTGTGAAAACATGT+TGG | - | Chr3:72244755-72244774 | None:intergenic | 20.0% |
| !!! | GATAATTGCTTTTATTTGTA+GGG | + | Chr3:72245292-72245311 | MsG0380015590.01.T01:intron | 20.0% |
| !!! | TTCAGATATTTTTGTAAATC+AGG | - | Chr3:72245045-72245064 | None:intergenic | 20.0% |
| ! | AAAAAACGTGATAAGTTTGA+GGG | - | Chr3:72245843-72245862 | None:intergenic | 25.0% |
| ! | ATCGATATAAACATTGAATG+TGG | - | Chr3:72245219-72245238 | None:intergenic | 25.0% |
| !! | AATAAAAGCACATGATAAAG+AGG | - | Chr3:72244688-72244707 | None:intergenic | 25.0% |
| !! | TACTTTTACTTCAATCATGA+AGG | + | Chr3:72244712-72244731 | MsG0380015590.01.T01:intron | 25.0% |
| !!! | CGATAATTGCTTTTATTTGT+AGG | + | Chr3:72245291-72245310 | MsG0380015590.01.T01:intron | 25.0% |
| AGGAACTATATTACAAGACA+TGG | + | Chr3:72244619-72244638 | MsG0380015590.01.T01:CDS | 30.0% | |
| ATCCTAGTTATGCTTTCATT+TGG | + | Chr3:72244846-72244865 | MsG0380015590.01.T01:intron | 30.0% | |
| CTTGTAATATAGTTCCTCTA+GGG | - | Chr3:72244616-72244635 | None:intergenic | 30.0% | |
| GAAAAAACGTGATAAGTTTG+AGG | - | Chr3:72245844-72245863 | None:intergenic | 30.0% | |
| TACAGCAAATTTCACATCAA+TGG | - | Chr3:72245085-72245104 | None:intergenic | 30.0% | |
| TATTGTACAAGAAAAGAACG+AGG | + | Chr3:72244965-72244984 | MsG0380015590.01.T01:CDS | 30.0% | |
| TCTTGTAATATAGTTCCTCT+AGG | - | Chr3:72244617-72244636 | None:intergenic | 30.0% | |
| TTATTGCATACTAGTATACG+TGG | + | Chr3:72244884-72244903 | MsG0380015590.01.T01:intron | 30.0% | |
| ! | TTCCAAATGAAAGCATAACT+AGG | - | Chr3:72244851-72244870 | None:intergenic | 30.0% |
| !!! | TACAGCTTTGACTTTTTCAA+AGG | + | Chr3:72245634-72245653 | MsG0380015590.01.T01:intron | 30.0% |
| ACATTCAAAATGTCATGCAG+TGG | + | Chr3:72244933-72244952 | MsG0380015590.01.T01:intron | 35.0% | |
| CAATCATGAAGGAAACGATT+CGG | + | Chr3:72244723-72244742 | MsG0380015590.01.T01:intron | 35.0% | |
| TCCATTACCTATTACCATCA+GGG | - | Chr3:72245378-72245397 | None:intergenic | 35.0% | |
| TGTCAACTTGACATCATTAC+TGG | + | Chr3:72245253-72245272 | MsG0380015590.01.T01:intron | 35.0% | |
| TTCCATTACCTATTACCATC+AGG | - | Chr3:72245379-72245398 | None:intergenic | 35.0% | |
| !!! | TATCACGTTTTTTCCTTGTC+TGG | + | Chr3:72245850-72245869 | MsG0380015590.01.T01:three_prime_UTR | 35.0% |
| !!! | TTTTCAAAGGACTAGTCAGA+AGG | + | Chr3:72245647-72245666 | MsG0380015590.01.T01:CDS | 35.0% |
| ACCCTGATGGTAATAGGTAA+TGG | + | Chr3:72245374-72245393 | MsG0380015590.01.T01:intron | 40.0% | |
| ATGCGGTAACAATTCAGGTA+TGG | + | Chr3:72245003-72245022 | MsG0380015590.01.T01:intron | 40.0% | |
| ATTACAAGACATGGTTGCAC+AGG | + | Chr3:72244628-72244647 | MsG0380015590.01.T01:CDS | 40.0% | |
| ATTACCTATTACCATCAGGG+TGG | - | Chr3:72245375-72245394 | None:intergenic | 40.0% | |
| ATATGTTGCCTGACCAGACA+AGG | - | Chr3:72245866-72245885 | None:intergenic | 45.0% | |
| CGAACATGCGGTAACAATTC+AGG | + | Chr3:72244998-72245017 | MsG0380015590.01.T01:CDS | 45.0% | |
| GGACAAAGTAGTCGAACATG+CGG | + | Chr3:72244986-72245005 | MsG0380015590.01.T01:CDS | 45.0% | |
| TACACAGCTCATGTCACAAG+AGG | + | Chr3:72245689-72245708 | MsG0380015590.01.T01:three_prime_UTR | 45.0% | |
| TGCAGGATTTCAAACCCTAG+AGG | + | Chr3:72244599-72244618 | MsG0380015590.01.T01:CDS | 45.0% | |
| TTTGTAGGGTTTGACGTCCT+CGG | + | Chr3:72245306-72245325 | MsG0380015590.01.T01:intron | 45.0% | |
| ! | TCGGGATATTTGTTGGCAGT+CGG | + | Chr3:72245325-72245344 | MsG0380015590.01.T01:CDS | 45.0% |
| !!! | CGTTTTTTCCTTGTCTGGTC+AGG | + | Chr3:72245855-72245874 | MsG0380015590.01.T01:three_prime_UTR | 45.0% |
| AGCTCCACCCTGATGGTAAT+AGG | + | Chr3:72245368-72245387 | MsG0380015590.01.T01:CDS | 50.0% | |
| GACGTCCTCGGGATATTTGT+TGG | + | Chr3:72245318-72245337 | MsG0380015590.01.T01:CDS | 50.0% | |
| GACTGCCAACAAATATCCCG+AGG | - | Chr3:72245326-72245345 | None:intergenic | 50.0% | |
| TTGTAGGGTTTGACGTCCTC+GGG | + | Chr3:72245307-72245326 | MsG0380015590.01.T01:intron | 50.0% | |
| ATGTGTGAGCTCCACCCTGA+TGG | + | Chr3:72245361-72245380 | MsG0380015590.01.T01:CDS | 55.0% | |
| CAGGGTGGAGCTCACACATT+TGG | - | Chr3:72245360-72245379 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 72244591 | 72245937 | 72244591 | ID=MsG0380015590.01;Name=MsG0380015590.01 |
| Chr3 | mRNA | 72244591 | 72245937 | 72244591 | ID=MsG0380015590.01.T01;Parent=MsG0380015590.01;Name=MsG0380015590.01.T01;_AED=0.48;_eAED=0.49;_QI=0|1|0.75|1|0.66|0.75|4|256|81 |
| Chr3 | exon | 72244591 | 72244649 | 72244591 | ID=MsG0380015590.01.T01:exon:628;Parent=MsG0380015590.01.T01 |
| Chr3 | exon | 72244953 | 72245019 | 72244953 | ID=MsG0380015590.01.T01:exon:629;Parent=MsG0380015590.01.T01 |
| Chr3 | exon | 72245313 | 72245389 | 72245313 | ID=MsG0380015590.01.T01:exon:630;Parent=MsG0380015590.01.T01 |
| Chr3 | exon | 72245639 | 72245937 | 72245639 | ID=MsG0380015590.01.T01:exon:631;Parent=MsG0380015590.01.T01 |
| Chr3 | CDS | 72244591 | 72244649 | 72244591 | ID=MsG0380015590.01.T01:cds;Parent=MsG0380015590.01.T01 |
| Chr3 | CDS | 72244953 | 72245019 | 72244953 | ID=MsG0380015590.01.T01:cds;Parent=MsG0380015590.01.T01 |
| Chr3 | CDS | 72245313 | 72245389 | 72245313 | ID=MsG0380015590.01.T01:cds;Parent=MsG0380015590.01.T01 |
| Chr3 | CDS | 72245639 | 72245681 | 72245639 | ID=MsG0380015590.01.T01:cds;Parent=MsG0380015590.01.T01 |
| Chr3 | three_prime_UTR | 72245682 | 72245937 | 72245682 | ID=MsG0380015590.01.T01:three_prime_utr;Parent=MsG0380015590.01.T01 |
| Gene Sequence |
| Protein sequence |
