Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene008040.t1 | XP_003600927.2 | 98.9 | 262 | 3 | 0 | 1 | 262 | 1 | 262 | 2.20E-136 | 495 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene008040.t1 | Q9XEF0 | 42.2 | 275 | 118 | 8 | 3 | 261 | 1 | 250 | 2.4e-38 | 160.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene008040.t1 | G7JBT8 | 98.9 | 262 | 3 | 0 | 1 | 262 | 1 | 262 | 1.6e-136 | 495.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene008040.t1 | TF | bHLH |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene008040.t1 | MTR_3g070970 | 98.855 | 262 | 3 | 0 | 1 | 262 | 1 | 262 | 0.0 | 533 |
| MS.gene008040.t1 | MTR_1g093750 | 45.503 | 189 | 94 | 3 | 66 | 254 | 151 | 330 | 1.91e-43 | 150 |
| MS.gene008040.t1 | MTR_2g015890 | 42.286 | 175 | 83 | 4 | 73 | 242 | 67 | 228 | 9.17e-29 | 110 |
| MS.gene008040.t1 | MTR_2g015890 | 46.667 | 120 | 51 | 2 | 73 | 192 | 67 | 173 | 3.56e-24 | 97.1 |
| MS.gene008040.t1 | MTR_4g079760 | 35.533 | 197 | 106 | 4 | 65 | 254 | 60 | 242 | 4.81e-24 | 97.4 |
| MS.gene008040.t1 | MTR_2g091190 | 33.880 | 183 | 104 | 4 | 63 | 238 | 49 | 221 | 8.49e-23 | 94.0 |
| MS.gene008040.t1 | MTR_4g087920 | 34.673 | 199 | 110 | 7 | 67 | 255 | 69 | 257 | 8.81e-23 | 94.7 |
| MS.gene008040.t1 | MTR_5g032375 | 34.463 | 177 | 86 | 5 | 73 | 236 | 45 | 204 | 1.37e-19 | 84.7 |
| MS.gene008040.t1 | MTR_5g066080 | 29.596 | 223 | 107 | 5 | 51 | 234 | 7 | 218 | 1.56e-16 | 77.0 |
| MS.gene008040.t1 | MTR_2g015890 | 39.161 | 143 | 69 | 4 | 105 | 242 | 1 | 130 | 7.82e-16 | 73.2 |
| MS.gene008040.t1 | MTR_2g015890 | 43.182 | 88 | 37 | 2 | 105 | 192 | 1 | 75 | 1.50e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene008040.t1 | AT2G40200 | 43.525 | 278 | 110 | 10 | 3 | 261 | 1 | 250 | 1.55e-53 | 174 |
| MS.gene008040.t1 | AT1G68810 | 41.538 | 195 | 98 | 4 | 66 | 255 | 167 | 350 | 1.93e-36 | 133 |
| MS.gene008040.t1 | AT3G25710 | 46.405 | 153 | 70 | 2 | 69 | 220 | 128 | 269 | 7.09e-34 | 125 |
| MS.gene008040.t1 | AT3G56770 | 36.957 | 184 | 106 | 5 | 61 | 243 | 33 | 207 | 1.76e-33 | 121 |
| MS.gene008040.t1 | AT2G41130 | 34.426 | 183 | 107 | 4 | 63 | 242 | 57 | 229 | 2.84e-25 | 100 |
| MS.gene008040.t1 | AT4G38070 | 33.784 | 148 | 81 | 3 | 73 | 220 | 92 | 222 | 2.98e-19 | 84.7 |
Find 35 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTGATGTTGAAGCAATTT+TGG | 0.180765 | 3.3:-61938812 | None:intergenic |
| TATATTGGTGCTTTGTTCTA+AGG | 0.203318 | 3.3:+61938732 | MS.gene008040:CDS |
| ATTTCCCATTTGGATGAGTA+TGG | 0.281846 | 3.3:+61937195 | None:intergenic |
| GTCTTAAACCTTTGAGGACT+TGG | 0.282951 | 3.3:-61938660 | None:intergenic |
| AATATCTCTGACTCTTCTTC+TGG | 0.300411 | 3.3:+61937328 | MS.gene008040:CDS |
| ATTAGTTCAGAGAACAATTC+TGG | 0.307068 | 3.3:-61938637 | None:intergenic |
| TTTGTTCACTTTGTTATTGT+TGG | 0.336804 | 3.3:-61938566 | None:intergenic |
| TTTGGTCACTGCTGATTTAA+GGG | 0.341399 | 3.3:-61938794 | None:intergenic |
| TTGTAAGTCTTAAACCTTTG+AGG | 0.389696 | 3.3:-61938666 | None:intergenic |
| CTCTGCTTGACTATGACTCT+TGG | 0.398647 | 3.3:-61937428 | None:intergenic |
| CTCTGCCTCTTACTTCTTGT+AGG | 0.400975 | 3.3:-61938847 | None:intergenic |
| ATGGACAAAGCAGCATTACT+AGG | 0.419485 | 3.3:+61938421 | MS.gene008040:CDS |
| TCTTCAACACTCCCTTCAAT+AGG | 0.436660 | 3.3:-61937388 | None:intergenic |
| TGGCAGAATCAAAAGTATAT+TGG | 0.438346 | 3.3:+61938717 | MS.gene008040:CDS |
| GAAGAGTCAGAGATATTATG+AGG | 0.460214 | 3.3:-61937322 | None:intergenic |
| TGGTTTACCTTATCAGACTT+AGG | 0.468900 | 3.3:-61937505 | None:intergenic |
| CAAAATTGCTTCAACATCAA+TGG | 0.471398 | 3.3:+61938813 | MS.gene008040:CDS |
| GGCAGCATTTGAGCACAAAC+TGG | 0.479615 | 3.3:+61937242 | MS.gene008040:CDS |
| ACTTATTCCTAAGTCTGATA+AGG | 0.480745 | 3.3:+61937498 | MS.gene008040:CDS |
| ATCTGTGTTGGTACAGTCAC+AGG | 0.481261 | 3.3:-61937295 | None:intergenic |
| GATACTTCATCAATTTCAGT+TGG | 0.481484 | 3.3:-61938511 | None:intergenic |
| TCATGGAATTTACCTATTGA+AGG | 0.482372 | 3.3:+61937376 | MS.gene008040:CDS |
| CAGAGAAAAGACGTAGAGAC+AGG | 0.494900 | 3.3:+61937446 | MS.gene008040:CDS |
| GCTGACATAGCAAGTGTTGG+TGG | 0.516083 | 3.3:+61938697 | MS.gene008040:CDS |
| AATATAGTGAATTTCAGTCA+TGG | 0.537343 | 3.3:+61937359 | MS.gene008040:CDS |
| CATGGAATTTACCTATTGAA+GGG | 0.539204 | 3.3:+61937377 | MS.gene008040:CDS |
| AGATCTAAAGCGAAAAGCAA+TGG | 0.560117 | 3.3:+61938465 | MS.gene008040:CDS |
| ATTGTCCTACAAGAAGTAAG+AGG | 0.570567 | 3.3:+61938842 | MS.gene008040:CDS |
| GAACTAATCCAAGTCCTCAA+AGG | 0.579974 | 3.3:+61938652 | MS.gene008040:CDS |
| TGGACAAAGCAGCATTACTA+GGG | 0.580902 | 3.3:+61938422 | MS.gene008040:CDS |
| AAAGCTGACATAGCAAGTGT+TGG | 0.610561 | 3.3:+61938694 | MS.gene008040:CDS |
| TGGTTTCATCTTCAACAACA+TGG | 0.610583 | 3.3:-61938546 | None:intergenic |
| AATTACTATACAAAATGAGA+AGG | 0.613826 | 3.3:-61938880 | None:intergenic |
| TTATGAGGTAGTATCTGTGT+TGG | 0.619428 | 3.3:-61937307 | None:intergenic |
| ACTACAATGATTCTTCTGAG+TGG | 0.704840 | 3.3:+61937221 | MS.gene008040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATATTCTCTTCAAAATAAA+AGG | - | chr3.3:61938021-61938040 | None:intergenic | 15.0% |
| !!! | AACATCAAGATTTTTAAAAA+TGG | + | chr3.3:61938065-61938084 | MS.gene008040:intron | 15.0% |
| !!! | TTTTATTTTGAAGAGAATAT+AGG | + | chr3.3:61938020-61938039 | MS.gene008040:intron | 15.0% |
| !! | GTGAAAATAATTTGAGAAAA+TGG | - | chr3.3:61938236-61938255 | None:intergenic | 20.0% |
| !!! | TTTCAATTGTACTTTAAAGT+AGG | + | chr3.3:61937822-61937841 | MS.gene008040:intron | 20.0% |
| ! | AAAATGGAATTAGCTACTTA+GGG | + | chr3.3:61937635-61937654 | MS.gene008040:intron | 25.0% |
| ! | AATATAGTGAATTTCAGTCA+TGG | + | chr3.3:61937359-61937378 | MS.gene008040:CDS | 25.0% |
| ! | ACATATTTCATGCAAGAAAA+TGG | + | chr3.3:61937619-61937638 | MS.gene008040:intron | 25.0% |
| ! | ATTAAAATTGGCAGAATAAC+AGG | - | chr3.3:61937959-61937978 | None:intergenic | 25.0% |
| !! | ACTATAGCAACAACATTTTA+TGG | - | chr3.3:61937756-61937775 | None:intergenic | 25.0% |
| !! | ATTATTTTCACCAAGTGTTT+AGG | + | chr3.3:61938245-61938264 | MS.gene008040:intron | 25.0% |
| !! | TCGTGATTTTGCTTAATTTA+TGG | - | chr3.3:61937888-61937907 | None:intergenic | 25.0% |
| !! | TGCAATTTTCTGCAATATTA+AGG | + | chr3.3:61938329-61938348 | MS.gene008040:intron | 25.0% |
| !! | TTATTTTCACCAAGTGTTTA+GGG | + | chr3.3:61938246-61938265 | MS.gene008040:intron | 25.0% |
| !! | TTTTGACAAAAGTTACCTTT+TGG | + | chr3.3:61937725-61937744 | MS.gene008040:intron | 25.0% |
| !!! | ACTTTAAAGTAGGCATAATT+TGG | + | chr3.3:61937832-61937851 | MS.gene008040:intron | 25.0% |
| !!! | CTTTAAAGTAGGCATAATTT+GGG | + | chr3.3:61937833-61937852 | MS.gene008040:intron | 25.0% |
| !!! | TTTGTTCACTTTGTTATTGT+TGG | - | chr3.3:61938569-61938588 | None:intergenic | 25.0% |
| AATACGACTATGTATACTTC+AGG | + | chr3.3:61938145-61938164 | MS.gene008040:intron | 30.0% | |
| AATGCAACATCTTATCACTT+GGG | - | chr3.3:61937665-61937684 | None:intergenic | 30.0% | |
| ACAAATGATTACGTTATGCA+AGG | - | chr3.3:61938391-61938410 | None:intergenic | 30.0% | |
| ACTCGCTATAATTCAAAACA+CGG | + | chr3.3:61937787-61937806 | MS.gene008040:intron | 30.0% | |
| ACTTATTCCTAAGTCTGATA+AGG | + | chr3.3:61937498-61937517 | MS.gene008040:CDS | 30.0% | |
| ATGTTGCATTCATTCAATTC+AGG | + | chr3.3:61937675-61937694 | MS.gene008040:intron | 30.0% | |
| ATTAGTTCAGAGAACAATTC+TGG | - | chr3.3:61938640-61938659 | None:intergenic | 30.0% | |
| CAAAATTGCTTCAACATCAA+TGG | + | chr3.3:61938813-61938832 | MS.gene008040:CDS | 30.0% | |
| CAAATGATTACGTTATGCAA+GGG | - | chr3.3:61938390-61938409 | None:intergenic | 30.0% | |
| CATGGAATTTACCTATTGAA+GGG | + | chr3.3:61937377-61937396 | MS.gene008040:CDS | 30.0% | |
| CTTCAAAATAAAAGGAGAAG+TGG | - | chr3.3:61938013-61938032 | None:intergenic | 30.0% | |
| GAAAATGGAATTAGCTACTT+AGG | + | chr3.3:61937634-61937653 | MS.gene008040:intron | 30.0% | |
| GATACTTCATCAATTTCAGT+TGG | - | chr3.3:61938514-61938533 | None:intergenic | 30.0% | |
| GCTTGGATTCACATTAAAAT+TGG | - | chr3.3:61937971-61937990 | None:intergenic | 30.0% | |
| GTCGTATTTGTATATGACAT+TGG | - | chr3.3:61938183-61938202 | None:intergenic | 30.0% | |
| TCATGGAATTTACCTATTGA+AGG | + | chr3.3:61937376-61937395 | MS.gene008040:CDS | 30.0% | |
| TGAAGTATACATAGTCGTAT+TGG | - | chr3.3:61938146-61938165 | None:intergenic | 30.0% | |
| TTGTAAGTCTTAAACCTTTG+AGG | - | chr3.3:61938669-61938688 | None:intergenic | 30.0% | |
| ! | CATTGATGTTGAAGCAATTT+TGG | - | chr3.3:61938815-61938834 | None:intergenic | 30.0% |
| ! | CATTTTATGGAAGTTCCAAA+AGG | - | chr3.3:61937743-61937762 | None:intergenic | 30.0% |
| ! | TATATTGGTGCTTTGTTCTA+AGG | + | chr3.3:61938732-61938751 | MS.gene008040:CDS | 30.0% |
| ! | TGGCAGAATCAAAAGTATAT+TGG | + | chr3.3:61938717-61938736 | MS.gene008040:CDS | 30.0% |
| AATATCTCTGACTCTTCTTC+TGG | + | chr3.3:61937328-61937347 | MS.gene008040:CDS | 35.0% | |
| ACTACAATGATTCTTCTGAG+TGG | + | chr3.3:61937221-61937240 | MS.gene008040:CDS | 35.0% | |
| ATCATTTGTGTACTTGCAGA+TGG | + | chr3.3:61938402-61938421 | MS.gene008040:intron | 35.0% | |
| ATTGTCCTACAAGAAGTAAG+AGG | + | chr3.3:61938842-61938861 | MS.gene008040:CDS | 35.0% | |
| CGTAATTACTTAGACACACA+CGG | - | chr3.3:61938280-61938299 | None:intergenic | 35.0% | |
| GAAGAGTCAGAGATATTATG+AGG | - | chr3.3:61937325-61937344 | None:intergenic | 35.0% | |
| GAATGCAACATCTTATCACT+TGG | - | chr3.3:61937666-61937685 | None:intergenic | 35.0% | |
| GAGAAGTGGAAATTAATTCC+CGG | - | chr3.3:61937999-61938018 | None:intergenic | 35.0% | |
| TCAATTTCTTAGCGTATGCT+TGG | + | chr3.3:61937857-61937876 | MS.gene008040:intron | 35.0% | |
| TGGTTTACCTTATCAGACTT+AGG | - | chr3.3:61937508-61937527 | None:intergenic | 35.0% | |
| TGGTTTCATCTTCAACAACA+TGG | - | chr3.3:61938549-61938568 | None:intergenic | 35.0% | |
| TTATGAGGTAGTATCTGTGT+TGG | - | chr3.3:61937310-61937329 | None:intergenic | 35.0% | |
| TTCATTCAATTCAGGCTTTG+AGG | + | chr3.3:61937683-61937702 | MS.gene008040:intron | 35.0% | |
| TTGCAATCAAATACGACTAG+TGG | - | chr3.3:61938314-61938333 | None:intergenic | 35.0% | |
| ! | AGATCTAAAGCGAAAAGCAA+TGG | + | chr3.3:61938465-61938484 | MS.gene008040:CDS | 35.0% |
| !! | ACCTTGATTTTGACAAACTG+GGG | - | chr3.3:61937932-61937951 | None:intergenic | 35.0% |
| !! | CACCTTGATTTTGACAAACT+GGG | - | chr3.3:61937933-61937952 | None:intergenic | 35.0% |
| !! | TTTGGTCACTGCTGATTTAA+GGG | - | chr3.3:61938797-61938816 | None:intergenic | 35.0% |
| !!! | TTTTGGTCACTGCTGATTTA+AGG | - | chr3.3:61938798-61938817 | None:intergenic | 35.0% |
| AAAGCTGACATAGCAAGTGT+TGG | + | chr3.3:61938694-61938713 | MS.gene008040:CDS | 40.0% | |
| ACCCCAGTTTGTCAAAATCA+AGG | + | chr3.3:61937928-61937947 | MS.gene008040:intron | 40.0% | |
| ATGGACAAAGCAGCATTACT+AGG | + | chr3.3:61938421-61938440 | MS.gene008040:CDS | 40.0% | |
| CCAGTTTGTCAAAATCAAGG+TGG | + | chr3.3:61937931-61937950 | MS.gene008040:intron | 40.0% | |
| GAACTAATCCAAGTCCTCAA+AGG | + | chr3.3:61938652-61938671 | MS.gene008040:CDS | 40.0% | |
| TCTTCAACACTCCCTTCAAT+AGG | - | chr3.3:61937391-61937410 | None:intergenic | 40.0% | |
| TGGACAAAGCAGCATTACTA+GGG | + | chr3.3:61938422-61938441 | MS.gene008040:CDS | 40.0% | |
| ! | GTCTTAAACCTTTGAGGACT+TGG | - | chr3.3:61938663-61938682 | None:intergenic | 40.0% |
| !! | CCACCTTGATTTTGACAAAC+TGG | - | chr3.3:61937934-61937953 | None:intergenic | 40.0% |
| AAGTCGCGTTGCAGTTCAAT+CGG | - | chr3.3:61938358-61938377 | None:intergenic | 45.0% | |
| ATGTGAATCCAAGCATGCAC+CGG | + | chr3.3:61937977-61937996 | MS.gene008040:intron | 45.0% | |
| ATTAATTCCCGGTGCATGCT+TGG | - | chr3.3:61937988-61938007 | None:intergenic | 45.0% | |
| CAGAGAAAAGACGTAGAGAC+AGG | + | chr3.3:61937446-61937465 | MS.gene008040:CDS | 45.0% | |
| CTCTGCCTCTTACTTCTTGT+AGG | - | chr3.3:61938850-61938869 | None:intergenic | 45.0% | |
| CTCTGCTTGACTATGACTCT+TGG | - | chr3.3:61937431-61937450 | None:intergenic | 45.0% | |
| GATGCTGAACCCTAAACACT+TGG | - | chr3.3:61938258-61938277 | None:intergenic | 45.0% | |
| ! | ACTGGGGTGTCACAAAATCA+CGG | - | chr3.3:61937916-61937935 | None:intergenic | 45.0% |
| ! | ATCTGTGTTGGTACAGTCAC+AGG | - | chr3.3:61937298-61937317 | None:intergenic | 45.0% |
| !! | GAAAAAATAAAAAATAAAAT+TGG | - | chr3.3:61937528-61937547 | None:intergenic | 5.0% |
| AGTCGCGTTGCAGTTCAATC+GGG | - | chr3.3:61938357-61938376 | None:intergenic | 50.0% | |
| GATTGAACTGCAACGCGACT+TGG | + | chr3.3:61938357-61938376 | MS.gene008040:intron | 50.0% | |
| GGCAGCATTTGAGCACAAAC+TGG | + | chr3.3:61937242-61937261 | MS.gene008040:CDS | 50.0% | |
| TGTGAATCCAAGCATGCACC+GGG | + | chr3.3:61937978-61937997 | MS.gene008040:intron | 50.0% | |
| !! | GCTGACATAGCAAGTGTTGG+TGG | + | chr3.3:61938697-61938716 | MS.gene008040:CDS | 50.0% |
| ATGACTTGACACCGCAGCAC+AGG | - | chr3.3:61938103-61938122 | None:intergenic | 55.0% | |
| CTCCAATCGCGCCTGTGCTG+CGG | + | chr3.3:61938089-61938108 | MS.gene008040:intron | 65.0% | |
| CACCGCAGCACAGGCGCGAT+TGG | - | chr3.3:61938094-61938113 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 61937208 | 61938897 | 61937208 | ID=MS.gene008040 |
| chr3.3 | mRNA | 61937208 | 61938897 | 61937208 | ID=MS.gene008040.t1;Parent=MS.gene008040 |
| chr3.3 | exon | 61937208 | 61937519 | 61937208 | ID=MS.gene008040.t1.exon1;Parent=MS.gene008040.t1 |
| chr3.3 | CDS | 61937208 | 61937519 | 61937208 | ID=cds.MS.gene008040.t1;Parent=MS.gene008040.t1 |
| chr3.3 | exon | 61938421 | 61938897 | 61938421 | ID=MS.gene008040.t1.exon2;Parent=MS.gene008040.t1 |
| chr3.3 | CDS | 61938421 | 61938897 | 61938421 | ID=cds.MS.gene008040.t1;Parent=MS.gene008040.t1 |
| Gene Sequence |
| Protein sequence |
