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.gene90873.t1 | GAU12187.1 | 64.7 | 201 | 18 | 1 | 1 | 148 | 203 | 403 | 9.10E-63 | 249.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90873.t1 | O07834 | 34.9 | 86 | 55 | 1 | 6 | 90 | 147 | 232 | 1.4e-08 | 60.8 |
| MS.gene90873.t1 | O07834 | 61.2 | 49 | 17 | 2 | 101 | 148 | 449 | 496 | 3.2e-08 | 59.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90873.t1 | A0A059XQ66 | 53.1 | 241 | 20 | 1 | 1 | 148 | 126 | 366 | 1.7e-55 | 224.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049142 | MS.gene90873 | 0.817956 | 2.52E-52 | -1.69E-46 |
| MS.gene049350 | MS.gene90873 | 0.831075 | 2.05E-55 | -1.69E-46 |
| MS.gene049711 | MS.gene90873 | 0.820094 | 8.23E-53 | -1.69E-46 |
| MS.gene050156 | MS.gene90873 | 0.817177 | 3.78E-52 | -1.69E-46 |
| MS.gene051247 | MS.gene90873 | 0.800959 | 1.13E-48 | -1.69E-46 |
| MS.gene051332 | MS.gene90873 | 0.819687 | 1.02E-52 | -1.69E-46 |
| MS.gene051744 | MS.gene90873 | 0.804725 | 1.88E-49 | -1.69E-46 |
| MS.gene052168 | MS.gene90873 | 0.819948 | 8.88E-53 | -1.69E-46 |
| MS.gene052463 | MS.gene90873 | 0.800818 | 1.21E-48 | -1.69E-46 |
| MS.gene053226 | MS.gene90873 | 0.829435 | 5.16E-55 | -1.69E-46 |
| MS.gene05458 | MS.gene90873 | 0.800373 | 1.49E-48 | -1.69E-46 |
| MS.gene055313 | MS.gene90873 | 0.811126 | 8.18E-51 | -1.69E-46 |
| MS.gene056050 | MS.gene90873 | 0.836808 | 7.53E-57 | -1.69E-46 |
| MS.gene05686 | MS.gene90873 | 0.808519 | 2.98E-50 | -1.69E-46 |
| MS.gene057102 | MS.gene90873 | 0.802616 | 5.16E-49 | -1.69E-46 |
| MS.gene057915 | MS.gene90873 | 0.819373 | 1.20E-52 | -1.69E-46 |
| MS.gene058625 | MS.gene90873 | 0.810259 | 1.26E-50 | -1.69E-46 |
| MS.gene058668 | MS.gene90873 | 0.812307 | 4.53E-51 | -1.69E-46 |
| MS.gene059439 | MS.gene90873 | 0.818144 | 2.28E-52 | -1.69E-46 |
| MS.gene061188 | MS.gene90873 | 0.811368 | 7.25E-51 | -1.69E-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90873.t1 | MTR_1g115230 | 96.907 | 97 | 3 | 0 | 1 | 97 | 114 | 210 | 2.55e-60 | 197 |
| MS.gene90873.t1 | MTR_1g115230 | 94.340 | 53 | 3 | 0 | 96 | 148 | 422 | 474 | 1.60e-26 | 104 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90873.t1 | AT1G50380 | 73.469 | 98 | 26 | 0 | 1 | 98 | 121 | 218 | 1.81e-44 | 154 |
| MS.gene90873.t1 | AT1G50380 | 77.358 | 53 | 12 | 0 | 96 | 148 | 429 | 481 | 3.11e-20 | 86.3 |
| MS.gene90873.t1 | AT1G50380 | 73.469 | 98 | 26 | 0 | 1 | 98 | 187 | 284 | 2.02e-44 | 155 |
| MS.gene90873.t1 | AT1G50380 | 77.358 | 53 | 12 | 0 | 96 | 148 | 495 | 547 | 3.28e-20 | 86.3 |
Find 36 sgRNAs with CRISPR-Local
Find 83 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGCTACTAACTTGTTATT+TGG | 0.087936 | 1.4:+87317894 | None:intergenic |
| TCAGATCCATTACTACTTTA+TGG | 0.129739 | 1.4:-87316845 | MS.gene90873:CDS |
| TCCTCCTGAGCATGTTATTT+TGG | 0.223944 | 1.4:-87318080 | MS.gene90873:CDS |
| ATGCTACTAACTTGTTATTT+GGG | 0.325588 | 1.4:+87317895 | None:intergenic |
| AGTATATATTTCATCTCCTT+TGG | 0.347787 | 1.4:+87317860 | None:intergenic |
| TCCTATTGTTCTCAGGTTCT+CGG | 0.373350 | 1.4:-87316980 | MS.gene90873:intron |
| GGAGAATTTCCCACCTTGTC+AGG | 0.392612 | 1.4:+87317714 | None:intergenic |
| ATCGAGACTCAAGCTGCAAT+TGG | 0.433413 | 1.4:-87317822 | MS.gene90873:CDS |
| ACATGCTCAGGAGGAGCATC+AGG | 0.440289 | 1.4:+87318088 | None:intergenic |
| GTGTAACATCAAACCTTGAA+TGG | 0.445714 | 1.4:-87317785 | MS.gene90873:CDS |
| CCATTACTACTTTATGGCTA+CGG | 0.485771 | 1.4:-87316839 | MS.gene90873:CDS |
| TCATCCAAAATAACATGCTC+AGG | 0.488078 | 1.4:+87318076 | None:intergenic |
| CATTACTACTTTATGGCTAC+GGG | 0.491993 | 1.4:-87316838 | MS.gene90873:CDS |
| CCGTAGCCATAAAGTAGTAA+TGG | 0.504218 | 1.4:+87316839 | None:intergenic |
| CATCACCACCAGCCCATTCA+AGG | 0.505524 | 1.4:+87317772 | None:intergenic |
| GTTAATGACACCATGCCTAC+AGG | 0.526408 | 1.4:-87318112 | None:intergenic |
| AATATATACTGTTTATGTCA+TGG | 0.538740 | 1.4:-87317847 | MS.gene90873:CDS |
| TGTAACATCAAACCTTGAAT+GGG | 0.542086 | 1.4:-87317784 | MS.gene90873:CDS |
| TTCAAGGTTTGATGTTACAC+TGG | 0.548154 | 1.4:+87317788 | None:intergenic |
| CTTTATGGCTACGGGTCTTG+AGG | 0.555022 | 1.4:-87316830 | None:intergenic |
| AAAGATCTTGTGAAGCTCGA+TGG | 0.561830 | 1.4:-87316869 | MS.gene90873:CDS |
| AGCATCAGGTCCTGTAGGCA+TGG | 0.564851 | 1.4:+87318102 | None:intergenic |
| CAGTGGGCACATGCTTCAGA+TGG | 0.568505 | 1.4:-87316923 | MS.gene90873:CDS |
| CAACAAAATACGTCACTGAA+AGG | 0.580218 | 1.4:-87316946 | MS.gene90873:CDS |
| TGCTCTAGTTTATGTAACAA+TGG | 0.586588 | 1.4:-87317751 | MS.gene90873:CDS |
| AATACGTCACTGAAAGGCAG+TGG | 0.587769 | 1.4:-87316940 | MS.gene90873:CDS |
| ACATCAAACCTTGAATGGGC+TGG | 0.602081 | 1.4:-87317780 | MS.gene90873:CDS |
| GGAGGAGCATCAGGTCCTGT+AGG | 0.606439 | 1.4:+87318097 | None:intergenic |
| CAGCACGAATACTACAGTAT+CGG | 0.612278 | 1.4:-87318037 | MS.gene90873:CDS |
| TTTGATGTTACACTGGCAAG+AGG | 0.621915 | 1.4:+87317795 | None:intergenic |
| TCCAAAATAACATGCTCAGG+AGG | 0.646141 | 1.4:+87318079 | None:intergenic |
| TAATATTCTTAGACCTGACA+AGG | 0.648307 | 1.4:-87317727 | MS.gene90873:intron |
| ATACGTCACTGAAAGGCAGT+GGG | 0.650078 | 1.4:-87316939 | MS.gene90873:CDS |
| GCATATGCAGAAGACACCAA+AGG | 0.654059 | 1.4:-87317876 | MS.gene90873:CDS |
| TATTGTTCTCAGGTTCTCGG+AGG | 0.667662 | 1.4:-87316977 | MS.gene90873:intron |
| TCAAACCTTGAATGGGCTGG+TGG | 0.679492 | 1.4:-87317777 | MS.gene90873:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTAATGATATCAATTTT+TGG | + | chr1.4:87317811-87317830 | None:intergenic | 10.0% |
| !!! | TTAAAATTTTATTTCTTTTC+AGG | - | chr1.4:87317010-87317029 | MS.gene90873:intron | 10.0% |
| !!! | TTTTCAATTTCAATTTGTTT+AGG | - | chr1.4:87317453-87317472 | MS.gene90873:intron | 15.0% |
| !! | AATATATACTGTTTATGTCA+TGG | - | chr1.4:87317085-87317104 | MS.gene90873:intron | 20.0% |
| !! | TTAGATCATATCATTATCAT+GGG | - | chr1.4:87316929-87316948 | MS.gene90873:CDS | 20.0% |
| !!! | AATTAGGTTCTAATTCAATT+CGG | + | chr1.4:87317490-87317509 | None:intergenic | 20.0% |
| !!! | TGTTAAAAAAGTTGATAAGA+TGG | + | chr1.4:87317342-87317361 | None:intergenic | 20.0% |
| ! | AAATTAGAAGATGAGATTTG+TGG | - | chr1.4:87317532-87317551 | MS.gene90873:intron | 25.0% |
| ! | AGTATATATTTCATCTCCTT+TGG | + | chr1.4:87317075-87317094 | None:intergenic | 25.0% |
| ! | GTTAGATCATATCATTATCA+TGG | - | chr1.4:87316928-87316947 | MS.gene90873:CDS | 25.0% |
| ! | TCTTTATATCTGGCTAAATT+AGG | + | chr1.4:87317506-87317525 | None:intergenic | 25.0% |
| !! | ATTTTCAGCATCTTTATATC+TGG | + | chr1.4:87317516-87317535 | None:intergenic | 25.0% |
| !!! | ATGCTACTAACTTGTTATTT+GGG | + | chr1.4:87317040-87317059 | None:intergenic | 25.0% |
| !!! | TAAAAAAGTTGATAAGATGG+AGG | + | chr1.4:87317339-87317358 | None:intergenic | 25.0% |
| !!! | TATCTACTTGAGCTTTTTTA+AGG | - | chr1.4:87317635-87317654 | MS.gene90873:intron | 25.0% |
| !!! | TATGCTACTAACTTGTTATT+TGG | + | chr1.4:87317041-87317060 | None:intergenic | 25.0% |
| !!! | TATTTTGGATGAGAATATCA+AGG | - | chr1.4:87316867-87316886 | MS.gene90873:CDS | 25.0% |
| !!! | TTTTTGTAGCTGCTATTTTT+TGG | + | chr1.4:87317776-87317795 | None:intergenic | 25.0% |
| AAATTGAAAACATTGCCCAA+GGG | + | chr1.4:87317443-87317462 | None:intergenic | 30.0% | |
| AGATCCGAACAATTAAATAC+TGG | + | chr1.4:87317251-87317270 | None:intergenic | 30.0% | |
| AGTTGAATCATGAAAAGCTT+TGG | + | chr1.4:87317310-87317329 | None:intergenic | 30.0% | |
| CAACCCAGTATTTAATTGTT+CGG | - | chr1.4:87317244-87317263 | MS.gene90873:intron | 30.0% | |
| CAATAGGAGACAAATAATAC+AGG | + | chr1.4:87317940-87317959 | None:intergenic | 30.0% | |
| GATCCGAACAATTAAATACT+GGG | + | chr1.4:87317250-87317269 | None:intergenic | 30.0% | |
| TAATATTCTTAGACCTGACA+AGG | - | chr1.4:87317205-87317224 | MS.gene90873:intron | 30.0% | |
| TCAGATCCATTACTACTTTA+TGG | - | chr1.4:87318087-87318106 | MS.gene90873:CDS | 30.0% | |
| TGTAACATCAAACCTTGAAT+GGG | - | chr1.4:87317148-87317167 | MS.gene90873:intron | 30.0% | |
| ! | CAATTAAATACTGGGTTGAA+AGG | + | chr1.4:87317242-87317261 | None:intergenic | 30.0% |
| ! | TGCTCTAGTTTATGTAACAA+TGG | - | chr1.4:87317181-87317200 | MS.gene90873:intron | 30.0% |
| ! | TTTTCTGCTTAATTCAAAGC+CGG | - | chr1.4:87317593-87317612 | MS.gene90873:intron | 30.0% |
| !!! | ATTGCTTCTTTTTTTCCCAA+AGG | - | chr1.4:87317828-87317847 | MS.gene90873:CDS | 30.0% |
| AAATTACTCCACAAGTCCTT+TGG | + | chr1.4:87317847-87317866 | None:intergenic | 35.0% | |
| AAGCAGAAAACATCCAGTTT+CGG | + | chr1.4:87317583-87317602 | None:intergenic | 35.0% | |
| AATTACTCCACAAGTCCTTT+GGG | + | chr1.4:87317846-87317865 | None:intergenic | 35.0% | |
| AGGATCATGAATCGATTGTT+TGG | + | chr1.4:87317397-87317416 | None:intergenic | 35.0% | |
| ATCAGTCAGAAACTTATGTC+CGG | + | chr1.4:87317615-87317634 | None:intergenic | 35.0% | |
| ATTGTTTGGACATAGGAGAA+AGG | + | chr1.4:87317383-87317402 | None:intergenic | 35.0% | |
| ATTTGTCTCCTATTGTTCTC+AGG | - | chr1.4:87317945-87317964 | MS.gene90873:intron | 35.0% | |
| CAACAAAATACGTCACTGAA+AGG | - | chr1.4:87317986-87318005 | MS.gene90873:intron | 35.0% | |
| CATTACTACTTTATGGCTAC+GGG | - | chr1.4:87318094-87318113 | MS.gene90873:CDS | 35.0% | |
| CCATTACTACTTTATGGCTA+CGG | - | chr1.4:87318093-87318112 | MS.gene90873:CDS | 35.0% | |
| GAAATTGAAAACATTGCCCA+AGG | + | chr1.4:87317444-87317463 | None:intergenic | 35.0% | |
| GAGCAATTGAACATAACTCA+AGG | + | chr1.4:87317911-87317930 | None:intergenic | 35.0% | |
| GCAGCTACAAAAAAGAATGA+AGG | - | chr1.4:87317783-87317802 | MS.gene90873:CDS | 35.0% | |
| GTGTAACATCAAACCTTGAA+TGG | - | chr1.4:87317147-87317166 | MS.gene90873:intron | 35.0% | |
| TCATCCAAAATAACATGCTC+AGG | + | chr1.4:87316859-87316878 | None:intergenic | 35.0% | |
| TGAATCGATTGTTTGGACAT+AGG | + | chr1.4:87317390-87317409 | None:intergenic | 35.0% | |
| TTCAAGGTTTGATGTTACAC+TGG | + | chr1.4:87317147-87317166 | None:intergenic | 35.0% | |
| !!! | CTACAGTATCGGTACTTTTA+AGG | - | chr1.4:87316906-87316925 | MS.gene90873:CDS | 35.0% |
| !!! | TTTTTTTCCCAAAGGACTTG+TGG | - | chr1.4:87317836-87317855 | MS.gene90873:CDS | 35.0% |
| AAAGATCTTGTGAAGCTCGA+TGG | - | chr1.4:87318063-87318082 | MS.gene90873:CDS | 40.0% | |
| ATTCTTAGACCTGACAAGGT+GGG | - | chr1.4:87317209-87317228 | MS.gene90873:intron | 40.0% | |
| CAGCACGAATACTACAGTAT+CGG | - | chr1.4:87316895-87316914 | MS.gene90873:CDS | 40.0% | |
| CCGTAGCCATAAAGTAGTAA+TGG | + | chr1.4:87318096-87318115 | None:intergenic | 40.0% | |
| GAACATAACTCAAGGAAACG+AGG | + | chr1.4:87317903-87317922 | None:intergenic | 40.0% | |
| TATTCTTAGACCTGACAAGG+TGG | - | chr1.4:87317208-87317227 | MS.gene90873:intron | 40.0% | |
| TCCAAAATAACATGCTCAGG+AGG | + | chr1.4:87316856-87316875 | None:intergenic | 40.0% | |
| TCCTATTGTTCTCAGGTTCT+CGG | - | chr1.4:87317952-87317971 | MS.gene90873:intron | 40.0% | |
| TGAATATGCGAGAAGACGTT+AGG | + | chr1.4:87317417-87317436 | None:intergenic | 40.0% | |
| TTTGATGTTACACTGGCAAG+AGG | + | chr1.4:87317140-87317159 | None:intergenic | 40.0% | |
| ! | CGAGCTTCACAAGATCTTTT+CGG | + | chr1.4:87318062-87318081 | None:intergenic | 40.0% |
| !! | TCCTCCTGAGCATGTTATTT+TGG | - | chr1.4:87316852-87316871 | MS.gene90873:CDS | 40.0% |
| AAACATCCAGTTTCGGTTGC+AGG | + | chr1.4:87317576-87317595 | None:intergenic | 45.0% | |
| AATACGTCACTGAAAGGCAG+TGG | - | chr1.4:87317992-87318011 | MS.gene90873:intron | 45.0% | |
| ACATCAAACCTTGAATGGGC+TGG | - | chr1.4:87317152-87317171 | MS.gene90873:intron | 45.0% | |
| ATACGTCACTGAAAGGCAGT+GGG | - | chr1.4:87317993-87318012 | MS.gene90873:intron | 45.0% | |
| ATCGAGACTCAAGCTGCAAT+TGG | - | chr1.4:87317110-87317129 | MS.gene90873:intron | 45.0% | |
| CTCGCATATTCAAAGCCCTT+GGG | - | chr1.4:87317425-87317444 | MS.gene90873:intron | 45.0% | |
| GCATATGCAGAAGACACCAA+AGG | - | chr1.4:87317056-87317075 | MS.gene90873:intron | 45.0% | |
| TATTGTTCTCAGGTTCTCGG+AGG | - | chr1.4:87317955-87317974 | MS.gene90873:intron | 45.0% | |
| TCCGAGAACCTGAGAACAAT+AGG | + | chr1.4:87317956-87317975 | None:intergenic | 45.0% | |
| TCTCGCATATTCAAAGCCCT+TGG | - | chr1.4:87317424-87317443 | MS.gene90873:intron | 45.0% | |
| TTTCAACCTGCAACCGAAAC+TGG | - | chr1.4:87317567-87317586 | MS.gene90873:intron | 45.0% | |
| !! | ATTACTATTATAATTATTAT+AGG | - | chr1.4:87317873-87317892 | MS.gene90873:CDS | 5.0% |
| !!! | ATTTTAAATAAAATAAAAAC+AGG | + | chr1.4:87316997-87317016 | None:intergenic | 5.0% |
| !!! | TTAAGATTTTTTTTTAATTA+AGG | + | chr1.4:87317671-87317690 | None:intergenic | 5.0% |
| !!! | TTTTAAATAAAATAAAAACA+GGG | + | chr1.4:87316996-87317015 | None:intergenic | 5.0% |
| GGAGAATTTCCCACCTTGTC+AGG | + | chr1.4:87317221-87317240 | None:intergenic | 50.0% | |
| !! | TCAAACCTTGAATGGGCTGG+TGG | - | chr1.4:87317155-87317174 | MS.gene90873:intron | 50.0% |
| CAGTGGGCACATGCTTCAGA+TGG | - | chr1.4:87318009-87318028 | MS.gene90873:intron | 55.0% | |
| CATCACCACCAGCCCATTCA+AGG | + | chr1.4:87317163-87317182 | None:intergenic | 55.0% | |
| !! | ACATGCTCAGGAGGAGCATC+AGG | + | chr1.4:87316847-87316866 | None:intergenic | 55.0% |
| !! | GGAGGAGCATCAGGTCCTGT+AGG | + | chr1.4:87316838-87316857 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 87316832 | 87318122 | 87316832 | ID=MS.gene90873 |
| chr1.4 | mRNA | 87316832 | 87318122 | 87316832 | ID=MS.gene90873.t1;Parent=MS.gene90873 |
| chr1.4 | exon | 87318027 | 87318122 | 87318027 | ID=MS.gene90873.t1.exon1;Parent=MS.gene90873.t1 |
| chr1.4 | CDS | 87318027 | 87318122 | 87318027 | ID=cds.MS.gene90873.t1;Parent=MS.gene90873.t1 |
| chr1.4 | exon | 87317728 | 87317922 | 87317728 | ID=MS.gene90873.t1.exon2;Parent=MS.gene90873.t1 |
| chr1.4 | CDS | 87317728 | 87317922 | 87317728 | ID=cds.MS.gene90873.t1;Parent=MS.gene90873.t1 |
| chr1.4 | exon | 87316832 | 87316987 | 87316832 | ID=MS.gene90873.t1.exon3;Parent=MS.gene90873.t1 |
| chr1.4 | CDS | 87316832 | 87316987 | 87316832 | ID=cds.MS.gene90873.t1;Parent=MS.gene90873.t1 |
| Gene Sequence |
| Protein sequence |
