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.gene20156.t1 | XP_003630655.1 | 98.4 | 129 | 2 | 0 | 1 | 129 | 1 | 129 | 2.40E-67 | 264.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20156.t1 | Q9M0E0 | 81.4 | 129 | 24 | 0 | 1 | 129 | 1 | 129 | 1.3e-58 | 226.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20156.t1 | B7FH41 | 98.4 | 129 | 2 | 0 | 1 | 129 | 1 | 129 | 1.7e-67 | 264.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053109 | MS.gene20156 | 0.801338 | 9.44E-49 | -1.69E-46 |
| MS.gene055162 | MS.gene20156 | 0.809918 | 1.49E-50 | -1.69E-46 |
| MS.gene058906 | MS.gene20156 | 0.809708 | 1.66E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene55887 | MS.gene20156 | PPI |
| MS.gene20156 | MS.gene58719 | PPI |
| MS.gene20156 | MS.gene036595 | PPI |
| MS.gene35135 | MS.gene20156 | PPI |
| MS.gene20156 | MS.gene049026 | PPI |
| MS.gene20156 | MS.gene023130 | PPI |
| MS.gene041458 | MS.gene20156 | PPI |
| MS.gene36468 | MS.gene20156 | PPI |
| MS.gene20156 | MS.gene06172 | PPI |
| MS.gene028323 | MS.gene20156 | PPI |
| MS.gene20156 | MS.gene58227 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20156.t1 | MTR_8g101910 | 98.450 | 129 | 2 | 0 | 1 | 129 | 1 | 129 | 4.67e-94 | 267 |
| MS.gene20156.t1 | MTR_8g101910 | 96.970 | 99 | 3 | 0 | 1 | 99 | 1 | 99 | 3.41e-68 | 201 |
| MS.gene20156.t1 | MTR_4g094598 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 7.77e-46 | 145 |
| MS.gene20156.t1 | MTR_1g105415 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 7.77e-46 | 145 |
| MS.gene20156.t1 | MTR_4g117470 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 1.99e-45 | 144 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20156.t1 | AT4G29430 | 81.395 | 129 | 24 | 0 | 1 | 129 | 1 | 129 | 5.77e-79 | 229 |
| MS.gene20156.t1 | AT2G19720 | 79.845 | 129 | 26 | 0 | 1 | 129 | 1 | 129 | 1.60e-77 | 225 |
| MS.gene20156.t1 | AT2G39590 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 3.50e-46 | 146 |
| MS.gene20156.t1 | AT5G59850 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 1.97e-45 | 144 |
| MS.gene20156.t1 | AT1G07770 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 1.97e-45 | 144 |
| MS.gene20156.t1 | AT1G07770 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 1.97e-45 | 144 |
| MS.gene20156.t1 | AT1G07770 | 52.000 | 125 | 60 | 0 | 5 | 129 | 6 | 130 | 1.97e-45 | 144 |
| MS.gene20156.t1 | AT3G46040 | 50.400 | 125 | 62 | 0 | 5 | 129 | 6 | 130 | 2.76e-44 | 141 |
Find 33 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGTGATCCTCCCCACTCTA+TGG | 0.263185 | 4.4:-3814522 | None:intergenic |
| GAAGAGATAACATTGGAAAT+AGG | 0.265767 | 4.4:-3813863 | None:intergenic |
| TACAACTCCTGATGGTGTTT+TGG | 0.307095 | 4.4:+3814843 | MS.gene20156:CDS |
| AATGTAGGTGGTCAGGTTCT+TGG | 0.331557 | 4.4:+3814889 | MS.gene20156:CDS |
| TGAGGTCTTGTCGGTATGTA+AGG | 0.347848 | 4.4:-3814579 | None:intergenic |
| AGGATATATCAAGGACTTTC+AGG | 0.389863 | 4.4:+3814489 | MS.gene20156:intron |
| CCTTTGCCTTGAGGTCTTGT+CGG | 0.398017 | 4.4:-3814588 | None:intergenic |
| ATCATGAAGAGGCCGCAAAA+AGG | 0.404793 | 4.4:+3814866 | MS.gene20156:CDS |
| TGTGATCCTCCCCACTCTAT+GGG | 0.457890 | 4.4:-3814521 | None:intergenic |
| GAACGATGCGTTGAGGAGTA+TGG | 0.475978 | 4.4:+3813799 | MS.gene20156:CDS |
| GAACACTCTTCCAACACATC+AGG | 0.488180 | 4.4:+3814630 | MS.gene20156:CDS |
| TCATGATCCAAAACACCATC+AGG | 0.488311 | 4.4:-3814850 | None:intergenic |
| AAGAAAAGAAGAGATAACAT+TGG | 0.493444 | 4.4:-3813870 | None:intergenic |
| GAGAAAGAGAAATGGGGAGA+AGG | 0.505773 | 4.4:+3813771 | None:intergenic |
| CATTAACCAACCTGATGTGT+TGG | 0.507241 | 4.4:-3814640 | None:intergenic |
| ATTCAATATCCTTTGCCTTG+AGG | 0.544391 | 4.4:-3814597 | None:intergenic |
| GAAGAGAGGCAAAGCTATGG+TGG | 0.562394 | 4.4:+3813832 | MS.gene20156:CDS |
| GAGGTCTTGTCGGTATGTAA+GGG | 0.568541 | 4.4:-3814578 | None:intergenic |
| GTGTATGATCCCCATAGAGT+GGG | 0.576109 | 4.4:+3814511 | MS.gene20156:CDS |
| CATGTTGGCAGGATATATCA+AGG | 0.581279 | 4.4:+3814480 | MS.gene20156:intron |
| TGAGAAGAGAGGCAAAGCTA+TGG | 0.613395 | 4.4:+3813829 | MS.gene20156:CDS |
| GGTGTATGATCCCCATAGAG+TGG | 0.614660 | 4.4:+3814510 | MS.gene20156:CDS |
| AGGTAGAATTAACGATTGCA+AGG | 0.617470 | 4.4:+3814555 | MS.gene20156:CDS |
| TACATACCGACAAGACCTCA+AGG | 0.646826 | 4.4:+3814582 | MS.gene20156:CDS |
| CCGACAAGACCTCAAGGCAA+AGG | 0.650773 | 4.4:+3814588 | MS.gene20156:CDS |
| GGATACTGAACGATGCGTTG+AGG | 0.657571 | 4.4:+3813792 | MS.gene20156:CDS |
| AGGATCACAGTTGAACTACA+AGG | 0.660202 | 4.4:+3814535 | MS.gene20156:CDS |
| ATGGTGAATGCTGAGAAGAG+AGG | 0.672519 | 4.4:+3813818 | MS.gene20156:CDS |
| GTTGTGATTACAACTCCTGA+TGG | 0.673437 | 4.4:+3814835 | MS.gene20156:CDS |
| GTGATCCTCCCCACTCTATG+GGG | 0.676832 | 4.4:-3814520 | None:intergenic |
| TGTATGATCCCCATAGAGTG+GGG | 0.683001 | 4.4:+3814512 | MS.gene20156:CDS |
| ATGATCCCCATAGAGTGGGG+AGG | 0.698167 | 4.4:+3814515 | MS.gene20156:CDS |
| CTTCAAATCATGAAACACCG+CGG | 0.732704 | 4.4:+3813890 | MS.gene20156:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTAAAGATATTTTTAG+TGG | + | chr4.4:3814125-3814144 | MS.gene20156:intron | 10.0% |
| !! | AACACTAAATAAAAACAAAA+CGG | - | chr4.4:3814670-3814689 | None:intergenic | 15.0% |
| !!! | AGAATTTAAAATATAAAAGC+TGG | - | chr4.4:3814742-3814761 | None:intergenic | 15.0% |
| !!! | TTTTTAATAGATATGAGTAA+AGG | + | chr4.4:3814765-3814784 | MS.gene20156:intron | 15.0% |
| !! | ATGTCTTAATTAATGGAATT+TGG | - | chr4.4:3814061-3814080 | None:intergenic | 20.0% |
| !! | CATTAATTAAGACATACATT+AGG | + | chr4.4:3814066-3814085 | MS.gene20156:intron | 20.0% |
| !! | CTAATGTATGTCTTAATTAA+TGG | - | chr4.4:3814068-3814087 | None:intergenic | 20.0% |
| !! | TGTCTTAATTAATGGAATTT+GGG | - | chr4.4:3814060-3814079 | None:intergenic | 20.0% |
| ! | AAGAAAAGAAGAGATAACAT+TGG | - | chr4.4:3813873-3813892 | None:intergenic | 25.0% |
| ! | AATTCAAACAAATATTACCG+CGG | - | chr4.4:3813910-3813929 | None:intergenic | 25.0% |
| ! | ATAGATATGAGTAAAGGAAA+AGG | + | chr4.4:3814771-3814790 | MS.gene20156:intron | 25.0% |
| ! | ATTTCATACTCATAAGATGA+AGG | - | chr4.4:3813961-3813980 | None:intergenic | 25.0% |
| ! | TAATTGTTGGAAAATAACCA+TGG | - | chr4.4:3814340-3814359 | None:intergenic | 25.0% |
| ! | TCATATCTCATGAAAAGAAA+TGG | + | chr4.4:3814311-3814330 | MS.gene20156:intron | 25.0% |
| ! | TTACTTCCATTATCTCAAAT+TGG | + | chr4.4:3814242-3814261 | MS.gene20156:intron | 25.0% |
| ! | TTTATTTATCTTGATGCAGT+GGG | + | chr4.4:3814807-3814826 | MS.gene20156:intron | 25.0% |
| ! | TTTCATACTCATAAGATGAA+GGG | - | chr4.4:3813960-3813979 | None:intergenic | 25.0% |
| !!! | TGTGTTTTGGATAATTCATT+AGG | + | chr4.4:3814010-3814029 | MS.gene20156:intron | 25.0% |
| !!! | TTTTATTTATCTTGATGCAG+TGG | + | chr4.4:3814806-3814825 | MS.gene20156:intron | 25.0% |
| ACAAATATAATCACGTGTGT+AGG | - | chr4.4:3814222-3814241 | None:intergenic | 30.0% | |
| AGCATGTATATGTACATGAA+AGG | + | chr4.4:3814396-3814415 | MS.gene20156:intron | 30.0% | |
| AGCATTCTCCATATACAAAT+AGG | - | chr4.4:3814705-3814724 | None:intergenic | 30.0% | |
| CAGTTTCTCCTATTTGTATA+TGG | + | chr4.4:3814694-3814713 | MS.gene20156:intron | 30.0% | |
| GAAGAGATAACATTGGAAAT+AGG | - | chr4.4:3813866-3813885 | None:intergenic | 30.0% | |
| TTATTTATCTTGATGCAGTG+GGG | + | chr4.4:3814808-3814827 | MS.gene20156:intron | 30.0% | |
| ! | ATTTTCCAACAATTATCAGC+TGG | + | chr4.4:3814345-3814364 | MS.gene20156:intron | 30.0% |
| ! | GTCATACCAATTTGAGATAA+TGG | - | chr4.4:3814251-3814270 | None:intergenic | 30.0% |
| !!! | TATGTATTCGTTTTTTGAGC+TGG | + | chr4.4:3813982-3814001 | MS.gene20156:intron | 30.0% |
| AATTATCAGCTGGATAAGCA+TGG | + | chr4.4:3814355-3814374 | MS.gene20156:intron | 35.0% | |
| AGGATATATCAAGGACTTTC+AGG | + | chr4.4:3814489-3814508 | MS.gene20156:intron | 35.0% | |
| AGGTAGAATTAACGATTGCA+AGG | + | chr4.4:3814555-3814574 | MS.gene20156:CDS | 35.0% | |
| ATGAAAAGAAATGGTCTCCA+TGG | + | chr4.4:3814320-3814339 | MS.gene20156:intron | 35.0% | |
| ATTCAATATCCTTTGCCTTG+AGG | - | chr4.4:3814600-3814619 | None:intergenic | 35.0% | |
| CTTATCCAGCTGATAATTGT+TGG | - | chr4.4:3814353-3814372 | None:intergenic | 35.0% | |
| GCTACATAGTTCTTGAGAAA+TGG | - | chr4.4:3814159-3814178 | None:intergenic | 35.0% | |
| ! | TGAGCTGGATTTATGTGTTT+TGG | + | chr4.4:3813997-3814016 | MS.gene20156:intron | 35.0% |
| !! | TAATTTGCTGTCGTTCATGT+TGG | + | chr4.4:3814465-3814484 | MS.gene20156:intron | 35.0% |
| AAAAAGGAATGTAGGTGGTC+AGG | + | chr4.4:3814882-3814901 | MS.gene20156:CDS | 40.0% | |
| AGGATCACAGTTGAACTACA+AGG | + | chr4.4:3814535-3814554 | MS.gene20156:CDS | 40.0% | |
| CATGTTGGCAGGATATATCA+AGG | + | chr4.4:3814480-3814499 | MS.gene20156:intron | 40.0% | |
| CATTAACCAACCTGATGTGT+TGG | - | chr4.4:3814643-3814662 | None:intergenic | 40.0% | |
| CTCAAATTGGTATGACGTTG+AGG | + | chr4.4:3814255-3814274 | MS.gene20156:intron | 40.0% | |
| CTTCAAATCATGAAACACCG+CGG | + | chr4.4:3813890-3813909 | MS.gene20156:CDS | 40.0% | |
| GTTGTGATTACAACTCCTGA+TGG | + | chr4.4:3814835-3814854 | MS.gene20156:CDS | 40.0% | |
| TCATGATCCAAAACACCATC+AGG | - | chr4.4:3814853-3814872 | None:intergenic | 40.0% | |
| ! | ACCACCTACATTCCTTTTTG+CGG | - | chr4.4:3814881-3814900 | None:intergenic | 40.0% |
| !! | TACAACTCCTGATGGTGTTT+TGG | + | chr4.4:3814843-3814862 | MS.gene20156:CDS | 40.0% |
| !! | TGGTGTTTTGGATCATGAAG+AGG | + | chr4.4:3814855-3814874 | MS.gene20156:CDS | 40.0% |
| AATGTAGGTGGTCAGGTTCT+TGG | + | chr4.4:3814889-3814908 | MS.gene20156:CDS | 45.0% | |
| ACTCTTCCAACACATCAGGT+TGG | + | chr4.4:3814634-3814653 | MS.gene20156:intron | 45.0% | |
| ATCATGAAGAGGCCGCAAAA+AGG | + | chr4.4:3814866-3814885 | MS.gene20156:CDS | 45.0% | |
| ATGGTGAATGCTGAGAAGAG+AGG | + | chr4.4:3813818-3813837 | MS.gene20156:CDS | 45.0% | |
| ATTGGTATGACGTTGAGGTG+TGG | + | chr4.4:3814260-3814279 | MS.gene20156:intron | 45.0% | |
| GAACACTCTTCCAACACATC+AGG | + | chr4.4:3814630-3814649 | MS.gene20156:CDS | 45.0% | |
| GTGTATGATCCCCATAGAGT+GGG | + | chr4.4:3814511-3814530 | MS.gene20156:CDS | 45.0% | |
| TACATACCGACAAGACCTCA+AGG | + | chr4.4:3814582-3814601 | MS.gene20156:CDS | 45.0% | |
| TGAGAAGAGAGGCAAAGCTA+TGG | + | chr4.4:3813829-3813848 | MS.gene20156:CDS | 45.0% | |
| TGTATGATCCCCATAGAGTG+GGG | + | chr4.4:3814512-3814531 | MS.gene20156:CDS | 45.0% | |
| TTGGTATGACGTTGAGGTGT+GGG | + | chr4.4:3814261-3814280 | MS.gene20156:intron | 45.0% | |
| ! | GAGGTCTTGTCGGTATGTAA+GGG | - | chr4.4:3814581-3814600 | None:intergenic | 45.0% |
| ! | TGAGGTCTTGTCGGTATGTA+AGG | - | chr4.4:3814582-3814601 | None:intergenic | 45.0% |
| !!! | TATTATTAATTTTAGATTTT+TGG | + | chr4.4:3814090-3814109 | MS.gene20156:intron | 5.0% |
| GAACGATGCGTTGAGGAGTA+TGG | + | chr4.4:3813799-3813818 | MS.gene20156:CDS | 50.0% | |
| GAAGAGAGGCAAAGCTATGG+TGG | + | chr4.4:3813832-3813851 | MS.gene20156:CDS | 50.0% | |
| GAGGCCGCAAAAAGGAATGT+AGG | + | chr4.4:3814874-3814893 | MS.gene20156:CDS | 50.0% | |
| GCCGCAAAAAGGAATGTAGG+TGG | + | chr4.4:3814877-3814896 | MS.gene20156:CDS | 50.0% | |
| GGATACTGAACGATGCGTTG+AGG | + | chr4.4:3813792-3813811 | MS.gene20156:CDS | 50.0% | |
| GGTGTATGATCCCCATAGAG+TGG | + | chr4.4:3814510-3814529 | MS.gene20156:CDS | 50.0% | |
| TGTGATCCTCCCCACTCTAT+GGG | - | chr4.4:3814524-3814543 | None:intergenic | 50.0% | |
| TTGCTGTCGTTCATGTTGGC+AGG | + | chr4.4:3814469-3814488 | MS.gene20156:intron | 50.0% | |
| ! | CCTTTGCCTTGAGGTCTTGT+CGG | - | chr4.4:3814591-3814610 | None:intergenic | 50.0% |
| ATGATCCCCATAGAGTGGGG+AGG | + | chr4.4:3814515-3814534 | MS.gene20156:CDS | 55.0% | |
| CCGACAAGACCTCAAGGCAA+AGG | + | chr4.4:3814588-3814607 | MS.gene20156:CDS | 55.0% | |
| CTGTGATCCTCCCCACTCTA+TGG | - | chr4.4:3814525-3814544 | None:intergenic | 55.0% | |
| GTGATCCTCCCCACTCTATG+GGG | - | chr4.4:3814523-3814542 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 3813782 | 3814924 | 3813782 | ID=MS.gene20156 |
| chr4.4 | mRNA | 3813782 | 3814924 | 3813782 | ID=MS.gene20156.t1;Parent=MS.gene20156 |
| chr4.4 | exon | 3813782 | 3813911 | 3813782 | ID=MS.gene20156.t1.exon1;Parent=MS.gene20156.t1 |
| chr4.4 | CDS | 3813782 | 3813911 | 3813782 | ID=cds.MS.gene20156.t1;Parent=MS.gene20156.t1 |
| chr4.4 | exon | 3814491 | 3814651 | 3814491 | ID=MS.gene20156.t1.exon2;Parent=MS.gene20156.t1 |
| chr4.4 | CDS | 3814491 | 3814651 | 3814491 | ID=cds.MS.gene20156.t1;Parent=MS.gene20156.t1 |
| chr4.4 | exon | 3814826 | 3814924 | 3814826 | ID=MS.gene20156.t1.exon3;Parent=MS.gene20156.t1 |
| chr4.4 | CDS | 3814826 | 3814924 | 3814826 | ID=cds.MS.gene20156.t1;Parent=MS.gene20156.t1 |
| Gene Sequence |
| Protein sequence |
