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.gene07699.t1 | XP_003606265.1 | 95.4 | 196 | 9 | 0 | 1 | 196 | 1 | 196 | 2.10E-99 | 371.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene07699.t1 | Q56XJ7 | 38.5 | 91 | 54 | 1 | 68 | 158 | 119 | 207 | 3.8e-09 | 63.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene07699.t1 | G7JL02 | 95.4 | 196 | 9 | 0 | 1 | 196 | 1 | 196 | 1.5e-99 | 371.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050060 | MS.gene07699 | 0.804442 | 2.16E-49 | -1.69E-46 |
| MS.gene050404 | MS.gene07699 | 0.817301 | 3.54E-52 | -1.69E-46 |
| MS.gene050406 | MS.gene07699 | 0.834915 | 2.27E-56 | -1.69E-46 |
| MS.gene052134 | MS.gene07699 | 0.809173 | 2.16E-50 | -1.69E-46 |
| MS.gene052469 | MS.gene07699 | 0.810788 | 9.68E-51 | -1.69E-46 |
| MS.gene052589 | MS.gene07699 | 0.812029 | 5.21E-51 | -1.69E-46 |
| MS.gene053330 | MS.gene07699 | 0.858702 | 6.87E-63 | -1.69E-46 |
| MS.gene053971 | MS.gene07699 | 0.804233 | 2.38E-49 | -1.69E-46 |
| MS.gene054884 | MS.gene07699 | -0.807289 | 5.44E-50 | -1.69E-46 |
| MS.gene055370 | MS.gene07699 | 0.825689 | 4.09E-54 | -1.69E-46 |
| MS.gene056633 | MS.gene07699 | 0.898156 | 6.99E-77 | -1.69E-46 |
| MS.gene056664 | MS.gene07699 | 0.845697 | 3.45E-59 | -1.69E-46 |
| MS.gene057332 | MS.gene07699 | 0.815704 | 8.06E-52 | -1.69E-46 |
| MS.gene058233 | MS.gene07699 | 0.801 | 1.11E-48 | -1.69E-46 |
| MS.gene058746 | MS.gene07699 | 0.883747 | 3.45E-71 | -1.69E-46 |
| MS.gene059512 | MS.gene07699 | 0.840705 | 7.40E-58 | -1.69E-46 |
| MS.gene061231 | MS.gene07699 | 0.809215 | 2.11E-50 | -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.gene07699.t1 | MTR_4g055420 | 95.408 | 196 | 9 | 0 | 1 | 196 | 1 | 196 | 3.18e-140 | 389 |
| MS.gene07699.t1 | MTR_2g084805 | 54.857 | 175 | 67 | 5 | 15 | 182 | 8 | 177 | 2.57e-56 | 177 |
| MS.gene07699.t1 | MTR_4g102040 | 43.077 | 130 | 58 | 2 | 69 | 196 | 57 | 172 | 2.77e-28 | 104 |
| MS.gene07699.t1 | MTR_5g011750 | 51.724 | 87 | 42 | 0 | 69 | 155 | 26 | 112 | 7.20e-25 | 94.0 |
| MS.gene07699.t1 | MTR_5g011770 | 40.741 | 81 | 48 | 0 | 72 | 152 | 117 | 197 | 1.22e-14 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene07699.t1 | AT2G27830 | 47.959 | 196 | 94 | 4 | 1 | 194 | 1 | 190 | 5.58e-50 | 160 |
| MS.gene07699.t1 | AT4G22758 | 38.462 | 91 | 54 | 1 | 68 | 158 | 119 | 207 | 8.63e-13 | 65.5 |
| MS.gene07699.t1 | AT1G70780 | 30.328 | 122 | 79 | 3 | 71 | 188 | 16 | 135 | 7.84e-12 | 60.8 |
Find 51 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCACTTTCTTCAAGCTTCTT+TGG | 0.205520 | 4.1:+42916519 | None:intergenic |
| AATGAGAAGCTTAAGGAAAT+TGG | 0.265022 | 4.1:-42916564 | MS.gene07699:CDS |
| GCCGACGAAGTTACTCATTA+AGG | 0.295975 | 4.1:-42917029 | MS.gene07699:CDS |
| GAGTAACTTCGTCGGCTGTC+TGG | 0.327050 | 4.1:+42917036 | None:intergenic |
| CACACTTCTGCAACACTGTC+CGG | 0.327283 | 4.1:-42917148 | MS.gene07699:CDS |
| GCTTCCTTCGACGGCAAGAT+TGG | 0.327598 | 4.1:+42916896 | None:intergenic |
| TTGCCGCACGCTTCCTGTCC+TGG | 0.374159 | 4.1:+42917086 | None:intergenic |
| TAAACGACGCCGTTACGTTA+TGG | 0.389603 | 4.1:+42916484 | None:intergenic |
| AGATAGAAATGAGAAGCTTA+AGG | 0.392238 | 4.1:-42916571 | MS.gene07699:CDS |
| ACAAGGTCCGGCATAGTCTT+TGG | 0.414724 | 4.1:+42917109 | None:intergenic |
| ACACTTCTGCAACACTGTCC+GGG | 0.435674 | 4.1:-42917147 | MS.gene07699:CDS |
| GAGTTTCCACATGGCTGTTA+CGG | 0.438950 | 4.1:+42917215 | None:intergenic |
| ATTTGATAGCGGAGGCTGTA+AGG | 0.439277 | 4.1:-42916943 | MS.gene07699:CDS |
| ACTCATTAAGGTTACGATGA+TGG | 0.455220 | 4.1:-42917017 | MS.gene07699:CDS |
| CTCATTAAGGTTACGATGAT+GGG | 0.455912 | 4.1:-42917016 | MS.gene07699:CDS |
| AGTAACTTCGTCGGCTGTCT+GGG | 0.474432 | 4.1:+42917037 | None:intergenic |
| CACTGTCCGGGGCAAAACTC+CGG | 0.481170 | 4.1:-42917135 | MS.gene07699:CDS |
| CACGCTTCCTGTCCTGGACA+AGG | 0.482528 | 4.1:+42917092 | None:intergenic |
| TTCCTGTCCTGGACAAGGTC+CGG | 0.485224 | 4.1:+42917097 | None:intergenic |
| GGCAATGACTTCTTCGCCAC+CGG | 0.515088 | 4.1:-42917068 | MS.gene07699:CDS |
| GTTACGATGATGGGCAGCCT+TGG | 0.521614 | 4.1:-42917007 | MS.gene07699:CDS |
| TGCCGGACCTTGTCCAGGAC+AGG | 0.523940 | 4.1:-42917099 | MS.gene07699:CDS |
| GACTATGCCGGACCTTGTCC+AGG | 0.528186 | 4.1:-42917104 | MS.gene07699:CDS |
| CTCTCCGGTGAGTTTCCACA+TGG | 0.533759 | 4.1:+42917206 | None:intergenic |
| TCTCTGTTAATCTTCCTCTC+CGG | 0.534835 | 4.1:+42917191 | None:intergenic |
| ATGACGATGGAGTCGACGGT+TGG | 0.536486 | 4.1:-42916968 | MS.gene07699:CDS |
| CCGGCATAGTCTTTGGCCGC+CGG | 0.545096 | 4.1:+42917116 | None:intergenic |
| AAGCAAGAAGCTTCCTTCGA+CGG | 0.546345 | 4.1:+42916887 | None:intergenic |
| GTAAGGTTGTATGTTAAAGA+AGG | 0.550051 | 4.1:-42916926 | MS.gene07699:CDS |
| TTTCCACATGGCTGTTACGG+TGG | 0.552551 | 4.1:+42917218 | None:intergenic |
| CCGTCCAATCTTGCCGTCGA+AGG | 0.553306 | 4.1:-42916900 | MS.gene07699:CDS |
| CATCGTCATTAACACTTGCA+CGG | 0.554830 | 4.1:+42916982 | None:intergenic |
| ATCGTCATTAACACTTGCAC+GGG | 0.561873 | 4.1:+42916983 | None:intergenic |
| AGCTTAAGGAAATTGGATCA+AGG | 0.569028 | 4.1:-42916557 | MS.gene07699:CDS |
| CCTTCGACGGCAAGATTGGA+CGG | 0.570300 | 4.1:+42916900 | None:intergenic |
| CACTTCTGCAACACTGTCCG+GGG | 0.582028 | 4.1:-42917146 | MS.gene07699:CDS |
| GTTAATGACGATGGAGTCGA+CGG | 0.597176 | 4.1:-42916972 | MS.gene07699:CDS |
| CCGGCGGCCAAAGACTATGC+CGG | 0.600487 | 4.1:-42917116 | MS.gene07699:CDS |
| TTAACACTTGCACGGGACCA+AGG | 0.603739 | 4.1:+42916990 | None:intergenic |
| ACAGCCATGTGGAAACTCAC+CGG | 0.607844 | 4.1:-42917210 | MS.gene07699:CDS |
| CGTGCAAGTGTTAATGACGA+TGG | 0.614536 | 4.1:-42916981 | MS.gene07699:CDS |
| AAGCTTGAAGAAAGTGACAA+TGG | 0.627431 | 4.1:-42916513 | MS.gene07699:CDS |
| ACCTTAATGAGTAACTTCGT+CGG | 0.631958 | 4.1:+42917028 | None:intergenic |
| GGTTGGAGATTTGATAGCGG+AGG | 0.649039 | 4.1:-42916951 | MS.gene07699:CDS |
| TGTCCAGGACAGGAAGCGTG+CGG | 0.659036 | 4.1:-42917089 | MS.gene07699:CDS |
| CTTGAAGAAAGTGACAATGG+TGG | 0.660090 | 4.1:-42916510 | MS.gene07699:CDS |
| TGGTGGAGACCATAACGTAA+CGG | 0.684404 | 4.1:-42916493 | MS.gene07699:CDS |
| TGTCCGGGGCAAAACTCCGG+CGG | 0.695006 | 4.1:-42917132 | MS.gene07699:CDS |
| CATGTGGAAACTCACCGGAG+AGG | 0.696044 | 4.1:-42917205 | MS.gene07699:CDS |
| AAACCACCGTAACAGCCATG+TGG | 0.698169 | 4.1:-42917221 | MS.gene07699:CDS |
| GACGGTTGGAGATTTGATAG+CGG | 0.725699 | 4.1:-42916954 | MS.gene07699:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGTAGTTATTATTTTTTGT+TGG | - | chr4.1:42917018-42917037 | MS.gene07699:CDS | 15.0% |
| !! | TGAACTATGAAAACTAAAAT+TGG | + | chr4.1:42916829-42916848 | None:intergenic | 20.0% |
| !!! | AGTTATTATTTTTTGTTGGA+GGG | - | chr4.1:42917022-42917041 | MS.gene07699:CDS | 20.0% |
| !!! | TAGTTATTATTTTTTGTTGG+AGG | - | chr4.1:42917021-42917040 | MS.gene07699:CDS | 20.0% |
| ! | ACTAGAACAAGGTAAATATT+AGG | - | chr4.1:42916932-42916951 | MS.gene07699:CDS | 25.0% |
| AATGAGAAGCTTAAGGAAAT+TGG | - | chr4.1:42917081-42917100 | MS.gene07699:CDS | 30.0% | |
| AGATAGAAATGAGAAGCTTA+AGG | - | chr4.1:42917074-42917093 | MS.gene07699:CDS | 30.0% | |
| GTAAGGTTGTATGTTAAAGA+AGG | - | chr4.1:42916719-42916738 | MS.gene07699:intron | 30.0% | |
| TATGACGTATCTAATTTCTC+TGG | - | chr4.1:42916893-42916912 | MS.gene07699:CDS | 30.0% | |
| ! | GAGAAATCATCATCTTTTCA+TGG | - | chr4.1:42916473-42916492 | MS.gene07699:CDS | 30.0% |
| !!! | TTGATTTGTTTTATGAGTGC+AGG | - | chr4.1:42917048-42917067 | MS.gene07699:CDS | 30.0% |
| AAGCTTGAAGAAAGTGACAA+TGG | - | chr4.1:42917132-42917151 | MS.gene07699:CDS | 35.0% | |
| ACCTTAATGAGTAACTTCGT+CGG | + | chr4.1:42916620-42916639 | None:intergenic | 35.0% | |
| ACTCATTAAGGTTACGATGA+TGG | - | chr4.1:42916628-42916647 | MS.gene07699:intron | 35.0% | |
| AGCTTAAGGAAATTGGATCA+AGG | - | chr4.1:42917088-42917107 | MS.gene07699:CDS | 35.0% | |
| CTCATTAAGGTTACGATGAT+GGG | - | chr4.1:42916629-42916648 | MS.gene07699:intron | 35.0% | |
| GAGTTATGCTAACTAGAACA+AGG | - | chr4.1:42916921-42916940 | MS.gene07699:CDS | 35.0% | |
| TCACTTTCTTCAAGCTTCTT+TGG | + | chr4.1:42917129-42917148 | None:intergenic | 35.0% | |
| ! | CAAGTTGAAAAAGTGAGCAA+AGG | - | chr4.1:42917198-42917217 | MS.gene07699:CDS | 35.0% |
| ! | GAAAAAGTGAGCAAAGGTTT+TGG | - | chr4.1:42917204-42917223 | MS.gene07699:CDS | 35.0% |
| !! | GCAAAGGTTTTGGTCTTTTA+AGG | - | chr4.1:42917214-42917233 | MS.gene07699:CDS | 35.0% |
| ATCGTCATTAACACTTGCAC+GGG | + | chr4.1:42916665-42916684 | None:intergenic | 40.0% | |
| CATCGTCATTAACACTTGCA+CGG | + | chr4.1:42916666-42916685 | None:intergenic | 40.0% | |
| CTTGAAGAAAGTGACAATGG+TGG | - | chr4.1:42917135-42917154 | MS.gene07699:CDS | 40.0% | |
| GTACCATTGTAGATGCTCTT+AGG | - | chr4.1:42916973-42916992 | MS.gene07699:CDS | 40.0% | |
| TCTCTGTTAATCTTCCTCTC+CGG | + | chr4.1:42916457-42916476 | None:intergenic | 40.0% | |
| !! | AGACCTAAGAGCATCTACAA+TGG | + | chr4.1:42916979-42916998 | None:intergenic | 40.0% |
| !!! | GCTCACTTTTTCAACTTGTC+TGG | + | chr4.1:42917196-42917215 | None:intergenic | 40.0% |
| AAGCAAGAAGCTTCCTTCGA+CGG | + | chr4.1:42916761-42916780 | None:intergenic | 45.0% | |
| CGTGCAAGTGTTAATGACGA+TGG | - | chr4.1:42916664-42916683 | MS.gene07699:intron | 45.0% | |
| GACGGTTGGAGATTTGATAG+CGG | - | chr4.1:42916691-42916710 | MS.gene07699:intron | 45.0% | |
| GAGTTTCCACATGGCTGTTA+CGG | + | chr4.1:42916433-42916452 | None:intergenic | 45.0% | |
| GCCGACGAAGTTACTCATTA+AGG | - | chr4.1:42916616-42916635 | MS.gene07699:intron | 45.0% | |
| GTTAATGACGATGGAGTCGA+CGG | - | chr4.1:42916673-42916692 | MS.gene07699:intron | 45.0% | |
| TAAACGACGCCGTTACGTTA+TGG | + | chr4.1:42917164-42917183 | None:intergenic | 45.0% | |
| TGGTGGAGACCATAACGTAA+CGG | - | chr4.1:42917152-42917171 | MS.gene07699:CDS | 45.0% | |
| !! | ATTTGATAGCGGAGGCTGTA+AGG | - | chr4.1:42916702-42916721 | MS.gene07699:intron | 45.0% |
| AAACCACCGTAACAGCCATG+TGG | - | chr4.1:42916424-42916443 | MS.gene07699:CDS | 50.0% | |
| ACAAGGTCCGGCATAGTCTT+TGG | + | chr4.1:42916539-42916558 | None:intergenic | 50.0% | |
| ACACTTCTGCAACACTGTCC+GGG | - | chr4.1:42916498-42916517 | MS.gene07699:CDS | 50.0% | |
| ACAGCCATGTGGAAACTCAC+CGG | - | chr4.1:42916435-42916454 | MS.gene07699:CDS | 50.0% | |
| CACACTTCTGCAACACTGTC+CGG | - | chr4.1:42916497-42916516 | MS.gene07699:CDS | 50.0% | |
| GGCTGTCTGGGAAAAAACTC+CGG | + | chr4.1:42916599-42916618 | None:intergenic | 50.0% | |
| TGTCTGGGAAAAAACTCCGG+TGG | + | chr4.1:42916596-42916615 | None:intergenic | 50.0% | |
| TTAACACTTGCACGGGACCA+AGG | + | chr4.1:42916658-42916677 | None:intergenic | 50.0% | |
| TTTCCACATGGCTGTTACGG+TGG | + | chr4.1:42916430-42916449 | None:intergenic | 50.0% | |
| ! | AGTAACTTCGTCGGCTGTCT+GGG | + | chr4.1:42916611-42916630 | None:intergenic | 50.0% |
| !! | GGTTGGAGATTTGATAGCGG+AGG | - | chr4.1:42916694-42916713 | MS.gene07699:intron | 50.0% |
| ATGACGATGGAGTCGACGGT+TGG | - | chr4.1:42916677-42916696 | MS.gene07699:intron | 55.0% | |
| CACTTCTGCAACACTGTCCG+GGG | - | chr4.1:42916499-42916518 | MS.gene07699:CDS | 55.0% | |
| CATGTGGAAACTCACCGGAG+AGG | - | chr4.1:42916440-42916459 | MS.gene07699:CDS | 55.0% | |
| CCTTCGACGGCAAGATTGGA+CGG | + | chr4.1:42916748-42916767 | None:intergenic | 55.0% | |
| CTCTCCGGTGAGTTTCCACA+TGG | + | chr4.1:42916442-42916461 | None:intergenic | 55.0% | |
| GCTTCCTTCGACGGCAAGAT+TGG | + | chr4.1:42916752-42916771 | None:intergenic | 55.0% | |
| GGCAATGACTTCTTCGCCAC+CGG | - | chr4.1:42916577-42916596 | MS.gene07699:CDS | 55.0% | |
| TTCCTGTCCTGGACAAGGTC+CGG | + | chr4.1:42916551-42916570 | None:intergenic | 55.0% | |
| ! | GAGTAACTTCGTCGGCTGTC+TGG | + | chr4.1:42916612-42916631 | None:intergenic | 55.0% |
| !! | GTTACGATGATGGGCAGCCT+TGG | - | chr4.1:42916638-42916657 | MS.gene07699:intron | 55.0% |
| CACGCTTCCTGTCCTGGACA+AGG | + | chr4.1:42916556-42916575 | None:intergenic | 60.0% | |
| CACTGTCCGGGGCAAAACTC+CGG | - | chr4.1:42916510-42916529 | MS.gene07699:CDS | 60.0% | |
| CCGTCCAATCTTGCCGTCGA+AGG | - | chr4.1:42916745-42916764 | MS.gene07699:intron | 60.0% | |
| GACTATGCCGGACCTTGTCC+AGG | - | chr4.1:42916541-42916560 | MS.gene07699:CDS | 60.0% | |
| ! | TGTCCAGGACAGGAAGCGTG+CGG | - | chr4.1:42916556-42916575 | MS.gene07699:CDS | 60.0% |
| CCGGCATAGTCTTTGGCCGC+CGG | + | chr4.1:42916532-42916551 | None:intergenic | 65.0% | |
| CCGGCGGCCAAAGACTATGC+CGG | - | chr4.1:42916529-42916548 | MS.gene07699:CDS | 65.0% | |
| TGCCGGACCTTGTCCAGGAC+AGG | - | chr4.1:42916546-42916565 | MS.gene07699:CDS | 65.0% | |
| TGTCCGGGGCAAAACTCCGG+CGG | - | chr4.1:42916513-42916532 | MS.gene07699:CDS | 65.0% | |
| TTGCCGCACGCTTCCTGTCC+TGG | + | chr4.1:42916562-42916581 | None:intergenic | 65.0% | |
| ! | TGGCCGCCGGAGTTTTGCCC+CGG | + | chr4.1:42916519-42916538 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 42916410 | 42917257 | 42916410 | ID=MS.gene07699 |
| chr4.1 | mRNA | 42916410 | 42917257 | 42916410 | ID=MS.gene07699.t1;Parent=MS.gene07699 |
| chr4.1 | exon | 42916855 | 42917257 | 42916855 | ID=MS.gene07699.t1.exon1;Parent=MS.gene07699.t1 |
| chr4.1 | CDS | 42916855 | 42917257 | 42916855 | ID=cds.MS.gene07699.t1;Parent=MS.gene07699.t1 |
| chr4.1 | exon | 42916410 | 42916597 | 42916410 | ID=MS.gene07699.t1.exon2;Parent=MS.gene07699.t1 |
| chr4.1 | CDS | 42916410 | 42916597 | 42916410 | ID=cds.MS.gene07699.t1;Parent=MS.gene07699.t1 |
| Gene Sequence |
| Protein sequence |
