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.gene78726.t1 | XP_003614405.1 | 97.8 | 134 | 3 | 0 | 2 | 135 | 4 | 137 | 2.00E-65 | 258.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78726.t1 | Q9C540 | 62.2 | 135 | 40 | 1 | 1 | 135 | 1 | 124 | 3.3e-37 | 156.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78726.t1 | G7JX23 | 97.8 | 134 | 3 | 0 | 2 | 135 | 4 | 137 | 1.4e-65 | 258.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053918 | MS.gene78726 | 0.907014 | 8.00E-81 | -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.gene78726.t1 | MTR_5g053250 | 97.761 | 134 | 3 | 0 | 2 | 135 | 4 | 137 | 2.20e-90 | 263 |
| MS.gene78726.t1 | MTR_5g053250 | 81.366 | 161 | 3 | 1 | 2 | 135 | 4 | 164 | 4.12e-84 | 248 |
| MS.gene78726.t1 | MTR_5g053250 | 98.701 | 77 | 1 | 0 | 59 | 135 | 1 | 77 | 1.39e-49 | 157 |
| MS.gene78726.t1 | MTR_6g017105 | 39.130 | 138 | 79 | 3 | 1 | 137 | 1 | 134 | 7.15e-24 | 93.2 |
| MS.gene78726.t1 | MTR_1g100643 | 39.456 | 147 | 81 | 5 | 1 | 146 | 1 | 140 | 2.82e-22 | 89.0 |
| MS.gene78726.t1 | MTR_1g033360 | 38.760 | 129 | 70 | 4 | 20 | 146 | 21 | 142 | 1.26e-20 | 84.3 |
| MS.gene78726.t1 | MTR_1g100643 | 42.697 | 89 | 48 | 2 | 59 | 146 | 1 | 87 | 1.58e-14 | 67.4 |
| MS.gene78726.t1 | MTR_1g033390 | 30.894 | 123 | 80 | 4 | 14 | 135 | 9 | 127 | 1.82e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78726.t1 | AT1G26100 | 62.222 | 135 | 40 | 1 | 1 | 135 | 1 | 124 | 6.61e-50 | 160 |
| MS.gene78726.t1 | AT5G38630 | 44.186 | 129 | 63 | 5 | 10 | 135 | 10 | 132 | 1.45e-25 | 97.4 |
| MS.gene78726.t1 | AT4G25570 | 39.568 | 139 | 77 | 4 | 9 | 146 | 8 | 140 | 1.30e-23 | 92.8 |
| MS.gene78726.t1 | AT4G25570 | 39.568 | 139 | 77 | 4 | 9 | 146 | 49 | 181 | 2.31e-23 | 92.8 |
Find 45 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTTAGCTTCTGGGATATT+TGG | 0.112597 | 5.3:+42939489 | MS.gene78726:CDS |
| TAGCATTTCTTGTTCTCTTC+TGG | 0.118815 | 5.3:+42939049 | MS.gene78726:CDS |
| CAAGGGGTGGCTTTAGCTTC+TGG | 0.175443 | 5.3:+42939480 | MS.gene78726:CDS |
| GAATGTTTGTGCAGCAATTT+TGG | 0.224729 | 5.3:+42939401 | MS.gene78726:intron |
| CTTTAGCTTCTGGGATATTT+GGG | 0.267158 | 5.3:+42939490 | MS.gene78726:CDS |
| CTTCTGGGATATTTGGGATT+TGG | 0.279862 | 5.3:+42939496 | MS.gene78726:CDS |
| TCCTGTTGAGGAAGAGAATT+AGG | 0.298620 | 5.3:-42939105 | None:intergenic |
| ATTTCTACAGCCTTCATTCA+TGG | 0.299138 | 5.3:+42939553 | MS.gene78726:CDS |
| CTCTTTCTTGCGAGAGTTTG+TGG | 0.301862 | 5.3:+42939018 | MS.gene78726:CDS |
| AAGGGGTGGCTTTAGCTTCT+GGG | 0.303519 | 5.3:+42939481 | MS.gene78726:CDS |
| AGCATTTCTTGTTCTCTTCT+GGG | 0.319777 | 5.3:+42939050 | MS.gene78726:CDS |
| TACTACCTTCTCCACTTAAA+AGG | 0.321243 | 5.3:-42939268 | None:intergenic |
| CCACAATCCCATCATTTACT+TGG | 0.326307 | 5.3:-42939527 | None:intergenic |
| CATCCTGTGCTCATGGTCAT+TGG | 0.339718 | 5.3:+42939239 | MS.gene78726:CDS |
| TCTTGTTCTCTTCTGGGCTC+TGG | 0.357755 | 5.3:+42939056 | MS.gene78726:CDS |
| TGTATCCCTCTTTGAAGCTC+AGG | 0.397102 | 5.3:+42939590 | MS.gene78726:CDS |
| TCCTAATTCTCTTCCTCAAC+AGG | 0.404001 | 5.3:+42939104 | MS.gene78726:CDS |
| TAGATGGTTGCCTGGGTCAA+GGG | 0.416984 | 5.3:+42939428 | MS.gene78726:CDS |
| ACAAAATTCCAAGTAAATGA+TGG | 0.437217 | 5.3:+42939519 | MS.gene78726:CDS |
| TACAGCCTTCATTCATGGAT+GGG | 0.445813 | 5.3:+42939558 | MS.gene78726:CDS |
| ATAGATGGTTGCCTGGGTCA+AGG | 0.449560 | 5.3:+42939427 | MS.gene78726:CDS |
| GAAGAGAATTAGGAGTATTG+AGG | 0.459271 | 5.3:-42939095 | None:intergenic |
| TCGGTGCATTTATGTCTTCA+AGG | 0.466772 | 5.3:+42939462 | MS.gene78726:CDS |
| TTGGTGCATAGATGGTTGCC+TGG | 0.471390 | 5.3:+42939420 | MS.gene78726:CDS |
| GGTTCTCCATCCTGTGCTCA+TGG | 0.477323 | 5.3:+42939232 | MS.gene78726:intron |
| CTACAGCCTTCATTCATGGA+TGG | 0.480089 | 5.3:+42939557 | MS.gene78726:CDS |
| AGATGGTTGCCTGGGTCAAG+GGG | 0.483244 | 5.3:+42939429 | MS.gene78726:CDS |
| AAGAGCAAAGGGAGTAGTGA+GGG | 0.491250 | 5.3:-42939000 | None:intergenic |
| CTCTCGCAAGAAAGAGCAAA+GGG | 0.500913 | 5.3:-42939011 | None:intergenic |
| CGGTGCATTTATGTCTTCAA+GGG | 0.507370 | 5.3:+42939463 | MS.gene78726:CDS |
| CAAAATTCCAAGTAAATGAT+GGG | 0.535853 | 5.3:+42939520 | MS.gene78726:CDS |
| CCAAGTAAATGATGGGATTG+TGG | 0.538655 | 5.3:+42939527 | MS.gene78726:CDS |
| TCAAACCCATCCATGAATGA+AGG | 0.539092 | 5.3:-42939563 | None:intergenic |
| GCATTTATGTCTTCAAGGGG+TGG | 0.549961 | 5.3:+42939467 | MS.gene78726:CDS |
| TGGTGCATAGATGGTTGCCT+GGG | 0.586545 | 5.3:+42939421 | MS.gene78726:CDS |
| AATCCAATGACCATGAGCAC+AGG | 0.602677 | 5.3:-42939242 | None:intergenic |
| TACTCACCTGAGCTTCAAAG+AGG | 0.613059 | 5.3:-42939596 | None:intergenic |
| CAATGACCATGAGCACAGGA+TGG | 0.614301 | 5.3:-42939238 | None:intergenic |
| GATGGTTGCCTGGGTCAAGG+GGG | 0.624454 | 5.3:+42939430 | MS.gene78726:CDS |
| ACTCTCGCAAGAAAGAGCAA+AGG | 0.634673 | 5.3:-42939012 | None:intergenic |
| ACTCACCTGAGCTTCAAAGA+GGG | 0.638153 | 5.3:-42939595 | None:intergenic |
| GGTGCATTTATGTCTTCAAG+GGG | 0.646132 | 5.3:+42939464 | MS.gene78726:CDS |
| AAAGAGCAAAGGGAGTAGTG+AGG | 0.647530 | 5.3:-42939001 | None:intergenic |
| GCATAGATGAGATCCTGTTG+AGG | 0.669004 | 5.3:-42939117 | None:intergenic |
| GAGTAGTGAGGGAAAGACAG+TGG | 0.669481 | 5.3:-42938989 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGATGTAATTAAATAAAAA+GGG | - | chr5.3:42939173-42939192 | None:intergenic | 10.0% |
| !! | TTTGATGTAATTAAATAAAA+AGG | - | chr5.3:42939174-42939193 | None:intergenic | 10.0% |
| !!! | TTTAATTTTAATTTAATTGC+AGG | + | chr5.3:42939211-42939230 | MS.gene78726:intron | 10.0% |
| !! | AAATATTATGTATTGGGATT+AGG | + | chr5.3:42939311-42939330 | MS.gene78726:intron | 20.0% |
| !! | AACCCAAAAATATTATGTAT+TGG | + | chr5.3:42939304-42939323 | MS.gene78726:intron | 20.0% |
| !! | ACCCAAAAATATTATGTATT+GGG | + | chr5.3:42939305-42939324 | MS.gene78726:intron | 20.0% |
| !! | TAATGAAATCAAGTCATTAT+TGG | + | chr5.3:42939344-42939363 | MS.gene78726:intron | 20.0% |
| !!! | ATCCCAATACATAATATTTT+TGG | - | chr5.3:42939310-42939329 | None:intergenic | 20.0% |
| !!! | TCCCAATACATAATATTTTT+GGG | - | chr5.3:42939309-42939328 | None:intergenic | 20.0% |
| ! | ACAAAATTCCAAGTAAATGA+TGG | + | chr5.3:42939519-42939538 | MS.gene78726:CDS | 25.0% |
| ! | CAAAATTCCAAGTAAATGAT+GGG | + | chr5.3:42939520-42939539 | MS.gene78726:CDS | 25.0% |
| !! | ATTGGATTTATCCTTTTAAG+TGG | + | chr5.3:42939257-42939276 | MS.gene78726:CDS | 25.0% |
| AAAGGGAATGAAGAAAATAG+AGG | - | chr5.3:42939156-42939175 | None:intergenic | 30.0% | |
| !! | TTTATCCTTTTAAGTGGAGA+AGG | + | chr5.3:42939263-42939282 | MS.gene78726:CDS | 30.0% |
| AGCATTTCTTGTTCTCTTCT+GGG | + | chr5.3:42939050-42939069 | MS.gene78726:CDS | 35.0% | |
| ATTTCTACAGCCTTCATTCA+TGG | + | chr5.3:42939553-42939572 | MS.gene78726:CDS | 35.0% | |
| TACTACCTTCTCCACTTAAA+AGG | - | chr5.3:42939271-42939290 | None:intergenic | 35.0% | |
| TAGCATTTCTTGTTCTCTTC+TGG | + | chr5.3:42939049-42939068 | MS.gene78726:CDS | 35.0% | |
| ! | GAATGTTTGTGCAGCAATTT+TGG | + | chr5.3:42939401-42939420 | MS.gene78726:intron | 35.0% |
| !! | CTTTAGCTTCTGGGATATTT+GGG | + | chr5.3:42939490-42939509 | MS.gene78726:CDS | 35.0% |
| !! | GAAGAGAATTAGGAGTATTG+AGG | - | chr5.3:42939098-42939117 | None:intergenic | 35.0% |
| CCACAATCCCATCATTTACT+TGG | - | chr5.3:42939530-42939549 | None:intergenic | 40.0% | |
| CGGTGCATTTATGTCTTCAA+GGG | + | chr5.3:42939463-42939482 | MS.gene78726:CDS | 40.0% | |
| GGTGCATTTATGTCTTCAAG+GGG | + | chr5.3:42939464-42939483 | MS.gene78726:CDS | 40.0% | |
| TACAGCCTTCATTCATGGAT+GGG | + | chr5.3:42939558-42939577 | MS.gene78726:CDS | 40.0% | |
| TCAAACCCATCCATGAATGA+AGG | - | chr5.3:42939566-42939585 | None:intergenic | 40.0% | |
| TCCTAATTCTCTTCCTCAAC+AGG | + | chr5.3:42939104-42939123 | MS.gene78726:CDS | 40.0% | |
| TCCTGTTGAGGAAGAGAATT+AGG | - | chr5.3:42939108-42939127 | None:intergenic | 40.0% | |
| TCGGTGCATTTATGTCTTCA+AGG | + | chr5.3:42939462-42939481 | MS.gene78726:CDS | 40.0% | |
| ! | CCAAGTAAATGATGGGATTG+TGG | + | chr5.3:42939527-42939546 | MS.gene78726:CDS | 40.0% |
| !! | CAGCAATTTTGGTGCATAGA+TGG | + | chr5.3:42939412-42939431 | MS.gene78726:intron | 40.0% |
| !! | CTTCTGGGATATTTGGGATT+TGG | + | chr5.3:42939496-42939515 | MS.gene78726:CDS | 40.0% |
| !! | GCTTTAGCTTCTGGGATATT+TGG | + | chr5.3:42939489-42939508 | MS.gene78726:CDS | 40.0% |
| AAAGAGCAAAGGGAGTAGTG+AGG | - | chr5.3:42939004-42939023 | None:intergenic | 45.0% | |
| AAGAGCAAAGGGAGTAGTGA+GGG | - | chr5.3:42939003-42939022 | None:intergenic | 45.0% | |
| AATCCAATGACCATGAGCAC+AGG | - | chr5.3:42939245-42939264 | None:intergenic | 45.0% | |
| ACTCACCTGAGCTTCAAAGA+GGG | - | chr5.3:42939598-42939617 | None:intergenic | 45.0% | |
| ACTCTCGCAAGAAAGAGCAA+AGG | - | chr5.3:42939015-42939034 | None:intergenic | 45.0% | |
| CTACAGCCTTCATTCATGGA+TGG | + | chr5.3:42939557-42939576 | MS.gene78726:CDS | 45.0% | |
| CTCTCGCAAGAAAGAGCAAA+GGG | - | chr5.3:42939014-42939033 | None:intergenic | 45.0% | |
| CTCTTTCTTGCGAGAGTTTG+TGG | + | chr5.3:42939018-42939037 | MS.gene78726:CDS | 45.0% | |
| GCATAGATGAGATCCTGTTG+AGG | - | chr5.3:42939120-42939139 | None:intergenic | 45.0% | |
| GCATTTATGTCTTCAAGGGG+TGG | + | chr5.3:42939467-42939486 | MS.gene78726:CDS | 45.0% | |
| GTCAAGGGGGTTGAAGAAAT+CGG | + | chr5.3:42939443-42939462 | MS.gene78726:CDS | 45.0% | |
| TACTCACCTGAGCTTCAAAG+AGG | - | chr5.3:42939599-42939618 | None:intergenic | 45.0% | |
| !! | TGTATCCCTCTTTGAAGCTC+AGG | + | chr5.3:42939590-42939609 | MS.gene78726:CDS | 45.0% |
| ATAGATGGTTGCCTGGGTCA+AGG | + | chr5.3:42939427-42939446 | MS.gene78726:CDS | 50.0% | |
| CAATGACCATGAGCACAGGA+TGG | - | chr5.3:42939241-42939260 | None:intergenic | 50.0% | |
| CATCCTGTGCTCATGGTCAT+TGG | + | chr5.3:42939239-42939258 | MS.gene78726:CDS | 50.0% | |
| GAGTAGTGAGGGAAAGACAG+TGG | - | chr5.3:42938992-42939011 | None:intergenic | 50.0% | |
| TAGATGGTTGCCTGGGTCAA+GGG | + | chr5.3:42939428-42939447 | MS.gene78726:CDS | 50.0% | |
| TCTTGTTCTCTTCTGGGCTC+TGG | + | chr5.3:42939056-42939075 | MS.gene78726:CDS | 50.0% | |
| TGGTGCATAGATGGTTGCCT+GGG | + | chr5.3:42939421-42939440 | MS.gene78726:CDS | 50.0% | |
| TTGGTGCATAGATGGTTGCC+TGG | + | chr5.3:42939420-42939439 | MS.gene78726:CDS | 50.0% | |
| !! | AAGGGGTGGCTTTAGCTTCT+GGG | + | chr5.3:42939481-42939500 | MS.gene78726:CDS | 50.0% |
| AGATGGTTGCCTGGGTCAAG+GGG | + | chr5.3:42939429-42939448 | MS.gene78726:CDS | 55.0% | |
| GGTTCTCCATCCTGTGCTCA+TGG | + | chr5.3:42939232-42939251 | MS.gene78726:intron | 55.0% | |
| TTCTTCAACCCCCTTGACCC+AGG | - | chr5.3:42939441-42939460 | None:intergenic | 55.0% | |
| !! | CAAGGGGTGGCTTTAGCTTC+TGG | + | chr5.3:42939480-42939499 | MS.gene78726:CDS | 55.0% |
| GATGGTTGCCTGGGTCAAGG+GGG | + | chr5.3:42939430-42939449 | MS.gene78726:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 42938985 | 42939662 | 42938985 | ID=MS.gene78726 |
| chr5.3 | mRNA | 42938985 | 42939662 | 42938985 | ID=MS.gene78726.t1;Parent=MS.gene78726 |
| chr5.3 | exon | 42938985 | 42939140 | 42938985 | ID=MS.gene78726.t1.exon1;Parent=MS.gene78726.t1 |
| chr5.3 | CDS | 42938985 | 42939140 | 42938985 | ID=cds.MS.gene78726.t1;Parent=MS.gene78726.t1 |
| chr5.3 | exon | 42939233 | 42939284 | 42939233 | ID=MS.gene78726.t1.exon2;Parent=MS.gene78726.t1 |
| chr5.3 | CDS | 42939233 | 42939284 | 42939233 | ID=cds.MS.gene78726.t1;Parent=MS.gene78726.t1 |
| chr5.3 | exon | 42939415 | 42939662 | 42939415 | ID=MS.gene78726.t1.exon3;Parent=MS.gene78726.t1 |
| chr5.3 | CDS | 42939415 | 42939662 | 42939415 | ID=cds.MS.gene78726.t1;Parent=MS.gene78726.t1 |
| Gene Sequence |
| Protein sequence |
