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.gene54624.t1 | XP_024639117.1 | 80.5 | 185 | 25 | 4 | 1 | 178 | 1 | 181 | 2.40E-70 | 275 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54624.t1 | Q84R94 | 38.7 | 155 | 74 | 3 | 30 | 168 | 65 | 214 | 1.7e-19 | 97.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54624.t1 | A0A396HSW0 | 90.6 | 139 | 12 | 1 | 31 | 168 | 6 | 144 | 7.1e-64 | 253.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene54624.t1 | TF | Tify |
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.gene54624.t1 | MTR_5g013515 | 90.511 | 137 | 12 | 1 | 33 | 168 | 1 | 137 | 2.76e-90 | 260 |
| MS.gene54624.t1 | MTR_5g013530 | 73.889 | 180 | 34 | 6 | 1 | 178 | 1 | 169 | 1.01e-85 | 249 |
| MS.gene54624.t1 | MTR_5g013520 | 75.333 | 150 | 28 | 3 | 32 | 178 | 1 | 144 | 2.86e-77 | 227 |
| MS.gene54624.t1 | MTR_5g013530 | 75.333 | 150 | 26 | 4 | 31 | 178 | 7 | 147 | 5.41e-73 | 216 |
| MS.gene54624.t1 | MTR_2g042900 | 45.399 | 163 | 47 | 6 | 27 | 163 | 99 | 245 | 9.71e-36 | 125 |
| MS.gene54624.t1 | MTR_2g042900 | 35.329 | 167 | 43 | 5 | 27 | 137 | 99 | 256 | 1.40e-21 | 88.6 |
| MS.gene54624.t1 | MTR_4g124960 | 37.273 | 110 | 46 | 2 | 40 | 149 | 95 | 181 | 1.47e-18 | 79.3 |
| MS.gene54624.t1 | MTR_4g124960 | 36.893 | 103 | 42 | 2 | 40 | 142 | 95 | 174 | 4.17e-16 | 72.4 |
| MS.gene54624.t1 | MTR_8g021380 | 31.126 | 151 | 89 | 4 | 29 | 173 | 88 | 229 | 4.97e-14 | 68.2 |
| MS.gene54624.t1 | MTR_4g124360 | 33.628 | 113 | 65 | 2 | 42 | 144 | 3 | 115 | 5.99e-13 | 63.2 |
| MS.gene54624.t1 | MTR_4g124360 | 33.628 | 113 | 65 | 2 | 42 | 144 | 41 | 153 | 1.04e-12 | 63.5 |
| MS.gene54624.t1 | MTR_2g044910 | 30.508 | 118 | 70 | 3 | 46 | 152 | 15 | 131 | 1.90e-12 | 62.4 |
| MS.gene54624.t1 | MTR_2g044910 | 28.378 | 148 | 85 | 4 | 25 | 152 | 28 | 174 | 3.33e-12 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54624.t1 | AT1G19180 | 43.382 | 136 | 65 | 5 | 39 | 166 | 53 | 184 | 4.21e-26 | 99.0 |
| MS.gene54624.t1 | AT1G19180 | 43.382 | 136 | 65 | 5 | 39 | 166 | 119 | 250 | 1.78e-25 | 99.0 |
| MS.gene54624.t1 | AT1G19180 | 43.382 | 136 | 65 | 5 | 39 | 166 | 119 | 250 | 1.78e-25 | 99.0 |
| MS.gene54624.t1 | AT1G74950 | 38.406 | 138 | 71 | 4 | 39 | 164 | 112 | 247 | 5.07e-23 | 92.4 |
| MS.gene54624.t1 | AT1G74950 | 38.182 | 110 | 57 | 2 | 39 | 137 | 112 | 221 | 2.47e-17 | 76.6 |
| MS.gene54624.t1 | AT5G20900 | 36.719 | 128 | 69 | 5 | 32 | 148 | 41 | 167 | 5.01e-14 | 67.0 |
| MS.gene54624.t1 | AT1G72450 | 38.393 | 112 | 54 | 3 | 45 | 146 | 105 | 211 | 1.59e-13 | 67.0 |
| MS.gene54624.t1 | AT1G17380 | 31.126 | 151 | 83 | 4 | 11 | 146 | 63 | 207 | 1.60e-13 | 67.0 |
| MS.gene54624.t1 | AT1G17380 | 32.540 | 126 | 66 | 3 | 35 | 146 | 58 | 178 | 1.75e-13 | 66.6 |
| MS.gene54624.t1 | AT1G70700 | 35.577 | 104 | 62 | 3 | 46 | 145 | 119 | 221 | 1.09e-11 | 61.6 |
Find 35 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTACAAGAGGTTTCAAATTT+AGG | 0.093614 | 5.3:+6666198 | MS.gene54624:CDS |
| TCATCCTCACCTGTTATTTA+TGG | 0.150258 | 5.3:+6666553 | MS.gene54624:CDS |
| CATGACATGAATTCATTAAT+TGG | 0.189235 | 5.3:-6667855 | None:intergenic |
| ATTCATTAATTGGCTTATTA+AGG | 0.221545 | 5.3:-6667845 | None:intergenic |
| AGCTTCACTTCATCGGTTCT+TGG | 0.292747 | 5.3:+6666708 | MS.gene54624:CDS |
| GTTGGGTTACTTGTTTGATA+TGG | 0.309920 | 5.3:-6667819 | None:intergenic |
| TTTCAAATTTAGGAAATTCC+AGG | 0.358166 | 5.3:+6666208 | MS.gene54624:CDS |
| TTGAGAGTTAGTAGTTCCTT+TGG | 0.375053 | 5.3:-6666443 | None:intergenic |
| ATTGGCTTATTAAGGTTTGT+TGG | 0.391845 | 5.3:-6667837 | None:intergenic |
| TTGGCTTATTAAGGTTTGTT+GGG | 0.406880 | 5.3:-6667836 | None:intergenic |
| TGGAGCTACATTCTGATTTG+TGG | 0.411283 | 5.3:-6667899 | None:intergenic |
| AGTGAAGCTTTCCTAGTCAT+TGG | 0.425048 | 5.3:-6666694 | None:intergenic |
| GAATTTCTAGCAAGAAATGA+TGG | 0.446507 | 5.3:-6666508 | None:intergenic |
| ATTGTCATTTGTGCACATCT+AGG | 0.463250 | 5.3:-6666346 | None:intergenic |
| TTCATCGGTTCTTGGAGAAA+AGG | 0.463618 | 5.3:+6666716 | MS.gene54624:CDS |
| CATTCTGATTTGTGGTCTTG+TGG | 0.464643 | 5.3:-6667891 | None:intergenic |
| TGATACTTGAAGAGAATTGT+TGG | 0.494345 | 5.3:-6666533 | None:intergenic |
| AGAGTTAGTAGTTCCTTTGG+AGG | 0.509053 | 5.3:-6666440 | None:intergenic |
| ATTCATGTCATGGCTCTCCT+TGG | 0.527756 | 5.3:+6667866 | MS.gene54624:CDS |
| CTAGGAAAGCTTCACTTCAT+CGG | 0.529148 | 5.3:+6666701 | MS.gene54624:CDS |
| GAAAATTCAACATAGGTGTA+CGG | 0.542214 | 5.3:-6666152 | None:intergenic |
| TGAAAGCATAGTTATTGTTG+TGG | 0.546555 | 5.3:-6666468 | None:intergenic |
| AATGAAGGCTAATATTAAGA+AGG | 0.546955 | 5.3:+6666318 | MS.gene54624:CDS |
| AAGTTAAAGAAAGACAGAGC+TGG | 0.561002 | 5.3:-6667919 | None:intergenic |
| TCTTGGAGAAAAGGAAGGAT+AGG | 0.567398 | 5.3:+6666725 | MS.gene54624:CDS |
| ACATGTTGAAAATTCAACAT+AGG | 0.573945 | 5.3:-6666159 | None:intergenic |
| TTTGTGGTCTTGTGGTGCCA+AGG | 0.580313 | 5.3:-6667883 | None:intergenic |
| TCCTCATCTCTCTCTACAAG+AGG | 0.582418 | 5.3:+6666185 | MS.gene54624:CDS |
| TCGGTTCTTGGAGAAAAGGA+AGG | 0.585705 | 5.3:+6666720 | MS.gene54624:CDS |
| CAATTAATGAATTCATGTCA+TGG | 0.607012 | 5.3:+6667856 | MS.gene54624:CDS |
| TTTACCATAAATAACAGGTG+AGG | 0.612964 | 5.3:-6666557 | None:intergenic |
| TTCTAGCAAGAAATGATGGG+TGG | 0.621713 | 5.3:-6666504 | None:intergenic |
| ATACAGATTTACCAATGACT+AGG | 0.627962 | 5.3:+6666683 | MS.gene54624:intron |
| AATTTCTAGCAAGAAATGAT+GGG | 0.637681 | 5.3:-6666507 | None:intergenic |
| ACCTCTTGTAGAGAGAGATG+AGG | 0.644344 | 5.3:-6666186 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGGTAAAAAAAATAATAAT+TGG | + | chr5.3:6666572-6666591 | MS.gene54624:intron | 10.0% |
| !!! | AAAAAAATCTAATTTTTTTG+GGG | + | chr5.3:6667112-6667131 | MS.gene54624:intron | 10.0% |
| !!! | AAAAAAATTTCATCATTTTT+TGG | + | chr5.3:6666908-6666927 | MS.gene54624:intron | 10.0% |
| !!! | AATATGAATTTTTATGTTTT+TGG | - | chr5.3:6667076-6667095 | None:intergenic | 10.0% |
| !! | ATTATCAAATAAAAGTTCAT+CGG | - | chr5.3:6667365-6667384 | None:intergenic | 15.0% |
| !! | CAAAAATCATAATAGAAAAA+AGG | - | chr5.3:6667741-6667760 | None:intergenic | 15.0% |
| !!! | AAATGACAATTTTTTATGAT+GGG | + | chr5.3:6666359-6666378 | MS.gene54624:CDS | 15.0% |
| !!! | ATTATTTCCTATTTCATTTT+TGG | - | chr5.3:6667321-6667340 | None:intergenic | 15.0% |
| !!! | GTTAAGATTTTTCTTATTAA+TGG | - | chr5.3:6666856-6666875 | None:intergenic | 15.0% |
| !!! | TATAAGTTGATTAAAAAGTA+AGG | + | chr5.3:6667221-6667240 | MS.gene54624:intron | 15.0% |
| !!! | TTATTTCCTATTTCATTTTT+GGG | - | chr5.3:6667320-6667339 | None:intergenic | 15.0% |
| !!! | TTTTGGGTTTAATATATTTT+TGG | - | chr5.3:6667304-6667323 | None:intergenic | 15.0% |
| !!! | TTTTTTTTACCATAAATAAC+AGG | - | chr5.3:6666565-6666584 | None:intergenic | 15.0% |
| !! | ATTAAACCCAAAAATGAAAT+AGG | + | chr5.3:6667311-6667330 | MS.gene54624:intron | 20.0% |
| !! | CAAACATATCAGTAAAAATA+TGG | - | chr5.3:6667768-6667787 | None:intergenic | 20.0% |
| !!! | AATGACATTTTTTCACAAAT+AGG | - | chr5.3:6667159-6667178 | None:intergenic | 20.0% |
| !!! | ATATGAGTTGAATAAAAGTA+AGG | - | chr5.3:6666935-6666954 | None:intergenic | 20.0% |
| !!! | ATTCATTAATTGGCTTATTA+AGG | - | chr5.3:6667848-6667867 | None:intergenic | 20.0% |
| !!! | CAAATGACAATTTTTTATGA+TGG | + | chr5.3:6666358-6666377 | MS.gene54624:CDS | 20.0% |
| !!! | TATTTGATAATTGATAGACT+AGG | + | chr5.3:6667374-6667393 | MS.gene54624:intron | 20.0% |
| !!! | TTATTTTTACAGTGTAATGA+AGG | + | chr5.3:6666303-6666322 | MS.gene54624:intron | 20.0% |
| ! | AAAAAGGTTATCAATTTGAC+AGG | - | chr5.3:6667725-6667744 | None:intergenic | 25.0% |
| ! | AATGAAGGCTAATATTAAGA+AGG | + | chr5.3:6666318-6666337 | MS.gene54624:CDS | 25.0% |
| ! | ACATGTTGAAAATTCAACAT+AGG | - | chr5.3:6666162-6666181 | None:intergenic | 25.0% |
| ! | ATTATCTGACTTTCAATCAA+TGG | - | chr5.3:6667610-6667629 | None:intergenic | 25.0% |
| ! | ATTGAAATCAACAATTCCTT+TGG | + | chr5.3:6667628-6667647 | MS.gene54624:intron | 25.0% |
| ! | ATTTCGAAACAAGAAGTAAA+GGG | - | chr5.3:6667693-6667712 | None:intergenic | 25.0% |
| ! | ATTTGACAAACAGTAATTAG+TGG | - | chr5.3:6666878-6666897 | None:intergenic | 25.0% |
| ! | CAATTAATGAATTCATGTCA+TGG | + | chr5.3:6667856-6667875 | MS.gene54624:CDS | 25.0% |
| ! | CATGACATGAATTCATTAAT+TGG | - | chr5.3:6667858-6667877 | None:intergenic | 25.0% |
| ! | CCTACTAAAAAAAATGTTGA+AGG | - | chr5.3:6666268-6666287 | None:intergenic | 25.0% |
| ! | TAATTGGATATCTATTTGAG+TGG | + | chr5.3:6666588-6666607 | MS.gene54624:intron | 25.0% |
| ! | TACAATCAAACAGTAATTAG+TGG | - | chr5.3:6666792-6666811 | None:intergenic | 25.0% |
| ! | TATTTCGAAACAAGAAGTAA+AGG | - | chr5.3:6667694-6667713 | None:intergenic | 25.0% |
| ! | TTTCAAATTTAGGAAATTCC+AGG | + | chr5.3:6666208-6666227 | MS.gene54624:CDS | 25.0% |
| !! | AGATTCAATACTTTTGCAAA+AGG | - | chr5.3:6667485-6667504 | None:intergenic | 25.0% |
| !! | GTTAATTCTGAAAACTTAAG+AGG | + | chr5.3:6667401-6667420 | MS.gene54624:intron | 25.0% |
| !! | TCTTATTTGTTTGAGATATC+TGG | - | chr5.3:6666759-6666778 | None:intergenic | 25.0% |
| !!! | AATTTCTAGCAAGAAATGAT+GGG | - | chr5.3:6666510-6666529 | None:intergenic | 25.0% |
| !!! | CCTTCAACATTTTTTTTAGT+AGG | + | chr5.3:6666265-6666284 | MS.gene54624:intron | 25.0% |
| !!! | CTCAAACTTTTTTTTTTTGC+TGG | + | chr5.3:6667443-6667462 | MS.gene54624:intron | 25.0% |
| !!! | CTTGATTTTGATTTGTGTAA+TGG | + | chr5.3:6666616-6666635 | MS.gene54624:intron | 25.0% |
| ATACAGATTTACCAATGACT+AGG | + | chr5.3:6666683-6666702 | MS.gene54624:intron | 30.0% | |
| CTACAAGAGGTTTCAAATTT+AGG | + | chr5.3:6666198-6666217 | MS.gene54624:CDS | 30.0% | |
| GAAAATTCAACATAGGTGTA+CGG | - | chr5.3:6666155-6666174 | None:intergenic | 30.0% | |
| TATTCCAACTGAAAAAGTCA+AGG | + | chr5.3:6666402-6666421 | MS.gene54624:CDS | 30.0% | |
| TGAAAAAGTCAAGGACATTA+TGG | + | chr5.3:6666411-6666430 | MS.gene54624:CDS | 30.0% | |
| TGATACTTGAAGAGAATTGT+TGG | - | chr5.3:6666536-6666555 | None:intergenic | 30.0% | |
| TTTACCATAAATAACAGGTG+AGG | - | chr5.3:6666560-6666579 | None:intergenic | 30.0% | |
| ! | ATTGGCTTATTAAGGTTTGT+TGG | - | chr5.3:6667840-6667859 | None:intergenic | 30.0% |
| ! | TGAAAGCATAGTTATTGTTG+TGG | - | chr5.3:6666471-6666490 | None:intergenic | 30.0% |
| ! | TTCAATACTTTTGCAAAAGG+AGG | - | chr5.3:6667482-6667501 | None:intergenic | 30.0% |
| ! | TTGGCTTATTAAGGTTTGTT+GGG | - | chr5.3:6667839-6667858 | None:intergenic | 30.0% |
| !! | GAATTTCTAGCAAGAAATGA+TGG | - | chr5.3:6666511-6666530 | None:intergenic | 30.0% |
| GTTGGGTTACTTGTTTGATA+TGG | - | chr5.3:6667822-6667841 | None:intergenic | 35.0% | |
| TCAACAATTCCTTTGGACAT+AGG | + | chr5.3:6667635-6667654 | MS.gene54624:intron | 35.0% | |
| TTGAGAGTTAGTAGTTCCTT+TGG | - | chr5.3:6666446-6666465 | None:intergenic | 35.0% | |
| ! | ATTATGGTCTTTTCCTCCAA+AGG | + | chr5.3:6666427-6666446 | MS.gene54624:CDS | 35.0% |
| ! | ATTGTCATTTGTGCACATCT+AGG | - | chr5.3:6666349-6666368 | None:intergenic | 35.0% |
| ! | ATTTGTTTGAGATATCTGGC+AGG | - | chr5.3:6666755-6666774 | None:intergenic | 35.0% |
| ! | TCATCCTCACCTGTTATTTA+TGG | + | chr5.3:6666553-6666572 | MS.gene54624:CDS | 35.0% |
| !!! | ATGTCCTTGACTTTTTCAGT+TGG | - | chr5.3:6666409-6666428 | None:intergenic | 35.0% |
| AGAGTTAGTAGTTCCTTTGG+AGG | - | chr5.3:6666443-6666462 | None:intergenic | 40.0% | |
| AGTGAAGCTTTCCTAGTCAT+TGG | - | chr5.3:6666697-6666716 | None:intergenic | 40.0% | |
| CATGCATTTCCTATGTCCAA+AGG | - | chr5.3:6667647-6667666 | None:intergenic | 40.0% | |
| CTAGGAAAGCTTCACTTCAT+CGG | + | chr5.3:6666701-6666720 | MS.gene54624:CDS | 40.0% | |
| GCCATCAATTTGTGATCAGT+CGG | + | chr5.3:6667507-6667526 | MS.gene54624:intron | 40.0% | |
| GTAGCAAAAGAACATGTACC+TGG | - | chr5.3:6666229-6666248 | None:intergenic | 40.0% | |
| TCTTGGAGAAAAGGAAGGAT+AGG | + | chr5.3:6666725-6666744 | MS.gene54624:CDS | 40.0% | |
| ! | CATTCTGATTTGTGGTCTTG+TGG | - | chr5.3:6667894-6667913 | None:intergenic | 40.0% |
| ! | TGGAGCTACATTCTGATTTG+TGG | - | chr5.3:6667902-6667921 | None:intergenic | 40.0% |
| ! | TTCTAGCAAGAAATGATGGG+TGG | - | chr5.3:6666507-6666526 | None:intergenic | 40.0% |
| !! | TTCATCGGTTCTTGGAGAAA+AGG | + | chr5.3:6666716-6666735 | MS.gene54624:CDS | 40.0% |
| ACCTCTTGTAGAGAGAGATG+AGG | - | chr5.3:6666189-6666208 | None:intergenic | 45.0% | |
| ATTCATGTCATGGCTCTCCT+TGG | + | chr5.3:6667866-6667885 | MS.gene54624:CDS | 45.0% | |
| GCCGACTGATCACAAATTGA+TGG | - | chr5.3:6667511-6667530 | None:intergenic | 45.0% | |
| TCCTCATCTCTCTCTACAAG+AGG | + | chr5.3:6666185-6666204 | MS.gene54624:CDS | 45.0% | |
| TCGGTTCTTGGAGAAAAGGA+AGG | + | chr5.3:6666720-6666739 | MS.gene54624:CDS | 45.0% | |
| !! | AGCTTCACTTCATCGGTTCT+TGG | + | chr5.3:6666708-6666727 | MS.gene54624:CDS | 45.0% |
| !!! | TAAAAAAATCTAATTTTTTT+GGG | + | chr5.3:6667111-6667130 | MS.gene54624:intron | 5.0% |
| !!! | TTAAAAAAATCTAATTTTTT+TGG | + | chr5.3:6667110-6667129 | MS.gene54624:intron | 5.0% |
| !! | TTTGTGGTCTTGTGGTGCCA+AGG | - | chr5.3:6667886-6667905 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 6666138 | 6667926 | 6666138 | ID=MS.gene54624 |
| chr5.3 | mRNA | 6666138 | 6667926 | 6666138 | ID=MS.gene54624.t1;Parent=MS.gene54624 |
| chr5.3 | exon | 6666138 | 6666229 | 6666138 | ID=MS.gene54624.t1.exon1;Parent=MS.gene54624.t1 |
| chr5.3 | CDS | 6666138 | 6666229 | 6666138 | ID=cds.MS.gene54624.t1;Parent=MS.gene54624.t1 |
| chr5.3 | exon | 6666315 | 6666574 | 6666315 | ID=MS.gene54624.t1.exon2;Parent=MS.gene54624.t1 |
| chr5.3 | CDS | 6666315 | 6666574 | 6666315 | ID=cds.MS.gene54624.t1;Parent=MS.gene54624.t1 |
| chr5.3 | exon | 6666689 | 6666746 | 6666689 | ID=MS.gene54624.t1.exon3;Parent=MS.gene54624.t1 |
| chr5.3 | CDS | 6666689 | 6666746 | 6666689 | ID=cds.MS.gene54624.t1;Parent=MS.gene54624.t1 |
| chr5.3 | exon | 6667803 | 6667926 | 6667803 | ID=MS.gene54624.t1.exon4;Parent=MS.gene54624.t1 |
| chr5.3 | CDS | 6667803 | 6667926 | 6667803 | ID=cds.MS.gene54624.t1;Parent=MS.gene54624.t1 |
| Gene Sequence |
| Protein sequence |
