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.gene001086.t1 | XP_013442640.1 | 70.3 | 219 | 31 | 1 | 1 | 185 | 18 | 236 | 4.70E-77 | 297.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001086.t1 | Q9FKK2 | 34.4 | 154 | 64 | 3 | 1 | 117 | 16 | 169 | 1.6e-12 | 74.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001086.t1 | A0A072TSY1 | 70.3 | 219 | 31 | 1 | 1 | 185 | 18 | 236 | 3.4e-77 | 297.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene001086.t1 | TF | MADS-M-type |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene001086 | MS.gene22094 | PPI |
| MS.gene001086 | MS.gene068836 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001086.t1 | MTR_0121s0080 | 70.320 | 219 | 31 | 1 | 1 | 185 | 18 | 236 | 1.67e-104 | 300 |
| MS.gene001086.t1 | MTR_7g062350 | 71.362 | 213 | 27 | 1 | 7 | 185 | 36 | 248 | 5.40e-101 | 291 |
| MS.gene001086.t1 | MTR_8g043650 | 60.455 | 220 | 52 | 2 | 1 | 185 | 18 | 237 | 1.11e-86 | 254 |
| MS.gene001086.t1 | MTR_2g030740 | 58.182 | 220 | 57 | 2 | 1 | 185 | 18 | 237 | 1.77e-74 | 224 |
| MS.gene001086.t1 | MTR_1g105910 | 56.731 | 208 | 56 | 1 | 1 | 174 | 18 | 225 | 2.75e-74 | 223 |
| MS.gene001086.t1 | MTR_1g105920 | 57.921 | 202 | 51 | 1 | 1 | 168 | 18 | 219 | 1.20e-73 | 221 |
| MS.gene001086.t1 | MTR_1g105905 | 54.091 | 220 | 66 | 2 | 1 | 185 | 1 | 220 | 2.28e-73 | 220 |
| MS.gene001086.t1 | MTR_1g012570 | 57.073 | 205 | 54 | 1 | 1 | 171 | 18 | 222 | 6.45e-71 | 214 |
| MS.gene001086.t1 | MTR_2g093190 | 55.963 | 218 | 44 | 4 | 1 | 174 | 18 | 227 | 4.30e-68 | 207 |
| MS.gene001086.t1 | MTR_3g052920 | 54.950 | 202 | 57 | 1 | 1 | 168 | 18 | 219 | 5.31e-68 | 207 |
| MS.gene001086.t1 | MTR_1g108510 | 54.587 | 218 | 47 | 4 | 1 | 174 | 18 | 227 | 2.31e-67 | 205 |
| MS.gene001086.t1 | MTR_3g030770 | 54.587 | 218 | 47 | 4 | 1 | 174 | 18 | 227 | 4.16e-66 | 202 |
| MS.gene001086.t1 | MTR_1g075600 | 50.481 | 208 | 69 | 1 | 1 | 174 | 18 | 225 | 3.13e-63 | 195 |
| MS.gene001086.t1 | MTR_1g077360 | 50.000 | 208 | 70 | 1 | 1 | 174 | 18 | 225 | 4.93e-62 | 192 |
| MS.gene001086.t1 | MTR_1g108580 | 51.598 | 219 | 52 | 4 | 1 | 174 | 18 | 227 | 7.11e-62 | 191 |
| MS.gene001086.t1 | MTR_2g085280 | 48.372 | 215 | 76 | 2 | 1 | 180 | 18 | 232 | 9.37e-62 | 191 |
| MS.gene001086.t1 | MTR_2g085250 | 48.372 | 215 | 76 | 2 | 1 | 180 | 18 | 232 | 3.65e-61 | 190 |
| MS.gene001086.t1 | MTR_5g055100 | 46.789 | 218 | 78 | 2 | 1 | 180 | 18 | 235 | 5.74e-58 | 182 |
| MS.gene001086.t1 | MTR_5g053390 | 48.077 | 208 | 74 | 1 | 1 | 174 | 18 | 225 | 2.33e-57 | 180 |
| MS.gene001086.t1 | MTR_5g045560 | 47.115 | 208 | 76 | 1 | 1 | 174 | 18 | 225 | 6.80e-56 | 176 |
| MS.gene001086.t1 | MTR_1g106070 | 54.878 | 164 | 40 | 2 | 1 | 130 | 18 | 181 | 1.75e-51 | 163 |
| MS.gene001086.t1 | MTR_3g052870 | 49.268 | 205 | 51 | 3 | 1 | 171 | 18 | 203 | 2.98e-51 | 164 |
| MS.gene001086.t1 | MTR_1g075570 | 50.610 | 164 | 61 | 1 | 1 | 144 | 1 | 164 | 5.76e-40 | 134 |
| MS.gene001086.t1 | MTR_3g030780 | 60.870 | 115 | 11 | 1 | 1 | 81 | 18 | 132 | 1.06e-35 | 122 |
| MS.gene001086.t1 | MTR_0121s0100 | 48.696 | 115 | 25 | 1 | 1 | 81 | 18 | 132 | 6.70e-23 | 89.0 |
| MS.gene001086.t1 | MTR_3g080940 | 31.285 | 179 | 83 | 2 | 6 | 144 | 23 | 201 | 4.49e-20 | 84.0 |
| MS.gene001086.t1 | MTR_1g108500 | 61.333 | 75 | 16 | 3 | 6 | 67 | 111 | 185 | 5.05e-16 | 74.7 |
| MS.gene001086.t1 | MTR_3g067915 | 53.704 | 54 | 25 | 0 | 22 | 75 | 43 | 96 | 2.25e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 41 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAATTGGCTTCAACAATA+TGG | 0.202381 | 3.4:+24166305 | MS.gene001086:CDS |
| TGCTGATAGGATTGCAATTC+AGG | 0.214281 | 3.4:+24166146 | MS.gene001086:CDS |
| TGAATTATTCAAGAAGATTT+TGG | 0.235888 | 3.4:+24166095 | MS.gene001086:CDS |
| ATCTCAGTTTGTTGAGGATT+TGG | 0.255732 | 3.4:-24166240 | None:intergenic |
| ATGTTGCAACCTCATTTAAT+TGG | 0.256996 | 3.4:+24166291 | MS.gene001086:CDS |
| AAATCATTACCAACAGAAAA+TGG | 0.265409 | 3.4:-24166189 | None:intergenic |
| TGGTGGGCTTGTCCGATTAA+TGG | 0.300675 | 3.4:+24166054 | MS.gene001086:CDS |
| GTCATAGATCGCTATCTCTC+TGG | 0.302606 | 3.4:+24165865 | MS.gene001086:intron |
| AATATGGGAGGAGGAGGATA+TGG | 0.333520 | 3.4:+24166321 | MS.gene001086:CDS |
| TCCGATTAATGGGATGAATA+AGG | 0.334528 | 3.4:+24166065 | MS.gene001086:CDS |
| AGGCGTTCAAGGCTCAATTT+TGG | 0.334747 | 3.4:+24166034 | MS.gene001086:CDS |
| TAGAACTTCAATAGAATCTT+GGG | 0.354522 | 3.4:-24166347 | None:intergenic |
| GTGAGCCTCAATAAATTCTA+TGG | 0.360010 | 3.4:-24165911 | None:intergenic |
| GCCTTATTCATCCCATTAAT+CGG | 0.363704 | 3.4:-24166066 | None:intergenic |
| GGTGGGCTTGTCCGATTAAT+GGG | 0.369852 | 3.4:+24166055 | MS.gene001086:CDS |
| GTTGAGGATTTGGCTGATAA+TGG | 0.382243 | 3.4:-24166230 | None:intergenic |
| TTAATTGGCTTCAACAATAT+GGG | 0.383325 | 3.4:+24166306 | MS.gene001086:CDS |
| CTAGAACTTCAATAGAATCT+TGG | 0.388215 | 3.4:-24166348 | None:intergenic |
| TTGTTGCTCATCATGCTGAT+AGG | 0.400809 | 3.4:+24166133 | MS.gene001086:CDS |
| TCATAGATCGCTATCTCTCT+GGG | 0.423793 | 3.4:+24165866 | MS.gene001086:intron |
| ATTAAATGAGGTTGCAACAT+AGG | 0.428043 | 3.4:-24166288 | None:intergenic |
| ATAATGGAGAGGGATGTTAG+AGG | 0.448969 | 3.4:-24166214 | None:intergenic |
| AGCATTGAGCTCACACACTT+TGG | 0.483043 | 3.4:-24165941 | None:intergenic |
| TTAAATGAGGTTGCAACATA+GGG | 0.493554 | 3.4:-24166287 | None:intergenic |
| CTTTCTCAAAGCGTCGTAGC+GGG | 0.523572 | 3.4:+24165754 | MS.gene001086:CDS |
| GCTGATAGGATTGCAATTCA+GGG | 0.533534 | 3.4:+24166147 | MS.gene001086:CDS |
| TTCAACAATATGGGAGGAGG+AGG | 0.541923 | 3.4:+24166315 | MS.gene001086:CDS |
| GCTTTGAGAAAGTCACTTGG+AGG | 0.544594 | 3.4:-24165743 | None:intergenic |
| GCTCACACACTTTGGCGCTA+CGG | 0.546232 | 3.4:-24165933 | None:intergenic |
| TTGTTGAAGCCAATTAAATG+AGG | 0.551491 | 3.4:-24166300 | None:intergenic |
| GAAAACATCTCAGTTTGTTG+AGG | 0.554882 | 3.4:-24166246 | None:intergenic |
| GGCTTCAACAATATGGGAGG+AGG | 0.561767 | 3.4:+24166312 | MS.gene001086:CDS |
| TAGCACCATAGAATTTATTG+AGG | 0.563308 | 3.4:+24165906 | MS.gene001086:CDS |
| ATTGGCTTCAACAATATGGG+AGG | 0.605743 | 3.4:+24166309 | MS.gene001086:CDS |
| GACGCTTTGAGAAAGTCACT+TGG | 0.608413 | 3.4:-24165746 | None:intergenic |
| GGATTTGGCTGATAATGGAG+AGG | 0.633381 | 3.4:-24166225 | None:intergenic |
| AGAACTTCAATAGAATCTTG+GGG | 0.647681 | 3.4:-24166346 | None:intergenic |
| ACTTTCTCAAAGCGTCGTAG+CGG | 0.659133 | 3.4:+24165753 | MS.gene001086:CDS |
| AATCAACAACACACTAGACG+AGG | 0.684390 | 3.4:+24165975 | MS.gene001086:CDS |
| GATTTGGCTGATAATGGAGA+GGG | 0.685158 | 3.4:-24166224 | None:intergenic |
| CATAGATCGCTATCTCTCTG+GGG | 0.721259 | 3.4:+24165867 | MS.gene001086:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGAATTATTCAAGAAGATTT+TGG | + | chr3.4:24166095-24166114 | MS.gene001086:CDS | 20.0% |
| ! | AAATCATTACCAACAGAAAA+TGG | - | chr3.4:24166192-24166211 | None:intergenic | 25.0% |
| ! | ATAGGGTTATGAAAAATTTG+TGG | - | chr3.4:24166273-24166292 | None:intergenic | 25.0% |
| !! | AAAGAAAATACCTTTTCACT+AGG | - | chr3.4:24165823-24165842 | None:intergenic | 25.0% |
| !! | ATTATTCAAGAAGATTTTGG+TGG | + | chr3.4:24166098-24166117 | MS.gene001086:CDS | 25.0% |
| !! | TTAATTGGCTTCAACAATAT+GGG | + | chr3.4:24166306-24166325 | MS.gene001086:CDS | 25.0% |
| !! | TTTAATTGGCTTCAACAATA+TGG | + | chr3.4:24166305-24166324 | MS.gene001086:CDS | 25.0% |
| !!! | AGTGAAAAGGTATTTTCTTT+CGG | + | chr3.4:24165823-24165842 | MS.gene001086:intron | 25.0% |
| ATGTTGCAACCTCATTTAAT+TGG | + | chr3.4:24166291-24166310 | MS.gene001086:CDS | 30.0% | |
| ATTAAATGAGGTTGCAACAT+AGG | - | chr3.4:24166291-24166310 | None:intergenic | 30.0% | |
| TAGCACCATAGAATTTATTG+AGG | + | chr3.4:24165906-24165925 | MS.gene001086:CDS | 30.0% | |
| TTAAATGAGGTTGCAACATA+GGG | - | chr3.4:24166290-24166309 | None:intergenic | 30.0% | |
| TTGTTGAAGCCAATTAAATG+AGG | - | chr3.4:24166303-24166322 | None:intergenic | 30.0% | |
| ! | CAAACTTTTCCATTTTCTGT+TGG | + | chr3.4:24166180-24166199 | MS.gene001086:CDS | 30.0% |
| GTGAGCCTCAATAAATTCTA+TGG | - | chr3.4:24165914-24165933 | None:intergenic | 35.0% | |
| TCCGATTAATGGGATGAATA+AGG | + | chr3.4:24166065-24166084 | MS.gene001086:CDS | 35.0% | |
| TCTATGACCGTATCAACATT+TGG | - | chr3.4:24165853-24165872 | None:intergenic | 35.0% | |
| TGTATTCTCACCTAGTGAAA+AGG | + | chr3.4:24165810-24165829 | MS.gene001086:intron | 35.0% | |
| ! | GCCTTATTCATCCCATTAAT+CGG | - | chr3.4:24166069-24166088 | None:intergenic | 35.0% |
| !! | ATCTCAGTTTGTTGAGGATT+TGG | - | chr3.4:24166243-24166262 | None:intergenic | 35.0% |
| !! | GAAAACATCTCAGTTTGTTG+AGG | - | chr3.4:24166249-24166268 | None:intergenic | 35.0% |
| !!! | TCTATGGTGCTATTGTTTTG+CGG | - | chr3.4:24165898-24165917 | None:intergenic | 35.0% |
| AATCAACAACACACTAGACG+AGG | + | chr3.4:24165975-24165994 | MS.gene001086:CDS | 40.0% | |
| CGGTCATCCAAATGTTGATA+CGG | + | chr3.4:24165843-24165862 | MS.gene001086:intron | 40.0% | |
| GCTGATAGGATTGCAATTCA+GGG | + | chr3.4:24166147-24166166 | MS.gene001086:CDS | 40.0% | |
| GTTGAGGATTTGGCTGATAA+TGG | - | chr3.4:24166233-24166252 | None:intergenic | 40.0% | |
| TCATAGATCGCTATCTCTCT+GGG | + | chr3.4:24165866-24165885 | MS.gene001086:intron | 40.0% | |
| TGCTGATAGGATTGCAATTC+AGG | + | chr3.4:24166146-24166165 | MS.gene001086:CDS | 40.0% | |
| TTGTTGCTCATCATGCTGAT+AGG | + | chr3.4:24166133-24166152 | MS.gene001086:CDS | 40.0% | |
| ! | ATAATGGAGAGGGATGTTAG+AGG | - | chr3.4:24166217-24166236 | None:intergenic | 40.0% |
| ! | ATTGGCTTCAACAATATGGG+AGG | + | chr3.4:24166309-24166328 | MS.gene001086:CDS | 40.0% |
| !! | GATTTGGCTGATAATGGAGA+GGG | - | chr3.4:24166227-24166246 | None:intergenic | 40.0% |
| !! | GTTCAAGGCTCAATTTTGGT+GGG | + | chr3.4:24166038-24166057 | MS.gene001086:CDS | 40.0% |
| !! | TGAGTTGAGTCTTTTGTGCA+AGG | + | chr3.4:24166014-24166033 | MS.gene001086:CDS | 40.0% |
| AATATGGGAGGAGGAGGATA+TGG | + | chr3.4:24166321-24166340 | MS.gene001086:CDS | 45.0% | |
| CATAGATCGCTATCTCTCTG+GGG | + | chr3.4:24165867-24165886 | MS.gene001086:intron | 45.0% | |
| CTAGACGAGGAGAAAAAGCA+TGG | + | chr3.4:24165988-24166007 | MS.gene001086:CDS | 45.0% | |
| GTCATAGATCGCTATCTCTC+TGG | + | chr3.4:24165865-24165884 | MS.gene001086:intron | 45.0% | |
| TTCAACAATATGGGAGGAGG+AGG | + | chr3.4:24166315-24166334 | MS.gene001086:CDS | 45.0% | |
| ! | AGCATTGAGCTCACACACTT+TGG | - | chr3.4:24165944-24165963 | None:intergenic | 45.0% |
| ! | AGGCGTTCAAGGCTCAATTT+TGG | + | chr3.4:24166034-24166053 | MS.gene001086:CDS | 45.0% |
| ! | CGTTCAAGGCTCAATTTTGG+TGG | + | chr3.4:24166037-24166056 | MS.gene001086:CDS | 45.0% |
| !! | ACTTTCTCAAAGCGTCGTAG+CGG | + | chr3.4:24165753-24165772 | MS.gene001086:CDS | 45.0% |
| !! | GACGCTTTGAGAAAGTCACT+TGG | - | chr3.4:24165749-24165768 | None:intergenic | 45.0% |
| !! | GCTTTGAGAAAGTCACTTGG+AGG | - | chr3.4:24165746-24165765 | None:intergenic | 45.0% |
| !! | GGATTTGGCTGATAATGGAG+AGG | - | chr3.4:24166228-24166247 | None:intergenic | 45.0% |
| !! | TCTTTTGTGCAAGGCGTTCA+AGG | + | chr3.4:24166023-24166042 | MS.gene001086:CDS | 45.0% |
| !!! | ATGGTGCTATTGTTTTGCGG+TGG | - | chr3.4:24165895-24165914 | None:intergenic | 45.0% |
| !!! | TGGTGCTATTGTTTTGCGGT+GGG | - | chr3.4:24165894-24165913 | None:intergenic | 45.0% |
| GGCTTCAACAATATGGGAGG+AGG | + | chr3.4:24166312-24166331 | MS.gene001086:CDS | 50.0% | |
| ! | GGTGGGCTTGTCCGATTAAT+GGG | + | chr3.4:24166055-24166074 | MS.gene001086:CDS | 50.0% |
| !! | CTTTCTCAAAGCGTCGTAGC+GGG | + | chr3.4:24165754-24165773 | MS.gene001086:CDS | 50.0% |
| !! | TGGTGGGCTTGTCCGATTAA+TGG | + | chr3.4:24166054-24166073 | MS.gene001086:CDS | 50.0% |
| GCTCACACACTTTGGCGCTA+CGG | - | chr3.4:24165936-24165955 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 24165726 | 24166362 | 24165726 | ID=MS.gene001086 |
| chr3.4 | mRNA | 24165726 | 24166362 | 24165726 | ID=MS.gene001086.t1;Parent=MS.gene001086 |
| chr3.4 | exon | 24165726 | 24165792 | 24165726 | ID=MS.gene001086.t1.exon1;Parent=MS.gene001086.t1 |
| chr3.4 | CDS | 24165726 | 24165792 | 24165726 | ID=cds.MS.gene001086.t1;Parent=MS.gene001086.t1 |
| chr3.4 | exon | 24165872 | 24166362 | 24165872 | ID=MS.gene001086.t1.exon2;Parent=MS.gene001086.t1 |
| chr3.4 | CDS | 24165872 | 24166362 | 24165872 | ID=cds.MS.gene001086.t1;Parent=MS.gene001086.t1 |
| Gene Sequence |
| Protein sequence |
