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.gene98653.t1 | XP_013462551.1 | 100 | 130 | 0 | 0 | 1 | 130 | 24 | 153 | 1.30E-63 | 252.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene98653.t1 | Q96452 | 83.3 | 132 | 21 | 1 | 1 | 131 | 26 | 157 | 4.2e-55 | 215.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene98653.t1 | I3T8Q5 | 100.0 | 130 | 0 | 0 | 1 | 130 | 24 | 153 | 9.2e-64 | 252.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049142 | MS.gene98653 | 0.811072 | 8.41E-51 | -1.69E-46 |
| MS.gene049159 | MS.gene98653 | 0.824374 | 8.36E-54 | -1.69E-46 |
| MS.gene051198 | MS.gene98653 | 0.819461 | 1.15E-52 | -1.69E-46 |
| MS.gene051719 | MS.gene98653 | 0.804258 | 2.36E-49 | -1.69E-46 |
| MS.gene051720 | MS.gene98653 | 0.804992 | 1.66E-49 | -1.69E-46 |
| MS.gene052863 | MS.gene98653 | 0.802203 | 6.27E-49 | -1.69E-46 |
| MS.gene054651 | MS.gene98653 | 0.801954 | 7.06E-49 | -1.69E-46 |
| MS.gene054775 | MS.gene98653 | 0.80191 | 7.20E-49 | -1.69E-46 |
| MS.gene055466 | MS.gene98653 | 0.813367 | 2.65E-51 | -1.69E-46 |
| MS.gene056174 | MS.gene98653 | 0.80179 | 7.63E-49 | -1.69E-46 |
| MS.gene056308 | MS.gene98653 | 0.803621 | 3.19E-49 | -1.69E-46 |
| MS.gene057444 | MS.gene98653 | 0.820523 | 6.56E-53 | -1.69E-46 |
| MS.gene058010 | MS.gene98653 | 0.816528 | 5.28E-52 | -1.69E-46 |
| MS.gene058979 | MS.gene98653 | 0.802385 | 5.75E-49 | -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.gene98653.t1 | MTR_2g015980 | 100.000 | 130 | 0 | 0 | 1 | 130 | 24 | 153 | 6.89e-92 | 266 |
| MS.gene98653.t1 | MTR_8g086270 | 81.679 | 131 | 23 | 1 | 1 | 130 | 26 | 156 | 6.74e-75 | 223 |
| MS.gene98653.t1 | MTR_2g091225 | 77.863 | 131 | 28 | 1 | 1 | 130 | 3 | 133 | 1.43e-73 | 219 |
| MS.gene98653.t1 | MTR_2g091225 | 77.863 | 131 | 28 | 1 | 1 | 130 | 26 | 156 | 3.32e-73 | 219 |
| MS.gene98653.t1 | MTR_2g076960 | 72.059 | 136 | 37 | 1 | 1 | 135 | 27 | 162 | 2.58e-69 | 209 |
| MS.gene98653.t1 | MTR_4g083060 | 72.519 | 131 | 35 | 1 | 1 | 130 | 26 | 156 | 7.54e-65 | 199 |
| MS.gene98653.t1 | MTR_5g044160 | 70.992 | 131 | 37 | 1 | 1 | 130 | 26 | 156 | 2.58e-64 | 196 |
| MS.gene98653.t1 | MTR_5g064580 | 63.910 | 133 | 45 | 2 | 1 | 130 | 27 | 159 | 4.15e-55 | 173 |
| MS.gene98653.t1 | MTR_3g099380 | 62.406 | 133 | 47 | 2 | 1 | 130 | 27 | 159 | 1.36e-54 | 170 |
| MS.gene98653.t1 | MTR_3g099380 | 62.406 | 133 | 47 | 2 | 1 | 130 | 27 | 159 | 7.40e-54 | 170 |
| MS.gene98653.t1 | MTR_3g100620 | 61.864 | 118 | 44 | 1 | 14 | 130 | 46 | 163 | 1.46e-47 | 154 |
| MS.gene98653.t1 | MTR_3g014060 | 50.000 | 118 | 56 | 2 | 14 | 130 | 46 | 161 | 6.29e-30 | 108 |
| MS.gene98653.t1 | MTR_0137s0020 | 50.000 | 118 | 56 | 2 | 14 | 130 | 46 | 161 | 6.36e-30 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene98653.t1 | AT2G42590 | 74.265 | 136 | 34 | 1 | 1 | 135 | 26 | 161 | 9.28e-70 | 211 |
| MS.gene98653.t1 | AT2G42590 | 74.265 | 136 | 34 | 1 | 1 | 135 | 26 | 161 | 1.10e-69 | 210 |
| MS.gene98653.t1 | AT2G42590 | 74.265 | 136 | 34 | 1 | 1 | 135 | 26 | 161 | 1.44e-69 | 211 |
| MS.gene98653.t1 | AT1G26480 | 72.519 | 131 | 35 | 1 | 1 | 130 | 29 | 159 | 2.31e-67 | 204 |
| MS.gene98653.t1 | AT1G22300 | 77.344 | 128 | 28 | 1 | 1 | 127 | 24 | 151 | 3.31e-67 | 204 |
| MS.gene98653.t1 | AT1G22300 | 77.344 | 128 | 28 | 1 | 1 | 127 | 24 | 151 | 3.98e-67 | 204 |
| MS.gene98653.t1 | AT1G22300 | 77.344 | 128 | 28 | 1 | 1 | 127 | 24 | 151 | 4.42e-67 | 203 |
| MS.gene98653.t1 | AT1G34760 | 71.324 | 136 | 38 | 1 | 1 | 135 | 24 | 159 | 3.50e-66 | 201 |
| MS.gene98653.t1 | AT1G34760 | 71.324 | 136 | 38 | 1 | 1 | 135 | 24 | 159 | 3.56e-66 | 201 |
| MS.gene98653.t1 | AT3G02520 | 63.910 | 133 | 45 | 2 | 1 | 130 | 24 | 156 | 1.75e-55 | 174 |
| MS.gene98653.t1 | AT3G02520 | 63.910 | 133 | 45 | 2 | 1 | 130 | 24 | 156 | 1.75e-55 | 174 |
| MS.gene98653.t1 | AT4G09000 | 63.158 | 133 | 46 | 2 | 1 | 130 | 29 | 161 | 8.01e-55 | 172 |
| MS.gene98653.t1 | AT5G38480 | 65.414 | 133 | 43 | 3 | 1 | 130 | 23 | 155 | 1.39e-54 | 172 |
| MS.gene98653.t1 | AT5G38480 | 65.414 | 133 | 43 | 3 | 1 | 130 | 23 | 155 | 1.39e-54 | 172 |
| MS.gene98653.t1 | AT5G38480 | 65.414 | 133 | 43 | 3 | 1 | 130 | 23 | 155 | 1.67e-54 | 171 |
| MS.gene98653.t1 | AT4G09000 | 63.158 | 133 | 46 | 2 | 1 | 130 | 29 | 161 | 3.36e-54 | 172 |
| MS.gene98653.t1 | AT1G35160 | 61.654 | 133 | 48 | 2 | 1 | 130 | 30 | 162 | 5.43e-54 | 171 |
| MS.gene98653.t1 | AT1G78300 | 61.654 | 133 | 48 | 2 | 1 | 130 | 24 | 156 | 9.99e-54 | 169 |
| MS.gene98653.t1 | AT1G35160 | 61.654 | 133 | 48 | 2 | 1 | 130 | 30 | 162 | 1.40e-53 | 170 |
| MS.gene98653.t1 | AT5G10450 | 64.407 | 118 | 41 | 1 | 14 | 130 | 42 | 159 | 1.85e-51 | 164 |
| MS.gene98653.t1 | AT5G10450 | 64.407 | 118 | 41 | 1 | 14 | 130 | 42 | 159 | 1.86e-51 | 163 |
| MS.gene98653.t1 | AT5G10450 | 64.407 | 118 | 41 | 1 | 14 | 130 | 42 | 159 | 2.40e-51 | 164 |
| MS.gene98653.t1 | AT5G10450 | 64.407 | 118 | 41 | 1 | 14 | 130 | 42 | 159 | 3.71e-51 | 164 |
| MS.gene98653.t1 | AT5G65430 | 62.712 | 118 | 43 | 1 | 14 | 130 | 42 | 159 | 8.20e-51 | 162 |
| MS.gene98653.t1 | AT5G65430 | 62.712 | 118 | 43 | 1 | 14 | 130 | 42 | 159 | 8.83e-51 | 162 |
| MS.gene98653.t1 | AT5G65430 | 62.712 | 118 | 43 | 1 | 14 | 130 | 42 | 159 | 1.12e-50 | 162 |
| MS.gene98653.t1 | AT5G16050 | 57.895 | 133 | 53 | 2 | 1 | 130 | 26 | 158 | 5.94e-48 | 155 |
| MS.gene98653.t1 | AT5G16050 | 57.895 | 133 | 53 | 2 | 1 | 130 | 26 | 158 | 5.94e-48 | 155 |
| MS.gene98653.t1 | AT1G78220 | 50.769 | 130 | 62 | 1 | 4 | 131 | 27 | 156 | 2.62e-40 | 135 |
| MS.gene98653.t1 | AT1G22290 | 54.688 | 128 | 50 | 2 | 4 | 130 | 31 | 151 | 6.97e-40 | 132 |
| MS.gene98653.t1 | AT1G22290 | 54.688 | 128 | 50 | 2 | 4 | 130 | 31 | 151 | 1.73e-39 | 132 |
Find 21 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGGAGCACGTAGGGCTTCT+TGG | 0.262919 | 4.4:-59787175 | MS.gene98653:CDS |
| CATCTTATTCCGAATTCTTC+CGG | 0.327986 | 4.4:-59787014 | MS.gene98653:CDS |
| AGGCGATTATTATCGTTATC+TGG | 0.341220 | 4.4:-59786854 | MS.gene98653:CDS |
| GAAACTCAATGTTGAATTAA+CGG | 0.348481 | 4.4:-59787240 | MS.gene98653:CDS |
| GTTGCTTACAAGAATGTTGT+TGG | 0.372901 | 4.4:-59787194 | MS.gene98653:CDS |
| TCAGTCCTTGAAAGCGTATC+AGG | 0.382196 | 4.4:-59786791 | MS.gene98653:intron |
| TTAGATTCACCGGAAGAATT+CGG | 0.416155 | 4.4:+59787005 | None:intergenic |
| GAATACCTGATACGCTTTCA+AGG | 0.429206 | 4.4:+59786786 | None:intergenic |
| GAGTGGTGATGAGAGGAAAG+AGG | 0.510780 | 4.4:-59786821 | MS.gene98653:CDS |
| GAATGTTGTTGGAGCACGTA+GGG | 0.515655 | 4.4:-59787183 | MS.gene98653:CDS |
| TTGAATTAACGGTTGAAGAG+AGG | 0.519994 | 4.4:-59787229 | MS.gene98653:CDS |
| AGCAGCGAGAAGAAGCGAAA+GGG | 0.529966 | 4.4:-59787133 | MS.gene98653:CDS |
| AGTTTAAGAGTGGTGATGAG+AGG | 0.546627 | 4.4:-59786828 | MS.gene98653:CDS |
| GAGCACGTAGGGCTTCTTGG+AGG | 0.551251 | 4.4:-59787172 | MS.gene98653:CDS |
| GGAGTGATGTGAATGTCAAT+CGG | 0.556097 | 4.4:-59787112 | MS.gene98653:CDS |
| ATAGAACACATTAGATTCAC+CGG | 0.557151 | 4.4:+59786995 | None:intergenic |
| TGTGAATGTCAATCGGATCA+AGG | 0.560657 | 4.4:-59787105 | MS.gene98653:CDS |
| TCAATCGGATCAAGGAGTAT+CGG | 0.575135 | 4.4:-59787097 | MS.gene98653:CDS |
| GAGCAGCGAGAAGAAGCGAA+AGG | 0.628936 | 4.4:-59787134 | MS.gene98653:CDS |
| TATCTGGCTGAGTTTAAGAG+TGG | 0.641471 | 4.4:-59786838 | MS.gene98653:CDS |
| AGAATGTTGTTGGAGCACGT+AGG | 0.773880 | 4.4:-59787184 | MS.gene98653:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAAAATGTAGGTTTATTTTT+TGG | - | chr4.4:59787012-59787031 | MS.gene98653:CDS | 20.0% |
| ! | GAAACTCAATGTTGAATTAA+CGG | - | chr4.4:59786742-59786761 | MS.gene98653:intron | 25.0% |
| ! | TGTGTTCTATTACAAAATGT+AGG | - | chr4.4:59787000-59787019 | MS.gene98653:CDS | 25.0% |
| ATAGAACACATTAGATTCAC+CGG | + | chr4.4:59786990-59787009 | None:intergenic | 30.0% | |
| GTATCGGAAAAAAGTTGAAT+CGG | - | chr4.4:59786901-59786920 | MS.gene98653:intron | 30.0% | |
| AGGCGATTATTATCGTTATC+TGG | - | chr4.4:59787128-59787147 | MS.gene98653:CDS | 35.0% | |
| AGGTATTCTACACAATTGTC+GGG | - | chr4.4:59787211-59787230 | MS.gene98653:CDS | 35.0% | |
| CAGGTATTCTACACAATTGT+CGG | - | chr4.4:59787210-59787229 | MS.gene98653:CDS | 35.0% | |
| CATCTTATTCCGAATTCTTC+CGG | - | chr4.4:59786968-59786987 | MS.gene98653:intron | 35.0% | |
| GAAAAAAGTTGAATCGGAGT+TGG | - | chr4.4:59786907-59786926 | MS.gene98653:intron | 35.0% | |
| GTTGCTTACAAGAATGTTGT+TGG | - | chr4.4:59786788-59786807 | MS.gene98653:intron | 35.0% | |
| GTTTGATTGTGATGTAGGAA+AGG | - | chr4.4:59787108-59787127 | MS.gene98653:CDS | 35.0% | |
| TTAGATTCACCGGAAGAATT+CGG | + | chr4.4:59786980-59786999 | None:intergenic | 35.0% | |
| TTCGTGTTTGATTGTGATGT+AGG | - | chr4.4:59787103-59787122 | MS.gene98653:CDS | 35.0% | |
| TTGAATTAACGGTTGAAGAG+AGG | - | chr4.4:59786753-59786772 | MS.gene98653:intron | 35.0% | |
| ! | TTTTTGCTCGCGATGAAATT+TGG | - | chr4.4:59787061-59787080 | MS.gene98653:CDS | 35.0% |
| GAATACCTGATACGCTTTCA+AGG | + | chr4.4:59787199-59787218 | None:intergenic | 40.0% | |
| GGAGTGATGTGAATGTCAAT+CGG | - | chr4.4:59786870-59786889 | MS.gene98653:intron | 40.0% | |
| GGTATTCTACACAATTGTCG+GGG | - | chr4.4:59787212-59787231 | MS.gene98653:CDS | 40.0% | |
| TATCTGGCTGAGTTTAAGAG+TGG | - | chr4.4:59787144-59787163 | MS.gene98653:CDS | 40.0% | |
| TGTGAATGTCAATCGGATCA+AGG | - | chr4.4:59786877-59786896 | MS.gene98653:intron | 40.0% | |
| ! | AGTTTAAGAGTGGTGATGAG+AGG | - | chr4.4:59787154-59787173 | MS.gene98653:CDS | 40.0% |
| ! | TCAATCGGATCAAGGAGTAT+CGG | - | chr4.4:59786885-59786904 | MS.gene98653:intron | 40.0% |
| AGAATGTTGTTGGAGCACGT+AGG | - | chr4.4:59786798-59786817 | MS.gene98653:CDS | 45.0% | |
| GAATGTTGTTGGAGCACGTA+GGG | - | chr4.4:59786799-59786818 | MS.gene98653:CDS | 45.0% | |
| ! | TCAGTCCTTGAAAGCGTATC+AGG | - | chr4.4:59787191-59787210 | MS.gene98653:CDS | 45.0% |
| AGCAGCGAGAAGAAGCGAAA+GGG | - | chr4.4:59786849-59786868 | MS.gene98653:CDS | 50.0% | |
| ! | GAGTGGTGATGAGAGGAAAG+AGG | - | chr4.4:59787161-59787180 | MS.gene98653:CDS | 50.0% |
| GAGCAGCGAGAAGAAGCGAA+AGG | - | chr4.4:59786848-59786867 | MS.gene98653:CDS | 55.0% | |
| TTGGAGCACGTAGGGCTTCT+TGG | - | chr4.4:59786807-59786826 | MS.gene98653:CDS | 55.0% | |
| GAGCACGTAGGGCTTCTTGG+AGG | - | chr4.4:59786810-59786829 | MS.gene98653:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 59786716 | 59787288 | 59786716 | ID=MS.gene98653 |
| chr4.4 | mRNA | 59786716 | 59787288 | 59786716 | ID=MS.gene98653.t1;Parent=MS.gene98653 |
| chr4.4 | exon | 59786987 | 59787288 | 59786987 | ID=MS.gene98653.t1.exon1;Parent=MS.gene98653.t1 |
| chr4.4 | CDS | 59786987 | 59787288 | 59786987 | ID=cds.MS.gene98653.t1;Parent=MS.gene98653.t1 |
| chr4.4 | exon | 59786792 | 59786879 | 59786792 | ID=MS.gene98653.t1.exon2;Parent=MS.gene98653.t1 |
| chr4.4 | CDS | 59786792 | 59786879 | 59786792 | ID=cds.MS.gene98653.t1;Parent=MS.gene98653.t1 |
| chr4.4 | exon | 59786716 | 59786733 | 59786716 | ID=MS.gene98653.t1.exon3;Parent=MS.gene98653.t1 |
| chr4.4 | CDS | 59786716 | 59786733 | 59786716 | ID=cds.MS.gene98653.t1;Parent=MS.gene98653.t1 |
| Gene Sequence |
| Protein sequence |
