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.gene04120.t1 | XP_003600453.1 | 67.2 | 195 | 44 | 2 | 11 | 186 | 91 | 284 | 7.80E-51 | 210.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04120.t1 | Q9XIB5 | 30.6 | 111 | 52 | 3 | 99 | 187 | 114 | 221 | 1.7e-06 | 54.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04120.t1 | G8A2Z4 | 67.2 | 195 | 44 | 2 | 11 | 186 | 91 | 284 | 5.6e-51 | 210.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene04120.t1 | TF | B3 |
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.gene04120.t1 | MTR_3g061350 | 69.231 | 195 | 40 | 2 | 11 | 186 | 91 | 284 | 2.73e-85 | 253 |
| MS.gene04120.t1 | MTR_3g061370 | 66.154 | 195 | 46 | 2 | 11 | 186 | 88 | 281 | 4.19e-82 | 245 |
| MS.gene04120.t1 | MTR_3g061340 | 61.881 | 202 | 46 | 4 | 4 | 186 | 85 | 274 | 3.30e-75 | 227 |
| MS.gene04120.t1 | MTR_3g061320 | 59.487 | 195 | 52 | 5 | 12 | 186 | 92 | 279 | 3.58e-67 | 207 |
| MS.gene04120.t1 | MTR_3g061310 | 57.711 | 201 | 62 | 3 | 7 | 186 | 87 | 285 | 3.54e-65 | 202 |
| MS.gene04120.t1 | MTR_3g061330 | 64.242 | 165 | 37 | 3 | 9 | 153 | 89 | 251 | 2.32e-63 | 196 |
| MS.gene04120.t1 | MTR_3g061300 | 56.349 | 126 | 36 | 1 | 84 | 190 | 2 | 127 | 2.09e-42 | 139 |
| MS.gene04120.t1 | MTR_3g061290 | 57.000 | 100 | 30 | 3 | 11 | 110 | 91 | 177 | 4.91e-25 | 96.7 |
| MS.gene04120.t1 | MTR_1g035460 | 29.536 | 237 | 109 | 7 | 4 | 189 | 60 | 289 | 2.23e-20 | 87.4 |
| MS.gene04120.t1 | MTR_1g108780 | 28.390 | 236 | 101 | 9 | 4 | 187 | 71 | 290 | 5.68e-14 | 69.7 |
| MS.gene04120.t1 | MTR_8g103940 | 28.511 | 235 | 101 | 8 | 4 | 187 | 113 | 331 | 7.36e-13 | 66.2 |
| MS.gene04120.t1 | MTR_5g044670 | 25.463 | 216 | 111 | 7 | 12 | 187 | 98 | 303 | 3.34e-12 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGAATCAGTTGAGATTT+TGG | 0.232448 | 3.2:+52418076 | MS.gene04120:CDS |
| GCACTAAATGGAAAGTTTAT+TGG | 0.247327 | 3.2:+52417844 | None:intergenic |
| TGATTATCTACCAGATGATT+AGG | 0.320475 | 3.2:-52418703 | None:intergenic |
| TCCTGGTAGCACTTCACTTT+CGG | 0.322765 | 3.2:-52418996 | None:intergenic |
| CGACCACATAAGAAAGTTAG+AGG | 0.333223 | 3.2:+52418155 | MS.gene04120:CDS |
| ACTGATAAACAAGAAGGATT+TGG | 0.341720 | 3.2:+52419036 | MS.gene04120:CDS |
| TTAAAGTTCATGTCTTCAAA+AGG | 0.397266 | 3.2:+52419062 | MS.gene04120:CDS |
| TCTCTTAAAACCTAATCATC+TGG | 0.442799 | 3.2:+52418693 | MS.gene04120:CDS |
| AAATAACTTCATCATTGAAC+TGG | 0.444857 | 3.2:+52418605 | MS.gene04120:CDS |
| AAGTTTGATGTACACATACT+TGG | 0.463208 | 3.2:+52417975 | MS.gene04120:CDS |
| TCGCGAGCTCTAGCTCCTTT+CGG | 0.469291 | 3.2:-52418628 | None:intergenic |
| TTCACTTTCGGTTGCAAACA+AGG | 0.472425 | 3.2:-52418984 | None:intergenic |
| TAAAGTTCATGTCTTCAAAA+GGG | 0.474543 | 3.2:+52419063 | MS.gene04120:CDS |
| TGCAGATTGGGGAAAGATCA+TGG | 0.481313 | 3.2:+52418900 | MS.gene04120:intron |
| AAACCTCTAACTTTCTTATG+TGG | 0.486426 | 3.2:-52418158 | None:intergenic |
| CTTTGAACTGATAAACAAGA+AGG | 0.524377 | 3.2:+52419030 | MS.gene04120:CDS |
| ACCGAAAGTGAAGTGCTACC+AGG | 0.529368 | 3.2:+52418995 | MS.gene04120:CDS |
| CTAACTTTCTTATGTGGTCG+AGG | 0.536777 | 3.2:-52418152 | None:intergenic |
| AAGTATGTGTACATCAAACT+TGG | 0.543256 | 3.2:-52417973 | None:intergenic |
| TCAAAGACACAAACATCTCC+TGG | 0.550965 | 3.2:-52419013 | None:intergenic |
| TGTGGTCGAGGAGAAACTAA+AGG | 0.560843 | 3.2:-52418140 | None:intergenic |
| AATGGTGGCTACCTATCGGC+GGG | 0.575218 | 3.2:+52418956 | MS.gene04120:CDS |
| GTGGCTACCTATCGGCGGGT+TGG | 0.580505 | 3.2:+52418960 | MS.gene04120:CDS |
| ATGGCTTACTAGGAAGAAGA+AGG | 0.589973 | 3.2:+52418103 | MS.gene04120:CDS |
| TCATCTGGTAGATAATCAGC+TGG | 0.601785 | 3.2:+52418708 | MS.gene04120:CDS |
| ACAAGGACCAACCCGCCGAT+AGG | 0.603656 | 3.2:-52418967 | None:intergenic |
| TCATCATTGAACTGGCCGAA+AGG | 0.604775 | 3.2:+52418613 | MS.gene04120:CDS |
| TGATGATGAAAATGAAAATG+TGG | 0.607241 | 3.2:+52418040 | MS.gene04120:CDS |
| AAATGGTGGCTACCTATCGG+CGG | 0.630295 | 3.2:+52418955 | MS.gene04120:CDS |
| GAAATTGAACCGTTATTACG+AGG | 0.709064 | 3.2:+52418928 | MS.gene04120:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATCAAAGTAATTTTTTTTA+TGG | - | chr3.2:52418314-52418333 | None:intergenic | 10.0% |
| !!! | ATCAAAGTAATTTTTTTTAT+GGG | - | chr3.2:52418313-52418332 | None:intergenic | 10.0% |
| !! | AATTTATGTTAGTAGAAATT+TGG | + | chr3.2:52418416-52418435 | MS.gene04120:intron | 15.0% |
| !!! | TTTTCATTCGTTATATATAA+TGG | + | chr3.2:52418197-52418216 | MS.gene04120:intron | 15.0% |
| !!! | TTCAATGATGAAGTTATTTT+AGG | - | chr3.2:52418604-52418623 | None:intergenic | 20.0% |
| ! | AAATAACTTCATCATTGAAC+TGG | + | chr3.2:52418605-52418624 | MS.gene04120:CDS | 25.0% |
| ! | GTGTAACTGCAAATTTAAAA+GGG | + | chr3.2:52418846-52418865 | MS.gene04120:intron | 25.0% |
| ! | GTTTATTGGAGAAAAATCAA+CGG | + | chr3.2:52417858-52417877 | MS.gene04120:CDS | 25.0% |
| ! | TAAAGTTCATGTCTTCAAAA+GGG | + | chr3.2:52419063-52419082 | MS.gene04120:CDS | 25.0% |
| ! | TGTGTAACTGCAAATTTAAA+AGG | + | chr3.2:52418845-52418864 | MS.gene04120:intron | 25.0% |
| ! | TTAAAGTTCATGTCTTCAAA+AGG | + | chr3.2:52419062-52419081 | MS.gene04120:CDS | 25.0% |
| ! | TTTAAGAGAACTGTGAAAAA+AGG | - | chr3.2:52418682-52418701 | None:intergenic | 25.0% |
| ! | TTTACTGAAAATTACTCTCT+TGG | + | chr3.2:52417912-52417931 | MS.gene04120:intron | 25.0% |
| !! | TAAAACAAAGAAGACACTTT+TGG | - | chr3.2:52418538-52418557 | None:intergenic | 25.0% |
| !! | TAATGAATCAGTTGAGATTT+TGG | + | chr3.2:52418076-52418095 | MS.gene04120:CDS | 25.0% |
| !! | TATTAACCCTTCATTTTAAG+TGG | - | chr3.2:52418248-52418267 | None:intergenic | 25.0% |
| !! | TGATGATGAAAATGAAAATG+TGG | + | chr3.2:52418040-52418059 | MS.gene04120:CDS | 25.0% |
| AAAATTGAAGTCTTTCGATG+TGG | + | chr3.2:52418358-52418377 | MS.gene04120:intron | 30.0% | |
| AAACCTCTAACTTTCTTATG+TGG | - | chr3.2:52418161-52418180 | None:intergenic | 30.0% | |
| AAGCTTTCCACTTAAAATGA+AGG | + | chr3.2:52418238-52418257 | MS.gene04120:intron | 30.0% | |
| AAGTATGTGTACATCAAACT+TGG | - | chr3.2:52417976-52417995 | None:intergenic | 30.0% | |
| AAGTTTGATGTACACATACT+TGG | + | chr3.2:52417975-52417994 | MS.gene04120:CDS | 30.0% | |
| ACTGATAAACAAGAAGGATT+TGG | + | chr3.2:52419036-52419055 | MS.gene04120:CDS | 30.0% | |
| AGCTTTCCACTTAAAATGAA+GGG | + | chr3.2:52418239-52418258 | MS.gene04120:intron | 30.0% | |
| CTTTGAACTGATAAACAAGA+AGG | + | chr3.2:52419030-52419049 | MS.gene04120:CDS | 30.0% | |
| TATACATAGCATTGCAAGAA+TGG | - | chr3.2:52418762-52418781 | None:intergenic | 30.0% | |
| TCTCTTAAAACCTAATCATC+TGG | + | chr3.2:52418693-52418712 | MS.gene04120:CDS | 30.0% | |
| TGATTATCTACCAGATGATT+AGG | - | chr3.2:52418706-52418725 | None:intergenic | 30.0% | |
| !! | CTTTTGATTCATGTAGTATG+TGG | + | chr3.2:52418271-52418290 | MS.gene04120:intron | 30.0% |
| !! | TTTTAAGTGGAAAGCTTCAT+AGG | - | chr3.2:52418235-52418254 | None:intergenic | 30.0% |
| !!! | CATTTTTAGCCTCGTAATAA+CGG | - | chr3.2:52418940-52418959 | None:intergenic | 30.0% |
| !!! | TCATGAATCTTGTTGTTTTC+AGG | - | chr3.2:52418511-52418530 | None:intergenic | 30.0% |
| AAGTATGTGATTCTGCAGAT+TGG | + | chr3.2:52418887-52418906 | MS.gene04120:intron | 35.0% | |
| ACATTGCTCACATATATGCA+GGG | + | chr3.2:52418563-52418582 | MS.gene04120:intron | 35.0% | |
| AGTATGTGATTCTGCAGATT+GGG | + | chr3.2:52418888-52418907 | MS.gene04120:intron | 35.0% | |
| CATGTAGTATGTGGCAATTA+TGG | + | chr3.2:52418280-52418299 | MS.gene04120:intron | 35.0% | |
| CGTTATTACGAGGCTAAAAA+TGG | + | chr3.2:52418938-52418957 | MS.gene04120:CDS | 35.0% | |
| GAAAAATCAACGGTGAGATT+TGG | + | chr3.2:52417868-52417887 | MS.gene04120:intron | 35.0% | |
| GAAAATTACTCTCTTGGACA+TGG | + | chr3.2:52417918-52417937 | MS.gene04120:intron | 35.0% | |
| GAAATTGAACCGTTATTACG+AGG | + | chr3.2:52418928-52418947 | MS.gene04120:CDS | 35.0% | |
| TAAAAATGGTGGCTACCTAT+CGG | + | chr3.2:52418952-52418971 | MS.gene04120:CDS | 35.0% | |
| TACATTGCTCACATATATGC+AGG | + | chr3.2:52418562-52418581 | MS.gene04120:intron | 35.0% | |
| TATTACGAGGCTAAAAATGG+TGG | + | chr3.2:52418941-52418960 | MS.gene04120:CDS | 35.0% | |
| ! | AAACTTTTAGTCCTTGAGGA+GGG | - | chr3.2:52418385-52418404 | None:intergenic | 35.0% |
| ! | CAGTTGAGATTTTGGATGAA+TGG | + | chr3.2:52418084-52418103 | MS.gene04120:CDS | 35.0% |
| ! | TCTCAAACTTTTAGTCCTTG+AGG | - | chr3.2:52418389-52418408 | None:intergenic | 35.0% |
| ! | TTTTGGATGAATGGCTTACT+AGG | + | chr3.2:52418093-52418112 | MS.gene04120:CDS | 35.0% |
| !! | AGATTTGGTTTGAAAAGGGA+TGG | + | chr3.2:52417883-52417902 | MS.gene04120:intron | 35.0% |
| !! | GGTGAGATTTGGTTTGAAAA+GGG | + | chr3.2:52417879-52417898 | MS.gene04120:intron | 35.0% |
| ATGGCTTACTAGGAAGAAGA+AGG | + | chr3.2:52418103-52418122 | MS.gene04120:CDS | 40.0% | |
| CATTGCTCACATATATGCAG+GGG | + | chr3.2:52418564-52418583 | MS.gene04120:intron | 40.0% | |
| CGACCACATAAGAAAGTTAG+AGG | + | chr3.2:52418155-52418174 | MS.gene04120:CDS | 40.0% | |
| CTAACTTTCTTATGTGGTCG+AGG | - | chr3.2:52418155-52418174 | None:intergenic | 40.0% | |
| GTATGTGATTCTGCAGATTG+GGG | + | chr3.2:52418889-52418908 | MS.gene04120:intron | 40.0% | |
| TCAAAGACACAAACATCTCC+TGG | - | chr3.2:52419016-52419035 | None:intergenic | 40.0% | |
| TCATCTGGTAGATAATCAGC+TGG | + | chr3.2:52418708-52418727 | MS.gene04120:CDS | 40.0% | |
| TGGTAGATAATCAGCTGGTA+AGG | + | chr3.2:52418713-52418732 | MS.gene04120:intron | 40.0% | |
| TTCACTTTCGGTTGCAAACA+AGG | - | chr3.2:52418987-52419006 | None:intergenic | 40.0% | |
| ! | CAAACTTTTAGTCCTTGAGG+AGG | - | chr3.2:52418386-52418405 | None:intergenic | 40.0% |
| !! | CGGTGAGATTTGGTTTGAAA+AGG | + | chr3.2:52417878-52417897 | MS.gene04120:intron | 40.0% |
| TCATCATTGAACTGGCCGAA+AGG | + | chr3.2:52418613-52418632 | MS.gene04120:CDS | 45.0% | |
| TCCTGGTAGCACTTCACTTT+CGG | - | chr3.2:52418999-52419018 | None:intergenic | 45.0% | |
| TGCAGATTGGGGAAAGATCA+TGG | + | chr3.2:52418900-52418919 | MS.gene04120:intron | 45.0% | |
| TGTGGTCGAGGAGAAACTAA+AGG | - | chr3.2:52418143-52418162 | None:intergenic | 45.0% | |
| AAATGGTGGCTACCTATCGG+CGG | + | chr3.2:52418955-52418974 | MS.gene04120:CDS | 50.0% | |
| CTCTCTTGGACATGGCTCTT+TGG | + | chr3.2:52417926-52417945 | MS.gene04120:intron | 50.0% | |
| TCTTGGACATGGCTCTTTGG+TGG | + | chr3.2:52417929-52417948 | MS.gene04120:intron | 50.0% | |
| ! | ACCGAAAGTGAAGTGCTACC+AGG | + | chr3.2:52418995-52419014 | MS.gene04120:CDS | 50.0% |
| AATGGTGGCTACCTATCGGC+GGG | + | chr3.2:52418956-52418975 | MS.gene04120:CDS | 55.0% | |
| TTCGATGTGGTCCCTCCTCA+AGG | + | chr3.2:52418371-52418390 | MS.gene04120:intron | 55.0% | |
| ! | TCGCGAGCTCTAGCTCCTTT+CGG | - | chr3.2:52418631-52418650 | None:intergenic | 55.0% |
| ACAAGGACCAACCCGCCGAT+AGG | - | chr3.2:52418970-52418989 | None:intergenic | 60.0% | |
| GTGGCTACCTATCGGCGGGT+TGG | + | chr3.2:52418960-52418979 | MS.gene04120:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 52417851 | 52419093 | 52417851 | ID=MS.gene04120 |
| chr3.2 | mRNA | 52417851 | 52419093 | 52417851 | ID=MS.gene04120.t1;Parent=MS.gene04120 |
| chr3.2 | exon | 52417851 | 52417879 | 52417851 | ID=MS.gene04120.t1.exon1;Parent=MS.gene04120.t1 |
| chr3.2 | CDS | 52417851 | 52417879 | 52417851 | ID=cds.MS.gene04120.t1;Parent=MS.gene04120.t1 |
| chr3.2 | exon | 52417968 | 52418176 | 52417968 | ID=MS.gene04120.t1.exon2;Parent=MS.gene04120.t1 |
| chr3.2 | CDS | 52417968 | 52418176 | 52417968 | ID=cds.MS.gene04120.t1;Parent=MS.gene04120.t1 |
| chr3.2 | exon | 52418584 | 52418729 | 52418584 | ID=MS.gene04120.t1.exon3;Parent=MS.gene04120.t1 |
| chr3.2 | CDS | 52418584 | 52418729 | 52418584 | ID=cds.MS.gene04120.t1;Parent=MS.gene04120.t1 |
| chr3.2 | exon | 52418905 | 52419093 | 52418905 | ID=MS.gene04120.t1.exon4;Parent=MS.gene04120.t1 |
| chr3.2 | CDS | 52418905 | 52419093 | 52418905 | ID=cds.MS.gene04120.t1;Parent=MS.gene04120.t1 |
| Gene Sequence |
| Protein sequence |
