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.gene39954.t1 | XP_003590602.2 | 79.9 | 209 | 24 | 3 | 1 | 207 | 1 | 193 | 6.30E-76 | 293.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39954.t1 | G7IDL7 | 79.9 | 209 | 24 | 3 | 1 | 207 | 1 | 193 | 4.5e-76 | 293.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050807 | MS.gene39954 | 0.805214 | 1.49E-49 | -1.69E-46 |
| MS.gene050959 | MS.gene39954 | 0.809495 | 1.84E-50 | -1.69E-46 |
| MS.gene052665 | MS.gene39954 | 0.806693 | 7.27E-50 | -1.69E-46 |
| MS.gene055357 | MS.gene39954 | 0.823454 | 1.37E-53 | -1.69E-46 |
| MS.gene056643 | MS.gene39954 | 0.800486 | 1.41E-48 | -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.gene39954.t1 | MTR_1g071620 | 81.429 | 210 | 19 | 3 | 1 | 207 | 1 | 193 | 1.48e-103 | 298 |
| MS.gene39954.t1 | MTR_5g094960 | 37.546 | 269 | 89 | 6 | 16 | 206 | 60 | 327 | 3.54e-28 | 110 |
| MS.gene39954.t1 | MTR_5g094990 | 34.981 | 263 | 95 | 6 | 16 | 205 | 61 | 320 | 4.35e-21 | 91.3 |
| MS.gene39954.t1 | MTR_5g095050 | 41.060 | 151 | 59 | 3 | 65 | 185 | 255 | 405 | 6.47e-19 | 85.1 |
| MS.gene39954.t1 | MTR_5g095390 | 37.946 | 224 | 102 | 9 | 16 | 220 | 77 | 282 | 3.83e-18 | 82.0 |
| MS.gene39954.t1 | MTR_5g094970 | 46.032 | 126 | 54 | 3 | 65 | 176 | 176 | 301 | 1.95e-17 | 79.7 |
| MS.gene39954.t1 | MTR_5g094950 | 48.739 | 119 | 47 | 2 | 70 | 174 | 240 | 358 | 5.89e-17 | 79.3 |
| MS.gene39954.t1 | MTR_5g094920 | 38.021 | 192 | 75 | 6 | 16 | 166 | 57 | 245 | 2.50e-15 | 74.7 |
| MS.gene39954.t1 | MTR_5g094920 | 62.295 | 61 | 18 | 1 | 105 | 165 | 297 | 352 | 6.71e-11 | 61.6 |
| MS.gene39954.t1 | MTR_5g094850 | 49.451 | 91 | 41 | 1 | 102 | 187 | 217 | 307 | 7.45e-15 | 73.2 |
| MS.gene39954.t1 | MTR_5g094850 | 49.451 | 91 | 41 | 1 | 102 | 187 | 217 | 307 | 7.56e-15 | 73.2 |
| MS.gene39954.t1 | MTR_5g077500 | 39.706 | 136 | 63 | 5 | 67 | 187 | 129 | 260 | 2.00e-14 | 70.9 |
| MS.gene39954.t1 | MTR_5g094910 | 30.962 | 239 | 88 | 6 | 16 | 202 | 45 | 258 | 1.46e-11 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 50 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTATCTTTCTTGAGCTATTT+TGG | 0.110071 | 1.4:+58578922 | None:intergenic |
| TTCAAAGAACTCAAAATAAT+TGG | 0.260116 | 1.4:-58578890 | MS.gene39954:CDS |
| GGGTTTGCCCTCTTCATTGC+AGG | 0.267075 | 1.4:-58578432 | MS.gene39954:CDS |
| AAAATAATTGGCTCAACTTA+TGG | 0.294742 | 1.4:-58578878 | MS.gene39954:CDS |
| AACAAAGAATGTTGAATTAG+AGG | 0.303948 | 1.4:-58578732 | MS.gene39954:CDS |
| GGAAACTGTGAAGAAGAATT+TGG | 0.316676 | 1.4:-58578711 | MS.gene39954:CDS |
| AGTCTGTGGACACGAAGTTC+AGG | 0.338708 | 1.4:-58578616 | MS.gene39954:CDS |
| CAGACTAGAGGAGCTTTCAT+TGG | 0.371001 | 1.4:-58579011 | MS.gene39954:CDS |
| TGAGTTCTTTGAAGAGATCT+TGG | 0.373162 | 1.4:+58578900 | None:intergenic |
| TTTCTTTGTTAAAAGTTCAA+TGG | 0.428054 | 1.4:+58578850 | None:intergenic |
| AAGTGAAGCGGCCCTTCAAA+TGG | 0.442528 | 1.4:+58579037 | None:intergenic |
| ATGGAGATACTTCCATTTGA+AGG | 0.456578 | 1.4:-58579049 | MS.gene39954:CDS |
| GAGGAAAGAAAACAGCAAAC+TGG | 0.467949 | 1.4:-58578672 | MS.gene39954:CDS |
| AGAGTTCGCTAAAAGAGAAA+AGG | 0.488955 | 1.4:-58578960 | MS.gene39954:CDS |
| ATCTACACTCATCAAACGTT+CGG | 0.489204 | 1.4:+58578556 | None:intergenic |
| AACTGGAAGATGAGAAGCGC+GGG | 0.499478 | 1.4:-58578655 | MS.gene39954:CDS |
| GTCAAGAAATTGAAGGGTGT+TGG | 0.517668 | 1.4:-58578806 | MS.gene39954:CDS |
| GGTTTGCCCTCTTCATTGCA+GGG | 0.522909 | 1.4:-58578431 | MS.gene39954:CDS |
| CAGGGTGAGTCTCCATCTCT+AGG | 0.527880 | 1.4:-58578413 | MS.gene39954:CDS |
| GAACTCTGACTCAACATGTA+TGG | 0.529103 | 1.4:+58578976 | None:intergenic |
| GGAGCCTGATGTTGATCCTA+TGG | 0.533780 | 1.4:-58578522 | MS.gene39954:CDS |
| GTCTGTGGACACGAAGTTCA+GGG | 0.534295 | 1.4:-58578615 | MS.gene39954:CDS |
| ACCTATGCACATCCTAGAGA+TGG | 0.539005 | 1.4:+58578401 | None:intergenic |
| GCATGAAAGAGTAGCGAGGT+TGG | 0.539040 | 1.4:-58578588 | MS.gene39954:CDS |
| ACTCAACATGTATGGTTGAA+AGG | 0.549288 | 1.4:+58578984 | None:intergenic |
| GGTTCAAGTCAAGAAATTGA+AGG | 0.561506 | 1.4:-58578813 | MS.gene39954:CDS |
| GATGGTAGTAGCTATGACTA+CGG | 0.562172 | 1.4:-58578776 | MS.gene39954:CDS |
| TGGAGATACTTCCATTTGAA+GGG | 0.564385 | 1.4:-58579048 | MS.gene39954:CDS |
| GCAACCATAGGATCAACATC+AGG | 0.571760 | 1.4:+58578518 | None:intergenic |
| TGAGAAATTGCTCAAGTCTG+TGG | 0.574071 | 1.4:-58578630 | MS.gene39954:CDS |
| AAGGGTGTTGGTGATGATGA+TGG | 0.576641 | 1.4:-58578794 | MS.gene39954:CDS |
| TCTTCAAAAGCAGCAACCAT+AGG | 0.582746 | 1.4:+58578506 | None:intergenic |
| GACTCACCCTGCAATGAAGA+GGG | 0.591186 | 1.4:+58578425 | None:intergenic |
| CTCAGAAATGACACAGTGGA+GGG | 0.613313 | 1.4:-58578452 | MS.gene39954:CDS |
| AGACTCACCCTGCAATGAAG+AGG | 0.613585 | 1.4:+58578424 | None:intergenic |
| GTTCAAGTCAAGAAATTGAA+GGG | 0.613693 | 1.4:-58578812 | MS.gene39954:CDS |
| GCTTCACTTTGACAGACTAG+AGG | 0.616458 | 1.4:-58579023 | MS.gene39954:CDS |
| TCTAGTCTGTCAAAGTGAAG+CGG | 0.619726 | 1.4:+58579025 | None:intergenic |
| TGAAAGAGTAGCGAGGTTGG+AGG | 0.624900 | 1.4:-58578585 | MS.gene39954:CDS |
| TCCATCTCTAGGATGTGCAT+AGG | 0.629186 | 1.4:-58578402 | None:intergenic |
| ATGAGTGTAGATGACTCTGA+AGG | 0.643207 | 1.4:-58578545 | MS.gene39954:CDS |
| TCTGTGGACACGAAGTTCAG+GGG | 0.655793 | 1.4:-58578614 | MS.gene39954:CDS |
| GCTCAGAAATGACACAGTGG+AGG | 0.668464 | 1.4:-58578453 | MS.gene39954:CDS |
| TGAGTGTAGATGACTCTGAA+GGG | 0.681333 | 1.4:-58578544 | MS.gene39954:CDS |
| TGGCAACTATAAGCGAGCTG+AGG | 0.694355 | 1.4:-58578691 | MS.gene39954:CDS |
| GAGTGTAGATGACTCTGAAG+GGG | 0.702524 | 1.4:-58578543 | MS.gene39954:CDS |
| AAACTGGAAGATGAGAAGCG+CGG | 0.705365 | 1.4:-58578656 | MS.gene39954:CDS |
| GACTGCATGAAAGAGTAGCG+AGG | 0.721557 | 1.4:-58578592 | MS.gene39954:CDS |
| ACTGGAAGATGAGAAGCGCG+GGG | 0.723989 | 1.4:-58578654 | MS.gene39954:CDS |
| TGAGCTCAGAAATGACACAG+TGG | 0.778138 | 1.4:-58578456 | MS.gene39954:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCAAAGAACTCAAAATAAT+TGG | - | chr1.4:58578562-58578581 | MS.gene39954:CDS | 20.0% |
| !! | TTTCTTTGTTAAAAGTTCAA+TGG | + | chr1.4:58578605-58578624 | None:intergenic | 20.0% |
| ! | AAAGAAAAACAATGAATTGC+AGG | - | chr1.4:58578618-58578637 | MS.gene39954:CDS | 25.0% |
| ! | AACAAAGAATGTTGAATTAG+AGG | - | chr1.4:58578720-58578739 | MS.gene39954:CDS | 25.0% |
| !! | AAAATAATTGGCTCAACTTA+TGG | - | chr1.4:58578574-58578593 | MS.gene39954:CDS | 25.0% |
| !!! | TTTTGAAGATGAAGATGAAA+AGG | - | chr1.4:58578960-58578979 | MS.gene39954:CDS | 25.0% |
| GTTCAAGTCAAGAAATTGAA+GGG | - | chr1.4:58578640-58578659 | MS.gene39954:CDS | 30.0% | |
| ! | GTATCTTTCTTGAGCTATTT+TGG | + | chr1.4:58578533-58578552 | None:intergenic | 30.0% |
| ACTCAACATGTATGGTTGAA+AGG | + | chr1.4:58578471-58578490 | None:intergenic | 35.0% | |
| AGAGTTCGCTAAAAGAGAAA+AGG | - | chr1.4:58578492-58578511 | MS.gene39954:CDS | 35.0% | |
| ATCTACACTCATCAAACGTT+CGG | + | chr1.4:58578899-58578918 | None:intergenic | 35.0% | |
| ATGGAGATACTTCCATTTGA+AGG | - | chr1.4:58578403-58578422 | MS.gene39954:CDS | 35.0% | |
| GGAAACTGTGAAGAAGAATT+TGG | - | chr1.4:58578741-58578760 | MS.gene39954:CDS | 35.0% | |
| GGTTCAAGTCAAGAAATTGA+AGG | - | chr1.4:58578639-58578658 | MS.gene39954:CDS | 35.0% | |
| TGGAGATACTTCCATTTGAA+GGG | - | chr1.4:58578404-58578423 | MS.gene39954:CDS | 35.0% | |
| ! | TGAGTTCTTTGAAGAGATCT+TGG | + | chr1.4:58578555-58578574 | None:intergenic | 35.0% |
| ATGAGTGTAGATGACTCTGA+AGG | - | chr1.4:58578907-58578926 | MS.gene39954:CDS | 40.0% | |
| GAACTCTGACTCAACATGTA+TGG | + | chr1.4:58578479-58578498 | None:intergenic | 40.0% | |
| GAGGAAAGAAAACAGCAAAC+TGG | - | chr1.4:58578780-58578799 | MS.gene39954:CDS | 40.0% | |
| GATGGTAGTAGCTATGACTA+CGG | - | chr1.4:58578676-58578695 | MS.gene39954:CDS | 40.0% | |
| TCTAGTCTGTCAAAGTGAAG+CGG | + | chr1.4:58578430-58578449 | None:intergenic | 40.0% | |
| TCTTCAAAAGCAGCAACCAT+AGG | + | chr1.4:58578949-58578968 | None:intergenic | 40.0% | |
| TGAGAAATTGCTCAAGTCTG+TGG | - | chr1.4:58578822-58578841 | MS.gene39954:CDS | 40.0% | |
| TGAGTGTAGATGACTCTGAA+GGG | - | chr1.4:58578908-58578927 | MS.gene39954:CDS | 40.0% | |
| ! | GTCAAGAAATTGAAGGGTGT+TGG | - | chr1.4:58578646-58578665 | MS.gene39954:CDS | 40.0% |
| AAACTGGAAGATGAGAAGCG+CGG | - | chr1.4:58578796-58578815 | MS.gene39954:CDS | 45.0% | |
| CAGACTAGAGGAGCTTTCAT+TGG | - | chr1.4:58578441-58578460 | MS.gene39954:CDS | 45.0% | |
| CTCAGAAATGACACAGTGGA+GGG | - | chr1.4:58579000-58579019 | MS.gene39954:CDS | 45.0% | |
| GCAACCATAGGATCAACATC+AGG | + | chr1.4:58578937-58578956 | None:intergenic | 45.0% | |
| GCTTCACTTTGACAGACTAG+AGG | - | chr1.4:58578429-58578448 | MS.gene39954:CDS | 45.0% | |
| TGAGCTCAGAAATGACACAG+TGG | - | chr1.4:58578996-58579015 | MS.gene39954:CDS | 45.0% | |
| ! | GAGTGTAGATGACTCTGAAG+GGG | - | chr1.4:58578909-58578928 | MS.gene39954:CDS | 45.0% |
| !! | AAGGGTGTTGGTGATGATGA+TGG | - | chr1.4:58578658-58578677 | MS.gene39954:CDS | 45.0% |
| AAGTGAAGCGGCCCTTCAAA+TGG | + | chr1.4:58578418-58578437 | None:intergenic | 50.0% | |
| AGACTCACCCTGCAATGAAG+AGG | + | chr1.4:58579031-58579050 | None:intergenic | 50.0% | |
| AGTCTGTGGACACGAAGTTC+AGG | - | chr1.4:58578836-58578855 | MS.gene39954:CDS | 50.0% | |
| GACTCACCCTGCAATGAAGA+GGG | + | chr1.4:58579030-58579049 | None:intergenic | 50.0% | |
| GACTGCATGAAAGAGTAGCG+AGG | - | chr1.4:58578860-58578879 | MS.gene39954:CDS | 50.0% | |
| GCATGAAAGAGTAGCGAGGT+TGG | - | chr1.4:58578864-58578883 | MS.gene39954:CDS | 50.0% | |
| GCTCAGAAATGACACAGTGG+AGG | - | chr1.4:58578999-58579018 | MS.gene39954:CDS | 50.0% | |
| GGAGCCTGATGTTGATCCTA+TGG | - | chr1.4:58578930-58578949 | MS.gene39954:CDS | 50.0% | |
| GGTTTGCCCTCTTCATTGCA+GGG | - | chr1.4:58579021-58579040 | MS.gene39954:CDS | 50.0% | |
| GTCTGTGGACACGAAGTTCA+GGG | - | chr1.4:58578837-58578856 | MS.gene39954:CDS | 50.0% | |
| TCTGTGGACACGAAGTTCAG+GGG | - | chr1.4:58578838-58578857 | MS.gene39954:CDS | 50.0% | |
| TGAAAGAGTAGCGAGGTTGG+AGG | - | chr1.4:58578867-58578886 | MS.gene39954:CDS | 50.0% | |
| TGGCAACTATAAGCGAGCTG+AGG | - | chr1.4:58578761-58578780 | MS.gene39954:CDS | 50.0% | |
| ! | AACTGGAAGATGAGAAGCGC+GGG | - | chr1.4:58578797-58578816 | MS.gene39954:CDS | 50.0% |
| CAGGGTGAGTCTCCATCTCT+AGG | - | chr1.4:58579039-58579058 | MS.gene39954:CDS | 55.0% | |
| GGGTTTGCCCTCTTCATTGC+AGG | - | chr1.4:58579020-58579039 | MS.gene39954:CDS | 55.0% | |
| ! | ACTGGAAGATGAGAAGCGCG+GGG | - | chr1.4:58578798-58578817 | MS.gene39954:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 58578403 | 58579071 | 58578403 | ID=MS.gene39954 |
| chr1.4 | mRNA | 58578403 | 58579071 | 58578403 | ID=MS.gene39954.t1;Parent=MS.gene39954 |
| chr1.4 | exon | 58578403 | 58579071 | 58578403 | ID=MS.gene39954.t1.exon1;Parent=MS.gene39954.t1 |
| chr1.4 | CDS | 58578403 | 58579071 | 58578403 | ID=cds.MS.gene39954.t1;Parent=MS.gene39954.t1 |
| Gene Sequence |
| Protein sequence |
