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.gene52992.t1 | XP_003590803.1 | 84.3 | 191 | 26 | 2 | 1 | 187 | 1 | 191 | 5.50E-65 | 257.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene52992.t1 | Q9SR34 | 64.4 | 45 | 15 | 1 | 4 | 48 | 20 | 63 | 3.1e-08 | 60.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene52992.t1 | G7I4R8 | 84.3 | 191 | 26 | 2 | 1 | 187 | 1 | 191 | 4.0e-65 | 257.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene52992.t1 | TF | C2H2 |
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.gene52992.t1 | MTR_1g075430 | 89.005 | 191 | 17 | 2 | 1 | 187 | 1 | 191 | 1.09e-122 | 344 |
| MS.gene52992.t1 | MTR_1g044225 | 40.104 | 192 | 71 | 11 | 1 | 183 | 5 | 161 | 6.88e-22 | 87.4 |
| MS.gene52992.t1 | MTR_7g063220 | 75.610 | 41 | 10 | 0 | 12 | 52 | 18 | 58 | 7.97e-17 | 73.6 |
| MS.gene52992.t1 | MTR_4g064873 | 58.730 | 63 | 19 | 2 | 11 | 69 | 10 | 69 | 4.51e-16 | 72.4 |
| MS.gene52992.t1 | MTR_1g070250 | 35.632 | 174 | 86 | 8 | 14 | 180 | 34 | 188 | 8.82e-14 | 66.6 |
| MS.gene52992.t1 | MTR_4g021270 | 69.444 | 36 | 11 | 0 | 18 | 53 | 59 | 94 | 3.62e-12 | 63.9 |
| MS.gene52992.t1 | MTR_5g014400 | 52.727 | 55 | 25 | 1 | 12 | 65 | 74 | 128 | 1.15e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene52992.t1 | AT5G43540 | 68.293 | 41 | 13 | 0 | 20 | 60 | 35 | 75 | 9.19e-15 | 68.2 |
| MS.gene52992.t1 | AT3G09290 | 83.871 | 31 | 5 | 0 | 18 | 48 | 33 | 63 | 2.02e-13 | 65.5 |
| MS.gene52992.t1 | AT3G53820 | 83.871 | 31 | 5 | 0 | 18 | 48 | 19 | 49 | 1.69e-12 | 62.4 |
| MS.gene52992.t1 | AT4G17810 | 28.962 | 183 | 81 | 6 | 6 | 180 | 29 | 170 | 3.56e-12 | 62.0 |
| MS.gene52992.t1 | AT3G23140 | 55.102 | 49 | 21 | 1 | 1 | 48 | 1 | 49 | 8.61e-12 | 61.2 |
| MS.gene52992.t1 | AT5G06070 | 55.357 | 56 | 24 | 1 | 4 | 58 | 38 | 93 | 3.23e-11 | 60.5 |
| MS.gene52992.t1 | AT3G23130 | 68.571 | 35 | 11 | 0 | 18 | 52 | 45 | 79 | 5.06e-11 | 59.7 |
| MS.gene52992.t1 | AT2G37740 | 50.000 | 58 | 23 | 1 | 7 | 58 | 26 | 83 | 9.02e-11 | 60.1 |
Find 40 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCATCATTGGTGTAGAATT+TGG | 0.181529 | 1.1:-56416256 | None:intergenic |
| TAATTTCCAACATGGTAATT+TGG | 0.204844 | 1.1:-56416393 | None:intergenic |
| GTTGGATATTCACATGATTT+TGG | 0.233941 | 1.1:-56416366 | None:intergenic |
| AATTCTTCTTCATCACAAAT+TGG | 0.251144 | 1.1:+56416231 | MS.gene52992:CDS |
| TCAGAACAAAATTCCTTTGT+TGG | 0.304478 | 1.1:+56416300 | MS.gene52992:CDS |
| ATTTGTGATGAAGAAGAATT+TGG | 0.304515 | 1.1:-56416228 | None:intergenic |
| GGAGGAAAATGAAGTGGATT+TGG | 0.333970 | 1.1:+56416575 | MS.gene52992:CDS |
| TTCACAAATGCACAAGCTTT+AGG | 0.350501 | 1.1:+56416156 | MS.gene52992:CDS |
| TCATTTCCTCTCCTAACTCT+TGG | 0.379355 | 1.1:-56416549 | None:intergenic |
| ATGGCAATGATCAAGGAAAA+AGG | 0.379483 | 1.1:+56416100 | MS.gene52992:CDS |
| CCTGACTTGAGTCTTCAAAT+AGG | 0.388896 | 1.1:+56416495 | MS.gene52992:CDS |
| CCTTAGCTCTATCTTTCCTA+TGG | 0.421858 | 1.1:-56416194 | None:intergenic |
| CTCTTGGTTCAAATGCCAAT+TGG | 0.423506 | 1.1:-56416463 | None:intergenic |
| ATACACATCATCCAAGAGTT+AGG | 0.432854 | 1.1:+56416538 | MS.gene52992:CDS |
| AGTTAGGAGAGGAAATGATC+AGG | 0.437027 | 1.1:+56416554 | MS.gene52992:CDS |
| GAATAACCATGCATATTTGA+AGG | 0.444582 | 1.1:-56416333 | None:intergenic |
| AGTCAGGATGTTGAAGCTCT+TGG | 0.457420 | 1.1:-56416479 | None:intergenic |
| ATGAATTATTCAAGTGAAGA+AGG | 0.471381 | 1.1:+56416072 | MS.gene52992:CDS |
| AACCATGCATATTTGAAGGT+TGG | 0.490265 | 1.1:-56416329 | None:intergenic |
| ACATGGTAATTTGGTGCTGT+TGG | 0.496509 | 1.1:-56416384 | None:intergenic |
| AAAGACCATAGCTTCATCAT+TGG | 0.510291 | 1.1:-56416268 | None:intergenic |
| GATATCAAGGACCATCCAAT+TGG | 0.511436 | 1.1:+56416448 | MS.gene52992:CDS |
| TCAAGTGAAGAAGGTGATGA+TGG | 0.515818 | 1.1:+56416081 | MS.gene52992:CDS |
| CCTATTTGAAGACTCAAGTC+AGG | 0.518186 | 1.1:-56416495 | None:intergenic |
| GGTGATGATGGCAATGATCA+AGG | 0.525173 | 1.1:+56416093 | MS.gene52992:CDS |
| CTACACCAATGATGAAGCTA+TGG | 0.526389 | 1.1:+56416263 | MS.gene52992:CDS |
| TATCAACCTTCAAATGTGGA+TGG | 0.533961 | 1.1:+56416414 | MS.gene52992:CDS |
| TAGGAGAGGAAATGATCAGG+AGG | 0.549853 | 1.1:+56416557 | MS.gene52992:CDS |
| GTGGATTTGGAGCTAAGACT+TGG | 0.559049 | 1.1:+56416588 | MS.gene52992:CDS |
| TGATCAGGAGGAAAATGAAG+TGG | 0.559611 | 1.1:+56416569 | MS.gene52992:CDS |
| TGGTTCAAATGCCAATTGGA+TGG | 0.560601 | 1.1:-56416459 | None:intergenic |
| TACCAACCTTCAAATATGCA+TGG | 0.566990 | 1.1:+56416327 | MS.gene52992:CDS |
| AAATTATCAACCTTCAAATG+TGG | 0.579755 | 1.1:+56416410 | MS.gene52992:CDS |
| ACAGCACCAAATTACCATGT+TGG | 0.599662 | 1.1:+56416387 | MS.gene52992:CDS |
| AGGTTGGTAATTTCCAACAA+AGG | 0.601009 | 1.1:-56416313 | None:intergenic |
| GTGGTCACATGAATATCCAT+AGG | 0.605103 | 1.1:+56416178 | MS.gene52992:CDS |
| AAGGTTGATAATTTCCAACA+TGG | 0.615290 | 1.1:-56416401 | None:intergenic |
| CCATAGGAAAGATAGAGCTA+AGG | 0.615552 | 1.1:+56416194 | MS.gene52992:CDS |
| ACAAATGCACAAGCTTTAGG+TGG | 0.646984 | 1.1:+56416159 | MS.gene52992:CDS |
| CATCATCCAAGAGTTAGGAG+AGG | 0.700340 | 1.1:+56416543 | MS.gene52992:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAATTATCAACCTTCAAATG+TGG | + | chr1.1:56416410-56416429 | MS.gene52992:CDS | 25.0% |
| ! | AATTCTTCTTCATCACAAAT+TGG | + | chr1.1:56416231-56416250 | MS.gene52992:CDS | 25.0% |
| ! | ATGAATTATTCAAGTGAAGA+AGG | + | chr1.1:56416072-56416091 | MS.gene52992:CDS | 25.0% |
| ! | ATTTGTGATGAAGAAGAATT+TGG | - | chr1.1:56416231-56416250 | None:intergenic | 25.0% |
| ! | TAATTTCCAACATGGTAATT+TGG | - | chr1.1:56416396-56416415 | None:intergenic | 25.0% |
| GAATAACCATGCATATTTGA+AGG | - | chr1.1:56416336-56416355 | None:intergenic | 30.0% | |
| TCAGAACAAAATTCCTTTGT+TGG | + | chr1.1:56416300-56416319 | MS.gene52992:CDS | 30.0% | |
| TTCATCATTGGTGTAGAATT+TGG | - | chr1.1:56416259-56416278 | None:intergenic | 30.0% | |
| ! | AATGTGGATGGTTTTTCTTA+TGG | + | chr1.1:56416426-56416445 | MS.gene52992:CDS | 30.0% |
| ! | GGTTTTTCTTATGGATATCA+AGG | + | chr1.1:56416435-56416454 | MS.gene52992:CDS | 30.0% |
| ! | GTTGGATATTCACATGATTT+TGG | - | chr1.1:56416369-56416388 | None:intergenic | 30.0% |
| !! | AAGGTTGATAATTTCCAACA+TGG | - | chr1.1:56416404-56416423 | None:intergenic | 30.0% |
| !!! | GAATTTTGTTCTGAAGCAAA+AGG | - | chr1.1:56416294-56416313 | None:intergenic | 30.0% |
| AAAGACCATAGCTTCATCAT+TGG | - | chr1.1:56416271-56416290 | None:intergenic | 35.0% | |
| AACCATGCATATTTGAAGGT+TGG | - | chr1.1:56416332-56416351 | None:intergenic | 35.0% | |
| ATACACATCATCCAAGAGTT+AGG | + | chr1.1:56416538-56416557 | MS.gene52992:CDS | 35.0% | |
| ATGGCAATGATCAAGGAAAA+AGG | + | chr1.1:56416100-56416119 | MS.gene52992:CDS | 35.0% | |
| GAAAAACCATCCACATTTGA+AGG | - | chr1.1:56416423-56416442 | None:intergenic | 35.0% | |
| TACCAACCTTCAAATATGCA+TGG | + | chr1.1:56416327-56416346 | MS.gene52992:CDS | 35.0% | |
| TATCAACCTTCAAATGTGGA+TGG | + | chr1.1:56416414-56416433 | MS.gene52992:CDS | 35.0% | |
| TTCACAAATGCACAAGCTTT+AGG | + | chr1.1:56416156-56416175 | MS.gene52992:CDS | 35.0% | |
| ! | GAATGCACATTTTGCAAAAG+AGG | + | chr1.1:56416132-56416151 | MS.gene52992:CDS | 35.0% |
| !! | AGGTTGGTAATTTCCAACAA+AGG | - | chr1.1:56416316-56416335 | None:intergenic | 35.0% |
| ACAGCACCAAATTACCATGT+TGG | + | chr1.1:56416387-56416406 | MS.gene52992:CDS | 40.0% | |
| AGTTAGGAGAGGAAATGATC+AGG | + | chr1.1:56416554-56416573 | MS.gene52992:CDS | 40.0% | |
| CCATAGGAAAGATAGAGCTA+AGG | + | chr1.1:56416194-56416213 | MS.gene52992:CDS | 40.0% | |
| CCTATTTGAAGACTCAAGTC+AGG | - | chr1.1:56416498-56416517 | None:intergenic | 40.0% | |
| CTACACCAATGATGAAGCTA+TGG | + | chr1.1:56416263-56416282 | MS.gene52992:CDS | 40.0% | |
| CTCTTGGTTCAAATGCCAAT+TGG | - | chr1.1:56416466-56416485 | None:intergenic | 40.0% | |
| GATATCAAGGACCATCCAAT+TGG | + | chr1.1:56416448-56416467 | MS.gene52992:CDS | 40.0% | |
| GTGGTCACATGAATATCCAT+AGG | + | chr1.1:56416178-56416197 | MS.gene52992:CDS | 40.0% | |
| TCAAGTGAAGAAGGTGATGA+TGG | + | chr1.1:56416081-56416100 | MS.gene52992:CDS | 40.0% | |
| TCATTTCCTCTCCTAACTCT+TGG | - | chr1.1:56416552-56416571 | None:intergenic | 40.0% | |
| TGATCAGGAGGAAAATGAAG+TGG | + | chr1.1:56416569-56416588 | MS.gene52992:CDS | 40.0% | |
| TGGTTCAAATGCCAATTGGA+TGG | - | chr1.1:56416462-56416481 | None:intergenic | 40.0% | |
| ! | CCTGACTTGAGTCTTCAAAT+AGG | + | chr1.1:56416495-56416514 | MS.gene52992:CDS | 40.0% |
| ! | GGAGGAAAATGAAGTGGATT+TGG | + | chr1.1:56416575-56416594 | MS.gene52992:CDS | 40.0% |
| !! | ACAAATGCACAAGCTTTAGG+TGG | + | chr1.1:56416159-56416178 | MS.gene52992:CDS | 40.0% |
| !! | ACATGGTAATTTGGTGCTGT+TGG | - | chr1.1:56416387-56416406 | None:intergenic | 40.0% |
| !! | CCTTAGCTCTATCTTTCCTA+TGG | - | chr1.1:56416197-56416216 | None:intergenic | 40.0% |
| AGTCAGGATGTTGAAGCTCT+TGG | - | chr1.1:56416482-56416501 | None:intergenic | 45.0% | |
| CATCATCCAAGAGTTAGGAG+AGG | + | chr1.1:56416543-56416562 | MS.gene52992:CDS | 45.0% | |
| TAGGAGAGGAAATGATCAGG+AGG | + | chr1.1:56416557-56416576 | MS.gene52992:CDS | 45.0% | |
| ! | GTGGATTTGGAGCTAAGACT+TGG | + | chr1.1:56416588-56416607 | MS.gene52992:CDS | 45.0% |
| !! | GGTGATGATGGCAATGATCA+AGG | + | chr1.1:56416093-56416112 | MS.gene52992:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.1 | gene | 56416072 | 56416635 | 56416072 | ID=MS.gene52992 |
| chr1.1 | mRNA | 56416072 | 56416635 | 56416072 | ID=MS.gene52992.t1;Parent=MS.gene52992 |
| chr1.1 | exon | 56416072 | 56416635 | 56416072 | ID=MS.gene52992.t1.exon1;Parent=MS.gene52992.t1 |
| chr1.1 | CDS | 56416072 | 56416635 | 56416072 | ID=cds.MS.gene52992.t1;Parent=MS.gene52992.t1 |
| Gene Sequence |
| Protein sequence |
