Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0670260 | XP_013456385.1 | 98.675 | 151 | 2 | 0 | 1 | 151 | 281 | 431 | 1.17e-105 | 318 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0670260 | sp|Q9C9Q5|RRA2_ARATH | 72.297 | 148 | 41 | 0 | 2 | 149 | 280 | 427 | 3.71e-76 | 235 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0670260 | A0A072UM19 | 98.675 | 151 | 2 | 0 | 1 | 151 | 281 | 431 | 5.60e-106 | 318 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0048950 | Msa0670260 | 0.803722 | 3.043734e-49 | -8.615850e-47 |
| Msa0059880 | Msa0670260 | 0.806182 | 9.315981e-50 | -8.615850e-47 |
| Msa0605410 | Msa0670260 | 0.858119 | 1.024945e-62 | -8.615850e-47 |
| Msa0646210 | Msa0670260 | 0.854629 | 1.083490e-61 | -8.615850e-47 |
| Msa0670260 | Msa0670360 | 0.803907 | 2.785762e-49 | -8.615850e-47 |
| Msa0670260 | Msa0678620 | 0.811362 | 7.272868e-51 | -8.615850e-47 |
| Msa0670260 | Msa0727480 | 0.803809 | 2.919767e-49 | -8.615850e-47 |
| Msa0670260 | Msa0824860 | 0.809701 | 1.661391e-50 | -8.615850e-47 |
| Msa0670260 | Msa0863840 | 0.805662 | 1.197780e-49 | -8.615850e-47 |
| Msa0670260 | Msa0883640 | 0.826502 | 2.619494e-54 | -8.615850e-47 |
| Msa0670260 | Msa0910830 | 0.836100 | 1.140383e-56 | -8.615850e-47 |
| Msa0670260 | Msa0960090 | 0.827107 | 1.877796e-54 | -8.615850e-47 |
| Msa0670260 | Msa0985700 | 0.826584 | 2.504272e-54 | -8.615850e-47 |
| Msa0670260 | Msa1020540 | 0.813040 | 3.129794e-51 | -8.615850e-47 |
| Msa0670260 | Msa1061670 | 0.831573 | 1.545943e-55 | -8.615850e-47 |
| Msa0670260 | Msa1081610 | 0.809976 | 1.449942e-50 | -8.615850e-47 |
| Msa0670260 | Msa1106960 | 0.818334 | 2.069643e-52 | -8.615850e-47 |
| Msa0670260 | Msa1109880 | 0.825170 | 5.424329e-54 | -8.615850e-47 |
| Msa0670260 | Msa1109890 | 0.825511 | 4.505564e-54 | -8.615850e-47 |
| Msa0670260 | Msa1166530 | 0.800986 | 1.113954e-48 | -8.615850e-47 |
| Msa0670260 | Msa1286420 | 0.808942 | 2.417023e-50 | -8.615850e-47 |
| Msa0670260 | Msa1323030 | 0.807458 | 5.005219e-50 | -8.615850e-47 |
| Msa0670260 | Msa1357490 | 0.802974 | 4.347926e-49 | -8.615850e-47 |
| Msa0670260 | Msa1357750 | 0.811808 | 5.817283e-51 | -8.615850e-47 |
| Msa0143680 | Msa0670260 | 0.801098 | 1.056763e-48 | -8.615850e-47 |
| Msa0143710 | Msa0670260 | 0.812237 | 4.689836e-51 | -8.615850e-47 |
| Msa0143740 | Msa0670260 | 0.825793 | 3.861915e-54 | -8.615850e-47 |
| Msa0143770 | Msa0670260 | 0.827878 | 1.226279e-54 | -8.615850e-47 |
| Msa0259110 | Msa0670260 | 0.830964 | 2.183309e-55 | -8.615850e-47 |
| Msa0259300 | Msa0670260 | 0.808422 | 3.121826e-50 | -8.615850e-47 |
| Msa0274260 | Msa0670260 | 0.800498 | 1.401426e-48 | -8.615850e-47 |
| Msa0278950 | Msa0670260 | 0.805678 | 1.188599e-49 | -8.615850e-47 |
| Msa0342130 | Msa0670260 | 0.825156 | 5.465923e-54 | -8.615850e-47 |
| Msa0342160 | Msa0670260 | 0.813898 | 2.027391e-51 | -8.615850e-47 |
| Msa0343720 | Msa0670260 | 0.814110 | 1.820451e-51 | -8.615850e-47 |
| Msa0549920 | Msa0670260 | 0.805897 | 1.069246e-49 | -8.615850e-47 |
| Msa0549930 | Msa0670260 | 0.843958 | 1.016931e-58 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0670260 | MtrunA17_Chr4g0034631 | 98.675 | 151 | 2 | 0 | 1 | 151 | 281 | 431 | 1.08e-109 | 318 |
| Msa0670260 | MtrunA17_Chr4g0034641 | 90.728 | 151 | 14 | 0 | 1 | 151 | 283 | 433 | 4.04e-100 | 294 |
| Msa0670260 | MtrunA17_Chr4g0034651 | 88.079 | 151 | 18 | 0 | 1 | 151 | 312 | 462 | 2.44e-96 | 285 |
| Msa0670260 | MtrunA17_Chr4g0034661 | 88.000 | 150 | 18 | 0 | 1 | 150 | 272 | 421 | 3.74e-94 | 278 |
| Msa0670260 | MtrunA17_Chr4g0034621 | 87.248 | 149 | 19 | 0 | 1 | 149 | 288 | 436 | 1.01e-93 | 278 |
| Msa0670260 | MtrunA17_Chr4g0034611 | 83.893 | 149 | 24 | 0 | 1 | 149 | 287 | 435 | 1.62e-90 | 270 |
| Msa0670260 | MtrunA17_Chr1g0154701 | 79.054 | 148 | 31 | 0 | 2 | 149 | 280 | 427 | 2.66e-83 | 251 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0670260 | AT1G75110.1 | 72.297 | 148 | 41 | 0 | 2 | 149 | 280 | 427 | 3.77e-77 | 235 |
| Msa0670260 | AT1G19360.1 | 71.812 | 149 | 41 | 1 | 2 | 149 | 279 | 427 | 1.11e-74 | 229 |
| Msa0670260 | AT1G19360.2 | 71.812 | 149 | 41 | 1 | 2 | 149 | 279 | 427 | 1.11e-74 | 229 |
| Msa0670260 | AT1G75120.1 | 70.946 | 148 | 43 | 0 | 2 | 149 | 255 | 402 | 1.73e-73 | 225 |
Find 40 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTCCTTCAATTGAGCTTT+TGG | 0.209327 | 4_4:+12614953 | Msa0670260:CDS |
| CATAATAACATGACAGCTTA+TGG | 0.285401 | 4_4:+12614828 | None:intergenic |
| GTTGTTGAATATTATGTTAA+TGG | 0.296088 | 4_4:+12615224 | Msa0670260:CDS |
| TCATGCTGCTAAAAGAACTA+TGG | 0.353213 | 4_4:+12615073 | Msa0670260:CDS |
| TTGTTGAATATTATGTTAAT+GGG | 0.359540 | 4_4:+12615225 | Msa0670260:CDS |
| TAATTCACGTGAATAATTAC+CGG | 0.389710 | 4_4:-12615170 | None:intergenic |
| CGAGGTGTGCCATCGGGAAA+TGG | 0.401340 | 4_4:-12615266 | None:intergenic |
| AGCTCAATTGAAGGAATGGT+TGG | 0.470800 | 4_4:-12614948 | None:intergenic |
| AAAGAGTTCCTCGTTGAAAA+CGG | 0.480750 | 4_4:-12615021 | None:intergenic |
| TCAACAACTGCTTTCATTCG+CGG | 0.485251 | 4_4:-12615209 | None:intergenic |
| GACTTTCGAAGGGGAATGCA+TGG | 0.506305 | 4_4:+12614991 | Msa0670260:CDS |
| CAAAAGCTCAATTGAAGGAA+TGG | 0.508580 | 4_4:-12614952 | None:intergenic |
| GGTTATCGAGGTGTGCCATC+GGG | 0.509771 | 4_4:-12615272 | None:intergenic |
| TAACCTCAGTAAATTGAAAC+CGG | 0.514324 | 4_4:+12615151 | Msa0670260:CDS |
| CCATCACATCCTGGTTATGA+CGG | 0.520532 | 4_4:+12615047 | Msa0670260:CDS |
| CGGTCCAAAAGCTCAATTGA+AGG | 0.530180 | 4_4:-12614957 | None:intergenic |
| GCATGAAGCCCGTCATAACC+AGG | 0.559070 | 4_4:-12615056 | None:intergenic |
| CATCACATCCTGGTTATGAC+GGG | 0.559997 | 4_4:+12615048 | Msa0670260:CDS |
| TCAAAGACCATGGGATGGGT+TGG | 0.564496 | 4_4:+12614865 | Msa0670260:CDS |
| TGTGGCAGCACGACTTTCGA+AGG | 0.565368 | 4_4:+12614980 | Msa0670260:CDS |
| AGGTTATCGAGGTGTGCCAT+CGG | 0.565382 | 4_4:-12615273 | None:intergenic |
| GAAATGGTTTGAGAGCATCT+TGG | 0.566472 | 4_4:-12615250 | None:intergenic |
| GTCTTCAAAGACCATGGGAT+GGG | 0.567731 | 4_4:+12614861 | Msa0670260:CDS |
| TCGAAAGTCGTGCTGCCACA+CGG | 0.575082 | 4_4:-12614977 | None:intergenic |
| GTTCCTCGTTGAAAACGGCT+TGG | 0.577634 | 4_4:-12615016 | None:intergenic |
| AACGATGTCTTCAAAGACCA+TGG | 0.583875 | 4_4:+12614855 | Msa0670260:CDS |
| GTGGCAGCACGACTTTCGAA+GGG | 0.594024 | 4_4:+12614981 | Msa0670260:CDS |
| CCGTCATAACCAGGATGTGA+TGG | 0.606127 | 4_4:-12615047 | None:intergenic |
| TCATTCGCGGAAGCTTATCA+CGG | 0.615337 | 4_4:-12615196 | None:intergenic |
| TGTCTTCAAAGACCATGGGA+TGG | 0.621538 | 4_4:+12614860 | Msa0670260:CDS |
| TAGTAGACCAACCCATCCCA+TGG | 0.627281 | 4_4:-12614872 | None:intergenic |
| ACGATGTCTTCAAAGACCAT+GGG | 0.646143 | 4_4:+12614856 | Msa0670260:CDS |
| ACATAGAAACAAGGTTATCG+AGG | 0.646977 | 4_4:-12615284 | None:intergenic |
| ACTTTCGAAGGGGAATGCAT+GGG | 0.655092 | 4_4:+12614992 | Msa0670260:CDS |
| TTACCGGTTTCAATTTACTG+AGG | 0.667376 | 4_4:-12615154 | None:intergenic |
| GCTCTCAAACCATTTCCCGA+TGG | 0.676608 | 4_4:+12615257 | Msa0670260:CDS |
| CTACTAACGTTTATACCACG+AGG | 0.687704 | 4_4:+12614889 | Msa0670260:CDS |
| TGGCAGCACGACTTTCGAAG+GGG | 0.696691 | 4_4:+12614982 | Msa0670260:CDS |
| ATTGAAAACAAATATCCTCG+TGG | 0.698093 | 4_4:-12614904 | None:intergenic |
| TTCGCGGAAGCTTATCACGG+TGG | 0.727930 | 4_4:-12615193 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGTTGAATATTATGTTAAT+GGG | + | chr4_4:12615225-12615244 | Msa0670260:CDS | 15.0% |
| !! | GTTGTTGAATATTATGTTAA+TGG | + | chr4_4:12615224-12615243 | Msa0670260:CDS | 20.0% |
| !!! | AGGATATTTGTTTTCAATTC+TGG | + | chr4_4:12614909-12614928 | Msa0670260:CDS | 25.0% |
| ! | TAATTCACGTGAATAATTAC+CGG | - | chr4_4:12615173-12615192 | None:intergenic | 25.0% |
| ATTGAAAACAAATATCCTCG+TGG | - | chr4_4:12614907-12614926 | None:intergenic | 30.0% | |
| TAACCTCAGTAAATTGAAAC+CGG | + | chr4_4:12615151-12615170 | Msa0670260:CDS | 30.0% | |
| CAAAAGCTCAATTGAAGGAA+TGG | - | chr4_4:12614955-12614974 | None:intergenic | 35.0% | |
| ! | CATTCCTTCAATTGAGCTTT+TGG | + | chr4_4:12614953-12614972 | Msa0670260:CDS | 35.0% |
| AAAGAGTTCCTCGTTGAAAA+CGG | - | chr4_4:12615024-12615043 | None:intergenic | 35.0% | |
| TCATGCTGCTAAAAGAACTA+TGG | + | chr4_4:12615073-12615092 | Msa0670260:CDS | 35.0% | |
| !! | TTACCGGTTTCAATTTACTG+AGG | - | chr4_4:12615157-12615176 | None:intergenic | 35.0% |
| AACGATGTCTTCAAAGACCA+TGG | + | chr4_4:12614855-12614874 | Msa0670260:CDS | 40.0% | |
| ACGATGTCTTCAAAGACCAT+GGG | + | chr4_4:12614856-12614875 | Msa0670260:CDS | 40.0% | |
| CTACTAACGTTTATACCACG+AGG | + | chr4_4:12614889-12614908 | Msa0670260:CDS | 40.0% | |
| AGCTCAATTGAAGGAATGGT+TGG | - | chr4_4:12614951-12614970 | None:intergenic | 40.0% | |
| ! | CTCTTTTATCCATCACATCC+TGG | + | chr4_4:12615038-12615057 | Msa0670260:CDS | 40.0% |
| ! | TGAACAGCAGAGTTCTTTTC+AGG | + | chr4_4:12615111-12615130 | Msa0670260:CDS | 40.0% |
| TCAACAACTGCTTTCATTCG+CGG | - | chr4_4:12615212-12615231 | None:intergenic | 40.0% | |
| !! | GAAATGGTTTGAGAGCATCT+TGG | - | chr4_4:12615253-12615272 | None:intergenic | 40.0% |
| TGTCTTCAAAGACCATGGGA+TGG | + | chr4_4:12614860-12614879 | Msa0670260:CDS | 45.0% | |
| GTCTTCAAAGACCATGGGAT+GGG | + | chr4_4:12614861-12614880 | Msa0670260:CDS | 45.0% | |
| CGGTCCAAAAGCTCAATTGA+AGG | - | chr4_4:12614960-12614979 | None:intergenic | 45.0% | |
| ! | AATTGAGCTTTTGGACCGTG+TGG | + | chr4_4:12614962-12614981 | Msa0670260:CDS | 45.0% |
| ACTTTCGAAGGGGAATGCAT+GGG | + | chr4_4:12614992-12615011 | Msa0670260:CDS | 45.0% | |
| CCATCACATCCTGGTTATGA+CGG | + | chr4_4:12615047-12615066 | Msa0670260:CDS | 45.0% | |
| CATCACATCCTGGTTATGAC+GGG | + | chr4_4:12615048-12615067 | Msa0670260:CDS | 45.0% | |
| !! | GAGTTCTTTTCAGGACAGTG+AGG | + | chr4_4:12615120-12615139 | Msa0670260:CDS | 45.0% |
| TCATTCGCGGAAGCTTATCA+CGG | - | chr4_4:12615199-12615218 | None:intergenic | 45.0% | |
| TCAAAGACCATGGGATGGGT+TGG | + | chr4_4:12614865-12614884 | Msa0670260:CDS | 50.0% | |
| TAGTAGACCAACCCATCCCA+TGG | - | chr4_4:12614875-12614894 | None:intergenic | 50.0% | |
| GACTTTCGAAGGGGAATGCA+TGG | + | chr4_4:12614991-12615010 | Msa0670260:CDS | 50.0% | |
| GTTCCTCGTTGAAAACGGCT+TGG | - | chr4_4:12615019-12615038 | None:intergenic | 50.0% | |
| CCGTCATAACCAGGATGTGA+TGG | - | chr4_4:12615050-12615069 | None:intergenic | 50.0% | |
| GCTCTCAAACCATTTCCCGA+TGG | + | chr4_4:12615257-12615276 | Msa0670260:CDS | 50.0% | |
| TCGAAAGTCGTGCTGCCACA+CGG | - | chr4_4:12614980-12614999 | None:intergenic | 55.0% | |
| TGTGGCAGCACGACTTTCGA+AGG | + | chr4_4:12614980-12614999 | Msa0670260:CDS | 55.0% | |
| GTGGCAGCACGACTTTCGAA+GGG | + | chr4_4:12614981-12615000 | Msa0670260:CDS | 55.0% | |
| TGGCAGCACGACTTTCGAAG+GGG | + | chr4_4:12614982-12615001 | Msa0670260:CDS | 55.0% | |
| !! | GGACCAAGCCGTTTTCAACG+AGG | + | chr4_4:12615013-12615032 | Msa0670260:CDS | 55.0% |
| GCATGAAGCCCGTCATAACC+AGG | - | chr4_4:12615059-12615078 | None:intergenic | 55.0% | |
| TTCGCGGAAGCTTATCACGG+TGG | - | chr4_4:12615196-12615215 | None:intergenic | 55.0% | |
| CGAGGTGTGCCATCGGGAAA+TGG | - | chr4_4:12615269-12615288 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 12614837 | 12615292 | 12614837 | ID=Msa0670260;Name=Msa0670260 |
| chr4_4 | mRNA | 12614837 | 12615292 | 12614837 | ID=Msa0670260-mRNA-1;Parent=Msa0670260;Name=Msa0670260-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|151 |
| chr4_4 | exon | 12614837 | 12615292 | 12614837 | ID=Msa0670260-mRNA-1:exon:3802;Parent=Msa0670260-mRNA-1 |
| chr4_4 | CDS | 12614837 | 12615292 | 12614837 | ID=Msa0670260-mRNA-1:cds;Parent=Msa0670260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
