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.gene93505.t1 | XP_003599003.2 | 92 | 138 | 11 | 0 | 47 | 184 | 82 | 219 | 1.60E-69 | 272.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93505.t1 | Q94F39 | 52.3 | 107 | 39 | 2 | 79 | 184 | 135 | 230 | 2.3e-24 | 113.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93505.t1 | G7IZB8 | 92.0 | 138 | 11 | 0 | 47 | 184 | 82 | 219 | 1.2e-69 | 272.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049260 | MS.gene93505 | 0.81475 | 1.31E-51 | -1.69E-46 |
| MS.gene057690 | MS.gene93505 | 0.818863 | 1.57E-52 | -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.gene93505.t1 | MTR_3g025970 | 92.029 | 138 | 11 | 0 | 47 | 184 | 82 | 219 | 1.99e-92 | 268 |
| MS.gene93505.t1 | MTR_7g013820 | 67.606 | 71 | 22 | 1 | 110 | 179 | 287 | 357 | 8.20e-27 | 104 |
| MS.gene93505.t1 | MTR_5g045370 | 64.706 | 68 | 23 | 1 | 115 | 181 | 324 | 391 | 3.50e-23 | 95.9 |
| MS.gene93505.t1 | MTR_8g012620 | 56.338 | 71 | 30 | 1 | 115 | 184 | 225 | 295 | 2.53e-21 | 89.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93505.t1 | AT3G29575 | 52.336 | 107 | 39 | 2 | 79 | 184 | 135 | 230 | 5.76e-30 | 110 |
| MS.gene93505.t1 | AT3G29575 | 52.336 | 107 | 39 | 2 | 79 | 184 | 135 | 230 | 5.76e-30 | 110 |
| MS.gene93505.t1 | AT3G29575 | 52.336 | 107 | 39 | 2 | 79 | 184 | 135 | 230 | 5.76e-30 | 110 |
| MS.gene93505.t1 | AT3G07255 | 54.412 | 68 | 31 | 0 | 117 | 184 | 226 | 293 | 7.21e-24 | 95.5 |
| MS.gene93505.t1 | AT1G13740 | 51.546 | 97 | 42 | 3 | 88 | 179 | 245 | 341 | 7.49e-23 | 93.6 |
| MS.gene93505.t1 | AT1G69260 | 62.500 | 64 | 23 | 1 | 117 | 179 | 273 | 336 | 6.12e-22 | 91.3 |
| MS.gene93505.t1 | AT3G02140 | 52.632 | 76 | 26 | 2 | 114 | 179 | 237 | 312 | 7.02e-17 | 77.0 |
| MS.gene93505.t1 | AT4G28910 | 52.083 | 48 | 23 | 0 | 118 | 165 | 358 | 405 | 8.98e-13 | 65.9 |
| MS.gene93505.t1 | AT4G28910 | 52.083 | 48 | 23 | 0 | 118 | 165 | 358 | 405 | 8.98e-13 | 65.9 |
| MS.gene93505.t1 | AT4G28910 | 52.083 | 48 | 23 | 0 | 118 | 165 | 358 | 405 | 8.98e-13 | 65.9 |
Find 44 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCCGACTATTGTAGTCTTAA+AGG | 0.159724 | 3.4:-18209376 | MS.gene93505:CDS |
| CTTGGTTGATATCTGAAATT+TGG | 0.160083 | 3.4:+18209507 | None:intergenic |
| CCTTCTATTCGCTTCCCATT+TGG | 0.252102 | 3.4:+18209298 | None:intergenic |
| CTTCTATTCGCTTCCCATTT+GGG | 0.304576 | 3.4:+18209299 | None:intergenic |
| AGACATATGGCTACGAGTTT+AGG | 0.315815 | 3.4:-18210040 | MS.gene93505:CDS |
| ATATCAACCAAGCATGAAAA+TGG | 0.354593 | 3.4:-18209496 | MS.gene93505:CDS |
| CCAAATGGGAAGCGAATAGA+AGG | 0.361905 | 3.4:-18209298 | MS.gene93505:CDS |
| AAAACAGTGATATGCTTCAT+TGG | 0.397580 | 3.4:+18209163 | None:intergenic |
| ACGACTGGAGATGGCCCAAA+TGG | 0.442097 | 3.4:-18209313 | MS.gene93505:CDS |
| AGTGGAATTTCCTTGCCTAC+TGG | 0.445192 | 3.4:+18209454 | None:intergenic |
| GCATGCATCACAAACTCCTT+TGG | 0.454512 | 3.4:+18209208 | None:intergenic |
| CTGAGTTATCAAAAGACATA+TGG | 0.457040 | 3.4:-18210053 | MS.gene93505:CDS |
| ACTCCTTCAGATGAATATCT+TGG | 0.463375 | 3.4:+18209538 | None:intergenic |
| CCTTTAAGACTACAATAGTC+GGG | 0.484073 | 3.4:+18209376 | None:intergenic |
| GGCTACGAGTTTAGGAGCAA+TGG | 0.496367 | 3.4:-18210032 | MS.gene93505:CDS |
| CAAGCATGAAAATGGTTCAA+TGG | 0.498361 | 3.4:-18209488 | MS.gene93505:CDS |
| TTAGCAAACTTAGGTGGAAG+TGG | 0.503620 | 3.4:+18209436 | None:intergenic |
| TGTTTAGTATTAGCAAACTT+AGG | 0.505715 | 3.4:+18209427 | None:intergenic |
| GTCGATCTCTAAAATGAGAC+TGG | 0.510276 | 3.4:+18209139 | None:intergenic |
| AAGGGTTTCTGTACAAGTAT+AGG | 0.514024 | 3.4:-18209279 | MS.gene93505:CDS |
| ACCTTTAAGACTACAATAGT+CGG | 0.514274 | 3.4:+18209375 | None:intergenic |
| TTTCTGTACAAGTATAGGTC+TGG | 0.514901 | 3.4:-18209274 | MS.gene93505:CDS |
| TCTCCAGTCGTTGTAACGCT+TGG | 0.516896 | 3.4:+18209325 | None:intergenic |
| ATGCCAAGCGTTACAACGAC+TGG | 0.521031 | 3.4:-18209328 | MS.gene93505:CDS |
| CGACTGGAGATGGCCCAAAT+GGG | 0.526168 | 3.4:-18209312 | MS.gene93505:CDS |
| GCTACGAGTTTAGGAGCAAT+GGG | 0.532407 | 3.4:-18210031 | MS.gene93505:CDS |
| ACAGACAGTACCGACAGGTT+CGG | 0.545794 | 3.4:+18209944 | None:intergenic |
| AGCGTTACAACGACTGGAGA+TGG | 0.557678 | 3.4:-18209322 | MS.gene93505:CDS |
| GGTCCAAGATATTCATCTGA+AGG | 0.575615 | 3.4:-18209541 | MS.gene93505:CDS |
| AAGGAGTTTGTGATGCATGC+TGG | 0.584880 | 3.4:-18209205 | MS.gene93505:CDS |
| TTTCAAGAAACCAGTAGGCA+AGG | 0.595224 | 3.4:-18209464 | MS.gene93505:CDS |
| TAGTCTTAAAGGTGATGTGA+TGG | 0.597362 | 3.4:-18209365 | MS.gene93505:CDS |
| ATGGCTTTCAAGAAACCAGT+AGG | 0.605558 | 3.4:-18209469 | MS.gene93505:CDS |
| TGGTAGTTTCCTCACTCCAA+AGG | 0.606493 | 3.4:-18209224 | MS.gene93505:CDS |
| TTAGTATTAGCAAACTTAGG+TGG | 0.607623 | 3.4:+18209430 | None:intergenic |
| GCATGCTGGTGGAAAGGAAG+TGG | 0.616381 | 3.4:-18209191 | MS.gene93505:CDS |
| TGTATTGTATGTGTCTGCCA+TGG | 0.617683 | 3.4:-18209244 | MS.gene93505:CDS |
| TGTGATGCATGCTGGTGGAA+AGG | 0.617870 | 3.4:-18209197 | MS.gene93505:CDS |
| ATTGGTTAACACTCATAACA+TGG | 0.620402 | 3.4:+18209982 | None:intergenic |
| TCACAAACTCCTTTGGAGTG+AGG | 0.626847 | 3.4:+18209215 | None:intergenic |
| GAGTTTGTGATGCATGCTGG+TGG | 0.651077 | 3.4:-18209202 | MS.gene93505:CDS |
| CTTTAAGACTACAATAGTCG+GGG | 0.667470 | 3.4:+18209377 | None:intergenic |
| TTGGAGTGAGGAAACTACCA+TGG | 0.693233 | 3.4:+18209227 | None:intergenic |
| CAAATGGGAAGCGAATAGAA+GGG | 0.736924 | 3.4:-18209297 | MS.gene93505:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCTTCTATTTATTTTTCATA+TGG | - | chr3.4:18209439-18209458 | MS.gene93505:CDS | 15.0% |
| !! | AATCAAGTTTAACTATATTG+CGG | + | chr3.4:18209327-18209346 | None:intergenic | 20.0% |
| !! | AATTTCAATTAGTTCAATCA+CGG | + | chr3.4:18209470-18209489 | None:intergenic | 20.0% |
| !! | ATTGAAATTATTGAATCATC+TGG | - | chr3.4:18209481-18209500 | MS.gene93505:CDS | 20.0% |
| !! | TTAATCAAGAAAAATGTTAC+CGG | + | chr3.4:18209527-18209546 | None:intergenic | 20.0% |
| ! | AAAAAACAGAACAAATTTGG+AGG | - | chr3.4:18209210-18209229 | MS.gene93505:CDS | 25.0% |
| ! | AAACAGCTAAGAAATTTGAA+AGG | + | chr3.4:18209582-18209601 | None:intergenic | 25.0% |
| ! | AATTAGGATGAAAAGAAGTT+AGG | + | chr3.4:18209630-18209649 | None:intergenic | 25.0% |
| ! | TGTTTAGTATTAGCAAACTT+AGG | + | chr3.4:18209794-18209813 | None:intergenic | 25.0% |
| ! | TTAACCAATGTTGTAAAAAC+AGG | - | chr3.4:18209250-18209269 | MS.gene93505:CDS | 25.0% |
| AAAACAGTGATATGCTTCAT+TGG | + | chr3.4:18210058-18210077 | None:intergenic | 30.0% | |
| ATATCAACCAAGCATGAAAA+TGG | - | chr3.4:18209722-18209741 | MS.gene93505:intron | 30.0% | |
| ATTGGTTAACACTCATAACA+TGG | + | chr3.4:18209239-18209258 | None:intergenic | 30.0% | |
| CTGAGTTATCAAAAGACATA+TGG | - | chr3.4:18209165-18209184 | MS.gene93505:CDS | 30.0% | |
| GAAATTATTGAATCATCTGG+AGG | - | chr3.4:18209484-18209503 | MS.gene93505:CDS | 30.0% | |
| GGGAAAAAACAGAACAAATT+TGG | - | chr3.4:18209207-18209226 | MS.gene93505:CDS | 30.0% | |
| TAGTTAAACTTGATTGAACC+AGG | - | chr3.4:18209332-18209351 | MS.gene93505:CDS | 30.0% | |
| TTAGTATTAGCAAACTTAGG+TGG | + | chr3.4:18209791-18209810 | None:intergenic | 30.0% | |
| TTCACATGTGACACATATAT+AGG | - | chr3.4:18209656-18209675 | MS.gene93505:intron | 30.0% | |
| ! | CTTGGTTGATATCTGAAATT+TGG | + | chr3.4:18209714-18209733 | None:intergenic | 30.0% |
| !! | ACCTTTAAGACTACAATAGT+CGG | + | chr3.4:18209846-18209865 | None:intergenic | 30.0% |
| AACTATATTGCGGTACAACT+GGG | + | chr3.4:18209317-18209336 | None:intergenic | 35.0% | |
| AAGGGTTTCTGTACAAGTAT+AGG | - | chr3.4:18209939-18209958 | MS.gene93505:intron | 35.0% | |
| ACTCCTTCAGATGAATATCT+TGG | + | chr3.4:18209683-18209702 | None:intergenic | 35.0% | |
| CAAGCATGAAAATGGTTCAA+TGG | - | chr3.4:18209730-18209749 | MS.gene93505:intron | 35.0% | |
| CACATGTGAATGCATCAATT+AGG | + | chr3.4:18209646-18209665 | None:intergenic | 35.0% | |
| TAACTATATTGCGGTACAAC+TGG | + | chr3.4:18209318-18209337 | None:intergenic | 35.0% | |
| TTTCTGTACAAGTATAGGTC+TGG | - | chr3.4:18209944-18209963 | MS.gene93505:intron | 35.0% | |
| ! | CATTGAACCATTTTCATGCT+TGG | + | chr3.4:18209732-18209751 | None:intergenic | 35.0% |
| ! | TAGTCTTAAAGGTGATGTGA+TGG | - | chr3.4:18209853-18209872 | MS.gene93505:intron | 35.0% |
| !! | CCTTTAAGACTACAATAGTC+GGG | + | chr3.4:18209845-18209864 | None:intergenic | 35.0% |
| !! | CTTTAAGACTACAATAGTCG+GGG | + | chr3.4:18209844-18209863 | None:intergenic | 35.0% |
| !! | TTTGAAAGGCGTCTCAAAAT+CGG | + | chr3.4:18209568-18209587 | None:intergenic | 35.0% |
| AGACATATGGCTACGAGTTT+AGG | - | chr3.4:18209178-18209197 | MS.gene93505:CDS | 40.0% | |
| ATGGCTTTCAAGAAACCAGT+AGG | - | chr3.4:18209749-18209768 | MS.gene93505:intron | 40.0% | |
| CAAATGGGAAGCGAATAGAA+GGG | - | chr3.4:18209921-18209940 | MS.gene93505:intron | 40.0% | |
| CTTCTATTCGCTTCCCATTT+GGG | + | chr3.4:18209922-18209941 | None:intergenic | 40.0% | |
| GGTCCAAGATATTCATCTGA+AGG | - | chr3.4:18209677-18209696 | MS.gene93505:intron | 40.0% | |
| TGTATTGTATGTGTCTGCCA+TGG | - | chr3.4:18209974-18209993 | MS.gene93505:CDS | 40.0% | |
| TTAGCAAACTTAGGTGGAAG+TGG | + | chr3.4:18209785-18209804 | None:intergenic | 40.0% | |
| TTTCAAGAAACCAGTAGGCA+AGG | - | chr3.4:18209754-18209773 | MS.gene93505:intron | 40.0% | |
| ! | CCCGACTATTGTAGTCTTAA+AGG | - | chr3.4:18209842-18209861 | MS.gene93505:intron | 40.0% |
| !!! | CGGTCCTGTTTTTACAACAT+TGG | + | chr3.4:18209257-18209276 | None:intergenic | 40.0% |
| AAAAACAGGACCGAACCTGT+CGG | - | chr3.4:18209264-18209283 | MS.gene93505:CDS | 45.0% | |
| AAGGAGTTTGTGATGCATGC+TGG | - | chr3.4:18210013-18210032 | MS.gene93505:CDS | 45.0% | |
| AGTGGAATTTCCTTGCCTAC+TGG | + | chr3.4:18209767-18209786 | None:intergenic | 45.0% | |
| CCAAATGGGAAGCGAATAGA+AGG | - | chr3.4:18209920-18209939 | MS.gene93505:intron | 45.0% | |
| CCTTCTATTCGCTTCCCATT+TGG | + | chr3.4:18209923-18209942 | None:intergenic | 45.0% | |
| GAACCAGGTTAAACTGCAAC+TGG | - | chr3.4:18209347-18209366 | MS.gene93505:CDS | 45.0% | |
| GCATGCATCACAAACTCCTT+TGG | + | chr3.4:18210013-18210032 | None:intergenic | 45.0% | |
| GCTACGAGTTTAGGAGCAAT+GGG | - | chr3.4:18209187-18209206 | MS.gene93505:CDS | 45.0% | |
| TGGTAGTTTCCTCACTCCAA+AGG | - | chr3.4:18209994-18210013 | MS.gene93505:CDS | 45.0% | |
| TTACCGGAGATCGATACAGT+AGG | + | chr3.4:18209511-18209530 | None:intergenic | 45.0% | |
| TTGGAGTGAGGAAACTACCA+TGG | + | chr3.4:18209994-18210013 | None:intergenic | 45.0% | |
| !! | TCACAAACTCCTTTGGAGTG+AGG | + | chr3.4:18210006-18210025 | None:intergenic | 45.0% |
| AGCGTTACAACGACTGGAGA+TGG | - | chr3.4:18209896-18209915 | MS.gene93505:intron | 50.0% | |
| ATGCCAAGCGTTACAACGAC+TGG | - | chr3.4:18209890-18209909 | MS.gene93505:intron | 50.0% | |
| CTGCCAGTTGCAGTTTAACC+TGG | + | chr3.4:18209353-18209372 | None:intergenic | 50.0% | |
| GAGTTTGTGATGCATGCTGG+TGG | - | chr3.4:18210016-18210035 | MS.gene93505:CDS | 50.0% | |
| GGCTACGAGTTTAGGAGCAA+TGG | - | chr3.4:18209186-18209205 | MS.gene93505:CDS | 50.0% | |
| TCTCCAGTCGTTGTAACGCT+TGG | + | chr3.4:18209896-18209915 | None:intergenic | 50.0% | |
| TGTCGGTACTGTCTGTTTGC+TGG | - | chr3.4:18209281-18209300 | MS.gene93505:CDS | 50.0% | |
| TGTGATGCATGCTGGTGGAA+AGG | - | chr3.4:18210021-18210040 | MS.gene93505:CDS | 50.0% | |
| ! | GGTACTGTCTGTTTGCTGGT+TGG | - | chr3.4:18209285-18209304 | MS.gene93505:CDS | 50.0% |
| ! | GGTCCTACTGTATCGATCTC+CGG | - | chr3.4:18209505-18209524 | MS.gene93505:CDS | 50.0% |
| !! | ACAGACAGTACCGACAGGTT+CGG | + | chr3.4:18209277-18209296 | None:intergenic | 50.0% |
| !! | AGCAAACAGACAGTACCGAC+AGG | + | chr3.4:18209282-18209301 | None:intergenic | 50.0% |
| ACGACTGGAGATGGCCCAAA+TGG | - | chr3.4:18209905-18209924 | MS.gene93505:intron | 55.0% | |
| CGACTGGAGATGGCCCAAAT+GGG | - | chr3.4:18209906-18209925 | MS.gene93505:intron | 55.0% | |
| GCATGCTGGTGGAAAGGAAG+TGG | - | chr3.4:18210027-18210046 | MS.gene93505:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 18209147 | 18210093 | 18209147 | ID=MS.gene93505 |
| chr3.4 | mRNA | 18209147 | 18210093 | 18209147 | ID=MS.gene93505.t1;Parent=MS.gene93505 |
| chr3.4 | exon | 18209955 | 18210093 | 18209955 | ID=MS.gene93505.t1.exon1;Parent=MS.gene93505.t1 |
| chr3.4 | CDS | 18209955 | 18210093 | 18209955 | ID=cds.MS.gene93505.t1;Parent=MS.gene93505.t1 |
| chr3.4 | exon | 18209147 | 18209562 | 18209147 | ID=MS.gene93505.t1.exon2;Parent=MS.gene93505.t1 |
| chr3.4 | CDS | 18209147 | 18209562 | 18209147 | ID=cds.MS.gene93505.t1;Parent=MS.gene93505.t1 |
| Gene Sequence |
| Protein sequence |
