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.gene68575.t1 | RHN67353.1 | 95.8 | 336 | 6 | 2 | 1 | 328 | 58 | 393 | 9.10E-164 | 586.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene68575.t1 | Q39218 | 66.4 | 333 | 104 | 2 | 4 | 328 | 59 | 391 | 3.8e-110 | 399.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene68575.t1 | A0A072UX64 | 95.8 | 336 | 6 | 2 | 1 | 328 | 1 | 336 | 6.5e-164 | 586.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049150 | MS.gene68575 | 0.808392 | 3.17E-50 | -1.69E-46 |
| MS.gene049153 | MS.gene68575 | 0.804954 | 1.69E-49 | -1.69E-46 |
| MS.gene050680 | MS.gene68575 | 0.81362 | 2.33E-51 | -1.69E-46 |
| MS.gene050900 | MS.gene68575 | 0.81508 | 1.11E-51 | -1.69E-46 |
| MS.gene053494 | MS.gene68575 | 0.847047 | 1.48E-59 | -1.69E-46 |
| MS.gene05553 | MS.gene68575 | 0.818054 | 2.39E-52 | -1.69E-46 |
| MS.gene055701 | MS.gene68575 | 0.83811 | 3.49E-57 | -1.69E-46 |
| MS.gene057396 | MS.gene68575 | 0.813404 | 2.60E-51 | -1.69E-46 |
| MS.gene061159 | MS.gene68575 | 0.806637 | 7.47E-50 | -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.gene68575.t1 | MTR_3g058410 | 95.833 | 336 | 6 | 2 | 1 | 328 | 1 | 336 | 0.0 | 653 |
| MS.gene68575.t1 | MTR_5g095470 | 71.987 | 307 | 84 | 1 | 22 | 328 | 17 | 321 | 5.47e-161 | 452 |
| MS.gene68575.t1 | MTR_8g028040 | 67.897 | 271 | 87 | 0 | 58 | 328 | 28 | 298 | 3.08e-135 | 386 |
| MS.gene68575.t1 | MTR_5g023760 | 54.118 | 255 | 112 | 1 | 62 | 316 | 55 | 304 | 8.54e-97 | 289 |
| MS.gene68575.t1 | MTR_5g023760 | 54.118 | 255 | 112 | 1 | 62 | 316 | 55 | 304 | 9.35e-97 | 290 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene68575.t1 | AT3G13110 | 66.667 | 336 | 104 | 2 | 1 | 328 | 56 | 391 | 2.02e-164 | 464 |
| MS.gene68575.t1 | AT1G55920 | 67.477 | 329 | 91 | 5 | 1 | 328 | 1 | 314 | 4.33e-156 | 439 |
| MS.gene68575.t1 | AT5G56760 | 66.418 | 268 | 89 | 1 | 62 | 328 | 45 | 312 | 2.17e-128 | 369 |
| MS.gene68575.t1 | AT4G35640 | 59.608 | 255 | 98 | 1 | 62 | 316 | 73 | 322 | 1.12e-97 | 293 |
| MS.gene68575.t1 | AT2G17640 | 56.078 | 255 | 107 | 1 | 62 | 316 | 36 | 285 | 1.64e-92 | 278 |
Find 55 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGCACTCTTGATTCAAAAT+AGG | 0.224483 | 3.4:-54928442 | MS.gene68575:CDS |
| ATAGGGTAGCTCACAAATTA+TGG | 0.311106 | 3.4:-54928484 | MS.gene68575:CDS |
| TAAGATTCCTAGCTTTACTA+TGG | 0.312301 | 3.4:-54928063 | MS.gene68575:CDS |
| AGCACTCTTGATTCAAAATA+GGG | 0.312531 | 3.4:-54928441 | MS.gene68575:CDS |
| TATTCATGAAAAGATCAAAA+AGG | 0.323626 | 3.4:+54928639 | None:intergenic |
| TGCTGGTTCTGTTGTGTTGA+AGG | 0.345531 | 3.4:-54928162 | MS.gene68575:CDS |
| AAATAATAGCTAGATAAAAT+TGG | 0.349783 | 3.4:+54928752 | None:intergenic |
| AAAACACCATCACCAATCTT+AGG | 0.354890 | 3.4:+54928245 | None:intergenic |
| TTTCCAACAGCAGTAGTTCT+TGG | 0.373815 | 3.4:+54928131 | None:intergenic |
| TCATGTTGATGAGGAATGTT+TGG | 0.409626 | 3.4:+54928938 | None:intergenic |
| CATTGTTTGTTGAATTTCAA+AGG | 0.415772 | 3.4:-54928527 | MS.gene68575:CDS |
| TTTCCACCAATCAACTTAGC+TGG | 0.422664 | 3.4:+54928107 | None:intergenic |
| AATGTTACATTAGGTGGAAC+TGG | 0.429863 | 3.4:-54928290 | MS.gene68575:CDS |
| ACTCAGAAATGTATGAAGTA+TGG | 0.439689 | 3.4:+54928039 | None:intergenic |
| GGAATCTTATCCAACATGAT+AGG | 0.441623 | 3.4:+54928077 | None:intergenic |
| TTGCATAATGTTACATTAGG+TGG | 0.465580 | 3.4:-54928296 | MS.gene68575:CDS |
| AATTTGACAAAATTGAATGA+AGG | 0.466844 | 3.4:+54928911 | None:intergenic |
| GGGAATATTAAGATTGGTGA+TGG | 0.475849 | 3.4:-54928197 | MS.gene68575:CDS |
| ATTTGACAAAATTGAATGAA+GGG | 0.478931 | 3.4:+54928912 | None:intergenic |
| TTTGCTGTTGATATTCATCC+TGG | 0.479478 | 3.4:-54928407 | MS.gene68575:CDS |
| ATGTTTGGTTTGCGAGAAGG+AGG | 0.480198 | 3.4:+54928953 | None:intergenic |
| ATTCATCCTGGTGCTAAGAT+TGG | 0.483510 | 3.4:-54928395 | MS.gene68575:CDS |
| TTTGGTTTGCGAGAAGGAGG+AGG | 0.492117 | 3.4:+54928956 | None:intergenic |
| GGTGGAACTGGTAAGGTTTG+TGG | 0.495507 | 3.4:-54928278 | MS.gene68575:CDS |
| CATGATTATGTGAAAAGGGT+CGG | 0.498203 | 3.4:+54928885 | None:intergenic |
| TTTAGCTTGTCAAGCTCATA+GGG | 0.501441 | 3.4:-54928501 | MS.gene68575:CDS |
| TACATTAGGTGGAACTGGTA+AGG | 0.504651 | 3.4:-54928285 | MS.gene68575:CDS |
| CCAACAGCAGTAGTTCTTGG+TGG | 0.511345 | 3.4:+54928134 | None:intergenic |
| TTGGTTTGCGAGAAGGAGGA+GGG | 0.517344 | 3.4:+54928957 | None:intergenic |
| GGAAATCCAGCTAAGTTGAT+TGG | 0.518731 | 3.4:-54928113 | MS.gene68575:CDS |
| TGAACATAGCTTATACAAGC+AGG | 0.523004 | 3.4:+54928548 | None:intergenic |
| CCTGGTGCTAAGATTGGTAG+AGG | 0.530740 | 3.4:-54928389 | MS.gene68575:CDS |
| GATGGTGCTAAGATTGGTGC+TGG | 0.531503 | 3.4:-54928179 | MS.gene68575:CDS |
| CCACCAAGAACTACTGCTGT+TGG | 0.532511 | 3.4:-54928134 | MS.gene68575:CDS |
| GATTCAAAATAGGGTTTCTG+AGG | 0.537609 | 3.4:-54928432 | MS.gene68575:CDS |
| CCTCTACCAATCTTAGCACC+AGG | 0.543694 | 3.4:+54928389 | None:intergenic |
| GCTCACAAATTATGGTTACA+AGG | 0.545610 | 3.4:-54928476 | MS.gene68575:CDS |
| CATGCAACAGGAGTTGTAGT+TGG | 0.545667 | 3.4:-54928353 | MS.gene68575:CDS |
| GGAATGTTTGGTTTGCGAGA+AGG | 0.546386 | 3.4:+54928950 | None:intergenic |
| ATTGGTGATGGTGCTAAGAT+TGG | 0.547373 | 3.4:-54928185 | MS.gene68575:CDS |
| AAAAGATAATCCTATCATGT+TGG | 0.560483 | 3.4:-54928087 | MS.gene68575:CDS |
| ATCATGATAAGGTTGATTTG+TGG | 0.567188 | 3.4:-54928817 | MS.gene68575:CDS |
| GTATGGTCCATAGTAAAGCT+AGG | 0.573050 | 3.4:+54928056 | None:intergenic |
| AATCCAGCTAAGTTGATTGG+TGG | 0.576016 | 3.4:-54928110 | MS.gene68575:CDS |
| TGAAGATTCAAGAAGAAGCA+AGG | 0.580645 | 3.4:-54928793 | MS.gene68575:CDS |
| GGTGATAGACATCCTAAGAT+TGG | 0.586606 | 3.4:-54928257 | MS.gene68575:CDS |
| GTTGGTGAAACTGCTGTGGT+TGG | 0.587988 | 3.4:-54928335 | MS.gene68575:CDS |
| GAAGGGTCATCATGTTGATG+AGG | 0.610233 | 3.4:+54928929 | None:intergenic |
| CTCACAAATTATGGTTACAA+GGG | 0.630976 | 3.4:-54928475 | MS.gene68575:CDS |
| GAACATAGCTTATACAAGCA+GGG | 0.631384 | 3.4:+54928549 | None:intergenic |
| TGGTTTGCGAGAAGGAGGAG+GGG | 0.643319 | 3.4:+54928958 | None:intergenic |
| AGACATCCTAAGATTGGTGA+TGG | 0.645064 | 3.4:-54928251 | MS.gene68575:CDS |
| ATACTTCATACATTTCTGAG+TGG | 0.658337 | 3.4:-54928037 | MS.gene68575:CDS |
| TGTAGTTGGTGAAACTGCTG+TGG | 0.667994 | 3.4:-54928339 | MS.gene68575:CDS |
| CTGGTGCTAAGATTGGTAGA+GGG | 0.695256 | 3.4:-54928388 | MS.gene68575:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAATAGCTAGATAAAAT+TGG | + | chr3.4:54928253-54928272 | None:intergenic | 15.0% |
| !! | AATTTGACAAAATTGAATGA+AGG | + | chr3.4:54928094-54928113 | None:intergenic | 20.0% |
| !! | ATTCATGAAAAGATCAAAAA+GGG | + | chr3.4:54928365-54928384 | None:intergenic | 20.0% |
| !! | ATTTGACAAAATTGAATGAA+GGG | + | chr3.4:54928093-54928112 | None:intergenic | 20.0% |
| !! | TATTCATGAAAAGATCAAAA+AGG | + | chr3.4:54928366-54928385 | None:intergenic | 20.0% |
| !!! | ATTTTAGGGAATATTAAGAT+TGG | - | chr3.4:54928799-54928818 | MS.gene68575:CDS | 20.0% |
| !!! | ATTTTGCATAATGTTACATT+AGG | - | chr3.4:54928703-54928722 | MS.gene68575:CDS | 20.0% |
| !!! | TTTTCATGATTATGTGAAAA+GGG | + | chr3.4:54928124-54928143 | None:intergenic | 20.0% |
| !!! | TTTTTCATGATTATGTGAAA+AGG | + | chr3.4:54928125-54928144 | None:intergenic | 20.0% |
| ! | AAAAAAACATGCATACACAA+AGG | - | chr3.4:54928140-54928159 | MS.gene68575:CDS | 25.0% |
| ! | AAAAAACATGCATACACAAA+GGG | - | chr3.4:54928141-54928160 | MS.gene68575:CDS | 25.0% |
| ! | AAAAGATAATCCTATCATGT+TGG | - | chr3.4:54928915-54928934 | MS.gene68575:CDS | 25.0% |
| !! | CATTGTTTGTTGAATTTCAA+AGG | - | chr3.4:54928475-54928494 | MS.gene68575:CDS | 25.0% |
| ACTCAGAAATGTATGAAGTA+TGG | + | chr3.4:54928966-54928985 | None:intergenic | 30.0% | |
| AGCACTCTTGATTCAAAATA+GGG | - | chr3.4:54928561-54928580 | MS.gene68575:CDS | 30.0% | |
| ATACTTCATACATTTCTGAG+TGG | - | chr3.4:54928965-54928984 | MS.gene68575:CDS | 30.0% | |
| CTCACAAATTATGGTTACAA+GGG | - | chr3.4:54928527-54928546 | MS.gene68575:CDS | 30.0% | |
| TAGCACTCTTGATTCAAAAT+AGG | - | chr3.4:54928560-54928579 | MS.gene68575:CDS | 30.0% | |
| TTGCATAATGTTACATTAGG+TGG | - | chr3.4:54928706-54928725 | MS.gene68575:CDS | 30.0% | |
| ! | TTTTGAACGTGATCATGATA+AGG | - | chr3.4:54928174-54928193 | MS.gene68575:CDS | 30.0% |
| !! | ATCATGATAAGGTTGATTTG+TGG | - | chr3.4:54928185-54928204 | MS.gene68575:CDS | 30.0% |
| !! | TAAGATTCCTAGCTTTACTA+TGG | - | chr3.4:54928939-54928958 | MS.gene68575:CDS | 30.0% |
| AAAACACCATCACCAATCTT+AGG | + | chr3.4:54928760-54928779 | None:intergenic | 35.0% | |
| AATGTTACATTAGGTGGAAC+TGG | - | chr3.4:54928712-54928731 | MS.gene68575:CDS | 35.0% | |
| ATAGGGTAGCTCACAAATTA+TGG | - | chr3.4:54928518-54928537 | MS.gene68575:CDS | 35.0% | |
| CATGATTATGTGAAAAGGGT+CGG | + | chr3.4:54928120-54928139 | None:intergenic | 35.0% | |
| GAACATAGCTTATACAAGCA+GGG | + | chr3.4:54928456-54928475 | None:intergenic | 35.0% | |
| GATTCAAAATAGGGTTTCTG+AGG | - | chr3.4:54928570-54928589 | MS.gene68575:CDS | 35.0% | |
| GCTCACAAATTATGGTTACA+AGG | - | chr3.4:54928526-54928545 | MS.gene68575:CDS | 35.0% | |
| GGAATCTTATCCAACATGAT+AGG | + | chr3.4:54928928-54928947 | None:intergenic | 35.0% | |
| GGGAATATTAAGATTGGTGA+TGG | - | chr3.4:54928805-54928824 | MS.gene68575:CDS | 35.0% | |
| TGAACATAGCTTATACAAGC+AGG | + | chr3.4:54928457-54928476 | None:intergenic | 35.0% | |
| TGAAGATTCAAGAAGAAGCA+AGG | - | chr3.4:54928209-54928228 | MS.gene68575:CDS | 35.0% | |
| ! | ATTTTGTTGGATCATGCAAC+AGG | - | chr3.4:54928637-54928656 | MS.gene68575:CDS | 35.0% |
| ! | GTGCTGGAACATGTATTTTA+GGG | - | chr3.4:54928785-54928804 | MS.gene68575:CDS | 35.0% |
| ! | TCATGTTGATGAGGAATGTT+TGG | + | chr3.4:54928067-54928086 | None:intergenic | 35.0% |
| !! | TTTAGCTTGTCAAGCTCATA+GGG | - | chr3.4:54928501-54928520 | MS.gene68575:CDS | 35.0% |
| !! | TTTGCTGTTGATATTCATCC+TGG | - | chr3.4:54928595-54928614 | MS.gene68575:CDS | 35.0% |
| !!! | ATTGGTGATGGTGTTTTGAT+TGG | - | chr3.4:54928763-54928782 | MS.gene68575:CDS | 35.0% |
| !!! | TTTTAGCTTGTCAAGCTCAT+AGG | - | chr3.4:54928500-54928519 | MS.gene68575:CDS | 35.0% |
| AGACATCCTAAGATTGGTGA+TGG | - | chr3.4:54928751-54928770 | MS.gene68575:CDS | 40.0% | |
| GGTGATAGACATCCTAAGAT+TGG | - | chr3.4:54928745-54928764 | MS.gene68575:CDS | 40.0% | |
| GTATGGTCCATAGTAAAGCT+AGG | + | chr3.4:54928949-54928968 | None:intergenic | 40.0% | |
| TACATTAGGTGGAACTGGTA+AGG | - | chr3.4:54928717-54928736 | MS.gene68575:CDS | 40.0% | |
| TTTCCAACAGCAGTAGTTCT+TGG | + | chr3.4:54928874-54928893 | None:intergenic | 40.0% | |
| TTTCCACCAATCAACTTAGC+TGG | + | chr3.4:54928898-54928917 | None:intergenic | 40.0% | |
| ! | ATTCATCCTGGTGCTAAGAT+TGG | - | chr3.4:54928607-54928626 | MS.gene68575:CDS | 40.0% |
| ! | GATTGGTAGAGGGATTTTGT+TGG | - | chr3.4:54928624-54928643 | MS.gene68575:CDS | 40.0% |
| !! | AATCCAGCTAAGTTGATTGG+TGG | - | chr3.4:54928892-54928911 | MS.gene68575:CDS | 40.0% |
| !! | ATTGGTGATGGTGCTAAGAT+TGG | - | chr3.4:54928817-54928836 | MS.gene68575:CDS | 40.0% |
| !! | GGAAATCCAGCTAAGTTGAT+TGG | - | chr3.4:54928889-54928908 | MS.gene68575:CDS | 40.0% |
| !! | GGTGCTGGAACATGTATTTT+AGG | - | chr3.4:54928784-54928803 | MS.gene68575:CDS | 40.0% |
| CATGCAACAGGAGTTGTAGT+TGG | - | chr3.4:54928649-54928668 | MS.gene68575:CDS | 45.0% | |
| GAAGGGTCATCATGTTGATG+AGG | + | chr3.4:54928076-54928095 | None:intergenic | 45.0% | |
| ! | CTGGTGCTAAGATTGGTAGA+GGG | - | chr3.4:54928614-54928633 | MS.gene68575:CDS | 45.0% |
| !! | ATGTTTGGTTTGCGAGAAGG+AGG | + | chr3.4:54928052-54928071 | None:intergenic | 45.0% |
| !! | GGAATGTTTGGTTTGCGAGA+AGG | + | chr3.4:54928055-54928074 | None:intergenic | 45.0% |
| !! | TGCTGGTTCTGTTGTGTTGA+AGG | - | chr3.4:54928840-54928859 | MS.gene68575:CDS | 45.0% |
| !! | TGTAGTTGGTGAAACTGCTG+TGG | - | chr3.4:54928663-54928682 | MS.gene68575:CDS | 45.0% |
| !!! | GATGGTGTTTTGATTGGTGC+TGG | - | chr3.4:54928769-54928788 | MS.gene68575:CDS | 45.0% |
| CCAACAGCAGTAGTTCTTGG+TGG | + | chr3.4:54928871-54928890 | None:intergenic | 50.0% | |
| CCACCAAGAACTACTGCTGT+TGG | - | chr3.4:54928868-54928887 | MS.gene68575:CDS | 50.0% | |
| CCTCTACCAATCTTAGCACC+AGG | + | chr3.4:54928616-54928635 | None:intergenic | 50.0% | |
| GGTGGAACTGGTAAGGTTTG+TGG | - | chr3.4:54928724-54928743 | MS.gene68575:CDS | 50.0% | |
| ! | CCTGGTGCTAAGATTGGTAG+AGG | - | chr3.4:54928613-54928632 | MS.gene68575:CDS | 50.0% |
| ! | GATGGTGCTAAGATTGGTGC+TGG | - | chr3.4:54928823-54928842 | MS.gene68575:CDS | 50.0% |
| ! | GTTGGTGAAACTGCTGTGGT+TGG | - | chr3.4:54928667-54928686 | MS.gene68575:CDS | 50.0% |
| !! | TTGGTTTGCGAGAAGGAGGA+GGG | + | chr3.4:54928048-54928067 | None:intergenic | 50.0% |
| !! | TTTGGTTTGCGAGAAGGAGG+AGG | + | chr3.4:54928049-54928068 | None:intergenic | 50.0% |
| ! | TGGTTTGCGAGAAGGAGGAG+GGG | + | chr3.4:54928047-54928066 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 54928019 | 54929005 | 54928019 | ID=MS.gene68575 |
| chr3.4 | mRNA | 54928019 | 54929005 | 54928019 | ID=MS.gene68575.t1;Parent=MS.gene68575 |
| chr3.4 | exon | 54928019 | 54929005 | 54928019 | ID=MS.gene68575.t1.exon1;Parent=MS.gene68575.t1 |
| chr3.4 | CDS | 54928019 | 54929005 | 54928019 | ID=cds.MS.gene68575.t1;Parent=MS.gene68575.t1 |
| Gene Sequence |
| Protein sequence |
