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.gene070816.t1 | RHN51483.1 | 90 | 279 | 17 | 1 | 1 | 268 | 340 | 618 | 7.20E-143 | 516.5 |
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.gene070816.t1 | A0A396HFX6 | 90.0 | 279 | 17 | 1 | 1 | 268 | 340 | 618 | 5.2e-143 | 516.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050021 | MS.gene070816 | 0.810703 | 1.01E-50 | -1.69E-46 |
| MS.gene050026 | MS.gene070816 | 0.803518 | 3.35E-49 | -1.69E-46 |
| MS.gene051800 | MS.gene070816 | 0.802936 | 4.43E-49 | -1.69E-46 |
| MS.gene054291 | MS.gene070816 | -0.800728 | 1.26E-48 | -1.69E-46 |
| MS.gene055818 | MS.gene070816 | 0.803675 | 3.11E-49 | -1.69E-46 |
| MS.gene058515 | MS.gene070816 | 0.801702 | 7.95E-49 | -1.69E-46 |
| MS.gene059584 | MS.gene070816 | 0.831519 | 1.59E-55 | -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.gene070816.t1 | MTR_0002s1270 | 84.797 | 296 | 17 | 1 | 1 | 268 | 105 | 400 | 0.0 | 516 |
| MS.gene070816.t1 | MTR_7g046380 | 84.211 | 285 | 17 | 1 | 1 | 257 | 113 | 397 | 1.90e-177 | 494 |
| MS.gene070816.t1 | MTR_5g077900 | 81.416 | 226 | 14 | 1 | 71 | 268 | 1 | 226 | 1.64e-134 | 379 |
| MS.gene070816.t1 | MTR_4g066310 | 71.429 | 105 | 24 | 1 | 1 | 99 | 81 | 185 | 6.27e-47 | 155 |
| MS.gene070816.t1 | MTR_0057s0200 | 96.610 | 59 | 2 | 0 | 210 | 268 | 1 | 59 | 3.10e-37 | 126 |
| MS.gene070816.t1 | MTR_2g092960 | 32.489 | 237 | 128 | 5 | 57 | 265 | 984 | 1216 | 3.09e-34 | 131 |
| MS.gene070816.t1 | MTR_4g066320 | 86.885 | 61 | 7 | 1 | 207 | 266 | 59 | 119 | 1.20e-33 | 119 |
| MS.gene070816.t1 | MTR_4g066320 | 86.957 | 46 | 6 | 0 | 1 | 46 | 1 | 46 | 1.86e-20 | 84.7 |
| MS.gene070816.t1 | MTR_0462s0020 | 35.057 | 174 | 107 | 2 | 93 | 264 | 122 | 291 | 1.66e-32 | 121 |
| MS.gene070816.t1 | MTR_8g017000 | 35.196 | 179 | 109 | 3 | 93 | 268 | 515 | 689 | 4.80e-28 | 113 |
| MS.gene070816.t1 | MTR_2g037270 | 35.196 | 179 | 109 | 3 | 93 | 268 | 515 | 689 | 6.91e-28 | 112 |
| MS.gene070816.t1 | MTR_3g011560 | 31.073 | 177 | 106 | 3 | 93 | 268 | 515 | 676 | 5.80e-24 | 101 |
| MS.gene070816.t1 | MTR_3g028430 | 74.074 | 54 | 5 | 1 | 215 | 268 | 15 | 59 | 8.44e-20 | 80.9 |
| MS.gene070816.t1 | MTR_8g051620 | 51.667 | 60 | 29 | 0 | 92 | 151 | 50 | 109 | 2.15e-15 | 71.2 |
| MS.gene070816.t1 | MTR_8g051620 | 54.386 | 57 | 26 | 0 | 92 | 148 | 50 | 106 | 2.22e-15 | 70.9 |
| MS.gene070816.t1 | MTR_4g066300 | 88.235 | 34 | 4 | 0 | 206 | 239 | 5 | 38 | 3.58e-14 | 66.2 |
| MS.gene070816.t1 | MTR_2g086200 | 62.500 | 48 | 18 | 0 | 219 | 266 | 185 | 232 | 6.23e-13 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 43 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCGAAAGTGTTTGGGATTT+TGG | 0.107550 | 8.4:-44899133 | MS.gene070816:CDS |
| GTTGATGCAACAAGCATTTC+TGG | 0.171896 | 8.4:-44899590 | MS.gene070816:CDS |
| CTTCATTTGTTTGCAAGGTT+TGG | 0.194841 | 8.4:+44899542 | None:intergenic |
| TCTGGATAAACTTAAGACTA+TGG | 0.231009 | 8.4:-44899572 | MS.gene070816:CDS |
| TTGCCATTAGGTTGCTTTCT+TGG | 0.248489 | 8.4:+44898545 | None:intergenic |
| TTCATTTGTTTGCAAGGTTT+GGG | 0.264022 | 8.4:+44899543 | None:intergenic |
| AGAAATAGATCGAAAGTGTT+TGG | 0.315223 | 8.4:-44899141 | MS.gene070816:CDS |
| GGATTAAAATCCAAGCATAC+TGG | 0.319311 | 8.4:+44899108 | None:intergenic |
| TCATTGCTTCATTAAGATCT+TGG | 0.330442 | 8.4:+44898842 | None:intergenic |
| TGGTTAACACAGAGCTTTAG+AGG | 0.331097 | 8.4:-44898723 | MS.gene070816:intron |
| GCAATAGAAAGAAGGCTAAA+TGG | 0.337305 | 8.4:-44898682 | MS.gene070816:CDS |
| GAAATAGATCGAAAGTGTTT+GGG | 0.378893 | 8.4:-44899140 | MS.gene070816:CDS |
| AGAGGTTCATCAACTTGCTC+AGG | 0.406730 | 8.4:-44898705 | MS.gene070816:CDS |
| GTATTTGGCTCATGTTCTAA+TGG | 0.408074 | 8.4:+44899364 | None:intergenic |
| GACAACTAAACTATTGTCCT+TGG | 0.409668 | 8.4:+44898879 | None:intergenic |
| AATTTCTTCATTTGTTTGCA+AGG | 0.411399 | 8.4:+44899537 | None:intergenic |
| TATCCACAATCATTGCCATT+AGG | 0.411955 | 8.4:+44898533 | None:intergenic |
| TATACTTACTTAAATAGATA+TGG | 0.415179 | 8.4:+44899003 | None:intergenic |
| TCTTGACTTGTATAACGCTT+AGG | 0.431501 | 8.4:-44898278 | None:intergenic |
| TAGTACTAAAACTAAAGTTC+AGG | 0.451652 | 8.4:-44899076 | MS.gene070816:CDS |
| GTTGTGCATGGAAGCACAAA+AGG | 0.453705 | 8.4:-44899490 | MS.gene070816:CDS |
| CTGGATAAACTTAAGACTAT+GGG | 0.467740 | 8.4:-44899571 | MS.gene070816:CDS |
| CTGCTAATATTACTAAGTCT+TGG | 0.472781 | 8.4:-44898478 | MS.gene070816:CDS |
| GTATGATTTGCGAAACCAAT+GGG | 0.494818 | 8.4:-44898311 | MS.gene070816:CDS |
| TAGCCAAGAAAGCAACCTAA+TGG | 0.495668 | 8.4:-44898548 | MS.gene070816:CDS |
| TCATCTTCAGTTAATGTCGC+TGG | 0.495751 | 8.4:+44898337 | None:intergenic |
| CAACCTAATGGCAATGATTG+TGG | 0.497368 | 8.4:-44898536 | MS.gene070816:CDS |
| CAAGAAAACAAGTTGCCCAT+TGG | 0.504204 | 8.4:+44898296 | None:intergenic |
| GTTAATAATTATTTGTCCCA+AGG | 0.509187 | 8.4:-44898896 | MS.gene070816:CDS |
| TTCAGGAACACATGCAAACT+AGG | 0.517238 | 8.4:-44899059 | MS.gene070816:CDS |
| ACAACTAAACTATTGTCCTT+GGG | 0.519949 | 8.4:+44898880 | None:intergenic |
| TGCTCAGGGCAATAGAAAGA+AGG | 0.548493 | 8.4:-44898690 | MS.gene070816:CDS |
| CGCTGCACAAGAAAATTACA+AGG | 0.553852 | 8.4:-44899458 | MS.gene070816:CDS |
| GAGGTTCATCAACTTGCTCA+GGG | 0.558482 | 8.4:-44898704 | MS.gene070816:CDS |
| GATTAAAATCCAAGCATACT+GGG | 0.559851 | 8.4:+44899109 | None:intergenic |
| TGTATGATTTGCGAAACCAA+TGG | 0.592485 | 8.4:-44898312 | MS.gene070816:CDS |
| TCTACGTGTGCAGAGGACAC+TGG | 0.601997 | 8.4:-44898921 | MS.gene070816:intron |
| TAATATTACTAAGTCTTGGA+TGG | 0.604101 | 8.4:-44898474 | MS.gene070816:CDS |
| GATCTTGGTGCATTGAACAA+AGG | 0.604500 | 8.4:+44898857 | None:intergenic |
| AACATGAGCCAAATACCGCA+AGG | 0.641032 | 8.4:-44899357 | MS.gene070816:intron |
| TATTACTAAGTCTTGGATGG+AGG | 0.643493 | 8.4:-44898471 | MS.gene070816:intron |
| TTGCATCAACTCACGCTCGA+CGG | 0.688369 | 8.4:+44899603 | None:intergenic |
| TGCACAAGAAAATTACAAGG+AGG | 0.749080 | 8.4:-44899455 | MS.gene070816:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACTAATCACTATATAAAAA+TGG | - | chr8.4:44899304-44899323 | MS.gene070816:intron | 15.0% |
| !! | AATAAGGATATGTTTATATT+TGG | + | chr8.4:44899482-44899501 | None:intergenic | 15.0% |
| !! | TATACTTACTTAAATAGATA+TGG | + | chr8.4:44898886-44898905 | None:intergenic | 15.0% |
| !!! | CTTTGATGATTTTTTTAATT+TGG | - | chr8.4:44899143-44899162 | MS.gene070816:CDS | 15.0% |
| !!! | CTTTTTTACTATTATCAATA+TGG | - | chr8.4:44898643-44898662 | MS.gene070816:intron | 15.0% |
| !!! | TGTTAATTTTAAATTTGTCT+AGG | - | chr8.4:44898698-44898717 | MS.gene070816:CDS | 15.0% |
| !! | AACACTTAAATATTGAATTG+TGG | + | chr8.4:44898682-44898701 | None:intergenic | 20.0% |
| ! | AATTTCTTCATTTGTTTGCA+AGG | + | chr8.4:44898352-44898371 | None:intergenic | 25.0% |
| ! | ACGTAGAAGAACAATTATTA+AGG | + | chr8.4:44898952-44898971 | None:intergenic | 25.0% |
| ! | GTTAATAATTATTTGTCCCA+AGG | - | chr8.4:44898990-44899009 | MS.gene070816:intron | 25.0% |
| ! | TAATATTACTAAGTCTTGGA+TGG | - | chr8.4:44899412-44899431 | MS.gene070816:CDS | 25.0% |
| ! | TAGTACTAAAACTAAAGTTC+AGG | - | chr8.4:44898810-44898829 | MS.gene070816:intron | 25.0% |
| ! | TATATTAACCTACACATTGT+AGG | - | chr8.4:44899515-44899534 | MS.gene070816:CDS | 25.0% |
| !!! | GTTATACATTTTAGTGTTGT+AGG | + | chr8.4:44899124-44899143 | None:intergenic | 25.0% |
| !!! | GTTTTAGTACTATGATCTTT+TGG | + | chr8.4:44898802-44898821 | None:intergenic | 25.0% |
| AATCTACACCATACTTACTT+TGG | + | chr8.4:44899237-44899256 | None:intergenic | 30.0% | |
| ACAACTAAACTATTGTCCTT+GGG | + | chr8.4:44899009-44899028 | None:intergenic | 30.0% | |
| ATAAAAAACCTTGCGGTATT+TGG | + | chr8.4:44898540-44898559 | None:intergenic | 30.0% | |
| ATCTACACCATACTTACTTT+GGG | + | chr8.4:44899236-44899255 | None:intergenic | 30.0% | |
| ATTGAATACCTACAATGTGT+AGG | + | chr8.4:44899526-44899545 | None:intergenic | 30.0% | |
| CTGCTAATATTACTAAGTCT+TGG | - | chr8.4:44899408-44899427 | MS.gene070816:CDS | 30.0% | |
| CTGGATAAACTTAAGACTAT+GGG | - | chr8.4:44898315-44898334 | MS.gene070816:CDS | 30.0% | |
| GATTAAAATCCAAGCATACT+GGG | + | chr8.4:44898780-44898799 | None:intergenic | 30.0% | |
| TCATTGCTTCATTAAGATCT+TGG | + | chr8.4:44899047-44899066 | None:intergenic | 30.0% | |
| TCTGGATAAACTTAAGACTA+TGG | - | chr8.4:44898314-44898333 | MS.gene070816:CDS | 30.0% | |
| TGTATTAGATAGTTGTTGGT+GGG | - | chr8.4:44898566-44898585 | MS.gene070816:intron | 30.0% | |
| TGTTCAAAAATTGCTATGCA+TGG | - | chr8.4:44898470-44898489 | MS.gene070816:intron | 30.0% | |
| TTCATTTGTTTGCAAGGTTT+GGG | + | chr8.4:44898346-44898365 | None:intergenic | 30.0% | |
| ! | CAATTTTTGAACATTGTCGA+TGG | + | chr8.4:44898463-44898482 | None:intergenic | 30.0% |
| !! | AGAAATAGATCGAAAGTGTT+TGG | - | chr8.4:44898745-44898764 | MS.gene070816:intron | 30.0% |
| !! | GAAATAGATCGAAAGTGTTT+GGG | - | chr8.4:44898746-44898765 | MS.gene070816:intron | 30.0% |
| ACCTGGAATAAAAAACCTTG+CGG | + | chr8.4:44898547-44898566 | None:intergenic | 35.0% | |
| CAACAACTATCTAATACACC+TGG | + | chr8.4:44898564-44898583 | None:intergenic | 35.0% | |
| CAGGTGTATTAGATAGTTGT+TGG | - | chr8.4:44898562-44898581 | MS.gene070816:intron | 35.0% | |
| CTTCATTTGTTTGCAAGGTT+TGG | + | chr8.4:44898347-44898366 | None:intergenic | 35.0% | |
| CTTTCTTGGCTACAAATGAA+TGG | + | chr8.4:44899330-44899349 | None:intergenic | 35.0% | |
| GACAACTAAACTATTGTCCT+TGG | + | chr8.4:44899010-44899029 | None:intergenic | 35.0% | |
| GCAATAGAAAGAAGGCTAAA+TGG | - | chr8.4:44899204-44899223 | MS.gene070816:intron | 35.0% | |
| GGATTAAAATCCAAGCATAC+TGG | + | chr8.4:44898781-44898800 | None:intergenic | 35.0% | |
| GTGTATTAGATAGTTGTTGG+TGG | - | chr8.4:44898565-44898584 | MS.gene070816:intron | 35.0% | |
| TATCCACAATCATTGCCATT+AGG | + | chr8.4:44899356-44899375 | None:intergenic | 35.0% | |
| TATTACTAAGTCTTGGATGG+AGG | - | chr8.4:44899415-44899434 | MS.gene070816:CDS | 35.0% | |
| TGCACAAGAAAATTACAAGG+AGG | - | chr8.4:44898431-44898450 | MS.gene070816:intron | 35.0% | |
| ! | CTTGTAATTTTCTTGTGCAG+CGG | + | chr8.4:44898430-44898449 | None:intergenic | 35.0% |
| ! | GTATGATTTGCGAAACCAAT+GGG | - | chr8.4:44899575-44899594 | MS.gene070816:CDS | 35.0% |
| ! | GTATTTGGCTCATGTTCTAA+TGG | + | chr8.4:44898525-44898544 | None:intergenic | 35.0% |
| ! | TGTATGATTTGCGAAACCAA+TGG | - | chr8.4:44899574-44899593 | MS.gene070816:CDS | 35.0% |
| !!! | ATCGAAAGTGTTTGGGATTT+TGG | - | chr8.4:44898753-44898772 | MS.gene070816:intron | 35.0% |
| CAACCTAATGGCAATGATTG+TGG | - | chr8.4:44899350-44899369 | MS.gene070816:intron | 40.0% | |
| CAAGAAAACAAGTTGCCCAT+TGG | + | chr8.4:44899593-44899612 | None:intergenic | 40.0% | |
| CCTGAAAAAGTTGTTGTGCA+TGG | - | chr8.4:44898384-44898403 | MS.gene070816:intron | 40.0% | |
| CGCTGCACAAGAAAATTACA+AGG | - | chr8.4:44898428-44898447 | MS.gene070816:intron | 40.0% | |
| GTTGATGCAACAAGCATTTC+TGG | - | chr8.4:44898296-44898315 | MS.gene070816:CDS | 40.0% | |
| GTTTCGTCCCAAAGTAAGTA+TGG | - | chr8.4:44899226-44899245 | MS.gene070816:intron | 40.0% | |
| TAGCCAAGAAAGCAACCTAA+TGG | - | chr8.4:44899338-44899357 | MS.gene070816:intron | 40.0% | |
| TCATCTTCAGTTAATGTCGC+TGG | + | chr8.4:44899552-44899571 | None:intergenic | 40.0% | |
| TTCAGGAACACATGCAAACT+AGG | - | chr8.4:44898827-44898846 | MS.gene070816:CDS | 40.0% | |
| ! | GATCTTGGTGCATTGAACAA+AGG | + | chr8.4:44899032-44899051 | None:intergenic | 40.0% |
| ! | TGGTTAACACAGAGCTTTAG+AGG | - | chr8.4:44899163-44899182 | MS.gene070816:CDS | 40.0% |
| ! | TTGCCATTAGGTTGCTTTCT+TGG | + | chr8.4:44899344-44899363 | None:intergenic | 40.0% |
| !! | CCATGCACAACAACTTTTTC+AGG | + | chr8.4:44898387-44898406 | None:intergenic | 40.0% |
| !!! | ACCGCAAGGTTTTTTATTCC+AGG | - | chr8.4:44898543-44898562 | MS.gene070816:CDS | 40.0% |
| AACATGAGCCAAATACCGCA+AGG | - | chr8.4:44898529-44898548 | MS.gene070816:CDS | 45.0% | |
| TGCTCAGGGCAATAGAAAGA+AGG | - | chr8.4:44899196-44899215 | MS.gene070816:intron | 45.0% | |
| TTGTTCTTCTACGTGTGCAG+AGG | - | chr8.4:44898958-44898977 | MS.gene070816:intron | 45.0% | |
| ! | AGAGGTTCATCAACTTGCTC+AGG | - | chr8.4:44899181-44899200 | MS.gene070816:intron | 45.0% |
| ! | AGTTGTTGGTGGGTATTGCT+AGG | - | chr8.4:44898576-44898595 | MS.gene070816:intron | 45.0% |
| ! | GAGGTTCATCAACTTGCTCA+GGG | - | chr8.4:44899182-44899201 | MS.gene070816:intron | 45.0% |
| ! | GATTTTGGACCCAGTATGCT+TGG | - | chr8.4:44898768-44898787 | MS.gene070816:intron | 45.0% |
| ! | GTTGTGCATGGAAGCACAAA+AGG | - | chr8.4:44898396-44898415 | MS.gene070816:intron | 45.0% |
| !! | ATAAGTAATTAATATTAATA+AGG | + | chr8.4:44899498-44899517 | None:intergenic | 5.0% |
| TTGCATCAACTCACGCTCGA+CGG | + | chr8.4:44898286-44898305 | None:intergenic | 50.0% | |
| TCTACGTGTGCAGAGGACAC+TGG | - | chr8.4:44898965-44898984 | MS.gene070816:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 44898279 | 44899629 | 44898279 | ID=MS.gene070816 |
| chr8.4 | mRNA | 44898279 | 44899629 | 44898279 | ID=MS.gene070816.t1;Parent=MS.gene070816 |
| chr8.4 | exon | 44899358 | 44899629 | 44899358 | ID=MS.gene070816.t1.exon1;Parent=MS.gene070816.t1 |
| chr8.4 | CDS | 44899358 | 44899629 | 44899358 | ID=cds.MS.gene070816.t1;Parent=MS.gene070816.t1 |
| chr8.4 | exon | 44899012 | 44899188 | 44899012 | ID=MS.gene070816.t1.exon2;Parent=MS.gene070816.t1 |
| chr8.4 | CDS | 44899012 | 44899188 | 44899012 | ID=cds.MS.gene070816.t1;Parent=MS.gene070816.t1 |
| chr8.4 | exon | 44898826 | 44898930 | 44898826 | ID=MS.gene070816.t1.exon3;Parent=MS.gene070816.t1 |
| chr8.4 | CDS | 44898826 | 44898930 | 44898826 | ID=cds.MS.gene070816.t1;Parent=MS.gene070816.t1 |
| chr8.4 | exon | 44898670 | 44898733 | 44898670 | ID=MS.gene070816.t1.exon4;Parent=MS.gene070816.t1 |
| chr8.4 | CDS | 44898670 | 44898733 | 44898670 | ID=cds.MS.gene070816.t1;Parent=MS.gene070816.t1 |
| chr8.4 | exon | 44898472 | 44898567 | 44898472 | ID=MS.gene070816.t1.exon5;Parent=MS.gene070816.t1 |
| chr8.4 | CDS | 44898472 | 44898567 | 44898472 | ID=cds.MS.gene070816.t1;Parent=MS.gene070816.t1 |
| chr8.4 | exon | 44898279 | 44898371 | 44898279 | ID=MS.gene070816.t1.exon6;Parent=MS.gene070816.t1 |
| chr8.4 | CDS | 44898279 | 44898371 | 44898279 | ID=cds.MS.gene070816.t1;Parent=MS.gene070816.t1 |
| Gene Sequence |
| Protein sequence |
