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.gene069410.t1 | OMO87460.1 | 57.8 | 230 | 19 | 2 | 1 | 152 | 1 | 230 | 2.50E-60 | 241.5 |
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.gene069410.t1 | A0A1R3IY46 | 57.8 | 230 | 19 | 2 | 1 | 152 | 1 | 230 | 1.8e-60 | 241.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049142 | MS.gene069410 | 0.829867 | 4.05E-55 | -1.69E-46 |
| MS.gene049178 | MS.gene069410 | 0.800276 | 1.56E-48 | -1.69E-46 |
| MS.gene049350 | MS.gene069410 | 0.801179 | 1.02E-48 | -1.69E-46 |
| MS.gene049887 | MS.gene069410 | 0.805077 | 1.59E-49 | -1.69E-46 |
| MS.gene050657 | MS.gene069410 | 0.834352 | 3.15E-56 | -1.69E-46 |
| MS.gene051198 | MS.gene069410 | 0.824153 | 9.42E-54 | -1.69E-46 |
| MS.gene051279 | MS.gene069410 | 0.805374 | 1.38E-49 | -1.69E-46 |
| MS.gene051388 | MS.gene069410 | 0.831592 | 1.53E-55 | -1.69E-46 |
| MS.gene051719 | MS.gene069410 | 0.808399 | 3.16E-50 | -1.69E-46 |
| MS.gene051720 | MS.gene069410 | 0.813043 | 3.12E-51 | -1.69E-46 |
| MS.gene052463 | MS.gene069410 | 0.823015 | 1.74E-53 | -1.69E-46 |
| MS.gene052516 | MS.gene069410 | 0.817866 | 2.64E-52 | -1.69E-46 |
| MS.gene052582 | MS.gene069410 | 0.807576 | 4.72E-50 | -1.69E-46 |
| MS.gene052584 | MS.gene069410 | 0.805023 | 1.63E-49 | -1.69E-46 |
| MS.gene052665 | MS.gene069410 | 0.816969 | 4.20E-52 | -1.69E-46 |
| MS.gene052673 | MS.gene069410 | -0.813805 | 2.13E-51 | -1.69E-46 |
| MS.gene053144 | MS.gene069410 | 0.836959 | 6.89E-57 | -1.69E-46 |
| MS.gene053164 | MS.gene069410 | 0.81035 | 1.20E-50 | -1.69E-46 |
| MS.gene054467 | MS.gene069410 | 0.803949 | 2.73E-49 | -1.69E-46 |
| MS.gene054584 | MS.gene069410 | 0.838603 | 2.61E-57 | -1.69E-46 |
| MS.gene054991 | MS.gene069410 | 0.809434 | 1.90E-50 | -1.69E-46 |
| MS.gene055465 | MS.gene069410 | 0.831339 | 1.77E-55 | -1.69E-46 |
| MS.gene055466 | MS.gene069410 | 0.821925 | 3.12E-53 | -1.69E-46 |
| MS.gene055468 | MS.gene069410 | 0.821214 | 4.55E-53 | -1.69E-46 |
| MS.gene055469 | MS.gene069410 | 0.835564 | 1.56E-56 | -1.69E-46 |
| MS.gene055580 | MS.gene069410 | -0.800816 | 1.21E-48 | -1.69E-46 |
| MS.gene055926 | MS.gene069410 | 0.805732 | 1.16E-49 | -1.69E-46 |
| MS.gene056308 | MS.gene069410 | 0.823276 | 1.51E-53 | -1.69E-46 |
| MS.gene056538 | MS.gene069410 | 0.817564 | 3.09E-52 | -1.69E-46 |
| MS.gene057166 | MS.gene069410 | 0.80918 | 2.15E-50 | -1.69E-46 |
| MS.gene057915 | MS.gene069410 | 0.802075 | 6.66E-49 | -1.69E-46 |
| MS.gene058330 | MS.gene069410 | 0.802473 | 5.52E-49 | -1.69E-46 |
| MS.gene058647 | MS.gene069410 | 0.815621 | 8.42E-52 | -1.69E-46 |
| MS.gene059170 | MS.gene069410 | 0.811773 | 5.92E-51 | -1.69E-46 |
| MS.gene059570 | MS.gene069410 | 0.812477 | 4.16E-51 | -1.69E-46 |
| MS.gene059625 | MS.gene069410 | 0.825052 | 5.78E-54 | -1.69E-46 |
| MS.gene060380 | MS.gene069410 | 0.800015 | 1.76E-48 | -1.69E-46 |
| MS.gene06052 | MS.gene069410 | 0.835441 | 1.67E-56 | -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.gene069410.t1 | MTR_1g024005 | 82.645 | 121 | 21 | 0 | 4 | 124 | 75 | 195 | 4.73e-65 | 204 |
| MS.gene069410.t1 | MTR_1g024005 | 96.667 | 30 | 1 | 0 | 123 | 152 | 265 | 294 | 2.50e-12 | 63.5 |
| MS.gene069410.t1 | MTR_3g071050 | 67.521 | 117 | 38 | 0 | 4 | 120 | 42 | 158 | 1.53e-52 | 168 |
| MS.gene069410.t1 | MTR_3g113270 | 69.231 | 117 | 36 | 0 | 4 | 120 | 70 | 186 | 2.85e-51 | 168 |
| MS.gene069410.t1 | MTR_3g070620 | 40.000 | 155 | 54 | 5 | 1 | 152 | 1 | 119 | 1.67e-19 | 80.9 |
| MS.gene069410.t1 | MTR_2g028610 | 40.860 | 93 | 55 | 0 | 26 | 118 | 128 | 220 | 3.02e-19 | 83.2 |
| MS.gene069410.t1 | MTR_2g028590 | 45.783 | 83 | 45 | 0 | 38 | 120 | 145 | 227 | 5.40e-18 | 79.7 |
| MS.gene069410.t1 | MTR_8g028460 | 43.939 | 66 | 37 | 0 | 53 | 118 | 179 | 244 | 1.95e-15 | 72.4 |
| MS.gene069410.t1 | MTR_0010s0400 | 31.304 | 115 | 75 | 2 | 38 | 148 | 147 | 261 | 3.36e-15 | 72.0 |
| MS.gene069410.t1 | MTR_4g094572 | 49.123 | 57 | 29 | 0 | 65 | 121 | 89 | 145 | 1.60e-14 | 69.7 |
| MS.gene069410.t1 | MTR_5g077710 | 45.455 | 66 | 36 | 0 | 49 | 114 | 76 | 141 | 1.06e-13 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069410.t1 | AT5G40830 | 54.878 | 164 | 44 | 1 | 19 | 152 | 83 | 246 | 2.07e-57 | 183 |
| MS.gene069410.t1 | AT3G27230 | 78.000 | 100 | 22 | 0 | 25 | 124 | 89 | 188 | 9.07e-53 | 172 |
| MS.gene069410.t1 | AT5G40830 | 66.355 | 107 | 36 | 0 | 19 | 125 | 83 | 189 | 9.52e-48 | 159 |
| MS.gene069410.t1 | AT5G40830 | 66.355 | 107 | 36 | 0 | 19 | 125 | 83 | 189 | 9.52e-48 | 159 |
| MS.gene069410.t1 | AT4G01240 | 41.558 | 77 | 45 | 0 | 41 | 117 | 337 | 413 | 1.78e-16 | 75.9 |
| MS.gene069410.t1 | AT3G05390 | 36.364 | 77 | 49 | 0 | 41 | 117 | 153 | 229 | 3.67e-15 | 71.6 |
| MS.gene069410.t1 | AT1G29790 | 46.552 | 58 | 31 | 0 | 61 | 118 | 98 | 155 | 4.55e-14 | 68.6 |
| MS.gene069410.t1 | AT1G29790 | 46.552 | 58 | 31 | 0 | 61 | 118 | 98 | 155 | 4.55e-14 | 68.6 |
Find 27 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTCAGAAACTGATCTTAAA+AGG | 0.211099 | 1.1:-993113 | MS.gene069410:CDS |
| GGTTCAGTTTCACTGAAAAT+TGG | 0.255151 | 1.1:-993612 | MS.gene069410:CDS |
| TTTGATATTGGTGGTGGTTC+AGG | 0.273729 | 1.1:-992794 | MS.gene069410:CDS |
| CTAAAGGAAGTTGATGTCTT+TGG | 0.285958 | 1.1:+993267 | None:intergenic |
| CTGGTGCTTGTCCTGATGAT+TGG | 0.293180 | 1.1:-993142 | MS.gene069410:CDS |
| CAAAGACATCAACTTCCTTT+AGG | 0.332526 | 1.1:-993266 | MS.gene069410:CDS |
| GGAAATGGTGGAATTAGAAT+AGG | 0.346150 | 1.1:-992818 | MS.gene069410:CDS |
| TTCAGCTCATTTGCAATGTT+GGG | 0.356522 | 1.1:+993299 | None:intergenic |
| TTCATGAGTTACAAGGCTTC+TGG | 0.364603 | 1.1:-993161 | MS.gene069410:CDS |
| ATTAGAATAGGGTTTGATAT+TGG | 0.369699 | 1.1:-992806 | MS.gene069410:CDS |
| GAAATGGTGGAATTAGAATA+GGG | 0.380459 | 1.1:-992817 | MS.gene069410:CDS |
| TTAGGCAAGGATTCAAGAAC+TGG | 0.392044 | 1.1:-993248 | MS.gene069410:CDS |
| TTTCAGCTCATTTGCAATGT+TGG | 0.396349 | 1.1:+993298 | None:intergenic |
| AAGGAAGTTGATGTCTTTGG+AGG | 0.474654 | 1.1:+993270 | None:intergenic |
| AAACACCTTCTTCTTGGTAA+AGG | 0.474985 | 1.1:+993083 | None:intergenic |
| GTTCTTGAATCCTTGCCTAA+AGG | 0.475247 | 1.1:+993251 | None:intergenic |
| CTCAGAAACTGATCTTAAAA+GGG | 0.485828 | 1.1:-993112 | MS.gene069410:CDS |
| AGAATAGGGTTTGATATTGG+TGG | 0.487533 | 1.1:-992803 | MS.gene069410:CDS |
| AAGAACTGGGATCACTGAAA+TGG | 0.496871 | 1.1:-993234 | MS.gene069410:CDS |
| ATAGGGTTTGATATTGGTGG+TGG | 0.514507 | 1.1:-992800 | MS.gene069410:CDS |
| TGAGCTACACTCCAATCATC+AGG | 0.519786 | 1.1:+993131 | None:intergenic |
| GTTTCACTGAAAATTGGAGA+TGG | 0.532703 | 1.1:-993606 | MS.gene069410:CDS |
| GTCACAGTTCATGAGTTACA+AGG | 0.534645 | 1.1:-993168 | MS.gene069410:CDS |
| ACATCAACTTCCTTTAGGCA+AGG | 0.546386 | 1.1:-993261 | MS.gene069410:CDS |
| GTGAGCCTTTACCAAGAAGA+AGG | 0.569775 | 1.1:-993088 | MS.gene069410:CDS |
| ACTGAAATGGTGTCATCAGT+TGG | 0.572185 | 1.1:-993221 | MS.gene069410:CDS |
| TAGGCAAGGATTCAAGAACT+GGG | 0.665439 | 1.1:-993247 | MS.gene069410:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAAGTAAAAATGATTTTT+TGG | - | chr1.1:993511-993530 | MS.gene069410:intron | 10.0% |
| !!! | TTGGTAATAACACTTTTAAT+TGG | - | chr1.1:993372-993391 | MS.gene069410:intron | 20.0% |
| !!! | TTGTGTTAATTGTTTTGATT+TGG | - | chr1.1:993451-993470 | MS.gene069410:intron | 20.0% |
| ! | ATTAGAATAGGGTTTGATAT+TGG | - | chr1.1:993566-993585 | MS.gene069410:CDS | 25.0% |
| ! | TCAAAAACTGTTTCAAAATC+AGG | - | chr1.1:993313-993332 | MS.gene069410:CDS | 25.0% |
| !!! | AAGAGTTTTGAATGTTTGAA+AGG | - | chr1.1:993410-993429 | MS.gene069410:intron | 25.0% |
| !!! | AATAACACTTTTAATTGGAG+TGG | - | chr1.1:993377-993396 | MS.gene069410:intron | 25.0% |
| !!! | AATTGTTTTGATTTGGTTAG+TGG | - | chr1.1:993458-993477 | MS.gene069410:intron | 25.0% |
| !!! | AGATGTTTTTGTGAAGATTA+AGG | + | chr1.1:992939-992958 | None:intergenic | 25.0% |
| !!! | TTAAAAGTGTTATTACCAAG+AGG | + | chr1.1:993371-993390 | None:intergenic | 25.0% |
| AAGATTAAGGTTACTGTTGT+TGG | + | chr1.1:992926-992945 | None:intergenic | 30.0% | |
| CTCAGAAACTGATCTTAAAA+GGG | - | chr1.1:993260-993279 | MS.gene069410:CDS | 30.0% | |
| TTTGAAAAACACCTTCTTCT+TGG | + | chr1.1:993298-993317 | None:intergenic | 30.0% | |
| ! | GAAATGGTGGAATTAGAATA+GGG | - | chr1.1:993555-993574 | MS.gene069410:intron | 30.0% |
| !!! | GATGTTTTAGCATTAGGAAA+TGG | - | chr1.1:993539-993558 | MS.gene069410:intron | 30.0% |
| !!! | GTTGATGATGTTTTAGCATT+AGG | - | chr1.1:993533-993552 | MS.gene069410:intron | 30.0% |
| AAACACCTTCTTCTTGGTAA+AGG | + | chr1.1:993292-993311 | None:intergenic | 35.0% | |
| AGAATAGGGTTTGATATTGG+TGG | - | chr1.1:993569-993588 | MS.gene069410:CDS | 35.0% | |
| AGATGGAAAAAACAGCTTCT+TGG | - | chr1.1:993025-993044 | MS.gene069410:intron | 35.0% | |
| ATTAAGGTTACTGTTGTTGG+TGG | + | chr1.1:992923-992942 | None:intergenic | 35.0% | |
| CAAAGACATCAACTTCCTTT+AGG | - | chr1.1:993106-993125 | MS.gene069410:CDS | 35.0% | |
| GCTCAGAAACTGATCTTAAA+AGG | - | chr1.1:993259-993278 | MS.gene069410:CDS | 35.0% | |
| GGTTCAGTTTCACTGAAAAT+TGG | - | chr1.1:992760-992779 | MS.gene069410:CDS | 35.0% | |
| GTTTCACTGAAAATTGGAGA+TGG | - | chr1.1:992766-992785 | MS.gene069410:CDS | 35.0% | |
| TCTTCACAAAAACATCTCTC+TGG | - | chr1.1:992942-992961 | MS.gene069410:intron | 35.0% | |
| TGAGAATCAGAGATTTGTGA+AGG | - | chr1.1:993487-993506 | MS.gene069410:intron | 35.0% | |
| TTCAGCTCATTTGCAATGTT+GGG | + | chr1.1:993076-993095 | None:intergenic | 35.0% | |
| TTCCAAAGAGAAACAGGAAA+AGG | + | chr1.1:993347-993366 | None:intergenic | 35.0% | |
| TTTCAGCTCATTTGCAATGT+TGG | + | chr1.1:993077-993096 | None:intergenic | 35.0% | |
| ! | GGAAATGGTGGAATTAGAAT+AGG | - | chr1.1:993554-993573 | MS.gene069410:intron | 35.0% |
| !! | CTAAAGGAAGTTGATGTCTT+TGG | + | chr1.1:993108-993127 | None:intergenic | 35.0% |
| !! | GTTTTAGCATTAGGAAATGG+TGG | - | chr1.1:993542-993561 | MS.gene069410:intron | 35.0% |
| !! | TTCCTTTTCCTGTTTCTCTT+TGG | - | chr1.1:993342-993361 | MS.gene069410:intron | 35.0% |
| !!! | AAGAAGCTGTTTTTTCCATC+TGG | + | chr1.1:993026-993045 | None:intergenic | 35.0% |
| !!! | AGAAGCTGTTTTTTCCATCT+GGG | + | chr1.1:993025-993044 | None:intergenic | 35.0% |
| !!! | TGTTTTGATTTGGTTAGTGG+TGG | - | chr1.1:993461-993480 | MS.gene069410:intron | 35.0% |
| AAGAACTGGGATCACTGAAA+TGG | - | chr1.1:993138-993157 | MS.gene069410:CDS | 40.0% | |
| ACATCAACTTCCTTTAGGCA+AGG | - | chr1.1:993111-993130 | MS.gene069410:CDS | 40.0% | |
| AGCATAGAGAGCAAAGAGAT+TGG | + | chr1.1:992866-992885 | None:intergenic | 40.0% | |
| ATAGGGTTTGATATTGGTGG+TGG | - | chr1.1:993572-993591 | MS.gene069410:CDS | 40.0% | |
| GTCACAGTTCATGAGTTACA+AGG | - | chr1.1:993204-993223 | MS.gene069410:CDS | 40.0% | |
| GTTCTTGAATCCTTGCCTAA+AGG | + | chr1.1:993124-993143 | None:intergenic | 40.0% | |
| TAGGCAAGGATTCAAGAACT+GGG | - | chr1.1:993125-993144 | MS.gene069410:CDS | 40.0% | |
| TCAAAAGAAACTAGCCCAGA+TGG | - | chr1.1:993008-993027 | MS.gene069410:intron | 40.0% | |
| TTAGGCAAGGATTCAAGAAC+TGG | - | chr1.1:993124-993143 | MS.gene069410:CDS | 40.0% | |
| TTCATGAGTTACAAGGCTTC+TGG | - | chr1.1:993211-993230 | MS.gene069410:CDS | 40.0% | |
| !! | AAGGAAGTTGATGTCTTTGG+AGG | + | chr1.1:993105-993124 | None:intergenic | 40.0% |
| !! | ACTGAAATGGTGTCATCAGT+TGG | - | chr1.1:993151-993170 | MS.gene069410:CDS | 40.0% |
| !! | TTTGATATTGGTGGTGGTTC+AGG | - | chr1.1:993578-993597 | MS.gene069410:CDS | 40.0% |
| AGAGGCTTCCAAAGAGAAAC+AGG | + | chr1.1:993353-993372 | None:intergenic | 45.0% | |
| GTGAGCCTTTACCAAGAAGA+AGG | - | chr1.1:993284-993303 | MS.gene069410:CDS | 45.0% | |
| TGAGCTACACTCCAATCATC+AGG | + | chr1.1:993244-993263 | None:intergenic | 45.0% | |
| ! | GTTTCTCTTTGGAAGCCTCT+TGG | - | chr1.1:993353-993372 | MS.gene069410:intron | 45.0% |
| !! | GTTACTGTTGTTGGTGGTTG+TGG | + | chr1.1:992917-992936 | None:intergenic | 45.0% |
| !!! | GGTTGTGGTGTGGTTTTTTG+AGG | + | chr1.1:992902-992921 | None:intergenic | 45.0% |
| CTGGTGCTTGTCCTGATGAT+TGG | - | chr1.1:993230-993249 | MS.gene069410:CDS | 50.0% | |
| !! | TGTTGTTGGTGGTTGTGGTG+TGG | + | chr1.1:992912-992931 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.1 | gene | 992757 | 993637 | 992757 | ID=MS.gene069410 |
| chr1.1 | mRNA | 992757 | 993637 | 992757 | ID=MS.gene069410.t1;Parent=MS.gene069410 |
| chr1.1 | exon | 993566 | 993637 | 993566 | ID=MS.gene069410.t1.exon1;Parent=MS.gene069410.t1 |
| chr1.1 | CDS | 993566 | 993637 | 993566 | ID=cds.MS.gene069410.t1;Parent=MS.gene069410.t1 |
| chr1.1 | exon | 993060 | 993354 | 993060 | ID=MS.gene069410.t1.exon2;Parent=MS.gene069410.t1 |
| chr1.1 | CDS | 993060 | 993354 | 993060 | ID=cds.MS.gene069410.t1;Parent=MS.gene069410.t1 |
| chr1.1 | exon | 992757 | 992845 | 992757 | ID=MS.gene069410.t1.exon3;Parent=MS.gene069410.t1 |
| chr1.1 | CDS | 992757 | 992845 | 992757 | ID=cds.MS.gene069410.t1;Parent=MS.gene069410.t1 |
| Gene Sequence |
| Protein sequence |
