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.gene052973.t1 | PNX85949.1 | 84.9 | 311 | 46 | 1 | 1 | 310 | 60 | 370 | 7.90E-157 | 563.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052973.t1 | Q6AZB8 | 25.2 | 258 | 154 | 10 | 19 | 260 | 81 | 315 | 1.5e-10 | 68.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052973.t1 | A0A2K3M5A0 | 84.9 | 311 | 46 | 1 | 1 | 310 | 60 | 370 | 5.7e-157 | 563.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052973 | MS.gene26689 | 0.889214 | 2.96E-73 | -1.69E-46 |
| MS.gene052973 | MS.gene31717 | 0.845159 | 4.83E-59 | -1.69E-46 |
| MS.gene052973 | MS.gene77628 | 0.803887 | 2.81E-49 | -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.gene052973.t1 | MTR_1g085720 | 75.714 | 70 | 17 | 0 | 1 | 70 | 34 | 103 | 3.53e-33 | 118 |
| MS.gene052973.t1 | MTR_4g055725 | 33.529 | 170 | 92 | 4 | 3 | 172 | 110 | 258 | 1.07e-21 | 92.8 |
| MS.gene052973.t1 | MTR_8g073195 | 37.624 | 101 | 60 | 2 | 209 | 309 | 47 | 144 | 7.33e-13 | 65.5 |
| MS.gene052973.t1 | MTR_4g117120 | 33.019 | 106 | 65 | 2 | 1 | 106 | 183 | 282 | 5.55e-12 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052973.t1 | AT1G43722 | 42.986 | 221 | 119 | 3 | 5 | 219 | 100 | 319 | 6.86e-59 | 192 |
| MS.gene052973.t1 | AT5G41980 | 30.719 | 306 | 185 | 6 | 7 | 305 | 78 | 363 | 1.39e-46 | 161 |
| MS.gene052973.t1 | AT3G30525 | 39.623 | 159 | 90 | 2 | 84 | 237 | 1 | 158 | 4.57e-35 | 125 |
| MS.gene052973.t1 | AT5G28730 | 34.807 | 181 | 92 | 3 | 5 | 184 | 58 | 213 | 2.88e-34 | 127 |
| MS.gene052973.t1 | AT5G35695 | 37.956 | 137 | 72 | 2 | 121 | 256 | 24 | 148 | 3.89e-26 | 103 |
| MS.gene052973.t1 | AT5G28950 | 40.659 | 91 | 54 | 0 | 63 | 153 | 8 | 98 | 1.89e-21 | 89.0 |
| MS.gene052973.t1 | AT4G10890 | 42.857 | 91 | 51 | 1 | 133 | 223 | 71 | 160 | 4.21e-18 | 85.1 |
| MS.gene052973.t1 | AT4G10890 | 42.857 | 91 | 51 | 1 | 133 | 223 | 71 | 160 | 4.21e-18 | 85.1 |
| MS.gene052973.t1 | AT4G10890 | 42.857 | 91 | 51 | 1 | 133 | 223 | 71 | 160 | 4.21e-18 | 85.1 |
Find 52 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTCTATCATCTTTGATTT+TGG | 0.107381 | 4.2:-93694090 | None:intergenic |
| AGAAATGTTCAAAATAAATT+TGG | 0.175729 | 4.2:+93693957 | MS.gene052973:CDS |
| TTCTTTCAATGACATTTCTA+AGG | 0.228551 | 4.2:-93694626 | None:intergenic |
| AAAGATCAAATTCGTTATAT+TGG | 0.275852 | 4.2:+93694182 | MS.gene052973:CDS |
| GATAGATATCCTTTCATGTT+TGG | 0.305736 | 4.2:-93694510 | None:intergenic |
| AGGCACTTGTGATGTTTCTT+TGG | 0.313453 | 4.2:+93693910 | MS.gene052973:CDS |
| CGAGCATATATCCTTGGATT+TGG | 0.329097 | 4.2:-93694800 | None:intergenic |
| CCGATGCATCCTTCAAAATA+AGG | 0.333834 | 4.2:-93694119 | None:intergenic |
| TTTGTTGTTGTTGGCTGGCC+TGG | 0.350368 | 4.2:+93694266 | MS.gene052973:CDS |
| TCTTGTTTGATTAGTGGAAA+TGG | 0.370259 | 4.2:-93694696 | None:intergenic |
| TTGAAAGAACAATTGGTGTT+TGG | 0.373420 | 4.2:+93694640 | MS.gene052973:CDS |
| TAACGAATTTGATCTTTAGT+AGG | 0.379665 | 4.2:-93694176 | None:intergenic |
| ATTCGTTATATTGGCAGAAA+AGG | 0.394672 | 4.2:+93694191 | MS.gene052973:CDS |
| TCAAAGATGATAGAAGATAT+TGG | 0.401243 | 4.2:+93694096 | MS.gene052973:CDS |
| CTCGTTCGAGCATATATCCT+TGG | 0.409241 | 4.2:-93694806 | None:intergenic |
| ATTATATGAACTCGAATCTT+CGG | 0.417048 | 4.2:-93694847 | None:intergenic |
| TCAAATAGCCACTAAGTTGT+TGG | 0.422025 | 4.2:+93694911 | MS.gene052973:CDS |
| AATGTCATTGAAAGAACAAT+TGG | 0.424218 | 4.2:+93694633 | MS.gene052973:CDS |
| GGATGCATCGGTGCTATAGA+TGG | 0.428232 | 4.2:+93694131 | MS.gene052973:CDS |
| AAGATGAGGAATTCAACAAA+TGG | 0.440534 | 4.2:+93694775 | MS.gene052973:CDS |
| TTCACTAAACTTCCTACTTA+CGG | 0.442099 | 4.2:-93693994 | None:intergenic |
| TGACTGCCATCTCTAAAATC+AGG | 0.452335 | 4.2:-93694561 | None:intergenic |
| CAATTGGTGTTTGGAAGAAA+AGG | 0.453010 | 4.2:+93694649 | MS.gene052973:CDS |
| TGATATCTTTCACCTTTGTA+TGG | 0.453127 | 4.2:-93694534 | None:intergenic |
| ATTTCTGTGAAGTTAAAATC+AGG | 0.454308 | 4.2:-93694062 | None:intergenic |
| AAGTATTACTTGGTTGATGC+AGG | 0.461050 | 4.2:+93694483 | MS.gene052973:CDS |
| CATAACTTCATTCGAATATG+TGG | 0.472793 | 4.2:+93694747 | MS.gene052973:CDS |
| CGTGTGTCATGCGCAGTACC+AGG | 0.480441 | 4.2:-93694284 | None:intergenic |
| ATTTCTAGGAAAGTATTACT+TGG | 0.498326 | 4.2:+93694473 | MS.gene052973:intron |
| ATCAAACGAAATGACATCCT+TGG | 0.510213 | 4.2:+93693887 | None:intergenic |
| ATCGTACCTTCAGGAGGATG+AGG | 0.518203 | 4.2:-93694347 | None:intergenic |
| AGATGAGGAATTCAACAAAT+GGG | 0.524003 | 4.2:+93694776 | MS.gene052973:CDS |
| TCTTTCAATGACATTTCTAA+GGG | 0.531707 | 4.2:-93694625 | None:intergenic |
| TATAATTTAAGAGTACAAGA+TGG | 0.540136 | 4.2:+93694864 | MS.gene052973:CDS |
| AAACATCACAAGTGCCTCCA+AGG | 0.555823 | 4.2:-93693904 | None:intergenic |
| TCTTTAGTAGGAACGATGGT+AGG | 0.574266 | 4.2:-93694164 | None:intergenic |
| ATAATTTAAGAGTACAAGAT+GGG | 0.578232 | 4.2:+93694865 | MS.gene052973:CDS |
| AGTACAAGATGGGAGCTACA+TGG | 0.581291 | 4.2:+93694875 | MS.gene052973:CDS |
| AACAAATGGGACCAAATCCA+AGG | 0.586140 | 4.2:+93694789 | MS.gene052973:CDS |
| AATCAAGAGAGACCGTAAGT+AGG | 0.586967 | 4.2:+93693982 | MS.gene052973:CDS |
| GTGTTCCCTCATCCTCCTGA+AGG | 0.587543 | 4.2:+93694341 | MS.gene052973:CDS |
| AAACGAAATGACATCCTTGG+AGG | 0.589096 | 4.2:+93693890 | None:intergenic |
| GCAGGATATCCAAACATGAA+AGG | 0.592144 | 4.2:+93694501 | MS.gene052973:CDS |
| TACTAGCAAAAGAAATTGTG+AGG | 0.592380 | 4.2:+93694036 | MS.gene052973:CDS |
| TTGGTGTTTGGAAGAAAAGG+TGG | 0.597185 | 4.2:+93694652 | MS.gene052973:CDS |
| AATATGTGGCGTTCAAGATG+AGG | 0.609133 | 4.2:+93694761 | MS.gene052973:CDS |
| TCTGTGAAGTTAAAATCAGG+AGG | 0.623384 | 4.2:-93694059 | None:intergenic |
| TCGTACCTTCAGGAGGATGA+GGG | 0.629341 | 4.2:-93694346 | None:intergenic |
| TTGATCTTTAGTAGGAACGA+TGG | 0.644089 | 4.2:-93694168 | None:intergenic |
| AGAGATGGCAGTCAAGCACA+AGG | 0.648134 | 4.2:+93694570 | MS.gene052973:CDS |
| AGATTAATCGTACCTTCAGG+AGG | 0.657477 | 4.2:-93694353 | None:intergenic |
| GGATATCTATCACCATACAA+AGG | 0.686019 | 4.2:+93694522 | MS.gene052973:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAATGTTCAAAATAAATT+TGG | + | chr4.2:93693957-93693976 | MS.gene052973:CDS | 15.0% |
| !! | AAAGATCAAATTCGTTATAT+TGG | + | chr4.2:93694182-93694201 | MS.gene052973:CDS | 20.0% |
| !! | GTGATTTATATAGTATTACT+TGG | + | chr4.2:93694399-93694418 | MS.gene052973:intron | 20.0% |
| !!! | ATAATTTAAGAGTACAAGAT+GGG | + | chr4.2:93694865-93694884 | MS.gene052973:CDS | 20.0% |
| !!! | TATAATTTAAGAGTACAAGA+TGG | + | chr4.2:93694864-93694883 | MS.gene052973:CDS | 20.0% |
| ! | AATGTCATTGAAAGAACAAT+TGG | + | chr4.2:93694633-93694652 | MS.gene052973:CDS | 25.0% |
| ! | ATTATATGAACTCGAATCTT+CGG | - | chr4.2:93694850-93694869 | None:intergenic | 25.0% |
| ! | ATTTCTGTGAAGTTAAAATC+AGG | - | chr4.2:93694065-93694084 | None:intergenic | 25.0% |
| ! | TAACGAATTTGATCTTTAGT+AGG | - | chr4.2:93694179-93694198 | None:intergenic | 25.0% |
| ! | TCAAAGATGATAGAAGATAT+TGG | + | chr4.2:93694096-93694115 | MS.gene052973:CDS | 25.0% |
| ! | TCTTTCAATGACATTTCTAA+GGG | - | chr4.2:93694628-93694647 | None:intergenic | 25.0% |
| ! | TTCTTTCAATGACATTTCTA+AGG | - | chr4.2:93694629-93694648 | None:intergenic | 25.0% |
| !! | ACACATTTTTCATTTCTTCA+AGG | - | chr4.2:93694325-93694344 | None:intergenic | 25.0% |
| !!! | ATCTTTTCTTGTTTGATTAG+TGG | - | chr4.2:93694705-93694724 | None:intergenic | 25.0% |
| !!! | ATTTCTAGGAAAGTATTACT+TGG | + | chr4.2:93694473-93694492 | MS.gene052973:intron | 25.0% |
| !!! | TCTTCTATCATCTTTGATTT+TGG | - | chr4.2:93694093-93694112 | None:intergenic | 25.0% |
| !!! | TTAATCACTTTTGTTGTTGT+TGG | + | chr4.2:93694257-93694276 | MS.gene052973:CDS | 25.0% |
| AAAAGATTAATCGTACCTTC+AGG | - | chr4.2:93694359-93694378 | None:intergenic | 30.0% | |
| AAGATGAGGAATTCAACAAA+TGG | + | chr4.2:93694775-93694794 | MS.gene052973:CDS | 30.0% | |
| AGATGAGGAATTCAACAAAT+GGG | + | chr4.2:93694776-93694795 | MS.gene052973:CDS | 30.0% | |
| ATTCGTTATATTGGCAGAAA+AGG | + | chr4.2:93694191-93694210 | MS.gene052973:CDS | 30.0% | |
| CATAACTTCATTCGAATATG+TGG | + | chr4.2:93694747-93694766 | MS.gene052973:CDS | 30.0% | |
| GATAGATATCCTTTCATGTT+TGG | - | chr4.2:93694513-93694532 | None:intergenic | 30.0% | |
| TACTAGCAAAAGAAATTGTG+AGG | + | chr4.2:93694036-93694055 | MS.gene052973:CDS | 30.0% | |
| TGATATCTTTCACCTTTGTA+TGG | - | chr4.2:93694537-93694556 | None:intergenic | 30.0% | |
| TTCACTAAACTTCCTACTTA+CGG | - | chr4.2:93693997-93694016 | None:intergenic | 30.0% | |
| ! | TCTTGTTTGATTAGTGGAAA+TGG | - | chr4.2:93694699-93694718 | None:intergenic | 30.0% |
| ! | TTGAAAGAACAATTGGTGTT+TGG | + | chr4.2:93694640-93694659 | MS.gene052973:CDS | 30.0% |
| !! | CTATCATCTTTGATTTTGGA+TGG | - | chr4.2:93694089-93694108 | None:intergenic | 30.0% |
| !! | TTTGTTTTCCAACAACTTAG+TGG | - | chr4.2:93694922-93694941 | None:intergenic | 30.0% |
| !!! | AGATATTGGCCTTATTTTGA+AGG | + | chr4.2:93694110-93694129 | MS.gene052973:CDS | 30.0% |
| GGATATCTATCACCATACAA+AGG | + | chr4.2:93694522-93694541 | MS.gene052973:CDS | 35.0% | |
| TCAAATAGCCACTAAGTTGT+TGG | + | chr4.2:93694911-93694930 | MS.gene052973:CDS | 35.0% | |
| TCTGTGAAGTTAAAATCAGG+AGG | - | chr4.2:93694062-93694081 | None:intergenic | 35.0% | |
| TTGATCTTTAGTAGGAACGA+TGG | - | chr4.2:93694171-93694190 | None:intergenic | 35.0% | |
| ! | AAGTATTACTTGGTTGATGC+AGG | + | chr4.2:93694483-93694502 | MS.gene052973:CDS | 35.0% |
| ! | ACTAACATGACATTTTGCGT+TGG | - | chr4.2:93694221-93694240 | None:intergenic | 35.0% |
| ! | CAATTGGTGTTTGGAAGAAA+AGG | + | chr4.2:93694649-93694668 | MS.gene052973:CDS | 35.0% |
| !! | CACATTCCTGATTTTAGAGA+TGG | + | chr4.2:93694555-93694574 | MS.gene052973:CDS | 35.0% |
| !!! | CCTTATTTTGAAGGATGCAT+CGG | + | chr4.2:93694119-93694138 | MS.gene052973:CDS | 35.0% |
| AACAAATGGGACCAAATCCA+AGG | + | chr4.2:93694789-93694808 | MS.gene052973:CDS | 40.0% | |
| AATATGTGGCGTTCAAGATG+AGG | + | chr4.2:93694761-93694780 | MS.gene052973:CDS | 40.0% | |
| AATCAAGAGAGACCGTAAGT+AGG | + | chr4.2:93693982-93694001 | MS.gene052973:CDS | 40.0% | |
| AGATTAATCGTACCTTCAGG+AGG | - | chr4.2:93694356-93694375 | None:intergenic | 40.0% | |
| AGGCACTTGTGATGTTTCTT+TGG | + | chr4.2:93693910-93693929 | MS.gene052973:CDS | 40.0% | |
| CCGATGCATCCTTCAAAATA+AGG | - | chr4.2:93694122-93694141 | None:intergenic | 40.0% | |
| CGAGCATATATCCTTGGATT+TGG | - | chr4.2:93694803-93694822 | None:intergenic | 40.0% | |
| GCAGGATATCCAAACATGAA+AGG | + | chr4.2:93694501-93694520 | MS.gene052973:CDS | 40.0% | |
| TCTTTAGTAGGAACGATGGT+AGG | - | chr4.2:93694167-93694186 | None:intergenic | 40.0% | |
| ! | TTGGTGTTTGGAAGAAAAGG+TGG | + | chr4.2:93694652-93694671 | MS.gene052973:CDS | 40.0% |
| !! | TGACTGCCATCTCTAAAATC+AGG | - | chr4.2:93694564-93694583 | None:intergenic | 40.0% |
| !!! | TCACTTTTGTTGTTGTTGGC+TGG | + | chr4.2:93694261-93694280 | MS.gene052973:CDS | 40.0% |
| AAACATCACAAGTGCCTCCA+AGG | - | chr4.2:93693907-93693926 | None:intergenic | 45.0% | |
| AGTACAAGATGGGAGCTACA+TGG | + | chr4.2:93694875-93694894 | MS.gene052973:CDS | 45.0% | |
| CTCGTTCGAGCATATATCCT+TGG | - | chr4.2:93694809-93694828 | None:intergenic | 45.0% | |
| !!! | TTTTATTTTTATATATTTCT+AGG | + | chr4.2:93694459-93694478 | MS.gene052973:intron | 5.0% |
| AGAGATGGCAGTCAAGCACA+AGG | + | chr4.2:93694570-93694589 | MS.gene052973:CDS | 50.0% | |
| ATCGTACCTTCAGGAGGATG+AGG | - | chr4.2:93694350-93694369 | None:intergenic | 50.0% | |
| TCGTACCTTCAGGAGGATGA+GGG | - | chr4.2:93694349-93694368 | None:intergenic | 50.0% | |
| !! | GGATGCATCGGTGCTATAGA+TGG | + | chr4.2:93694131-93694150 | MS.gene052973:CDS | 50.0% |
| !! | TTTGTTGTTGTTGGCTGGCC+TGG | + | chr4.2:93694266-93694285 | MS.gene052973:CDS | 50.0% |
| GTGTTCCCTCATCCTCCTGA+AGG | + | chr4.2:93694341-93694360 | MS.gene052973:CDS | 55.0% | |
| CGTGTGTCATGCGCAGTACC+AGG | - | chr4.2:93694287-93694306 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 93693897 | 93694959 | 93693897 | ID=MS.gene052973 |
| chr4.2 | mRNA | 93693897 | 93694959 | 93693897 | ID=MS.gene052973.t1;Parent=MS.gene052973 |
| chr4.2 | exon | 93693897 | 93694362 | 93693897 | ID=MS.gene052973.t1.exon1;Parent=MS.gene052973.t1 |
| chr4.2 | CDS | 93693897 | 93694362 | 93693897 | ID=cds.MS.gene052973.t1;Parent=MS.gene052973.t1 |
| chr4.2 | exon | 93694481 | 93694959 | 93694481 | ID=MS.gene052973.t1.exon2;Parent=MS.gene052973.t1 |
| chr4.2 | CDS | 93694481 | 93694959 | 93694481 | ID=cds.MS.gene052973.t1;Parent=MS.gene052973.t1 |
| Gene Sequence |
| Protein sequence |
