Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796310 | AES94268.1 | 90.530 | 264 | 22 | 2 | 1 | 264 | 1 | 261 | 1.34e-167 | 474 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796310 | sp|Q39092|ZAT1_ARATH | 30.000 | 310 | 110 | 14 | 2 | 262 | 3 | 254 | 2.99e-21 | 93.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796310 | G7JW35 | 90.530 | 264 | 22 | 2 | 1 | 264 | 1 | 261 | 6.41e-168 | 474 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0796310 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796310 | MtrunA17_Chr5g0399261 | 90.530 | 264 | 22 | 2 | 1 | 264 | 5 | 265 | 2.29e-171 | 473 |
| Msa0796310 | MtrunA17_Chr4g0056091 | 38.125 | 320 | 120 | 10 | 1 | 262 | 1 | 300 | 3.80e-50 | 167 |
| Msa0796310 | MtrunA17_Chr7g0231181 | 35.145 | 276 | 131 | 10 | 1 | 242 | 1 | 262 | 1.51e-32 | 122 |
| Msa0796310 | MtrunA17_Chr4g0012691 | 29.412 | 272 | 131 | 9 | 1 | 242 | 2 | 242 | 1.12e-19 | 87.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796310 | AT1G02030.1 | 30.000 | 310 | 110 | 14 | 2 | 262 | 3 | 254 | 3.04e-22 | 93.2 |
| Msa0796310 | AT3G60580.1 | 28.571 | 322 | 125 | 12 | 1 | 263 | 1 | 276 | 1.56e-21 | 91.7 |
| Msa0796310 | AT4G16610.1 | 34.694 | 196 | 90 | 6 | 3 | 190 | 4 | 169 | 2.02e-21 | 89.4 |
| Msa0796310 | AT2G45120.1 | 30.818 | 318 | 147 | 13 | 1 | 263 | 1 | 300 | 8.51e-17 | 79.0 |
Find 42 sgRNAs with CRISPR-Local
Find 106 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTTTGTTCTACTGTTTGT+TGG | 0.274072 | 5_3:+8384070 | None:intergenic |
| GTTATAGCAGCTTCTTCTTC+AGG | 0.287165 | 5_3:+8383778 | None:intergenic |
| GTGAGACTGTGTTTGTGGTT+GGG | 0.301334 | 5_3:+8384152 | None:intergenic |
| TGATGCTATCAAGAGATAAA+TGG | 0.312199 | 5_3:-8383750 | Msa0796310:CDS |
| TCTTCTTCAAAGATGGATAA+AGG | 0.316679 | 5_3:+8383536 | None:intergenic |
| TTTGGGTCTTATCAAGCATT+AGG | 0.320914 | 5_3:-8383577 | Msa0796310:CDS |
| TGAGACTGTGTTTGTGGTTG+GGG | 0.323538 | 5_3:+8384153 | None:intergenic |
| AAAAGTGAAGTAACAGGTTC+TGG | 0.326984 | 5_3:+8383811 | None:intergenic |
| GGTGAGACTGTGTTTGTGGT+TGG | 0.358391 | 5_3:+8384151 | None:intergenic |
| TGGAGGAGGAAGAGGGAGGG+TGG | 0.358849 | 5_3:+8384179 | None:intergenic |
| TTGACTTTCTTCTTCAAAGA+TGG | 0.377776 | 5_3:+8383529 | None:intergenic |
| AGAAGATGAAAATGAGAGTA+AGG | 0.382859 | 5_3:+8384110 | None:intergenic |
| GAGAGTAAGGTAGAAATAGA+AGG | 0.393719 | 5_3:+8384123 | None:intergenic |
| AAGAAGAACAAGAGGTTTGT+GGG | 0.419409 | 5_3:-8383705 | Msa0796310:CDS |
| ATGAAAAGAGTCTAATGTAT+AGG | 0.419874 | 5_3:-8384041 | Msa0796310:CDS |
| GGTTTGGAGGAGGAAGAGGG+AGG | 0.424122 | 5_3:+8384175 | None:intergenic |
| TGTCGTTGAGAAAGAAAACT+TGG | 0.426138 | 5_3:+8383978 | None:intergenic |
| CCAATGTGTGTTGTGTCCTA+AGG | 0.440846 | 5_3:-8383602 | Msa0796310:CDS |
| GTGTGGTGAGACTGTGTTTG+TGG | 0.448631 | 5_3:+8384147 | None:intergenic |
| TTCATCAATGGTAAAGCATT+GGG | 0.449808 | 5_3:-8384225 | Msa0796310:CDS |
| TTATAGCAGCTTCTTCTTCA+GGG | 0.455323 | 5_3:+8383779 | None:intergenic |
| ATTCATCAATGGTAAAGCAT+TGG | 0.467655 | 5_3:-8384226 | Msa0796310:CDS |
| TGCTCAAGAACATTCATCAA+TGG | 0.467969 | 5_3:-8384237 | Msa0796310:CDS |
| GAAGAAGAACAAGAGGTTTG+TGG | 0.477829 | 5_3:-8383706 | Msa0796310:CDS |
| TTGAGTTGGGTTCTTTGACT+CGG | 0.507209 | 5_3:+8383924 | None:intergenic |
| GTTTGGAGGAGGAAGAGGGA+GGG | 0.527735 | 5_3:+8384176 | None:intergenic |
| AAGTTGAAAAGTGAAGTAAC+AGG | 0.534456 | 5_3:+8383805 | None:intergenic |
| CCTTAGGACACAACACACAT+TGG | 0.557562 | 5_3:+8383602 | None:intergenic |
| AGGTAGAAATAGAAGGAGTG+TGG | 0.561701 | 5_3:+8384130 | None:intergenic |
| AGCATTGGGTGGACACATGA+AGG | 0.563543 | 5_3:-8384211 | Msa0796310:CDS |
| GAGACTGTGTTTGTGGTTGG+GGG | 0.564499 | 5_3:+8384154 | None:intergenic |
| TATAGCAGCTTCTTCTTCAG+GGG | 0.571162 | 5_3:+8383780 | None:intergenic |
| GGATCATCTTCTTATGGTGA+AGG | 0.576866 | 5_3:+8383475 | None:intergenic |
| ATCTCTTGATAGCATCATGA+GGG | 0.581541 | 5_3:+8383756 | None:intergenic |
| TGTCAAAGAAGAAGAACAAG+AGG | 0.589020 | 5_3:-8383713 | Msa0796310:CDS |
| GGGTCTTATCAAGCATTAGG+TGG | 0.592709 | 5_3:-8383574 | Msa0796310:CDS |
| GTCGTTGAGAAAGAAAACTT+GGG | 0.594625 | 5_3:+8383979 | None:intergenic |
| ATCAATGGTAAAGCATTGGG+TGG | 0.611558 | 5_3:-8384222 | Msa0796310:CDS |
| TCATCTTCTTATGGTGAAGG+TGG | 0.621015 | 5_3:+8383478 | None:intergenic |
| TATCTCTTGATAGCATCATG+AGG | 0.628708 | 5_3:+8383755 | None:intergenic |
| ATGGTGAAGGTGGCAAGTTG+AGG | 0.636726 | 5_3:+8383488 | None:intergenic |
| TAGTTAGTGCCAAAATGGAG+AGG | 0.667442 | 5_3:-8384275 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAAAGTTTGAAACATTTTTT+GGG | + | chr5_3:8383744-8383763 | None:intergenic | 20.0% |
| !!! | TGAAAGTTTGAAACATTTTT+TGG | + | chr5_3:8383745-8383764 | None:intergenic | 20.0% |
| !!! | GAAAGTTTGAAACATTTTTT+GGG | + | chr5_3:8383744-8383763 | None:intergenic | 20.0% |
| !!! | TGAAAGTTTGAAACATTTTT+TGG | + | chr5_3:8383745-8383764 | None:intergenic | 20.0% |
| ! | ATGAAAAGAGTCTAATGTAT+AGG | - | chr5_3:8383706-8383725 | Msa0796310:CDS | 25.0% |
| !!! | TGAGTTTTCTTTTTTGAGTT+GGG | + | chr5_3:8383839-8383858 | None:intergenic | 25.0% |
| ! | ATGAAAAGAGTCTAATGTAT+AGG | - | chr5_3:8383706-8383725 | Msa0796310:CDS | 25.0% |
| !!! | TGAGTTTTCTTTTTTGAGTT+GGG | + | chr5_3:8383839-8383858 | None:intergenic | 25.0% |
| ATTCATCAATGGTAAAGCAT+TGG | - | chr5_3:8383521-8383540 | Msa0796310:CDS | 30.0% | |
| ! | TTCATCAATGGTAAAGCATT+GGG | - | chr5_3:8383522-8383541 | Msa0796310:CDS | 30.0% |
| AGAAGATGAAAATGAGAGTA+AGG | + | chr5_3:8383640-8383659 | None:intergenic | 30.0% | |
| !!! | GTGAGTTTTCTTTTTTGAGT+TGG | + | chr5_3:8383840-8383859 | None:intergenic | 30.0% |
| ! | TTGTTCAGAATTTTGGACAA+AGG | + | chr5_3:8383862-8383881 | None:intergenic | 30.0% |
| ! | GCTTCTTTTGTTCAGAATTT+TGG | + | chr5_3:8383869-8383888 | None:intergenic | 30.0% |
| AAGTTGAAAAGTGAAGTAAC+AGG | + | chr5_3:8383945-8383964 | None:intergenic | 30.0% | |
| TGATGCTATCAAGAGATAAA+TGG | - | chr5_3:8383997-8384016 | Msa0796310:CDS | 30.0% | |
| TCTTCTTCAAAGATGGATAA+AGG | + | chr5_3:8384214-8384233 | None:intergenic | 30.0% | |
| TTGACTTTCTTCTTCAAAGA+TGG | + | chr5_3:8384221-8384240 | None:intergenic | 30.0% | |
| ATTCATCAATGGTAAAGCAT+TGG | - | chr5_3:8383521-8383540 | Msa0796310:CDS | 30.0% | |
| ! | TTCATCAATGGTAAAGCATT+GGG | - | chr5_3:8383522-8383541 | Msa0796310:CDS | 30.0% |
| AGAAGATGAAAATGAGAGTA+AGG | + | chr5_3:8383640-8383659 | None:intergenic | 30.0% | |
| !!! | GTGAGTTTTCTTTTTTGAGT+TGG | + | chr5_3:8383840-8383859 | None:intergenic | 30.0% |
| ! | TTGTTCAGAATTTTGGACAA+AGG | + | chr5_3:8383862-8383881 | None:intergenic | 30.0% |
| ! | GCTTCTTTTGTTCAGAATTT+TGG | + | chr5_3:8383869-8383888 | None:intergenic | 30.0% |
| AAGTTGAAAAGTGAAGTAAC+AGG | + | chr5_3:8383945-8383964 | None:intergenic | 30.0% | |
| TGATGCTATCAAGAGATAAA+TGG | - | chr5_3:8383997-8384016 | Msa0796310:CDS | 30.0% | |
| TCTTCTTCAAAGATGGATAA+AGG | + | chr5_3:8384214-8384233 | None:intergenic | 30.0% | |
| TTGACTTTCTTCTTCAAAGA+TGG | + | chr5_3:8384221-8384240 | None:intergenic | 30.0% | |
| TGCTCAAGAACATTCATCAA+TGG | - | chr5_3:8383510-8383529 | Msa0796310:CDS | 35.0% | |
| GAGAGTAAGGTAGAAATAGA+AGG | + | chr5_3:8383627-8383646 | None:intergenic | 35.0% | |
| CTCTTTGTTCTACTGTTTGT+TGG | + | chr5_3:8383680-8383699 | None:intergenic | 35.0% | |
| GTCGTTGAGAAAGAAAACTT+GGG | + | chr5_3:8383771-8383790 | None:intergenic | 35.0% | |
| TGTCGTTGAGAAAGAAAACT+TGG | + | chr5_3:8383772-8383791 | None:intergenic | 35.0% | |
| AAAAGTGAAGTAACAGGTTC+TGG | + | chr5_3:8383939-8383958 | None:intergenic | 35.0% | |
| TTATAGCAGCTTCTTCTTCA+GGG | + | chr5_3:8383971-8383990 | None:intergenic | 35.0% | |
| ! | ATCTCTTGATAGCATCATGA+GGG | + | chr5_3:8383994-8384013 | None:intergenic | 35.0% |
| ! | TATCTCTTGATAGCATCATG+AGG | + | chr5_3:8383995-8384014 | None:intergenic | 35.0% |
| TGTCAAAGAAGAAGAACAAG+AGG | - | chr5_3:8384034-8384053 | Msa0796310:CDS | 35.0% | |
| AAGAAGAACAAGAGGTTTGT+GGG | - | chr5_3:8384042-8384061 | Msa0796310:CDS | 35.0% | |
| ! | TGTTGTGTCCTAAGGTTTTT+GGG | - | chr5_3:8384153-8384172 | Msa0796310:CDS | 35.0% |
| TGATAAGACCCAAAAACCTT+AGG | + | chr5_3:8384164-8384183 | None:intergenic | 35.0% | |
| ! | TTTGGGTCTTATCAAGCATT+AGG | - | chr5_3:8384170-8384189 | Msa0796310:CDS | 35.0% |
| TGCTCAAGAACATTCATCAA+TGG | - | chr5_3:8383510-8383529 | Msa0796310:CDS | 35.0% | |
| GAGAGTAAGGTAGAAATAGA+AGG | + | chr5_3:8383627-8383646 | None:intergenic | 35.0% | |
| CTCTTTGTTCTACTGTTTGT+TGG | + | chr5_3:8383680-8383699 | None:intergenic | 35.0% | |
| GTCGTTGAGAAAGAAAACTT+GGG | + | chr5_3:8383771-8383790 | None:intergenic | 35.0% | |
| TGTCGTTGAGAAAGAAAACT+TGG | + | chr5_3:8383772-8383791 | None:intergenic | 35.0% | |
| AAAAGTGAAGTAACAGGTTC+TGG | + | chr5_3:8383939-8383958 | None:intergenic | 35.0% | |
| TTATAGCAGCTTCTTCTTCA+GGG | + | chr5_3:8383971-8383990 | None:intergenic | 35.0% | |
| ! | ATCTCTTGATAGCATCATGA+GGG | + | chr5_3:8383994-8384013 | None:intergenic | 35.0% |
| ! | TATCTCTTGATAGCATCATG+AGG | + | chr5_3:8383995-8384014 | None:intergenic | 35.0% |
| TGTCAAAGAAGAAGAACAAG+AGG | - | chr5_3:8384034-8384053 | Msa0796310:CDS | 35.0% | |
| AAGAAGAACAAGAGGTTTGT+GGG | - | chr5_3:8384042-8384061 | Msa0796310:CDS | 35.0% | |
| ! | TGTTGTGTCCTAAGGTTTTT+GGG | - | chr5_3:8384153-8384172 | Msa0796310:CDS | 35.0% |
| TGATAAGACCCAAAAACCTT+AGG | + | chr5_3:8384164-8384183 | None:intergenic | 35.0% | |
| ! | TTTGGGTCTTATCAAGCATT+AGG | - | chr5_3:8384170-8384189 | Msa0796310:CDS | 35.0% |
| !! | ATCAATGGTAAAGCATTGGG+TGG | - | chr5_3:8383525-8383544 | Msa0796310:CDS | 40.0% |
| AGGTAGAAATAGAAGGAGTG+TGG | + | chr5_3:8383620-8383639 | None:intergenic | 40.0% | |
| !! | TTGAGTTGGGTTCTTTGACT+CGG | + | chr5_3:8383826-8383845 | None:intergenic | 40.0% |
| TATAGCAGCTTCTTCTTCAG+GGG | + | chr5_3:8383970-8383989 | None:intergenic | 40.0% | |
| GTTATAGCAGCTTCTTCTTC+AGG | + | chr5_3:8383972-8383991 | None:intergenic | 40.0% | |
| GAAGAAGAACAAGAGGTTTG+TGG | - | chr5_3:8384041-8384060 | Msa0796310:CDS | 40.0% | |
| ! | GTGTTGTGTCCTAAGGTTTT+TGG | - | chr5_3:8384152-8384171 | Msa0796310:CDS | 40.0% |
| !! | ATCAATGGTAAAGCATTGGG+TGG | - | chr5_3:8383525-8383544 | Msa0796310:CDS | 40.0% |
| AGGTAGAAATAGAAGGAGTG+TGG | + | chr5_3:8383620-8383639 | None:intergenic | 40.0% | |
| !! | TTGAGTTGGGTTCTTTGACT+CGG | + | chr5_3:8383826-8383845 | None:intergenic | 40.0% |
| TATAGCAGCTTCTTCTTCAG+GGG | + | chr5_3:8383970-8383989 | None:intergenic | 40.0% | |
| GTTATAGCAGCTTCTTCTTC+AGG | + | chr5_3:8383972-8383991 | None:intergenic | 40.0% | |
| GAAGAAGAACAAGAGGTTTG+TGG | - | chr5_3:8384041-8384060 | Msa0796310:CDS | 40.0% | |
| ! | GTGTTGTGTCCTAAGGTTTT+TGG | - | chr5_3:8384152-8384171 | Msa0796310:CDS | 40.0% |
| TGAGACTGTGTTTGTGGTTG+GGG | + | chr5_3:8383597-8383616 | None:intergenic | 45.0% | |
| GTGAGACTGTGTTTGTGGTT+GGG | + | chr5_3:8383598-8383617 | None:intergenic | 45.0% | |
| CCTTAGGACACAACACACAT+TGG | + | chr5_3:8384148-8384167 | None:intergenic | 45.0% | |
| CCAATGTGTGTTGTGTCCTA+AGG | - | chr5_3:8384145-8384164 | Msa0796310:CDS | 45.0% | |
| ! | GGGTCTTATCAAGCATTAGG+TGG | - | chr5_3:8384173-8384192 | Msa0796310:CDS | 45.0% |
| TGAGACTGTGTTTGTGGTTG+GGG | + | chr5_3:8383597-8383616 | None:intergenic | 45.0% | |
| GTGAGACTGTGTTTGTGGTT+GGG | + | chr5_3:8383598-8383617 | None:intergenic | 45.0% | |
| CCTTAGGACACAACACACAT+TGG | + | chr5_3:8384148-8384167 | None:intergenic | 45.0% | |
| CCAATGTGTGTTGTGTCCTA+AGG | - | chr5_3:8384145-8384164 | Msa0796310:CDS | 45.0% | |
| ! | GGGTCTTATCAAGCATTAGG+TGG | - | chr5_3:8384173-8384192 | Msa0796310:CDS | 45.0% |
| ! | AGCATTGGGTGGACACATGA+AGG | - | chr5_3:8383536-8383555 | Msa0796310:CDS | 50.0% |
| TGTGTTTGTGGTTGGGGGTT+TGG | + | chr5_3:8383591-8383610 | None:intergenic | 50.0% | |
| GAGACTGTGTTTGTGGTTGG+GGG | + | chr5_3:8383596-8383615 | None:intergenic | 50.0% | |
| GGTGAGACTGTGTTTGTGGT+TGG | + | chr5_3:8383599-8383618 | None:intergenic | 50.0% | |
| GTGTGGTGAGACTGTGTTTG+TGG | + | chr5_3:8383603-8383622 | None:intergenic | 50.0% | |
| ATGGTGAAGGTGGCAAGTTG+AGG | + | chr5_3:8384262-8384281 | None:intergenic | 50.0% | |
| ! | AGCATTGGGTGGACACATGA+AGG | - | chr5_3:8383536-8383555 | Msa0796310:CDS | 50.0% |
| TGTGTTTGTGGTTGGGGGTT+TGG | + | chr5_3:8383591-8383610 | None:intergenic | 50.0% | |
| GAGACTGTGTTTGTGGTTGG+GGG | + | chr5_3:8383596-8383615 | None:intergenic | 50.0% | |
| GGTGAGACTGTGTTTGTGGT+TGG | + | chr5_3:8383599-8383618 | None:intergenic | 50.0% | |
| GTGTGGTGAGACTGTGTTTG+TGG | + | chr5_3:8383603-8383622 | None:intergenic | 50.0% | |
| ATGGTGAAGGTGGCAAGTTG+AGG | + | chr5_3:8384262-8384281 | None:intergenic | 50.0% | |
| GTTTGGAGGAGGAAGAGGGA+GGG | + | chr5_3:8383574-8383593 | None:intergenic | 55.0% | |
| GTTTGTGGTTGGGGGTTTGG+AGG | + | chr5_3:8383588-8383607 | None:intergenic | 55.0% | |
| GTTTGGAGGAGGAAGAGGGA+GGG | + | chr5_3:8383574-8383593 | None:intergenic | 55.0% | |
| GTTTGTGGTTGGGGGTTTGG+AGG | + | chr5_3:8383588-8383607 | None:intergenic | 55.0% | |
| GGTTTGGAGGAGGAAGAGGG+AGG | + | chr5_3:8383575-8383594 | None:intergenic | 60.0% | |
| GGGGGTTTGGAGGAGGAAGA+GGG | + | chr5_3:8383578-8383597 | None:intergenic | 60.0% | |
| TGGGGGTTTGGAGGAGGAAG+AGG | + | chr5_3:8383579-8383598 | None:intergenic | 60.0% | |
| TGTGGTTGGGGGTTTGGAGG+AGG | + | chr5_3:8383585-8383604 | None:intergenic | 60.0% | |
| GGTTTGGAGGAGGAAGAGGG+AGG | + | chr5_3:8383575-8383594 | None:intergenic | 60.0% | |
| GGGGGTTTGGAGGAGGAAGA+GGG | + | chr5_3:8383578-8383597 | None:intergenic | 60.0% | |
| TGGGGGTTTGGAGGAGGAAG+AGG | + | chr5_3:8383579-8383598 | None:intergenic | 60.0% | |
| TGTGGTTGGGGGTTTGGAGG+AGG | + | chr5_3:8383585-8383604 | None:intergenic | 60.0% | |
| TGGAGGAGGAAGAGGGAGGG+TGG | + | chr5_3:8383571-8383590 | None:intergenic | 65.0% | |
| TGGAGGAGGAAGAGGGAGGG+TGG | + | chr5_3:8383571-8383590 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 8383486 | 8384283 | 8383486 | ID=Msa0796310;Name=Msa0796310 |
| chr5_3 | mRNA | 8383486 | 8384283 | 8383486 | ID=Msa0796310-mRNA-1;Parent=Msa0796310;Name=Msa0796310-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|265 |
| chr5_3 | exon | 8383486 | 8384283 | 8383486 | ID=Msa0796310-mRNA-1:exon:3431;Parent=Msa0796310-mRNA-1 |
| chr5_3 | CDS | 8383486 | 8384283 | 8383486 | ID=Msa0796310-mRNA-1:cds;Parent=Msa0796310-mRNA-1 |
| Gene Sequence |
| Protein sequence |
