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.gene29847.t1 | XP_013460852.1 | 93.2 | 146 | 10 | 0 | 1 | 146 | 17 | 162 | 2.10E-72 | 281.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29847.t1 | P33050 | 38.0 | 150 | 89 | 1 | 1 | 146 | 20 | 169 | 2.3e-22 | 106.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29847.t1 | B7FN25 | 93.2 | 146 | 10 | 0 | 1 | 146 | 17 | 162 | 1.5e-72 | 281.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050894 | MS.gene29847 | 0.806172 | 9.36E-50 | -1.69E-46 |
| MS.gene051885 | MS.gene29847 | 0.800769 | 1.23E-48 | -1.69E-46 |
| MS.gene053143 | MS.gene29847 | 0.810993 | 8.74E-51 | -1.69E-46 |
| MS.gene054585 | MS.gene29847 | 0.809434 | 1.90E-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.gene29847.t1 | MTR_3g073990 | 93.151 | 146 | 10 | 0 | 1 | 146 | 17 | 162 | 1.29e-101 | 288 |
| MS.gene29847.t1 | MTR_3g087540 | 41.406 | 128 | 73 | 2 | 12 | 137 | 25 | 152 | 3.04e-31 | 110 |
| MS.gene29847.t1 | MTR_2g016020 | 38.168 | 131 | 77 | 2 | 12 | 139 | 28 | 157 | 1.37e-23 | 90.5 |
| MS.gene29847.t1 | MTR_2g077940 | 33.594 | 128 | 82 | 2 | 12 | 139 | 43 | 167 | 7.37e-19 | 78.6 |
| MS.gene29847.t1 | MTR_2g077960 | 28.966 | 145 | 93 | 3 | 2 | 139 | 20 | 161 | 1.83e-15 | 69.7 |
| MS.gene29847.t1 | MTR_2g077080 | 28.906 | 128 | 88 | 3 | 12 | 139 | 36 | 160 | 6.22e-12 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29847.t1 | AT4G08685 | 48.611 | 144 | 74 | 0 | 1 | 144 | 16 | 159 | 3.74e-49 | 155 |
| MS.gene29847.t1 | AT5G10130 | 40.441 | 136 | 81 | 0 | 3 | 138 | 19 | 154 | 4.06e-28 | 102 |
| MS.gene29847.t1 | AT1G78040 | 35.849 | 159 | 89 | 3 | 1 | 146 | 8 | 166 | 4.82e-27 | 99.8 |
| MS.gene29847.t1 | AT1G78040 | 35.849 | 159 | 89 | 3 | 1 | 146 | 8 | 166 | 4.82e-27 | 99.8 |
| MS.gene29847.t1 | AT1G78040 | 35.849 | 159 | 89 | 3 | 1 | 146 | 8 | 166 | 4.82e-27 | 99.8 |
| MS.gene29847.t1 | AT4G18596 | 34.091 | 132 | 83 | 2 | 12 | 139 | 33 | 164 | 1.06e-20 | 83.2 |
| MS.gene29847.t1 | AT5G45880 | 33.333 | 132 | 84 | 2 | 12 | 139 | 35 | 166 | 1.19e-20 | 83.2 |
| MS.gene29847.t1 | AT1G29140 | 35.075 | 134 | 83 | 2 | 10 | 139 | 30 | 163 | 1.81e-20 | 82.8 |
| MS.gene29847.t1 | AT4G18596 | 34.091 | 132 | 83 | 2 | 12 | 139 | 79 | 210 | 2.47e-20 | 83.6 |
Find 43 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCAAGCAGAAAGGGTTCT+TGG | 0.299969 | 3.4:-72600909 | None:intergenic |
| CAAGAACCCTTTCTGCTTGA+AGG | 0.359097 | 3.4:+72600910 | MS.gene29847:CDS |
| ATTGGCAAACCTGTCATTAG+AGG | 0.373550 | 3.4:-72601992 | None:intergenic |
| CCAGTTGCATCAGTCTTCCC+TGG | 0.379925 | 3.4:-72601826 | None:intergenic |
| AAGCAGAAAGGGTTCTTGGC+TGG | 0.404947 | 3.4:-72600905 | None:intergenic |
| CCTCAAGCAAATGCAAGAAT+TGG | 0.407401 | 3.4:+72602062 | MS.gene29847:CDS |
| ATGTCAGAGGAGGTTGCTTC+TGG | 0.416314 | 3.4:+72602027 | MS.gene29847:CDS |
| AGAGGCAATGCCGTTGTAAC+GGG | 0.421384 | 3.4:-72601974 | None:intergenic |
| AGTTGCAGCGAAAGAGCACC+TGG | 0.422043 | 3.4:+72601925 | MS.gene29847:CDS |
| CTTTCGCTGCAACTACGCTC+AGG | 0.426036 | 3.4:-72601916 | None:intergenic |
| TGTTCTTCCAGCGATGGTTA+TGG | 0.427430 | 3.4:+72600874 | None:intergenic |
| TCTGCTATCACTCACATTGC+TGG | 0.439139 | 3.4:+72600974 | MS.gene29847:CDS |
| GTATGTGACCCTTGCCGTGC+TGG | 0.440078 | 3.4:+72600941 | MS.gene29847:CDS |
| CTTAGGTGCCGAGGTTATGC+TGG | 0.455452 | 3.4:+72601762 | MS.gene29847:intron |
| AGCAGAAAGGGTTCTTGGCT+GGG | 0.458995 | 3.4:-72600904 | None:intergenic |
| CCAGGGAAGACTGATGCAAC+TGG | 0.462248 | 3.4:+72601826 | MS.gene29847:CDS |
| ATATACAATCTATGTGGATC+AGG | 0.471477 | 3.4:+72601852 | MS.gene29847:CDS |
| CACGACCCTTCAAGCAGAAA+GGG | 0.481464 | 3.4:-72600916 | None:intergenic |
| CCAATTCTTGCATTTGCTTG+AGG | 0.488555 | 3.4:-72602062 | None:intergenic |
| AGGGTTCTTGGCTGGGCGAA+TGG | 0.488766 | 3.4:-72600897 | None:intergenic |
| GAAGTTGTGTTCTCAAAGCC+AGG | 0.495130 | 3.4:+72601808 | MS.gene29847:CDS |
| AAGAACCCTTTCTGCTTGAA+GGG | 0.515228 | 3.4:+72600911 | MS.gene29847:CDS |
| TAGAGGCAATGCCGTTGTAA+CGG | 0.528529 | 3.4:-72601975 | None:intergenic |
| ACACGACCCTTCAAGCAGAA+AGG | 0.545423 | 3.4:-72600917 | None:intergenic |
| TTTCGCTGCAACTACGCTCA+GGG | 0.560515 | 3.4:-72601915 | None:intergenic |
| ACGGCATTGCCTCTAATGAC+AGG | 0.562012 | 3.4:+72601983 | MS.gene29847:CDS |
| CTTGCATTCCAGCATAACCT+CGG | 0.573523 | 3.4:-72601770 | None:intergenic |
| GTTATTCTCACCCGTTACAA+CGG | 0.576439 | 3.4:+72601964 | MS.gene29847:CDS |
| ACACGTGCTTGGTCACGCCC+AGG | 0.584341 | 3.4:-72601943 | None:intergenic |
| TGACATGTATAACATTGCAT+TGG | 0.586829 | 3.4:-72602010 | None:intergenic |
| GTTTCATAACCAGCACGGCA+AGG | 0.587642 | 3.4:-72600950 | None:intergenic |
| GGTTGCTTCTGGCTGTGCTG+AGG | 0.590498 | 3.4:+72602038 | MS.gene29847:CDS |
| TGGAGAATATACAATCTATG+TGG | 0.605358 | 3.4:+72601846 | MS.gene29847:CDS |
| ATGAATCTGCTTAGGTGCCG+AGG | 0.607207 | 3.4:+72601753 | MS.gene29847:intron |
| TTTCATAACCAGCACGGCAA+GGG | 0.614551 | 3.4:-72600949 | None:intergenic |
| GGGTGAGAATAACACGTGCT+TGG | 0.627588 | 3.4:-72601954 | None:intergenic |
| TGCAATGTTATACATGTCAG+AGG | 0.631370 | 3.4:+72602014 | MS.gene29847:CDS |
| AAGTTGTGTTCTCAAAGCCA+GGG | 0.636901 | 3.4:+72601809 | MS.gene29847:CDS |
| TTATGCTGGAATGCAAGCAA+AGG | 0.653268 | 3.4:+72601776 | MS.gene29847:CDS |
| CAGAAGTTTCATAACCAGCA+CGG | 0.663268 | 3.4:-72600955 | None:intergenic |
| GGATCAGGATCGTGCAGATG+AGG | 0.670189 | 3.4:+72601867 | MS.gene29847:CDS |
| AATGTTATACATGTCAGAGG+AGG | 0.692196 | 3.4:+72602017 | MS.gene29847:CDS |
| GTTGCAGCGAAAGAGCACCT+GGG | 0.708218 | 3.4:+72601926 | MS.gene29847:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATATCTTTGTTAATTAA+TGG | + | chr3.4:72601306-72601325 | MS.gene29847:intron | 10.0% |
| !!! | TTAATTAGAAGTATAAAAAA+GGG | + | chr3.4:72601654-72601673 | MS.gene29847:intron | 10.0% |
| !!! | TTTAATTAGAAGTATAAAAA+AGG | + | chr3.4:72601653-72601672 | MS.gene29847:intron | 10.0% |
| !! | ATTATATGATAGAACATTAT+GGG | + | chr3.4:72601547-72601566 | MS.gene29847:intron | 15.0% |
| !! | TATTATATGATAGAACATTA+TGG | + | chr3.4:72601546-72601565 | MS.gene29847:intron | 15.0% |
| !!! | ACTTTAAATTCCTTAATTTT+TGG | + | chr3.4:72601094-72601113 | MS.gene29847:intron | 15.0% |
| !! | AATAGTGAAATTAAACCAAA+AGG | - | chr3.4:72601070-72601089 | None:intergenic | 20.0% |
| !! | ATAGTGAAATTAAACCAAAA+GGG | - | chr3.4:72601069-72601088 | None:intergenic | 20.0% |
| !! | ATCTATTGTTTCAAATAATC+TGG | - | chr3.4:72601388-72601407 | None:intergenic | 20.0% |
| !! | CTTATAATTTATAATCCTCA+TGG | + | chr3.4:72601681-72601700 | MS.gene29847:intron | 20.0% |
| !! | TCACAAATTAGTGTAATATA+GGG | + | chr3.4:72601235-72601254 | MS.gene29847:intron | 20.0% |
| !! | TTCACAAATTAGTGTAATAT+AGG | + | chr3.4:72601234-72601253 | MS.gene29847:intron | 20.0% |
| !! | TTGAATGAAAAACTTAAACT+TGG | - | chr3.4:72601037-72601056 | None:intergenic | 20.0% |
| !!! | AATTCCTTAATTTTTGGAAA+TGG | + | chr3.4:72601100-72601119 | MS.gene29847:intron | 20.0% |
| !!! | CAATTTTGCTTTAGATTTTA+GGG | + | chr3.4:72601137-72601156 | MS.gene29847:intron | 20.0% |
| !!! | TCAATTTTGCTTTAGATTTT+AGG | + | chr3.4:72601136-72601155 | MS.gene29847:intron | 20.0% |
| ! | AACACCATTTCCAAAAATTA+AGG | - | chr3.4:72601107-72601126 | None:intergenic | 25.0% |
| ! | TTTGATTAATGAATCTGCTT+AGG | + | chr3.4:72601745-72601764 | MS.gene29847:intron | 25.0% |
| AAAGAGATCTGAGAGTAAAA+AGG | - | chr3.4:72601005-72601024 | None:intergenic | 30.0% | |
| AAGAGATCTGAGAGTAAAAA+GGG | - | chr3.4:72601004-72601023 | None:intergenic | 30.0% | |
| ATATACAATCTATGTGGATC+AGG | + | chr3.4:72601852-72601871 | MS.gene29847:CDS | 30.0% | |
| TGACATGTATAACATTGCAT+TGG | - | chr3.4:72602013-72602032 | None:intergenic | 30.0% | |
| TGGAGAATATACAATCTATG+TGG | + | chr3.4:72601846-72601865 | MS.gene29847:CDS | 30.0% | |
| TGTGTTAACAAACTACCATA+TGG | - | chr3.4:72601717-72601736 | None:intergenic | 30.0% | |
| TGTTTGATTCATGTAACCAT+TGG | + | chr3.4:72601572-72601591 | MS.gene29847:intron | 30.0% | |
| TTGTTAAATGAATGACCTTG+CGG | + | chr3.4:72601347-72601366 | MS.gene29847:intron | 30.0% | |
| !!! | AACCACTCTTTTTGAGATAA+TGG | + | chr3.4:72601191-72601210 | MS.gene29847:intron | 30.0% |
| !!! | GCTTTAGATTTTAGGGTTTA+GGG | + | chr3.4:72601144-72601163 | MS.gene29847:intron | 30.0% |
| !!! | TGCTTTAGATTTTAGGGTTT+AGG | + | chr3.4:72601143-72601162 | MS.gene29847:intron | 30.0% |
| !!! | TTCAAATTTGTTGACCCTTT+TGG | + | chr3.4:72601052-72601071 | MS.gene29847:intron | 30.0% |
| AATGTTATACATGTCAGAGG+AGG | + | chr3.4:72602017-72602036 | MS.gene29847:CDS | 35.0% | |
| ACAACAGTAGTAACAACCAA+TGG | - | chr3.4:72601591-72601610 | None:intergenic | 35.0% | |
| AGAGATCTGAGAGTAAAAAG+GGG | - | chr3.4:72601003-72601022 | None:intergenic | 35.0% | |
| CTCCATTATCTCAAAAAGAG+TGG | - | chr3.4:72601196-72601215 | None:intergenic | 35.0% | |
| TATGGAAAATGTTCTCCATG+AGG | - | chr3.4:72601699-72601718 | None:intergenic | 35.0% | |
| TGCAATGTTATACATGTCAG+AGG | + | chr3.4:72602014-72602033 | MS.gene29847:CDS | 35.0% | |
| TGCTTCTAATGCAAAGATCT+GGG | + | chr3.4:72601500-72601519 | MS.gene29847:intron | 35.0% | |
| TTGCTTCTAATGCAAAGATC+TGG | + | chr3.4:72601499-72601518 | MS.gene29847:intron | 35.0% | |
| ! | CATGGAGAACATTTTCCATA+TGG | + | chr3.4:72601699-72601718 | MS.gene29847:intron | 35.0% |
| !!! | TAGATTTTAGGGTTTAGGGA+GGG | + | chr3.4:72601148-72601167 | MS.gene29847:intron | 35.0% |
| !!! | TTAGATTTTAGGGTTTAGGG+AGG | + | chr3.4:72601147-72601166 | MS.gene29847:intron | 35.0% |
| AAGAACCCTTTCTGCTTGAA+GGG | + | chr3.4:72600911-72600930 | MS.gene29847:CDS | 40.0% | |
| AAGTTGTGTTCTCAAAGCCA+GGG | + | chr3.4:72601809-72601828 | MS.gene29847:CDS | 40.0% | |
| ATTGGCAAACCTGTCATTAG+AGG | - | chr3.4:72601995-72602014 | None:intergenic | 40.0% | |
| CAGAAGTTTCATAACCAGCA+CGG | - | chr3.4:72600958-72600977 | None:intergenic | 40.0% | |
| CCAATTCTTGCATTTGCTTG+AGG | - | chr3.4:72602065-72602084 | None:intergenic | 40.0% | |
| CCTCAAGCAAATGCAAGAAT+TGG | + | chr3.4:72602062-72602081 | MS.gene29847:CDS | 40.0% | |
| GCTTCTAATGCAAAGATCTG+GGG | + | chr3.4:72601501-72601520 | MS.gene29847:intron | 40.0% | |
| GTTATTCTCACCCGTTACAA+CGG | + | chr3.4:72601964-72601983 | MS.gene29847:CDS | 40.0% | |
| TTACAAGATTTCACTCCGCA+AGG | - | chr3.4:72601365-72601384 | None:intergenic | 40.0% | |
| TTATGCTGGAATGCAAGCAA+AGG | + | chr3.4:72601776-72601795 | MS.gene29847:CDS | 40.0% | |
| ! | ATGGAGTATCAGATCTGATC+TGG | + | chr3.4:72601210-72601229 | MS.gene29847:intron | 40.0% |
| CAAGAACCCTTTCTGCTTGA+AGG | + | chr3.4:72600910-72600929 | MS.gene29847:CDS | 45.0% | |
| CTTCAAGCAGAAAGGGTTCT+TGG | - | chr3.4:72600912-72600931 | None:intergenic | 45.0% | |
| CTTGCATTCCAGCATAACCT+CGG | - | chr3.4:72601773-72601792 | None:intergenic | 45.0% | |
| GAAGTTGTGTTCTCAAAGCC+AGG | + | chr3.4:72601808-72601827 | MS.gene29847:CDS | 45.0% | |
| TAGAGGCAATGCCGTTGTAA+CGG | - | chr3.4:72601978-72601997 | None:intergenic | 45.0% | |
| TCTGCTATCACTCACATTGC+TGG | + | chr3.4:72600974-72600993 | MS.gene29847:CDS | 45.0% | |
| TTTCATAACCAGCACGGCAA+GGG | - | chr3.4:72600952-72600971 | None:intergenic | 45.0% | |
| AAGCAGAAAGGGTTCTTGGC+TGG | - | chr3.4:72600908-72600927 | None:intergenic | 50.0% | |
| ACACGACCCTTCAAGCAGAA+AGG | - | chr3.4:72600920-72600939 | None:intergenic | 50.0% | |
| ACGGCATTGCCTCTAATGAC+AGG | + | chr3.4:72601983-72602002 | MS.gene29847:CDS | 50.0% | |
| AGAGGCAATGCCGTTGTAAC+GGG | - | chr3.4:72601977-72601996 | None:intergenic | 50.0% | |
| AGCAGAAAGGGTTCTTGGCT+GGG | - | chr3.4:72600907-72600926 | None:intergenic | 50.0% | |
| ATGTCAGAGGAGGTTGCTTC+TGG | + | chr3.4:72602027-72602046 | MS.gene29847:CDS | 50.0% | |
| CACGACCCTTCAAGCAGAAA+GGG | - | chr3.4:72600919-72600938 | None:intergenic | 50.0% | |
| GGGTGAGAATAACACGTGCT+TGG | - | chr3.4:72601957-72601976 | None:intergenic | 50.0% | |
| GTTTCATAACCAGCACGGCA+AGG | - | chr3.4:72600953-72600972 | None:intergenic | 50.0% | |
| TTTCGCTGCAACTACGCTCA+GGG | - | chr3.4:72601918-72601937 | None:intergenic | 50.0% | |
| ! | ATGAATCTGCTTAGGTGCCG+AGG | + | chr3.4:72601753-72601772 | MS.gene29847:intron | 50.0% |
| ! | TTTAGGGTTTAGGGAGGGTG+TGG | + | chr3.4:72601153-72601172 | MS.gene29847:intron | 50.0% |
| CCAGGGAAGACTGATGCAAC+TGG | + | chr3.4:72601826-72601845 | MS.gene29847:CDS | 55.0% | |
| CCAGTTGCATCAGTCTTCCC+TGG | - | chr3.4:72601829-72601848 | None:intergenic | 55.0% | |
| CTTTCGCTGCAACTACGCTC+AGG | - | chr3.4:72601919-72601938 | None:intergenic | 55.0% | |
| GGATCAGGATCGTGCAGATG+AGG | + | chr3.4:72601867-72601886 | MS.gene29847:CDS | 55.0% | |
| !! | AGTTGCAGCGAAAGAGCACC+TGG | + | chr3.4:72601925-72601944 | MS.gene29847:CDS | 55.0% |
| !! | CTTAGGTGCCGAGGTTATGC+TGG | + | chr3.4:72601762-72601781 | MS.gene29847:intron | 55.0% |
| !! | GTTGCAGCGAAAGAGCACCT+GGG | + | chr3.4:72601926-72601945 | MS.gene29847:CDS | 55.0% |
| AGGGTTCTTGGCTGGGCGAA+TGG | - | chr3.4:72600900-72600919 | None:intergenic | 60.0% | |
| GTATGTGACCCTTGCCGTGC+TGG | + | chr3.4:72600941-72600960 | MS.gene29847:CDS | 60.0% | |
| ! | GGTTGCTTCTGGCTGTGCTG+AGG | + | chr3.4:72602038-72602057 | MS.gene29847:CDS | 60.0% |
| ACACGTGCTTGGTCACGCCC+AGG | - | chr3.4:72601946-72601965 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 72600887 | 72602098 | 72600887 | ID=MS.gene29847 |
| chr3.4 | mRNA | 72600887 | 72602098 | 72600887 | ID=MS.gene29847.t1;Parent=MS.gene29847 |
| chr3.4 | exon | 72600887 | 72600995 | 72600887 | ID=MS.gene29847.t1.exon1;Parent=MS.gene29847.t1 |
| chr3.4 | CDS | 72600887 | 72600995 | 72600887 | ID=cds.MS.gene29847.t1;Parent=MS.gene29847.t1 |
| chr3.4 | exon | 72601767 | 72602098 | 72601767 | ID=MS.gene29847.t1.exon2;Parent=MS.gene29847.t1 |
| chr3.4 | CDS | 72601767 | 72602098 | 72601767 | ID=cds.MS.gene29847.t1;Parent=MS.gene29847.t1 |
| Gene Sequence |
| Protein sequence |
