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.gene071964.t1 | XP_003593128.2 | 99.5 | 212 | 1 | 0 | 1 | 212 | 1 | 212 | 1.20E-105 | 392.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene071964.t1 | Q9M2C0 | 69.1 | 194 | 56 | 2 | 15 | 207 | 3 | 193 | 1.3e-63 | 244.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene071964.t1 | G7IL91 | 99.5 | 212 | 1 | 0 | 1 | 212 | 1 | 212 | 8.9e-106 | 392.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene060522 | MS.gene071964 | 0.80775 | 4.34E-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.gene071964.t1 | MTR_2g008110 | 99.528 | 212 | 1 | 0 | 1 | 212 | 1 | 212 | 7.70e-155 | 427 |
| MS.gene071964.t1 | MTR_0119s0010 | 99.057 | 212 | 2 | 0 | 1 | 212 | 1 | 212 | 6.33e-154 | 425 |
| MS.gene071964.t1 | MTR_0119s0020 | 99.057 | 212 | 2 | 0 | 1 | 212 | 1 | 212 | 6.33e-154 | 425 |
| MS.gene071964.t1 | MTR_1g099010 | 70.652 | 184 | 49 | 1 | 29 | 207 | 29 | 212 | 6.15e-87 | 256 |
| MS.gene071964.t1 | MTR_6g034975 | 66.667 | 195 | 55 | 2 | 23 | 207 | 11 | 205 | 1.08e-76 | 229 |
| MS.gene071964.t1 | MTR_4g094328 | 60.938 | 192 | 66 | 1 | 27 | 209 | 30 | 221 | 1.61e-75 | 227 |
| MS.gene071964.t1 | MTR_4g094330 | 60.938 | 192 | 66 | 1 | 27 | 209 | 30 | 221 | 1.61e-75 | 227 |
| MS.gene071964.t1 | MTR_4g094332 | 61.579 | 190 | 64 | 1 | 27 | 207 | 30 | 219 | 2.26e-75 | 227 |
| MS.gene071964.t1 | MTR_4g094325 | 56.279 | 215 | 83 | 3 | 1 | 209 | 27 | 236 | 1.20e-72 | 220 |
| MS.gene071964.t1 | MTR_4g094335 | 50.463 | 216 | 95 | 1 | 7 | 210 | 13 | 228 | 1.85e-63 | 197 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene071964.t1 | AT3G43660 | 68.718 | 195 | 57 | 2 | 14 | 207 | 2 | 193 | 1.09e-91 | 267 |
| MS.gene071964.t1 | AT3G43630 | 71.277 | 188 | 50 | 2 | 21 | 207 | 8 | 192 | 3.09e-85 | 251 |
| MS.gene071964.t1 | AT1G21140 | 70.312 | 192 | 53 | 2 | 17 | 207 | 7 | 195 | 8.05e-84 | 247 |
| MS.gene071964.t1 | AT1G76800 | 68.984 | 187 | 54 | 1 | 21 | 207 | 9 | 191 | 1.47e-78 | 234 |
| MS.gene071964.t1 | AT3G25190 | 61.579 | 190 | 60 | 2 | 31 | 207 | 23 | 212 | 6.40e-64 | 197 |
Find 42 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTGCTATGTCTCTTACTTT+TGG | 0.225220 | 2.4:-74816742 | MS.gene071964:CDS |
| AGCCTTGCTTTGTTTGCTTT+TGG | 0.248729 | 2.4:-74816835 | MS.gene071964:CDS |
| GAAGCAAAGGCAGCATAATA+AGG | 0.258027 | 2.4:+74816955 | None:intergenic |
| GGCTCCAACACCCATCATTA+AGG | 0.342144 | 2.4:+74817146 | None:intergenic |
| TGTTCTTGGGAAAGCTCCTT+TGG | 0.348881 | 2.4:-74816800 | MS.gene071964:CDS |
| TTTGGTGAAGTCTTCTTTGA+GGG | 0.356177 | 2.4:-74816782 | MS.gene071964:CDS |
| GTTAAGACAATGATTCTAAC+TGG | 0.372301 | 2.4:-74817111 | MS.gene071964:CDS |
| GGATTGTTGAGTGCTGTTCT+TGG | 0.377078 | 2.4:-74816814 | MS.gene071964:CDS |
| CTCAAAGAGCACAATGGCTT+AGG | 0.396117 | 2.4:-74817212 | MS.gene071964:CDS |
| TTATTATGCTGCCTTTGCTT+CGG | 0.407157 | 2.4:-74816953 | MS.gene071964:CDS |
| CTTTGGTGAAGTCTTCTTTG+AGG | 0.408112 | 2.4:-74816783 | MS.gene071964:CDS |
| ATGATTCTAACTGGAATTGC+TGG | 0.418092 | 2.4:-74817102 | MS.gene071964:CDS |
| GATTGTTGAGTGCTGTTCTT+GGG | 0.419290 | 2.4:-74816813 | MS.gene071964:CDS |
| GGCGTTTGTTAAAGACTATA+AGG | 0.421985 | 2.4:-74816887 | MS.gene071964:CDS |
| GGCGCCTTTGTGCCGCTACT+CGG | 0.427583 | 2.4:-74816913 | MS.gene071964:CDS |
| CTCAACAGCATCCTTAATGA+TGG | 0.435656 | 2.4:-74817157 | MS.gene071964:CDS |
| TAAAGACTATAAGGTGAGGT+TGG | 0.443344 | 2.4:-74816878 | MS.gene071964:CDS |
| GGAATTGCTGGTCTTGTAGC+TGG | 0.462496 | 2.4:-74817090 | MS.gene071964:CDS |
| GTGAGGTTGGGAGTTGTGGT+TGG | 0.470924 | 2.4:-74816865 | MS.gene071964:CDS |
| AAAAGCGATGGCCGAAGCAA+AGG | 0.483514 | 2.4:+74816942 | None:intergenic |
| TCAAAGAGCACAATGGCTTA+GGG | 0.493819 | 2.4:-74817211 | MS.gene071964:CDS |
| TAAGGTGAGGTTGGGAGTTG+TGG | 0.497331 | 2.4:-74816869 | MS.gene071964:CDS |
| AAAGACTATAAGGTGAGGTT+GGG | 0.502612 | 2.4:-74816877 | MS.gene071964:CDS |
| AAGCAAAGGCAGCATAATAA+GGG | 0.516802 | 2.4:+74816956 | None:intergenic |
| GGCGCCGACCGCAAAAGCGA+TGG | 0.528738 | 2.4:+74816930 | None:intergenic |
| GCATCCTTAATGATGGGTGT+TGG | 0.549500 | 2.4:-74817150 | MS.gene071964:CDS |
| ATCCAAAAGCAAACAAAGCA+AGG | 0.566512 | 2.4:+74816833 | None:intergenic |
| AAGGCAGCATAATAAGGGTT+AGG | 0.567356 | 2.4:+74816961 | None:intergenic |
| CGCGCCGAGTAGCGGCACAA+AGG | 0.568749 | 2.4:+74816909 | None:intergenic |
| GGTGCATGTAGCATGGCAAT+TGG | 0.569674 | 2.4:-74817069 | MS.gene071964:CDS |
| TCAACAGCATCCTTAATGAT+GGG | 0.587391 | 2.4:-74817156 | MS.gene071964:CDS |
| ACAAACGCCGCGCCGAGTAG+CGG | 0.601438 | 2.4:+74816901 | None:intergenic |
| CTCAAAGAAGACTTCACCAA+AGG | 0.626739 | 2.4:+74816784 | None:intergenic |
| TGTAGCTGGTGCATGTAGCA+TGG | 0.629799 | 2.4:-74817076 | MS.gene071964:CDS |
| TTGTTAAAGACTATAAGGTG+AGG | 0.635278 | 2.4:-74816882 | MS.gene071964:CDS |
| CTTTGTGCCGCTACTCGGCG+CGG | 0.645709 | 2.4:-74816908 | MS.gene071964:CDS |
| TACGTGCTAGTGTAGCTGCA+TGG | 0.662565 | 2.4:+74817304 | None:intergenic |
| ATTATACTCAAAGAGCACAA+TGG | 0.665811 | 2.4:-74817218 | MS.gene071964:CDS |
| TGAATCAAAAGTGTACAACA+TGG | 0.690093 | 2.4:-74817280 | MS.gene071964:CDS |
| TTTGCACAAATGAAAAGACA+AGG | 0.695742 | 2.4:-74817009 | MS.gene071964:CDS |
| AAAATGATCAAACTACAACA+TGG | 0.718736 | 2.4:+74816701 | None:intergenic |
| GTGCTAGTGTAGCTGCATGG+TGG | 0.751494 | 2.4:+74817307 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AACATGGATGTTGAAAAAAA+AGG | - | chr2.4:74816768-74816787 | MS.gene071964:CDS | 25.0% |
| !! | TGTCTTAACATCTTTTGTAA+CGG | + | chr2.4:74816910-74816929 | None:intergenic | 25.0% |
| GTTAAGACAATGATTCTAAC+TGG | - | chr2.4:74816921-74816940 | MS.gene071964:CDS | 30.0% | |
| TTGTTAAAGACTATAAGGTG+AGG | - | chr2.4:74817150-74817169 | MS.gene071964:CDS | 30.0% | |
| TTTGCACAAATGAAAAGACA+AGG | - | chr2.4:74817023-74817042 | MS.gene071964:CDS | 30.0% | |
| ! | ATTATACTCAAAGAGCACAA+TGG | - | chr2.4:74816814-74816833 | MS.gene071964:CDS | 30.0% |
| ! | TGAATCAAAAGTGTACAACA+TGG | - | chr2.4:74816752-74816771 | MS.gene071964:CDS | 30.0% |
| AAAGACTATAAGGTGAGGTT+GGG | - | chr2.4:74817155-74817174 | MS.gene071964:CDS | 35.0% | |
| AAGCAAAGGCAGCATAATAA+GGG | + | chr2.4:74817079-74817098 | None:intergenic | 35.0% | |
| ATCCAAAAGCAAACAAAGCA+AGG | + | chr2.4:74817202-74817221 | None:intergenic | 35.0% | |
| ATGATTCTAACTGGAATTGC+TGG | - | chr2.4:74816930-74816949 | MS.gene071964:CDS | 35.0% | |
| TAAAGACTATAAGGTGAGGT+TGG | - | chr2.4:74817154-74817173 | MS.gene071964:CDS | 35.0% | |
| TCAACAGCATCCTTAATGAT+GGG | - | chr2.4:74816876-74816895 | MS.gene071964:CDS | 35.0% | |
| TTATTATGCTGCCTTTGCTT+CGG | - | chr2.4:74817079-74817098 | MS.gene071964:CDS | 35.0% | |
| TTTGGTGAAGTCTTCTTTGA+GGG | - | chr2.4:74817250-74817269 | MS.gene071964:CDS | 35.0% | |
| ! | GGCGTTTGTTAAAGACTATA+AGG | - | chr2.4:74817145-74817164 | MS.gene071964:CDS | 35.0% |
| !! | CTTGCTATGTCTCTTACTTT+TGG | - | chr2.4:74817290-74817309 | MS.gene071964:CDS | 35.0% |
| !! | TCTTCTTTGAGGGTTTTGAT+TGG | - | chr2.4:74817260-74817279 | MS.gene071964:CDS | 35.0% |
| AAGGCAGCATAATAAGGGTT+AGG | + | chr2.4:74817074-74817093 | None:intergenic | 40.0% | |
| CTCAAAGAAGACTTCACCAA+AGG | + | chr2.4:74817251-74817270 | None:intergenic | 40.0% | |
| CTCAACAGCATCCTTAATGA+TGG | - | chr2.4:74816875-74816894 | MS.gene071964:CDS | 40.0% | |
| CTTTGGTGAAGTCTTCTTTG+AGG | - | chr2.4:74817249-74817268 | MS.gene071964:CDS | 40.0% | |
| GAAGCAAAGGCAGCATAATA+AGG | + | chr2.4:74817080-74817099 | None:intergenic | 40.0% | |
| ! | GATTGTTGAGTGCTGTTCTT+GGG | - | chr2.4:74817219-74817238 | MS.gene071964:CDS | 40.0% |
| ! | TCAAAGAGCACAATGGCTTA+GGG | - | chr2.4:74816821-74816840 | MS.gene071964:CDS | 40.0% |
| !! | GCTGTTTTAGGTGCTAATGA+TGG | - | chr2.4:74816846-74816865 | MS.gene071964:CDS | 40.0% |
| !!! | AGCCTTGCTTTGTTTGCTTT+TGG | - | chr2.4:74817197-74817216 | MS.gene071964:CDS | 40.0% |
| !!! | TCTTTGAGGGTTTTGATTGG+TGG | - | chr2.4:74817263-74817282 | MS.gene071964:CDS | 40.0% |
| TGTTCTTGGGAAAGCTCCTT+TGG | - | chr2.4:74817232-74817251 | MS.gene071964:CDS | 45.0% | |
| ! | CTCAAAGAGCACAATGGCTT+AGG | - | chr2.4:74816820-74816839 | MS.gene071964:CDS | 45.0% |
| ! | GGATTGTTGAGTGCTGTTCT+TGG | - | chr2.4:74817218-74817237 | MS.gene071964:CDS | 45.0% |
| !! | GCATCCTTAATGATGGGTGT+TGG | - | chr2.4:74816882-74816901 | MS.gene071964:CDS | 45.0% |
| !!! | TGAGGGTTTTGATTGGTGGA+TGG | - | chr2.4:74817267-74817286 | MS.gene071964:CDS | 45.0% |
| AAAAGCGATGGCCGAAGCAA+AGG | + | chr2.4:74817093-74817112 | None:intergenic | 50.0% | |
| GGCTCCAACACCCATCATTA+AGG | + | chr2.4:74816889-74816908 | None:intergenic | 50.0% | |
| GGTGCATGTAGCATGGCAAT+TGG | - | chr2.4:74816963-74816982 | MS.gene071964:CDS | 50.0% | |
| TAAGGTGAGGTTGGGAGTTG+TGG | - | chr2.4:74817163-74817182 | MS.gene071964:CDS | 50.0% | |
| TACGTGCTAGTGTAGCTGCA+TGG | + | chr2.4:74816731-74816750 | None:intergenic | 50.0% | |
| TGTAGCTGGTGCATGTAGCA+TGG | - | chr2.4:74816956-74816975 | MS.gene071964:CDS | 50.0% | |
| !! | GGAATTGCTGGTCTTGTAGC+TGG | - | chr2.4:74816942-74816961 | MS.gene071964:CDS | 50.0% |
| !! | TGGCTTAGGGCAGCTGTTTT+AGG | - | chr2.4:74816834-74816853 | MS.gene071964:CDS | 50.0% |
| GTGAGGTTGGGAGTTGTGGT+TGG | - | chr2.4:74817167-74817186 | MS.gene071964:CDS | 55.0% | |
| GTGCTAGTGTAGCTGCATGG+TGG | + | chr2.4:74816728-74816747 | None:intergenic | 55.0% | |
| !! | TGCTTCGGCCATCGCTTTTG+CGG | - | chr2.4:74817094-74817113 | MS.gene071964:CDS | 55.0% |
| !! | TCGGCCATCGCTTTTGCGGT+CGG | - | chr2.4:74817098-74817117 | MS.gene071964:CDS | 60.0% |
| ACAAACGCCGCGCCGAGTAG+CGG | + | chr2.4:74817134-74817153 | None:intergenic | 65.0% | |
| ! | CTTTGTGCCGCTACTCGGCG+CGG | - | chr2.4:74817124-74817143 | MS.gene071964:CDS | 65.0% |
| ! | GGCGCCTTTGTGCCGCTACT+CGG | - | chr2.4:74817119-74817138 | MS.gene071964:CDS | 65.0% |
| CGCGCCGAGTAGCGGCACAA+AGG | + | chr2.4:74817126-74817145 | None:intergenic | 70.0% | |
| !! | GGCGCCGACCGCAAAAGCGA+TGG | + | chr2.4:74817105-74817124 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.4 | gene | 74816708 | 74817346 | 74816708 | ID=MS.gene071964 |
| chr2.4 | mRNA | 74816708 | 74817346 | 74816708 | ID=MS.gene071964.t1;Parent=MS.gene071964 |
| chr2.4 | exon | 74816708 | 74817346 | 74816708 | ID=MS.gene071964.t1.exon1;Parent=MS.gene071964.t1 |
| chr2.4 | CDS | 74816708 | 74817346 | 74816708 | ID=cds.MS.gene071964.t1;Parent=MS.gene071964.t1 |
| Gene Sequence |
| Protein sequence |
