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.gene82035.t1 | XP_003600927.2 | 98.5 | 262 | 4 | 0 | 1 | 262 | 1 | 262 | 1.40E-135 | 492.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene82035.t1 | Q9XEF0 | 42.9 | 275 | 116 | 8 | 3 | 261 | 1 | 250 | 5.6e-40 | 166.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene82035.t1 | G7JBT8 | 98.5 | 262 | 4 | 0 | 1 | 262 | 1 | 262 | 1.0e-135 | 492.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene82035.t1 | TF | bHLH |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene82035.t1 | MTR_3g070970 | 98.473 | 262 | 4 | 0 | 1 | 262 | 1 | 262 | 0.0 | 531 |
| MS.gene82035.t1 | MTR_1g093750 | 45.503 | 189 | 94 | 3 | 66 | 254 | 151 | 330 | 3.39e-43 | 150 |
| MS.gene82035.t1 | MTR_2g015890 | 41.243 | 177 | 82 | 4 | 73 | 242 | 67 | 228 | 1.38e-28 | 109 |
| MS.gene82035.t1 | MTR_4g079760 | 35.533 | 197 | 106 | 4 | 65 | 254 | 60 | 242 | 4.33e-24 | 97.8 |
| MS.gene82035.t1 | MTR_2g015890 | 46.667 | 120 | 51 | 2 | 73 | 192 | 67 | 173 | 5.35e-24 | 96.7 |
| MS.gene82035.t1 | MTR_2g091190 | 33.880 | 183 | 104 | 4 | 63 | 238 | 49 | 221 | 8.76e-23 | 94.0 |
| MS.gene82035.t1 | MTR_4g087920 | 33.166 | 199 | 113 | 6 | 67 | 255 | 69 | 257 | 1.39e-22 | 94.0 |
| MS.gene82035.t1 | MTR_5g032375 | 35.028 | 177 | 85 | 5 | 73 | 236 | 45 | 204 | 1.07e-19 | 85.1 |
| MS.gene82035.t1 | MTR_5g066080 | 29.596 | 223 | 107 | 5 | 51 | 234 | 7 | 218 | 2.76e-16 | 76.6 |
| MS.gene82035.t1 | MTR_2g015890 | 37.931 | 145 | 68 | 4 | 105 | 242 | 1 | 130 | 1.31e-15 | 72.8 |
| MS.gene82035.t1 | MTR_2g015890 | 41.111 | 90 | 36 | 2 | 105 | 192 | 1 | 75 | 3.23e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene82035.t1 | AT2G40200 | 44.245 | 278 | 108 | 10 | 3 | 261 | 1 | 250 | 1.45e-55 | 179 |
| MS.gene82035.t1 | AT1G68810 | 41.538 | 195 | 98 | 4 | 66 | 255 | 167 | 350 | 4.83e-36 | 132 |
| MS.gene82035.t1 | AT3G25710 | 46.405 | 153 | 70 | 2 | 69 | 220 | 128 | 269 | 6.73e-34 | 125 |
| MS.gene82035.t1 | AT3G56770 | 36.216 | 185 | 106 | 4 | 61 | 243 | 33 | 207 | 9.39e-34 | 122 |
| MS.gene82035.t1 | AT2G41130 | 34.426 | 183 | 107 | 4 | 63 | 242 | 57 | 229 | 4.83e-25 | 100 |
| MS.gene82035.t1 | AT4G38070 | 33.108 | 148 | 82 | 3 | 73 | 220 | 92 | 222 | 1.46e-18 | 82.8 |
Find 36 sgRNAs with CRISPR-Local
Find 89 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTGATGTTGAAGCAATTT+TGG | 0.180765 | 3.2:-64554642 | None:intergenic |
| TATATTAGTGCTTTGTTCTA+AGG | 0.204855 | 3.2:+64554562 | MS.gene82035:CDS |
| ATTTCCCATTTGGATGAGTA+TGG | 0.281846 | 3.2:+64553063 | None:intergenic |
| GTCTTAAACCTTTGAGGACT+TGG | 0.282951 | 3.2:-64554490 | None:intergenic |
| AATATCTCTGACTCTTCTTC+TGG | 0.300411 | 3.2:+64553196 | MS.gene82035:CDS |
| ATTAGTTCAGAGAACAATTC+TGG | 0.307068 | 3.2:-64554467 | None:intergenic |
| TTTGGTCACTGCTGATTTAA+GGG | 0.341399 | 3.2:-64554624 | None:intergenic |
| TTGAAGGGAGTGTTGAAGAT+AGG | 0.378452 | 3.2:+64553260 | MS.gene82035:CDS |
| TTGTAAGTCTTAAACCTTTG+AGG | 0.389696 | 3.2:-64554496 | None:intergenic |
| CTCTGCTTGACTATGACTCT+TGG | 0.398647 | 3.2:-64553296 | None:intergenic |
| CTCTGCCTCTTACTTCTTGT+AGG | 0.400975 | 3.2:-64554677 | None:intergenic |
| ATGGACAAAGCAGCATTACT+AGG | 0.419485 | 3.2:+64554251 | MS.gene82035:CDS |
| TCTTCAACACTCCCTTCAAT+AGG | 0.436660 | 3.2:-64553256 | None:intergenic |
| TTTGTTCACTTTGTTAGTGT+TGG | 0.440377 | 3.2:-64554396 | None:intergenic |
| GAAGAGTCAGAGATATTATG+AGG | 0.460214 | 3.2:-64553190 | None:intergenic |
| GGCAGTATTTGAGCACAAAC+TGG | 0.465507 | 3.2:+64553110 | MS.gene82035:CDS |
| TGGTTTACCTTATCAGACTT+AGG | 0.468900 | 3.2:-64553373 | None:intergenic |
| CAAAATTGCTTCAACATCAA+TGG | 0.471398 | 3.2:+64554643 | MS.gene82035:CDS |
| ACTTATTCCTAAGTCTGATA+AGG | 0.480745 | 3.2:+64553366 | MS.gene82035:CDS |
| GATACTTCATCAATTTCAGT+TGG | 0.481484 | 3.2:-64554341 | None:intergenic |
| TCATGGAATTTACCTATTGA+AGG | 0.482372 | 3.2:+64553244 | MS.gene82035:CDS |
| CAGAGAAAAGACGTAGAGAC+AGG | 0.494900 | 3.2:+64553314 | MS.gene82035:CDS |
| TGAAGGGAGTGTTGAAGATA+GGG | 0.514386 | 3.2:+64553261 | MS.gene82035:CDS |
| GCTGACATAGCAAGTGTTGG+TGG | 0.516083 | 3.2:+64554527 | MS.gene82035:CDS |
| AATATAGTGAATTTCAGTCA+TGG | 0.537343 | 3.2:+64553227 | MS.gene82035:CDS |
| CATGGAATTTACCTATTGAA+GGG | 0.539204 | 3.2:+64553245 | MS.gene82035:CDS |
| ATCTGTGTAGGTACAGTCAC+AGG | 0.552887 | 3.2:-64553163 | None:intergenic |
| AGATCTAAAGCGAAAAGCAA+TGG | 0.560117 | 3.2:+64554295 | MS.gene82035:CDS |
| ATTGTCCTACAAGAAGTAAG+AGG | 0.570567 | 3.2:+64554672 | MS.gene82035:CDS |
| GAACTAATCCAAGTCCTCAA+AGG | 0.579974 | 3.2:+64554482 | MS.gene82035:CDS |
| TGGACAAAGCAGCATTACTA+GGG | 0.580902 | 3.2:+64554252 | MS.gene82035:CDS |
| AAAGCTGACATAGCAAGTGT+TGG | 0.610561 | 3.2:+64554524 | MS.gene82035:CDS |
| TGGTTTCATCTTCAACAACA+TGG | 0.610583 | 3.2:-64554376 | None:intergenic |
| AATTACTATACAAAATGAGA+AGG | 0.613826 | 3.2:-64554710 | None:intergenic |
| TTATGAGGTAGTATCTGTGT+AGG | 0.633198 | 3.2:-64553175 | None:intergenic |
| ACTACTATGATTCTTCTGAG+TGG | 0.709835 | 3.2:+64553089 | MS.gene82035:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AACTTCAAGATTTTTAAAAA+TGG | + | chr3.2:64553913-64553932 | MS.gene82035:intron | 15.0% |
| !! | ATAAAAATTGACAGAATAAC+GGG | - | chr3.2:64553825-64553844 | None:intergenic | 20.0% |
| !! | ATATTCTCTCCAAAATAAAA+GGG | - | chr3.2:64553886-64553905 | None:intergenic | 20.0% |
| !! | CATAAAAATTGACAGAATAA+CGG | - | chr3.2:64553826-64553845 | None:intergenic | 20.0% |
| !! | CTGAAAATAATTTGAGAAAA+TGG | - | chr3.2:64554063-64554082 | None:intergenic | 20.0% |
| !! | TATATTCTCTCCAAAATAAA+AGG | - | chr3.2:64553887-64553906 | None:intergenic | 20.0% |
| !!! | TACAATTTTCTGCAATATTA+AGG | + | chr3.2:64554159-64554178 | MS.gene82035:intron | 20.0% |
| !!! | TTTCAATTGTACTTTAAAGT+AGG | + | chr3.2:64553688-64553707 | MS.gene82035:intron | 20.0% |
| !!! | TTTTATTTTGGAGAGAATAT+AGG | + | chr3.2:64553886-64553905 | MS.gene82035:intron | 20.0% |
| ! | AATATAGTGAATTTCAGTCA+TGG | + | chr3.2:64553227-64553246 | MS.gene82035:CDS | 25.0% |
| ! | ACAAATGATTATGTTATGCA+AGG | - | chr3.2:64554221-64554240 | None:intergenic | 25.0% |
| ! | CAAATGATTATGTTATGCAA+GGG | - | chr3.2:64554220-64554239 | None:intergenic | 25.0% |
| ! | TATTCTCTCCAAAATAAAAG+GGG | - | chr3.2:64553885-64553904 | None:intergenic | 25.0% |
| ! | TTACATTTCATGCAAGAAAA+TGG | + | chr3.2:64553485-64553504 | MS.gene82035:intron | 25.0% |
| ! | TTGTAATCAAATATGACTAG+TGG | - | chr3.2:64554144-64554163 | None:intergenic | 25.0% |
| !! | AATTTTATGGAAGTTCCAAA+AGG | - | chr3.2:64553609-64553628 | None:intergenic | 25.0% |
| !! | ACTACAGCAACAAAATTTTA+TGG | - | chr3.2:64553622-64553641 | None:intergenic | 25.0% |
| !! | TATATTAGTGCTTTGTTCTA+AGG | + | chr3.2:64554562-64554581 | MS.gene82035:CDS | 25.0% |
| !! | TCGTGATTTTGCTTAATTTA+TGG | - | chr3.2:64553754-64553773 | None:intergenic | 25.0% |
| AAAATGGAATTAGCCACTTA+GGG | + | chr3.2:64553501-64553520 | MS.gene82035:intron | 30.0% | |
| AATGCAACATCTTATCACTT+GGG | - | chr3.2:64553531-64553550 | None:intergenic | 30.0% | |
| ACTCGCTATAATTCAAAACA+CGG | + | chr3.2:64553653-64553672 | MS.gene82035:intron | 30.0% | |
| ACTTATTCCTAAGTCTGATA+AGG | + | chr3.2:64553366-64553385 | MS.gene82035:CDS | 30.0% | |
| ATGTTGCATTCATTCAATTC+AGG | + | chr3.2:64553541-64553560 | MS.gene82035:intron | 30.0% | |
| ATTAGTTCAGAGAACAATTC+TGG | - | chr3.2:64554470-64554489 | None:intergenic | 30.0% | |
| CAAAATTGCTTCAACATCAA+TGG | + | chr3.2:64554643-64554662 | MS.gene82035:CDS | 30.0% | |
| CATGGAATTTACCTATTGAA+GGG | + | chr3.2:64553245-64553264 | MS.gene82035:CDS | 30.0% | |
| GATACTTCATCAATTTCAGT+TGG | - | chr3.2:64554344-64554363 | None:intergenic | 30.0% | |
| TCATGGAATTTACCTATTGA+AGG | + | chr3.2:64553244-64553263 | MS.gene82035:CDS | 30.0% | |
| TTGTAAGTCTTAAACCTTTG+AGG | - | chr3.2:64554499-64554518 | None:intergenic | 30.0% | |
| TTTGTTCACTTTGTTAGTGT+TGG | - | chr3.2:64554399-64554418 | None:intergenic | 30.0% | |
| ! | CATTGATGTTGAAGCAATTT+TGG | - | chr3.2:64554645-64554664 | None:intergenic | 30.0% |
| ! | CTAAAGTATCATTGCTACAT+AGG | - | chr3.2:64553986-64554005 | None:intergenic | 30.0% |
| ! | TTTTGACAAAAGCTACCTTT+TGG | + | chr3.2:64553591-64553610 | MS.gene82035:intron | 30.0% |
| !! | TTCCATTTCCCCTTTTATTT+TGG | + | chr3.2:64553874-64553893 | MS.gene82035:intron | 30.0% |
| AATATCTCTGACTCTTCTTC+TGG | + | chr3.2:64553196-64553215 | MS.gene82035:CDS | 35.0% | |
| ACATGTGTTTGTATCTGACA+TGG | - | chr3.2:64554022-64554041 | None:intergenic | 35.0% | |
| ACTACTATGATTCTTCTGAG+TGG | + | chr3.2:64553089-64553108 | MS.gene82035:CDS | 35.0% | |
| ATCATTTGTGTACTTGCAGA+TGG | + | chr3.2:64554232-64554251 | MS.gene82035:intron | 35.0% | |
| ATGTGAATCCAAACATGCAT+CGG | + | chr3.2:64553843-64553862 | MS.gene82035:intron | 35.0% | |
| ATTAATTCCCGATGCATGTT+TGG | - | chr3.2:64553854-64553873 | None:intergenic | 35.0% | |
| ATTGTCCTACAAGAAGTAAG+AGG | + | chr3.2:64554672-64554691 | MS.gene82035:CDS | 35.0% | |
| CTCCAAAATAAAAGGGGAAA+TGG | - | chr3.2:64553879-64553898 | None:intergenic | 35.0% | |
| GAAAATGGAATTAGCCACTT+AGG | + | chr3.2:64553500-64553519 | MS.gene82035:intron | 35.0% | |
| GAAGAGTCAGAGATATTATG+AGG | - | chr3.2:64553193-64553212 | None:intergenic | 35.0% | |
| GAATGCAACATCTTATCACT+TGG | - | chr3.2:64553532-64553551 | None:intergenic | 35.0% | |
| GTCATCGAATATCTTAACTC+CGG | - | chr3.2:64553959-64553978 | None:intergenic | 35.0% | |
| TCAATTTCTTAGCGTATGCT+TGG | + | chr3.2:64553723-64553742 | MS.gene82035:intron | 35.0% | |
| TCATCGAATATCTTAACTCC+GGG | - | chr3.2:64553958-64553977 | None:intergenic | 35.0% | |
| TGGTTTACCTTATCAGACTT+AGG | - | chr3.2:64553376-64553395 | None:intergenic | 35.0% | |
| TGGTTTCATCTTCAACAACA+TGG | - | chr3.2:64554379-64554398 | None:intergenic | 35.0% | |
| TTATGAGGTAGTATCTGTGT+AGG | - | chr3.2:64553178-64553197 | None:intergenic | 35.0% | |
| TTCATTCAATTCAGGCTTTG+AGG | + | chr3.2:64553549-64553568 | MS.gene82035:intron | 35.0% | |
| TTCCTCATTAAAGACAGACA+CGG | - | chr3.2:64554112-64554131 | None:intergenic | 35.0% | |
| ! | AGATCTAAAGCGAAAAGCAA+TGG | + | chr3.2:64554295-64554314 | MS.gene82035:CDS | 35.0% |
| !! | ACCTTGATTTTGACAAACTG+GGG | - | chr3.2:64553798-64553817 | None:intergenic | 35.0% |
| !! | CACCTTGATTTTGACAAACT+GGG | - | chr3.2:64553799-64553818 | None:intergenic | 35.0% |
| !! | TTTGGTCACTGCTGATTTAA+GGG | - | chr3.2:64554627-64554646 | None:intergenic | 35.0% |
| !!! | TTTTGGTCACTGCTGATTTA+AGG | - | chr3.2:64554628-64554647 | None:intergenic | 35.0% |
| AAAGCTGACATAGCAAGTGT+TGG | + | chr3.2:64554524-64554543 | MS.gene82035:CDS | 40.0% | |
| ACCCCAGTTTGTCAAAATCA+AGG | + | chr3.2:64553794-64553813 | MS.gene82035:intron | 40.0% | |
| ATGGACAAAGCAGCATTACT+AGG | + | chr3.2:64554251-64554270 | MS.gene82035:CDS | 40.0% | |
| CATCGAATATCTTAACTCCG+GGG | - | chr3.2:64553957-64553976 | None:intergenic | 40.0% | |
| CCAGTTTGTCAAAATCAAGG+TGG | + | chr3.2:64553797-64553816 | MS.gene82035:intron | 40.0% | |
| GAACTAATCCAAGTCCTCAA+AGG | + | chr3.2:64554482-64554501 | MS.gene82035:CDS | 40.0% | |
| TCTTCAACACTCCCTTCAAT+AGG | - | chr3.2:64553259-64553278 | None:intergenic | 40.0% | |
| TGGACAAAGCAGCATTACTA+GGG | + | chr3.2:64554252-64554271 | MS.gene82035:CDS | 40.0% | |
| TGTGAATCCAAACATGCATC+GGG | + | chr3.2:64553844-64553863 | MS.gene82035:intron | 40.0% | |
| ! | GTCTTAAACCTTTGAGGACT+TGG | - | chr3.2:64554493-64554512 | None:intergenic | 40.0% |
| !! | CCACCTTGATTTTGACAAAC+TGG | - | chr3.2:64553800-64553819 | None:intergenic | 40.0% |
| !! | TGAAGGGAGTGTTGAAGATA+GGG | + | chr3.2:64553261-64553280 | MS.gene82035:CDS | 40.0% |
| !! | TTGAAGGGAGTGTTGAAGAT+AGG | + | chr3.2:64553260-64553279 | MS.gene82035:CDS | 40.0% |
| AAATCGCGTTGCAGTTCTGT+CGG | - | chr3.2:64554188-64554207 | None:intergenic | 45.0% | |
| ATCTGTGTAGGTACAGTCAC+AGG | - | chr3.2:64553166-64553185 | None:intergenic | 45.0% | |
| ATTAAAGACAGACACGGACG+CGG | - | chr3.2:64554106-64554125 | None:intergenic | 45.0% | |
| CAGAGAAAAGACGTAGAGAC+AGG | + | chr3.2:64553314-64553333 | MS.gene82035:CDS | 45.0% | |
| CTCTGCCTCTTACTTCTTGT+AGG | - | chr3.2:64554680-64554699 | None:intergenic | 45.0% | |
| CTCTGCTTGACTATGACTCT+TGG | - | chr3.2:64553299-64553318 | None:intergenic | 45.0% | |
| GGCAGTATTTGAGCACAAAC+TGG | + | chr3.2:64553110-64553129 | MS.gene82035:CDS | 45.0% | |
| GTCCGTGTCTGTCTTTAATG+AGG | + | chr3.2:64554107-64554126 | MS.gene82035:intron | 45.0% | |
| ! | ACTGGGGTGTCACAAAATCA+TGG | - | chr3.2:64553782-64553801 | None:intergenic | 45.0% |
| ! | TCACTTGGGTTTTCCCTAAG+TGG | - | chr3.2:64553517-64553536 | None:intergenic | 45.0% |
| !! | GAAAAAATAAAAAATAAAAT+TGG | - | chr3.2:64553396-64553415 | None:intergenic | 5.0% |
| AATCGCGTTGCAGTTCTGTC+GGG | - | chr3.2:64554187-64554206 | None:intergenic | 50.0% | |
| ATATCTTAACTCCGGGGCAC+AGG | - | chr3.2:64553951-64553970 | None:intergenic | 50.0% | |
| !! | GCTGACATAGCAAGTGTTGG+TGG | + | chr3.2:64554527-64554546 | MS.gene82035:CDS | 50.0% |
| TTAACTCCGGGGCACAGGCG+CGG | - | chr3.2:64553946-64553965 | None:intergenic | 65.0% | |
| CTCCAACCGCGCCTGTGCCC+CGG | + | chr3.2:64553937-64553956 | MS.gene82035:intron | 75.0% | |
| ! | CTCCGGGGCACAGGCGCGGT+TGG | - | chr3.2:64553942-64553961 | None:intergenic | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 64553076 | 64554727 | 64553076 | ID=MS.gene82035 |
| chr3.2 | mRNA | 64553076 | 64554727 | 64553076 | ID=MS.gene82035.t1;Parent=MS.gene82035 |
| chr3.2 | exon | 64553076 | 64553387 | 64553076 | ID=MS.gene82035.t1.exon1;Parent=MS.gene82035.t1 |
| chr3.2 | CDS | 64553076 | 64553387 | 64553076 | ID=cds.MS.gene82035.t1;Parent=MS.gene82035.t1 |
| chr3.2 | exon | 64554251 | 64554727 | 64554251 | ID=MS.gene82035.t1.exon2;Parent=MS.gene82035.t1 |
| chr3.2 | CDS | 64554251 | 64554727 | 64554251 | ID=cds.MS.gene82035.t1;Parent=MS.gene82035.t1 |
| Gene Sequence |
| Protein sequence |
