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.gene78624.t1 | XP_003590374.1 | 86.6 | 112 | 15 | 0 | 1 | 112 | 1 | 112 | 6.90E-47 | 196.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78624.t1 | G7I999 | 86.6 | 112 | 15 | 0 | 1 | 112 | 1 | 112 | 5.0e-47 | 196.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049298 | MS.gene78624 | 0.812798 | 3.54E-51 | -1.69E-46 |
| MS.gene057669 | MS.gene78624 | 0.809405 | 1.92E-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.gene78624.t1 | MTR_1g059290 | 86.607 | 112 | 15 | 0 | 1 | 112 | 1 | 112 | 8.87e-58 | 174 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78624.t1 | AT2G42310 | 63.107 | 103 | 35 | 1 | 2 | 104 | 14 | 113 | 8.02e-42 | 134 |
| MS.gene78624.t1 | AT3G57785 | 65.000 | 100 | 34 | 1 | 6 | 104 | 14 | 113 | 2.92e-41 | 132 |
Find 44 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCCGTCTCCGCGGCGGTTC+AGG | 0.224776 | 1.4:-55218077 | MS.gene78624:CDS |
| TCAAATCAGGCTTAGCATTA+AGG | 0.309891 | 1.4:+55217892 | None:intergenic |
| TTTAGGTCTTTCTCGTGGCC+TGG | 0.341720 | 1.4:+55218028 | None:intergenic |
| AGCCCTTGAACGTCTCAAAT+TGG | 0.351342 | 1.4:-55217844 | MS.gene78624:CDS |
| CTGATTTGACTATTGAAACT+TGG | 0.354374 | 1.4:-55217878 | MS.gene78624:CDS |
| TTAGGTCTTTCTCGTGGCCT+GGG | 0.376196 | 1.4:+55218029 | None:intergenic |
| TGGTTGAAGAGGTAGCCTTT+AGG | 0.396876 | 1.4:+55218011 | None:intergenic |
| CTTGTCCATCGGCTTGCAAC+CGG | 0.399272 | 1.4:+55218052 | None:intergenic |
| CAAGTTTCAATAGTCAAATC+AGG | 0.400055 | 1.4:+55217879 | None:intergenic |
| CTCCGCGGCGGTTCAGGAAC+CGG | 0.401455 | 1.4:-55218071 | MS.gene78624:CDS |
| CACCTGGAGCGAGTGGTGTT+TGG | 0.403944 | 1.4:+55217991 | None:intergenic |
| AATCACGCAAATGGGAAGAT+TGG | 0.415297 | 1.4:-55217968 | MS.gene78624:CDS |
| CTCCAGGTGAATCACGCAAA+TGG | 0.420212 | 1.4:-55217977 | MS.gene78624:CDS |
| CTTCCAATTTGAGACGTTCA+AGG | 0.438923 | 1.4:+55217841 | None:intergenic |
| TCCCATTTGCGTGATTCACC+TGG | 0.448242 | 1.4:+55217975 | None:intergenic |
| ATCACGCAAATGGGAAGATT+GGG | 0.466913 | 1.4:-55217967 | MS.gene78624:CDS |
| CGAGTGGTGTTTGGTTGAAG+AGG | 0.470232 | 1.4:+55218000 | None:intergenic |
| CGTGGCCTGGGCTTGTCCAT+CGG | 0.482648 | 1.4:+55218041 | None:intergenic |
| TCCAGGTGAATCACGCAAAT+GGG | 0.489078 | 1.4:-55217976 | MS.gene78624:CDS |
| TGATTTGACTATTGAAACTT+GGG | 0.489933 | 1.4:-55217877 | MS.gene78624:CDS |
| AACCAAACACCACTCGCTCC+AGG | 0.505049 | 1.4:-55217993 | MS.gene78624:CDS |
| GCAAGCCGATGGACAAGCCC+AGG | 0.520865 | 1.4:-55218046 | MS.gene78624:CDS |
| GAGGAGACGTTGGCGGAGCA+TGG | 0.529777 | 1.4:+55218106 | None:intergenic |
| TTCCTGAACCGCCGCGGAGA+CGG | 0.531358 | 1.4:+55218075 | None:intergenic |
| TTCCTCACCATCGTTATCCT+CGG | 0.531600 | 1.4:-55217921 | MS.gene78624:CDS |
| TCAAAATCATCTCTATTCAT+CGG | 0.537178 | 1.4:+55217776 | None:intergenic |
| ACCATCGTTATCCTCGGTGT+TGG | 0.550397 | 1.4:-55217915 | MS.gene78624:CDS |
| AGGAACCGGTTGCAAGCCGA+TGG | 0.564361 | 1.4:-55218057 | MS.gene78624:CDS |
| TTCCAATTTGAGACGTTCAA+GGG | 0.567951 | 1.4:+55217842 | None:intergenic |
| GGAGAGAGGTGAGGAGACGT+TGG | 0.578698 | 1.4:+55218096 | None:intergenic |
| GAGAGGTGAGGAGACGTTGG+CGG | 0.579804 | 1.4:+55218099 | None:intergenic |
| CGCGGAGACGGAGAGAGGTG+AGG | 0.590890 | 1.4:+55218087 | None:intergenic |
| ACCTCTCTCCGTCTCCGCGG+CGG | 0.593678 | 1.4:-55218083 | MS.gene78624:CDS |
| ACCGCCGCGGAGACGGAGAG+AGG | 0.601010 | 1.4:+55218082 | None:intergenic |
| AGGCCACGAGAAAGACCTAA+AGG | 0.603744 | 1.4:-55218026 | MS.gene78624:CDS |
| CGTGATTCACCTGGAGCGAG+TGG | 0.616656 | 1.4:+55217984 | None:intergenic |
| AGGAAGCTAGTGATGTAGCA+AGG | 0.627360 | 1.4:+55217939 | None:intergenic |
| CACCGAGGATAACGATGGTG+AGG | 0.629292 | 1.4:+55217919 | None:intergenic |
| TAGCCTTTAGGTCTTTCTCG+TGG | 0.639469 | 1.4:+55218023 | None:intergenic |
| GGAATCATCAACGACGACAG+CGG | 0.672278 | 1.4:+55217797 | None:intergenic |
| AACCGGTTCCTGAACCGCCG+CGG | 0.684009 | 1.4:+55218069 | None:intergenic |
| GCCAACACCGAGGATAACGA+TGG | 0.718051 | 1.4:+55217914 | None:intergenic |
| TAGCATTAAGGCCAACACCG+AGG | 0.728768 | 1.4:+55217904 | None:intergenic |
| CTCACCTCTCTCCGTCTCCG+CGG | 0.734494 | 1.4:-55218086 | MS.gene78624:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGATTTGACTATTGAAACTT+GGG | - | chr1.4:55218015-55218034 | MS.gene78624:CDS | 25.0% |
| CAAGTTTCAATAGTCAAATC+AGG | + | chr1.4:55218016-55218035 | None:intergenic | 30.0% | |
| ! | CTGATTTGACTATTGAAACT+TGG | - | chr1.4:55218014-55218033 | MS.gene78624:CDS | 30.0% |
| TCAAATCAGGCTTAGCATTA+AGG | + | chr1.4:55218003-55218022 | None:intergenic | 35.0% | |
| ! | TTCCAATTTGAGACGTTCAA+GGG | + | chr1.4:55218053-55218072 | None:intergenic | 35.0% |
| AATCACGCAAATGGGAAGAT+TGG | - | chr1.4:55217924-55217943 | MS.gene78624:CDS | 40.0% | |
| ATCACGCAAATGGGAAGATT+GGG | - | chr1.4:55217925-55217944 | MS.gene78624:CDS | 40.0% | |
| ! | CTTCCAATTTGAGACGTTCA+AGG | + | chr1.4:55218054-55218073 | None:intergenic | 40.0% |
| AGCCCTTGAACGTCTCAAAT+TGG | - | chr1.4:55218048-55218067 | MS.gene78624:CDS | 45.0% | |
| AGGAAGCTAGTGATGTAGCA+AGG | + | chr1.4:55217956-55217975 | None:intergenic | 45.0% | |
| TAGCCTTTAGGTCTTTCTCG+TGG | + | chr1.4:55217872-55217891 | None:intergenic | 45.0% | |
| TCCAGGTGAATCACGCAAAT+GGG | - | chr1.4:55217916-55217935 | MS.gene78624:CDS | 45.0% | |
| TGGTTGAAGAGGTAGCCTTT+AGG | + | chr1.4:55217884-55217903 | None:intergenic | 45.0% | |
| TTCCTCACCATCGTTATCCT+CGG | - | chr1.4:55217971-55217990 | MS.gene78624:CDS | 45.0% | |
| AGGCCACGAGAAAGACCTAA+AGG | - | chr1.4:55217866-55217885 | MS.gene78624:CDS | 50.0% | |
| CGAGTGGTGTTTGGTTGAAG+AGG | + | chr1.4:55217895-55217914 | None:intergenic | 50.0% | |
| CTCCAGGTGAATCACGCAAA+TGG | - | chr1.4:55217915-55217934 | MS.gene78624:CDS | 50.0% | |
| GGAATCATCAACGACGACAG+CGG | + | chr1.4:55218098-55218117 | None:intergenic | 50.0% | |
| TAGCATTAAGGCCAACACCG+AGG | + | chr1.4:55217991-55218010 | None:intergenic | 50.0% | |
| TCCCATTTGCGTGATTCACC+TGG | + | chr1.4:55217920-55217939 | None:intergenic | 50.0% | |
| TTAGGTCTTTCTCGTGGCCT+GGG | + | chr1.4:55217866-55217885 | None:intergenic | 50.0% | |
| TTTAGGTCTTTCTCGTGGCC+TGG | + | chr1.4:55217867-55217886 | None:intergenic | 50.0% | |
| ! | ACCATCGTTATCCTCGGTGT+TGG | - | chr1.4:55217977-55217996 | MS.gene78624:CDS | 50.0% |
| AACCAAACACCACTCGCTCC+AGG | - | chr1.4:55217899-55217918 | MS.gene78624:CDS | 55.0% | |
| CACCGAGGATAACGATGGTG+AGG | + | chr1.4:55217976-55217995 | None:intergenic | 55.0% | |
| GCCAACACCGAGGATAACGA+TGG | + | chr1.4:55217981-55218000 | None:intergenic | 55.0% | |
| !! | CTTGTCCATCGGCTTGCAAC+CGG | + | chr1.4:55217843-55217862 | None:intergenic | 55.0% |
| AGGAACCGGTTGCAAGCCGA+TGG | - | chr1.4:55217835-55217854 | MS.gene78624:CDS | 60.0% | |
| CACCTGGAGCGAGTGGTGTT+TGG | + | chr1.4:55217904-55217923 | None:intergenic | 60.0% | |
| CGTGATTCACCTGGAGCGAG+TGG | + | chr1.4:55217911-55217930 | None:intergenic | 60.0% | |
| GAGAGGTGAGGAGACGTTGG+CGG | + | chr1.4:55217796-55217815 | None:intergenic | 60.0% | |
| GGAGAGAGGTGAGGAGACGT+TGG | + | chr1.4:55217799-55217818 | None:intergenic | 60.0% | |
| CGTGGCCTGGGCTTGTCCAT+CGG | + | chr1.4:55217854-55217873 | None:intergenic | 65.0% | |
| CTCACCTCTCTCCGTCTCCG+CGG | - | chr1.4:55217806-55217825 | MS.gene78624:CDS | 65.0% | |
| GCAAGCCGATGGACAAGCCC+AGG | - | chr1.4:55217846-55217865 | MS.gene78624:CDS | 65.0% | |
| TTCCTGAACCGCCGCGGAGA+CGG | + | chr1.4:55217820-55217839 | None:intergenic | 65.0% | |
| ! | AACCGGTTCCTGAACCGCCG+CGG | + | chr1.4:55217826-55217845 | None:intergenic | 65.0% |
| ACCTCTCTCCGTCTCCGCGG+CGG | - | chr1.4:55217809-55217828 | MS.gene78624:CDS | 70.0% | |
| CGCGGAGACGGAGAGAGGTG+AGG | + | chr1.4:55217808-55217827 | None:intergenic | 70.0% | |
| CTCCGCGGCGGTTCAGGAAC+CGG | - | chr1.4:55217821-55217840 | MS.gene78624:CDS | 70.0% | |
| ACCGCCGCGGAGACGGAGAG+AGG | + | chr1.4:55217813-55217832 | None:intergenic | 75.0% | |
| CTCCGTCTCCGCGGCGGTTC+AGG | - | chr1.4:55217815-55217834 | MS.gene78624:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 55217788 | 55218126 | 55217788 | ID=MS.gene78624 |
| chr1.4 | mRNA | 55217788 | 55218126 | 55217788 | ID=MS.gene78624.t1;Parent=MS.gene78624 |
| chr1.4 | exon | 55217788 | 55218126 | 55217788 | ID=MS.gene78624.t1.exon1;Parent=MS.gene78624.t1 |
| chr1.4 | CDS | 55217788 | 55218126 | 55217788 | ID=cds.MS.gene78624.t1;Parent=MS.gene78624.t1 |
| Gene Sequence |
| Protein sequence |
