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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689360 | KEH17998.1 | 80.240 | 167 | 33 | 0 | 1 | 167 | 1 | 167 | 3.18e-96 | 286 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689360 | sp|Q9SCS4|LBD28_ARATH | 28.696 | 115 | 81 | 1 | 1 | 114 | 3 | 117 | 1.72e-13 | 68.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689360 | A0A072TMD2 | 80.240 | 167 | 33 | 0 | 1 | 167 | 1 | 167 | 1.52e-96 | 286 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0689360 | TF | LOB |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689360 | MtrunA17_Chr8g0337271 | 80.240 | 167 | 33 | 0 | 1 | 167 | 1 | 167 | 2.93e-100 | 286 |
| Msa0689360 | MtrunA17_Chr8g0358731 | 36.283 | 113 | 68 | 1 | 1 | 113 | 1 | 109 | 3.50e-21 | 85.1 |
| Msa0689360 | MtrunA17_Chr6g0452691 | 27.211 | 147 | 100 | 2 | 10 | 149 | 9 | 155 | 1.02e-12 | 62.8 |
| Msa0689360 | MtrunA17_Chr5g0439111 | 27.660 | 141 | 96 | 4 | 10 | 148 | 9 | 145 | 3.81e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689360 | AT3G50510.1 | 28.696 | 115 | 81 | 1 | 1 | 114 | 3 | 117 | 1.75e-14 | 68.2 |
| Msa0689360 | AT3G50510.2 | 28.696 | 115 | 81 | 1 | 1 | 114 | 3 | 117 | 1.75e-14 | 68.2 |
| Msa0689360 | AT2G19820.1 | 30.108 | 93 | 64 | 1 | 5 | 96 | 7 | 99 | 6.79e-13 | 62.4 |
| Msa0689360 | AT3G27650.1 | 32.184 | 87 | 59 | 0 | 1 | 87 | 30 | 116 | 1.99e-11 | 59.3 |
Find 37 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCCAAGGATGTGCTTATT+TGG | 0.063042 | 4_4:-56413360 | None:intergenic |
| TCAGTGTGTCATTCAAATTT+TGG | 0.142179 | 4_4:+56413195 | Msa0689360:CDS |
| CTGACTTAAACTTGAGTATA+TGG | 0.197296 | 4_4:+56413476 | Msa0689360:CDS |
| CATGACACTGATTGTGAATT+TGG | 0.306396 | 4_4:+56413139 | Msa0689360:CDS |
| ATCCAAGGATGTGCTTATTT+GGG | 0.326625 | 4_4:-56413359 | None:intergenic |
| TCTTGGACACCAATTGGAGC+TGG | 0.391570 | 4_4:+56413333 | Msa0689360:CDS |
| TGTCCAAGAAAACCCTGATC+TGG | 0.420917 | 4_4:-56413319 | None:intergenic |
| TTTGGGCACCCAGCTCCAAT+TGG | 0.428496 | 4_4:-56413342 | None:intergenic |
| TTGGCGAAGTAACCCAGATC+AGG | 0.429999 | 4_4:+56413306 | Msa0689360:CDS |
| TTAATTGCATAATTCTCATC+AGG | 0.430232 | 4_4:-56413228 | None:intergenic |
| TGACTTAAACTTGAGTATAT+GGG | 0.443514 | 4_4:+56413477 | Msa0689360:CDS |
| CTTGGACACCAATTGGAGCT+GGG | 0.456606 | 4_4:+56413334 | Msa0689360:CDS |
| TGCCCAAATAAGCACATCCT+TGG | 0.475102 | 4_4:+56413357 | Msa0689360:CDS |
| AGCAATTTCAATTTCATCCA+AGG | 0.478006 | 4_4:-56413374 | None:intergenic |
| CATATACTCAAGTTTAAGTC+AGG | 0.479889 | 4_4:-56413475 | None:intergenic |
| TCTCCTCTTTCACAAGTACA+TGG | 0.497829 | 4_4:-56413726 | None:intergenic |
| TCCTTCTGTGAGAAGCGAAT+CGG | 0.511515 | 4_4:-56413278 | None:intergenic |
| TACTGAACACATGGGTGACA+TGG | 0.514848 | 4_4:+56413674 | Msa0689360:CDS |
| GCCGATTCGCTTCTCACAGA+AGG | 0.517177 | 4_4:+56413277 | Msa0689360:CDS |
| ATTCCATGTACTTGTGAAAG+AGG | 0.523001 | 4_4:+56413723 | Msa0689360:CDS |
| CTGAAAGTCAGCATGCCTAC+TGG | 0.528158 | 4_4:-56413176 | None:intergenic |
| TGTGCCGACATATGAGAAGA+AGG | 0.531308 | 4_4:+56413116 | Msa0689360:CDS |
| GTCCAAGAAAACCCTGATCT+GGG | 0.532763 | 4_4:-56413318 | None:intergenic |
| CATGCCTTCTTCTCATATGT+CGG | 0.541385 | 4_4:-56413120 | None:intergenic |
| GCAACAATTTGTCTTTGATG+TGG | 0.547669 | 4_4:-56413256 | None:intergenic |
| TTCTCACAGAAGGAGAAGCT+TGG | 0.549947 | 4_4:+56413287 | Msa0689360:CDS |
| GTGCAAGAAGGCATGGAAGA+AGG | 0.556829 | 4_4:-56413445 | None:intergenic |
| AATTTGAGTGCAAGAAGGCA+TGG | 0.581783 | 4_4:-56413452 | None:intergenic |
| AAATGCATCAGAGAAATACA+AGG | 0.593981 | 4_4:+56413077 | None:intergenic |
| TGGCGAAGTAACCCAGATCA+GGG | 0.596047 | 4_4:+56413307 | Msa0689360:CDS |
| CTTGTGAAAGAGGAGAATCA+AGG | 0.617523 | 4_4:+56413733 | Msa0689360:CDS |
| CATGGGTGACATGGACATCA+CGG | 0.621521 | 4_4:+56413683 | Msa0689360:CDS |
| TCAGGAATTTGAGTGCAAGA+AGG | 0.621914 | 4_4:-56413457 | None:intergenic |
| TTAATAGAGTACTGAACACA+TGG | 0.626411 | 4_4:+56413665 | Msa0689360:intron |
| ATCACGGAACAAGACATGCA+AGG | 0.684891 | 4_4:+56413699 | Msa0689360:CDS |
| AATGCATCAGAGAAATACAA+GGG | 0.687321 | 4_4:+56413078 | None:intergenic |
| TAATAGAGTACTGAACACAT+GGG | 0.740993 | 4_4:+56413666 | Msa0689360:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTAATTGCATAATTCTCATC+AGG | - | chr4_4:56413231-56413250 | None:intergenic | 25.0% |
| ! | TGACTTAAACTTGAGTATAT+GGG | + | chr4_4:56413477-56413496 | Msa0689360:CDS | 25.0% |
| ! | TTGAAAAGAATGATAGATCT+TGG | - | chr4_4:56413621-56413640 | None:intergenic | 25.0% |
| !! | TCAGTGTGTCATTCAAATTT+TGG | + | chr4_4:56413195-56413214 | Msa0689360:CDS | 30.0% |
| !! | CAGTGTGTCATTCAAATTTT+GGG | + | chr4_4:56413196-56413215 | Msa0689360:CDS | 30.0% |
| !! | AGTGTGTCATTCAAATTTTG+GGG | + | chr4_4:56413197-56413216 | Msa0689360:CDS | 30.0% |
| AGCAATTTCAATTTCATCCA+AGG | - | chr4_4:56413377-56413396 | None:intergenic | 30.0% | |
| CATATACTCAAGTTTAAGTC+AGG | - | chr4_4:56413478-56413497 | None:intergenic | 30.0% | |
| CTGACTTAAACTTGAGTATA+TGG | + | chr4_4:56413476-56413495 | Msa0689360:CDS | 30.0% | |
| ATGTGTTCAGTACTCTATTA+AGG | - | chr4_4:56413666-56413685 | None:intergenic | 30.0% | |
| !! | TTAATAGAGTACTGAACACA+TGG | + | chr4_4:56413665-56413684 | Msa0689360:intron | 30.0% |
| !! | TAATAGAGTACTGAACACAT+GGG | + | chr4_4:56413666-56413685 | Msa0689360:intron | 30.0% |
| ! | CATGACACTGATTGTGAATT+TGG | + | chr4_4:56413139-56413158 | Msa0689360:CDS | 35.0% |
| GCAACAATTTGTCTTTGATG+TGG | - | chr4_4:56413259-56413278 | None:intergenic | 35.0% | |
| ATCCAAGGATGTGCTTATTT+GGG | - | chr4_4:56413362-56413381 | None:intergenic | 35.0% | |
| ATTCCATGTACTTGTGAAAG+AGG | + | chr4_4:56413723-56413742 | Msa0689360:CDS | 35.0% | |
| CATGCCTTCTTCTCATATGT+CGG | - | chr4_4:56413123-56413142 | None:intergenic | 40.0% | |
| ! | GTCAATACTTTTCGACCAGT+AGG | + | chr4_4:56413161-56413180 | Msa0689360:CDS | 40.0% |
| CATCCAAGGATGTGCTTATT+TGG | - | chr4_4:56413363-56413382 | None:intergenic | 40.0% | |
| AATTTGAGTGCAAGAAGGCA+TGG | - | chr4_4:56413455-56413474 | None:intergenic | 40.0% | |
| TCAGGAATTTGAGTGCAAGA+AGG | - | chr4_4:56413460-56413479 | None:intergenic | 40.0% | |
| TCTCCTCTTTCACAAGTACA+TGG | - | chr4_4:56413729-56413748 | None:intergenic | 40.0% | |
| ! | TGTGCCGACATATGAGAAGA+AGG | + | chr4_4:56413116-56413135 | Msa0689360:CDS | 45.0% |
| TCCTTCTGTGAGAAGCGAAT+CGG | - | chr4_4:56413281-56413300 | None:intergenic | 45.0% | |
| TTCTCACAGAAGGAGAAGCT+TGG | + | chr4_4:56413287-56413306 | Msa0689360:CDS | 45.0% | |
| ! | AACCCAGATCAGGGTTTTCT+TGG | + | chr4_4:56413316-56413335 | Msa0689360:CDS | 45.0% |
| GTCCAAGAAAACCCTGATCT+GGG | - | chr4_4:56413321-56413340 | None:intergenic | 45.0% | |
| TGTCCAAGAAAACCCTGATC+TGG | - | chr4_4:56413322-56413341 | None:intergenic | 45.0% | |
| ! | GGGTTTTCTTGGACACCAAT+TGG | + | chr4_4:56413327-56413346 | Msa0689360:CDS | 45.0% |
| TGCCCAAATAAGCACATCCT+TGG | + | chr4_4:56413357-56413376 | Msa0689360:CDS | 45.0% | |
| TACTGAACACATGGGTGACA+TGG | + | chr4_4:56413674-56413693 | Msa0689360:CDS | 45.0% | |
| ATCACGGAACAAGACATGCA+AGG | + | chr4_4:56413699-56413718 | Msa0689360:CDS | 45.0% | |
| CTGAAAGTCAGCATGCCTAC+TGG | - | chr4_4:56413179-56413198 | None:intergenic | 50.0% | |
| TTGGCGAAGTAACCCAGATC+AGG | + | chr4_4:56413306-56413325 | Msa0689360:CDS | 50.0% | |
| TGGCGAAGTAACCCAGATCA+GGG | + | chr4_4:56413307-56413326 | Msa0689360:CDS | 50.0% | |
| TCTTGGACACCAATTGGAGC+TGG | + | chr4_4:56413333-56413352 | Msa0689360:CDS | 50.0% | |
| CTTGGACACCAATTGGAGCT+GGG | + | chr4_4:56413334-56413353 | Msa0689360:CDS | 50.0% | |
| ! | GTGCAAGAAGGCATGGAAGA+AGG | - | chr4_4:56413448-56413467 | None:intergenic | 50.0% |
| CATGGGTGACATGGACATCA+CGG | + | chr4_4:56413683-56413702 | Msa0689360:CDS | 50.0% | |
| !! | GCCGATTCGCTTCTCACAGA+AGG | + | chr4_4:56413277-56413296 | Msa0689360:CDS | 55.0% |
| TTTGGGCACCCAGCTCCAAT+TGG | - | chr4_4:56413345-56413364 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 56413079 | 56413752 | 56413079 | ID=Msa0689360;Name=Msa0689360 |
| chr4_4 | mRNA | 56413079 | 56413752 | 56413079 | ID=Msa0689360-mRNA-1;Parent=Msa0689360;Name=Msa0689360-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|2|0|167 |
| chr4_4 | exon | 56413079 | 56413498 | 56413079 | ID=Msa0689360-mRNA-1:exon:14861;Parent=Msa0689360-mRNA-1 |
| chr4_4 | exon | 56413672 | 56413752 | 56413672 | ID=Msa0689360-mRNA-1:exon:14862;Parent=Msa0689360-mRNA-1 |
| chr4_4 | CDS | 56413079 | 56413498 | 56413079 | ID=Msa0689360-mRNA-1:cds;Parent=Msa0689360-mRNA-1 |
| chr4_4 | CDS | 56413672 | 56413752 | 56413672 | ID=Msa0689360-mRNA-1:cds;Parent=Msa0689360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
