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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1386460 | RHN79156.1 | 61.417 | 127 | 38 | 4 | 12 | 137 | 79 | 195 | 2.23e-35 | 131 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1386460 | A0A396JLM7 | 61.417 | 127 | 38 | 4 | 12 | 137 | 79 | 195 | 1.06e-35 | 131 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0610670 | Msa1386460 | 0.800690 | 1.280623e-48 | -8.615850e-47 |
| Msa0651270 | Msa1386460 | 0.813792 | 2.139012e-51 | -8.615850e-47 |
| Msa0791940 | Msa1386460 | 0.968915 | 2.322745e-129 | -8.615850e-47 |
| Msa0579100 | Msa1386460 | 0.811701 | 6.138553e-51 | -8.615850e-47 |
| Msa0579200 | Msa1386460 | 0.801030 | 1.091017e-48 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1386460 | MtrunA17_Chr1g0174001 | 61.417 | 127 | 38 | 4 | 12 | 137 | 79 | 195 | 2.05e-39 | 131 |
| Msa1386460 | MtrunA17_Chr7g0214511 | 64.912 | 114 | 35 | 3 | 25 | 137 | 178 | 287 | 3.28e-38 | 130 |
| Msa1386460 | MtrunA17_Chr1g0169521 | 59.055 | 127 | 28 | 4 | 12 | 137 | 213 | 316 | 7.85e-32 | 114 |
| Msa1386460 | MtrunA17_Chr1g0169561 | 56.693 | 127 | 31 | 4 | 12 | 137 | 213 | 316 | 2.89e-29 | 108 |
| Msa1386460 | MtrunA17_Chr1g0180571 | 69.388 | 49 | 15 | 0 | 82 | 130 | 22 | 70 | 1.00e-14 | 66.2 |
| Msa1386460 | MtrunA17_Chr1g0180581 | 73.333 | 45 | 12 | 0 | 86 | 130 | 146 | 190 | 1.50e-14 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAAACAGAGACACTAAT+TGG | 0.270564 | tig0020816:-76428 | None:intergenic |
| AACGAAAGTGAAACTGAATT+AGG | 0.272272 | tig0020816:+76343 | Msa1386460:CDS |
| CTCTTCAATATCGTTATTAG+AGG | 0.288961 | tig0020816:-76311 | None:intergenic |
| ACTGTTCAACTCACGTCTTA+TGG | 0.307520 | tig0020816:+76032 | Msa1386460:CDS |
| ATCACAATCATGACAGTAAA+AGG | 0.309703 | tig0020816:+76089 | Msa1386460:CDS |
| CTGTTCAACTCACGTCTTAT+GGG | 0.313666 | tig0020816:+76033 | Msa1386460:CDS |
| ATTGTGATTCACATCAAAAT+TGG | 0.331888 | tig0020816:-76074 | None:intergenic |
| ACGAAAGTGAAACTGAATTA+GGG | 0.428521 | tig0020816:+76344 | Msa1386460:CDS |
| GGATGATAATGAAAAGGTTA+AGG | 0.455317 | tig0020816:+76135 | Msa1386460:CDS |
| TATCATGGATGATAATGAAA+AGG | 0.496794 | tig0020816:+76129 | Msa1386460:CDS |
| TAACGATATTGAAGAGAAGA+AGG | 0.505437 | tig0020816:+76318 | Msa1386460:CDS |
| TCATCTTCAAAACCATCACT+TGG | 0.554445 | tig0020816:-76403 | None:intergenic |
| CCACGATGAAATGAAGAAGT+TGG | 0.576183 | tig0020816:+76222 | Msa1386460:CDS |
| TTGAATGAGCTTCCAAGTGA+TGG | 0.583061 | tig0020816:+76391 | Msa1386460:CDS |
| TGTTCAACTCACGTCTTATG+GGG | 0.605561 | tig0020816:+76034 | Msa1386460:CDS |
| AAATGAAGAAGTTGGTGTTG+AGG | 0.616470 | tig0020816:+76230 | Msa1386460:CDS |
| TCACGTCTTATGGGGTTACG+AGG | 0.646478 | tig0020816:+76042 | Msa1386460:CDS |
| CCAACTTCTTCATTTCATCG+TGG | 0.676716 | tig0020816:-76222 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAAATTTTCTAGTAATATCA+TGG | + | tig0020816:76114-76133 | Msa1386460:CDS | 20.0% |
| ! | ATTGTGATTCACATCAAAAT+TGG | - | tig0020816:76077-76096 | None:intergenic | 25.0% |
| !! | TATCATGGATGATAATGAAA+AGG | + | tig0020816:76129-76148 | Msa1386460:CDS | 25.0% |
| ! | GTTTGAAAAATCTTGTCTTT+AGG | - | tig0020816:76265-76284 | None:intergenic | 25.0% |
| ATCACAATCATGACAGTAAA+AGG | + | tig0020816:76089-76108 | Msa1386460:CDS | 30.0% | |
| ! | GGATGATAATGAAAAGGTTA+AGG | + | tig0020816:76135-76154 | Msa1386460:CDS | 30.0% |
| CTCTTCAATATCGTTATTAG+AGG | - | tig0020816:76314-76333 | None:intergenic | 30.0% | |
| TAACGATATTGAAGAGAAGA+AGG | + | tig0020816:76318-76337 | Msa1386460:CDS | 30.0% | |
| AACGAAAGTGAAACTGAATT+AGG | + | tig0020816:76343-76362 | Msa1386460:CDS | 30.0% | |
| ACGAAAGTGAAACTGAATTA+GGG | + | tig0020816:76344-76363 | Msa1386460:CDS | 30.0% | |
| !! | AAATGAAGAAGTTGGTGTTG+AGG | + | tig0020816:76230-76249 | Msa1386460:CDS | 35.0% |
| TCATCTTCAAAACCATCACT+TGG | - | tig0020816:76406-76425 | None:intergenic | 35.0% | |
| ACTGTTCAACTCACGTCTTA+TGG | + | tig0020816:76032-76051 | Msa1386460:CDS | 40.0% | |
| CTGTTCAACTCACGTCTTAT+GGG | + | tig0020816:76033-76052 | Msa1386460:CDS | 40.0% | |
| TGTTCAACTCACGTCTTATG+GGG | + | tig0020816:76034-76053 | Msa1386460:CDS | 40.0% | |
| CCAACTTCTTCATTTCATCG+TGG | - | tig0020816:76225-76244 | None:intergenic | 40.0% | |
| CCACGATGAAATGAAGAAGT+TGG | + | tig0020816:76222-76241 | Msa1386460:CDS | 40.0% | |
| TTGAATGAGCTTCCAAGTGA+TGG | + | tig0020816:76391-76410 | Msa1386460:CDS | 40.0% | |
| TCACGTCTTATGGGGTTACG+AGG | + | tig0020816:76042-76061 | Msa1386460:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020816 | gene | 76022 | 76435 | 76022 | ID=Msa1386460;Name=Msa1386460 |
| tig0020816 | mRNA | 76022 | 76435 | 76022 | ID=Msa1386460-mRNA-1;Parent=Msa1386460;Name=Msa1386460-mRNA-1;_AED=0.21;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|137 |
| tig0020816 | exon | 76022 | 76435 | 76022 | ID=Msa1386460-mRNA-1:exon:10150;Parent=Msa1386460-mRNA-1 |
| tig0020816 | CDS | 76022 | 76435 | 76022 | ID=Msa1386460-mRNA-1:cds;Parent=Msa1386460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
