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 |
|---|
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0059900 | Msa0376960 | 0.808683 | 2.746205e-50 | -8.615850e-47 |
| Msa0196880 | Msa0376960 | 0.821562 | 3.780201e-53 | -8.615850e-47 |
| Msa0376960 | Msa0425620 | 0.808743 | 2.666148e-50 | -8.615850e-47 |
| Msa0376960 | Msa0534870 | 0.843998 | 9.924655e-59 | -8.615850e-47 |
| Msa0376960 | Msa0631320 | 0.833866 | 4.168278e-56 | -8.615850e-47 |
| Msa0376960 | Msa1225580 | 0.819199 | 1.316416e-52 | -8.615850e-47 |
| Msa0376960 | Msa1355510 | 0.820374 | 7.093398e-53 | -8.615850e-47 |
| Msa0376960 | Msa1465880 | 0.938920 | 3.023242e-99 | -8.615850e-47 |
| Msa0264680 | Msa0376960 | 0.821419 | 4.078353e-53 | -8.615850e-47 |
| Msa0276430 | Msa0376960 | 0.858251 | 9.367616e-63 | -8.615850e-47 |
| Msa0302730 | Msa0376960 | 0.818825 | 1.601255e-52 | -8.615850e-47 |
| Msa0316470 | Msa0376960 | 0.830519 | 2.806286e-55 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 106 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAATTATTTGTATCTTATT+TGG | 0.120705 | 3_1:-77292838 | Msa0376960:three_prime_UTR |
| GATGTAGTTATTTGCAAGTT+TGG | 0.186562 | 3_1:+77293438 | None:intergenic |
| ATATATACCATGTTTGAAAT+TGG | 0.194861 | 3_1:+77293292 | None:intergenic |
| TTATGAATTCTTTCAAATTA+AGG | 0.214260 | 3_1:-77292868 | Msa0376960:three_prime_UTR |
| AGCAACAAATGACTTCAATT+TGG | 0.266219 | 3_1:+77293370 | None:intergenic |
| CAATATTCTGCACCCTCTTA+TGG | 0.271660 | 3_1:-77293017 | Msa0376960:CDS |
| GAAGTCATTTGTTGCTCTCT+TGG | 0.321512 | 3_1:-77293363 | Msa0376960:CDS |
| CCCTCTTATGGTTCATTCCC+TGG | 0.350929 | 3_1:-77293005 | Msa0376960:CDS |
| ATGTAGTTATTTGCAAGTTT+GGG | 0.355745 | 3_1:+77293439 | None:intergenic |
| ATTGTACTCTAAGAATAAAT+TGG | 0.380230 | 3_1:-77292814 | Msa0376960:three_prime_UTR |
| ACTACTCATGTCATCTATCA+TGG | 0.395752 | 3_1:-77293330 | Msa0376960:CDS |
| TACCATGTTTGAAATTGGAT+TGG | 0.399589 | 3_1:+77293297 | None:intergenic |
| AATATTATCACTTGAAGAAT+AGG | 0.400683 | 3_1:+77293467 | None:intergenic |
| CAGCTGTTCTGTGACTAAAC+TGG | 0.419278 | 3_1:-77292919 | Msa0376960:three_prime_UTR |
| ACCAGGGAATGAACCATAAG+AGG | 0.435500 | 3_1:+77293004 | None:intergenic |
| GGTTCATTCCCTGGTGGTGG+AGG | 0.445646 | 3_1:-77292996 | Msa0376960:CDS |
| CAGTTTAGTCACAGAACAGC+TGG | 0.449201 | 3_1:+77292920 | None:intergenic |
| TATGGTTCATTCCCTGGTGG+TGG | 0.455953 | 3_1:-77292999 | Msa0376960:CDS |
| ATATATTGAGTACTAATTAA+CGG | 0.460298 | 3_1:+77292894 | None:intergenic |
| ACCATGTTTGAAATTGGATT+GGG | 0.461990 | 3_1:+77293298 | None:intergenic |
| AAGAGGGTGCAGAATATTGT+TGG | 0.468164 | 3_1:+77293021 | None:intergenic |
| CACATTAATAGCCCCACGGT+GGG | 0.549490 | 3_1:-77292959 | Msa0376960:exon |
| TATTTATATCCTCCACCACC+AGG | 0.549536 | 3_1:+77292987 | None:intergenic |
| CCACCGTGGGGCTATTAATG+TGG | 0.550176 | 3_1:+77292960 | None:intergenic |
| CTACTCATGTCATCTATCAT+GGG | 0.563545 | 3_1:-77293329 | Msa0376960:CDS |
| AATGACTTCAATTTGGAGAG+AGG | 0.591876 | 3_1:+77293377 | None:intergenic |
| GCCCAATCCAATTTCAAACA+TGG | 0.609489 | 3_1:-77293299 | Msa0376960:intron |
| AGTTTAGTCACAGAACAGCT+GGG | 0.611968 | 3_1:+77292921 | None:intergenic |
| CCGTGGGGCTATTAATGTGG+AGG | 0.630515 | 3_1:+77292963 | None:intergenic |
| TCTTATGGTTCATTCCCTGG+TGG | 0.633770 | 3_1:-77293002 | Msa0376960:CDS |
| CCAGGGAATGAACCATAAGA+GGG | 0.637077 | 3_1:+77293005 | None:intergenic |
| ACATTAATAGCCCCACGGTG+GGG | 0.640090 | 3_1:-77292958 | Msa0376960:exon |
| TTATCACTTGAAGAATAGGT+AGG | 0.640251 | 3_1:+77293471 | None:intergenic |
| CCACATTAATAGCCCCACGG+TGG | 0.681173 | 3_1:-77292960 | Msa0376960:exon |
| CCTCCACATTAATAGCCCCA+CGG | 0.685288 | 3_1:-77292963 | Msa0376960:exon |
| ATTTATATCCTCCACCACCA+GGG | 0.692132 | 3_1:+77292988 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTATTATTTTTATAAGCAA+TGG | + | chr3_1:77293465-77293484 | None:intergenic | 10.0% |
| !!! | ATTATTATTTTTATAAGCAA+TGG | + | chr3_1:77293465-77293484 | None:intergenic | 10.0% |
| !!! | ATAGTATATATTTTGAATCA+GGG | + | chr3_1:77293005-77293024 | None:intergenic | 15.0% |
| !!! | TATAGTATATATTTTGAATC+AGG | + | chr3_1:77293006-77293025 | None:intergenic | 15.0% |
| !!! | TCACTTATCTTTTTTATATA+TGG | - | chr3_1:77293153-77293172 | Msa0376960:intron | 15.0% |
| !! | ATATATTGAGTACTAATTAA+CGG | + | chr3_1:77293324-77293343 | None:intergenic | 15.0% |
| !! | TTATGAATTCTTTCAAATTA+AGG | - | chr3_1:77293347-77293366 | Msa0376960:CDS | 15.0% |
| !! | CAAATTATTTGTATCTTATT+TGG | - | chr3_1:77293377-77293396 | Msa0376960:CDS | 15.0% |
| !!! | ATAGTATATATTTTGAATCA+GGG | + | chr3_1:77293005-77293024 | None:intergenic | 15.0% |
| !!! | TATAGTATATATTTTGAATC+AGG | + | chr3_1:77293006-77293025 | None:intergenic | 15.0% |
| !!! | TCACTTATCTTTTTTATATA+TGG | - | chr3_1:77293153-77293172 | Msa0376960:intron | 15.0% |
| !! | ATATATTGAGTACTAATTAA+CGG | + | chr3_1:77293324-77293343 | None:intergenic | 15.0% |
| !! | TTATGAATTCTTTCAAATTA+AGG | - | chr3_1:77293347-77293366 | Msa0376960:CDS | 15.0% |
| !! | CAAATTATTTGTATCTTATT+TGG | - | chr3_1:77293377-77293396 | Msa0376960:CDS | 15.0% |
| !! | AATATTATCACTTGAAGAAT+AGG | + | chr3_1:77292751-77292770 | None:intergenic | 20.0% |
| !!! | ATATATACCATGTTTGAAAT+TGG | + | chr3_1:77292926-77292945 | None:intergenic | 20.0% |
| !!! | ATTGTACTCTAAGAATAAAT+TGG | - | chr3_1:77293401-77293420 | Msa0376960:exon | 20.0% |
| !! | AATATTATCACTTGAAGAAT+AGG | + | chr3_1:77292751-77292770 | None:intergenic | 20.0% |
| !!! | ATATATACCATGTTTGAAAT+TGG | + | chr3_1:77292926-77292945 | None:intergenic | 20.0% |
| !!! | ATTGTACTCTAAGAATAAAT+TGG | - | chr3_1:77293401-77293420 | Msa0376960:exon | 20.0% |
| ! | ATGTAGTTATTTGCAAGTTT+GGG | + | chr3_1:77292779-77292798 | None:intergenic | 25.0% |
| ! | ATAGTAAGAATCATATCACA+TGG | - | chr3_1:77292973-77292992 | Msa0376960:exon | 25.0% |
| ! | TATAATCATATGCTTATTCG+AGG | - | chr3_1:77293022-77293041 | Msa0376960:CDS | 25.0% |
| ! | CATTTAACCAATTGGAATTT+GGG | - | chr3_1:77293048-77293067 | Msa0376960:intron | 25.0% |
| !! | AATTTGGGATTGATTATTGA+TGG | - | chr3_1:77293063-77293082 | Msa0376960:intron | 25.0% |
| ! | ATGTAGTTATTTGCAAGTTT+GGG | + | chr3_1:77292779-77292798 | None:intergenic | 25.0% |
| ! | ATAGTAAGAATCATATCACA+TGG | - | chr3_1:77292973-77292992 | Msa0376960:exon | 25.0% |
| ! | TATAATCATATGCTTATTCG+AGG | - | chr3_1:77293022-77293041 | Msa0376960:CDS | 25.0% |
| ! | CATTTAACCAATTGGAATTT+GGG | - | chr3_1:77293048-77293067 | Msa0376960:intron | 25.0% |
| !! | AATTTGGGATTGATTATTGA+TGG | - | chr3_1:77293063-77293082 | Msa0376960:intron | 25.0% |
| TTATCACTTGAAGAATAGGT+AGG | + | chr3_1:77292747-77292766 | None:intergenic | 30.0% | |
| GATGTAGTTATTTGCAAGTT+TGG | + | chr3_1:77292780-77292799 | None:intergenic | 30.0% | |
| AGCAACAAATGACTTCAATT+TGG | + | chr3_1:77292848-77292867 | None:intergenic | 30.0% | |
| ! | ACCATGTTTGAAATTGGATT+GGG | + | chr3_1:77292920-77292939 | None:intergenic | 30.0% |
| ! | TACCATGTTTGAAATTGGAT+TGG | + | chr3_1:77292921-77292940 | None:intergenic | 30.0% |
| CCAAATTCCAATTGGTTAAA+TGG | + | chr3_1:77293050-77293069 | None:intergenic | 30.0% | |
| CCATTTAACCAATTGGAATT+TGG | - | chr3_1:77293047-77293066 | Msa0376960:intron | 30.0% | |
| AATCAATCCCAAATTCCAAT+TGG | + | chr3_1:77293058-77293077 | None:intergenic | 30.0% | |
| !!! | ATCTTTTTTATATATGGCGC+AGG | - | chr3_1:77293159-77293178 | Msa0376960:intron | 30.0% |
| !!! | TCTTTTTTATATATGGCGCA+GGG | - | chr3_1:77293160-77293179 | Msa0376960:intron | 30.0% |
| TTATCACTTGAAGAATAGGT+AGG | + | chr3_1:77292747-77292766 | None:intergenic | 30.0% | |
| GATGTAGTTATTTGCAAGTT+TGG | + | chr3_1:77292780-77292799 | None:intergenic | 30.0% | |
| AGCAACAAATGACTTCAATT+TGG | + | chr3_1:77292848-77292867 | None:intergenic | 30.0% | |
| ! | ACCATGTTTGAAATTGGATT+GGG | + | chr3_1:77292920-77292939 | None:intergenic | 30.0% |
| ! | TACCATGTTTGAAATTGGAT+TGG | + | chr3_1:77292921-77292940 | None:intergenic | 30.0% |
| CCAAATTCCAATTGGTTAAA+TGG | + | chr3_1:77293050-77293069 | None:intergenic | 30.0% | |
| CCATTTAACCAATTGGAATT+TGG | - | chr3_1:77293047-77293066 | Msa0376960:intron | 30.0% | |
| AATCAATCCCAAATTCCAAT+TGG | + | chr3_1:77293058-77293077 | None:intergenic | 30.0% | |
| !!! | ATCTTTTTTATATATGGCGC+AGG | - | chr3_1:77293159-77293178 | Msa0376960:intron | 30.0% |
| !!! | TCTTTTTTATATATGGCGCA+GGG | - | chr3_1:77293160-77293179 | Msa0376960:intron | 30.0% |
| AATGACTTCAATTTGGAGAG+AGG | + | chr3_1:77292841-77292860 | None:intergenic | 35.0% | |
| ACTACTCATGTCATCTATCA+TGG | - | chr3_1:77292885-77292904 | Msa0376960:three_prime_UTR | 35.0% | |
| CTACTCATGTCATCTATCAT+GGG | - | chr3_1:77292886-77292905 | Msa0376960:three_prime_UTR | 35.0% | |
| AATGACTTCAATTTGGAGAG+AGG | + | chr3_1:77292841-77292860 | None:intergenic | 35.0% | |
| ACTACTCATGTCATCTATCA+TGG | - | chr3_1:77292885-77292904 | Msa0376960:three_prime_UTR | 35.0% | |
| CTACTCATGTCATCTATCAT+GGG | - | chr3_1:77292886-77292905 | Msa0376960:three_prime_UTR | 35.0% | |
| ! | GAAGTCATTTGTTGCTCTCT+TGG | - | chr3_1:77292852-77292871 | Msa0376960:three_prime_UTR | 40.0% |
| GCCCAATCCAATTTCAAACA+TGG | - | chr3_1:77292916-77292935 | Msa0376960:three_prime_UTR | 40.0% | |
| ! | AAGAGGGTGCAGAATATTGT+TGG | + | chr3_1:77293197-77293216 | None:intergenic | 40.0% |
| CAATATTCTGCACCCTCTTA+TGG | - | chr3_1:77293198-77293217 | Msa0376960:intron | 40.0% | |
| ATTTATATCCTCCACCACCA+GGG | + | chr3_1:77293230-77293249 | None:intergenic | 40.0% | |
| TATTTATATCCTCCACCACC+AGG | + | chr3_1:77293231-77293250 | None:intergenic | 40.0% | |
| AGTTTAGTCACAGAACAGCT+GGG | + | chr3_1:77293297-77293316 | None:intergenic | 40.0% | |
| ! | GAAGTCATTTGTTGCTCTCT+TGG | - | chr3_1:77292852-77292871 | Msa0376960:three_prime_UTR | 40.0% |
| GCCCAATCCAATTTCAAACA+TGG | - | chr3_1:77292916-77292935 | Msa0376960:three_prime_UTR | 40.0% | |
| ! | AAGAGGGTGCAGAATATTGT+TGG | + | chr3_1:77293197-77293216 | None:intergenic | 40.0% |
| CAATATTCTGCACCCTCTTA+TGG | - | chr3_1:77293198-77293217 | Msa0376960:intron | 40.0% | |
| ATTTATATCCTCCACCACCA+GGG | + | chr3_1:77293230-77293249 | None:intergenic | 40.0% | |
| TATTTATATCCTCCACCACC+AGG | + | chr3_1:77293231-77293250 | None:intergenic | 40.0% | |
| AGTTTAGTCACAGAACAGCT+GGG | + | chr3_1:77293297-77293316 | None:intergenic | 40.0% | |
| CGAGGCTCCATTTAACCAAT+TGG | - | chr3_1:77293040-77293059 | Msa0376960:intron | 45.0% | |
| CCAGGGAATGAACCATAAGA+GGG | + | chr3_1:77293213-77293232 | None:intergenic | 45.0% | |
| ACCAGGGAATGAACCATAAG+AGG | + | chr3_1:77293214-77293233 | None:intergenic | 45.0% | |
| TCTTATGGTTCATTCCCTGG+TGG | - | chr3_1:77293213-77293232 | Msa0376960:intron | 45.0% | |
| ! | TGATTATTTTCCCCACCGTG+GGG | + | chr3_1:77293270-77293289 | None:intergenic | 45.0% |
| ! | GTGATTATTTTCCCCACCGT+GGG | + | chr3_1:77293271-77293290 | None:intergenic | 45.0% |
| ! | AGTGATTATTTTCCCCACCG+TGG | + | chr3_1:77293272-77293291 | None:intergenic | 45.0% |
| CAGTTTAGTCACAGAACAGC+TGG | + | chr3_1:77293298-77293317 | None:intergenic | 45.0% | |
| CAGCTGTTCTGTGACTAAAC+TGG | - | chr3_1:77293296-77293315 | Msa0376960:intron | 45.0% | |
| CGAGGCTCCATTTAACCAAT+TGG | - | chr3_1:77293040-77293059 | Msa0376960:intron | 45.0% | |
| CCAGGGAATGAACCATAAGA+GGG | + | chr3_1:77293213-77293232 | None:intergenic | 45.0% | |
| ACCAGGGAATGAACCATAAG+AGG | + | chr3_1:77293214-77293233 | None:intergenic | 45.0% | |
| TCTTATGGTTCATTCCCTGG+TGG | - | chr3_1:77293213-77293232 | Msa0376960:intron | 45.0% | |
| ! | TGATTATTTTCCCCACCGTG+GGG | + | chr3_1:77293270-77293289 | None:intergenic | 45.0% |
| ! | GTGATTATTTTCCCCACCGT+GGG | + | chr3_1:77293271-77293290 | None:intergenic | 45.0% |
| ! | AGTGATTATTTTCCCCACCG+TGG | + | chr3_1:77293272-77293291 | None:intergenic | 45.0% |
| CAGTTTAGTCACAGAACAGC+TGG | + | chr3_1:77293298-77293317 | None:intergenic | 45.0% | |
| CAGCTGTTCTGTGACTAAAC+TGG | - | chr3_1:77293296-77293315 | Msa0376960:intron | 45.0% | |
| CCCTCTTATGGTTCATTCCC+TGG | - | chr3_1:77293210-77293229 | Msa0376960:intron | 50.0% | |
| TATGGTTCATTCCCTGGTGG+TGG | - | chr3_1:77293216-77293235 | Msa0376960:intron | 50.0% | |
| CCTCCACATTAATAGCCCCA+CGG | - | chr3_1:77293252-77293271 | Msa0376960:intron | 50.0% | |
| CACATTAATAGCCCCACGGT+GGG | - | chr3_1:77293256-77293275 | Msa0376960:intron | 50.0% | |
| ACATTAATAGCCCCACGGTG+GGG | - | chr3_1:77293257-77293276 | Msa0376960:intron | 50.0% | |
| CCCTCTTATGGTTCATTCCC+TGG | - | chr3_1:77293210-77293229 | Msa0376960:intron | 50.0% | |
| TATGGTTCATTCCCTGGTGG+TGG | - | chr3_1:77293216-77293235 | Msa0376960:intron | 50.0% | |
| CCTCCACATTAATAGCCCCA+CGG | - | chr3_1:77293252-77293271 | Msa0376960:intron | 50.0% | |
| CACATTAATAGCCCCACGGT+GGG | - | chr3_1:77293256-77293275 | Msa0376960:intron | 50.0% | |
| ACATTAATAGCCCCACGGTG+GGG | - | chr3_1:77293257-77293276 | Msa0376960:intron | 50.0% | |
| CCGTGGGGCTATTAATGTGG+AGG | + | chr3_1:77293255-77293274 | None:intergenic | 55.0% | |
| CCACCGTGGGGCTATTAATG+TGG | + | chr3_1:77293258-77293277 | None:intergenic | 55.0% | |
| CCACATTAATAGCCCCACGG+TGG | - | chr3_1:77293255-77293274 | Msa0376960:intron | 55.0% | |
| CCGTGGGGCTATTAATGTGG+AGG | + | chr3_1:77293255-77293274 | None:intergenic | 55.0% | |
| CCACCGTGGGGCTATTAATG+TGG | + | chr3_1:77293258-77293277 | None:intergenic | 55.0% | |
| CCACATTAATAGCCCCACGG+TGG | - | chr3_1:77293255-77293274 | Msa0376960:intron | 55.0% | |
| !! | GGTTCATTCCCTGGTGGTGG+AGG | - | chr3_1:77293219-77293238 | Msa0376960:intron | 60.0% |
| !! | GGTTCATTCCCTGGTGGTGG+AGG | - | chr3_1:77293219-77293238 | Msa0376960:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 77292719 | 77293518 | 77292719 | ID=Msa0376960;Name=Msa0376960 |
| chr3_1 | mRNA | 77292719 | 77293518 | 77292719 | ID=Msa0376960-mRNA-1;Parent=Msa0376960;Name=Msa0376960-mRNA-1;_AED=0.01;_eAED=0.01;_QI=113|1|1|1|1|1|2|255|62 |
| chr3_1 | exon | 77292719 | 77293056 | 77292719 | ID=Msa0376960-mRNA-1:exon:18493;Parent=Msa0376960-mRNA-1 |
| chr3_1 | exon | 77293300 | 77293518 | 77293300 | ID=Msa0376960-mRNA-1:exon:18492;Parent=Msa0376960-mRNA-1 |
| chr3_1 | five_prime_UTR | 77293406 | 77293518 | 77293406 | ID=Msa0376960-mRNA-1:five_prime_utr;Parent=Msa0376960-mRNA-1 |
| chr3_1 | CDS | 77293300 | 77293405 | 77293300 | ID=Msa0376960-mRNA-1:cds;Parent=Msa0376960-mRNA-1 |
| chr3_1 | CDS | 77292974 | 77293056 | 77292974 | ID=Msa0376960-mRNA-1:cds;Parent=Msa0376960-mRNA-1 |
| chr3_1 | three_prime_UTR | 77292719 | 77292973 | 77292719 | ID=Msa0376960-mRNA-1:three_prime_utr;Parent=Msa0376960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
