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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0832240 | XP_013453298.1 | 98.765 | 81 | 1 | 0 | 1 | 81 | 1 | 81 | 1.37e-51 | 166 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0832240 | sp|Q1G3M2|LYRM9_ARATH | 72.500 | 80 | 21 | 1 | 1 | 80 | 1 | 79 | 4.78e-35 | 117 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0832240 | A0A072UCK1 | 98.765 | 81 | 1 | 0 | 1 | 81 | 1 | 81 | 6.54e-52 | 166 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0610390 | Msa0832240 | 0.828888 | 6.996485e-55 | -8.615850e-47 |
| Msa0650920 | Msa0832240 | 0.837058 | 6.503838e-57 | -8.615850e-47 |
| Msa0661300 | Msa0832240 | 0.812577 | 3.953183e-51 | -8.615850e-47 |
| Msa0692940 | Msa0832240 | 0.805504 | 1.292884e-49 | -8.615850e-47 |
| Msa0718740 | Msa0832240 | 0.817392 | 3.377121e-52 | -8.615850e-47 |
| Msa0763020 | Msa0832240 | 0.804220 | 2.398016e-49 | -8.615850e-47 |
| Msa0763070 | Msa0832240 | 0.813304 | 2.739085e-51 | -8.615850e-47 |
| Msa0832240 | Msa1019260 | 0.804060 | 2.589167e-49 | -8.615850e-47 |
| Msa0832240 | Msa1126510 | 0.805272 | 1.445932e-49 | -8.615850e-47 |
| Msa0832240 | Msa1126770 | 0.802217 | 6.229546e-49 | -8.615850e-47 |
| Msa0832240 | Msa1138870 | 0.827453 | 1.551391e-54 | -8.615850e-47 |
| Msa0832240 | Msa1166860 | 0.803693 | 3.086116e-49 | -8.615850e-47 |
| Msa0832240 | Msa1296830 | 0.801077 | 1.067238e-48 | -8.615850e-47 |
| Msa0832240 | Msa1335940 | 0.803526 | 3.343011e-49 | -8.615850e-47 |
| Msa0832240 | Msa1372700 | 0.970804 | 3.544278e-132 | -8.615850e-47 |
| Msa0183460 | Msa0832240 | 0.805409 | 1.353403e-49 | -8.615850e-47 |
| Msa0194480 | Msa0832240 | 0.804545 | 2.051711e-49 | -8.615850e-47 |
| Msa0199690 | Msa0832240 | 0.811941 | 5.442326e-51 | -8.615850e-47 |
| Msa0231790 | Msa0832240 | 0.810387 | 1.182536e-50 | -8.615850e-47 |
| Msa0471590 | Msa0832240 | 0.803757 | 2.993429e-49 | -8.615850e-47 |
| Msa0280430 | Msa0832240 | 0.809514 | 1.822208e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0832240 | MtrunA17_Chr5g0393631 | 98.765 | 81 | 1 | 0 | 1 | 81 | 1 | 81 | 1.26e-55 | 166 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0832240 | AT3G19508.1 | 72.500 | 80 | 21 | 1 | 1 | 80 | 1 | 79 | 4.85e-36 | 117 |
Find 33 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGAGAAGAGTTAGATTAGA+TGG | 0.284074 | 5_4:-5292685 | Msa0832240:exon |
| GATATGGAAACTCATTCTTT+AGG | 0.300017 | 5_4:+5292219 | None:intergenic |
| TTCTCTATGGGTTCTTCATA+AGG | 0.314427 | 5_4:-5292493 | Msa0832240:intron |
| GTACCTACACTCATTCTCTA+TGG | 0.327232 | 5_4:-5292506 | Msa0832240:CDS |
| CTCTTATTGAATCAAGGATA+TGG | 0.337434 | 5_4:+5292203 | None:intergenic |
| TAGTTGGAAGGAAGGAAGTT+TGG | 0.347652 | 5_4:-5292715 | None:intergenic |
| TAATAACCTCTTGAATCCTT+TGG | 0.385434 | 5_4:+5292612 | None:intergenic |
| ACTCATTCTTTAGGAAATGT+TGG | 0.406919 | 5_4:+5292228 | None:intergenic |
| AGCTCAAGGTGATATGTTGC+GGG | 0.429923 | 5_4:-5292359 | Msa0832240:CDS |
| AGTTAAGTTAGTTGGAAGGA+AGG | 0.438224 | 5_4:-5292723 | None:intergenic |
| CGGTAACTCTTATTGAATCA+AGG | 0.492106 | 5_4:+5292197 | None:intergenic |
| TGGAAGGAAGGAAGTTTGGA+AGG | 0.495000 | 5_4:-5292711 | Msa0832240:five_prime_UTR |
| AGGTACGTTGAAAGAGATCA+TGG | 0.523995 | 5_4:+5292523 | None:intergenic |
| CAGTTGAGGTACACAGATGT+TGG | 0.528997 | 5_4:+5292331 | None:intergenic |
| AGTTGAGGTACACAGATGTT+GGG | 0.540166 | 5_4:+5292332 | None:intergenic |
| GAAGGAAGTTTGGAAGGGAA+AGG | 0.544418 | 5_4:-5292705 | Msa0832240:five_prime_UTR |
| AAAGAGATCATGGAGAGTAG+TGG | 0.552251 | 5_4:+5292533 | None:intergenic |
| TACCTACACTCATTCTCTAT+GGG | 0.556578 | 5_4:-5292505 | Msa0832240:CDS |
| GTTAGATTAGATGGAGAAAG+CGG | 0.560882 | 5_4:-5292676 | Msa0832240:exon |
| GGAAGGAAGGAAGTTTGGAA+GGG | 0.562383 | 5_4:-5292710 | Msa0832240:five_prime_UTR |
| AAGCTCAAGGTGATATGTTG+CGG | 0.562731 | 5_4:-5292360 | Msa0832240:CDS |
| ACTTGTGCGGCGTTTACCAA+AGG | 0.567162 | 5_4:-5292628 | Msa0832240:CDS |
| CGTTTACCAAAGGATTCAAG+AGG | 0.591068 | 5_4:-5292618 | Msa0832240:CDS |
| ATCTGCCGCTGATAAGCTCA+AGG | 0.615005 | 5_4:-5292373 | Msa0832240:CDS |
| TATCTGTATATATATACTCA+CGG | 0.619326 | 5_4:+5292174 | None:intergenic |
| ACAAGCAGTATTGTTATGTG+AGG | 0.635803 | 5_4:+5292296 | None:intergenic |
| TGGAGAGTAGTGGAATCAGA+AGG | 0.642946 | 5_4:+5292543 | None:intergenic |
| AATCAGAAGGATCAACCTCA+CGG | 0.688438 | 5_4:+5292556 | None:intergenic |
| CAGAAGTTCTGAGACTTGTG+CGG | 0.691962 | 5_4:-5292641 | Msa0832240:CDS |
| GAACTTCGTTAATTACCGTG+AGG | 0.698092 | 5_4:-5292571 | Msa0832240:CDS |
| TATCACCTTGAGCTTATCAG+CGG | 0.704627 | 5_4:+5292368 | None:intergenic |
| AACCCATAGAGAATGAGTGT+AGG | 0.739379 | 5_4:+5292503 | None:intergenic |
| CTGTATATATATACTCACGG+CGG | 0.821168 | 5_4:+5292177 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATCTGTATATATATACTCA+CGG | + | chr5_4:5292684-5292703 | None:intergenic | 20.0% |
| TAATAACCTCTTGAATCCTT+TGG | + | chr5_4:5292246-5292265 | None:intergenic | 30.0% | |
| CACTCATTCATTTCTGTTTA+TGG | - | chr5_4:5292392-5292411 | Msa0832240:intron | 30.0% | |
| ! | ACTCATTCTTTAGGAAATGT+TGG | + | chr5_4:5292630-5292649 | None:intergenic | 30.0% |
| GATATGGAAACTCATTCTTT+AGG | + | chr5_4:5292639-5292658 | None:intergenic | 30.0% | |
| CTCTTATTGAATCAAGGATA+TGG | + | chr5_4:5292655-5292674 | None:intergenic | 30.0% | |
| AGGAGAAGAGTTAGATTAGA+TGG | - | chr5_4:5292170-5292189 | Msa0832240:three_prime_UTR | 35.0% | |
| GTTAGATTAGATGGAGAAAG+CGG | - | chr5_4:5292179-5292198 | Msa0832240:three_prime_UTR | 35.0% | |
| TACCTACACTCATTCTCTAT+GGG | - | chr5_4:5292350-5292369 | Msa0832240:exon | 35.0% | |
| TTCTCTATGGGTTCTTCATA+AGG | - | chr5_4:5292362-5292381 | Msa0832240:CDS | 35.0% | |
| GGAAAAACAACAAACAGTTG+AGG | + | chr5_4:5292541-5292560 | None:intergenic | 35.0% | |
| ACAAGCAGTATTGTTATGTG+AGG | + | chr5_4:5292562-5292581 | None:intergenic | 35.0% | |
| CGGTAACTCTTATTGAATCA+AGG | + | chr5_4:5292661-5292680 | None:intergenic | 35.0% | |
| CTGTATATATATACTCACGG+CGG | + | chr5_4:5292681-5292700 | None:intergenic | 35.0% | |
| CGTTTACCAAAGGATTCAAG+AGG | - | chr5_4:5292237-5292256 | Msa0832240:three_prime_UTR | 40.0% | |
| GAACTTCGTTAATTACCGTG+AGG | - | chr5_4:5292284-5292303 | Msa0832240:three_prime_UTR | 40.0% | |
| AATCAGAAGGATCAACCTCA+CGG | + | chr5_4:5292302-5292321 | None:intergenic | 40.0% | |
| AAAGAGATCATGGAGAGTAG+TGG | + | chr5_4:5292325-5292344 | None:intergenic | 40.0% | |
| AGGTACGTTGAAAGAGATCA+TGG | + | chr5_4:5292335-5292354 | None:intergenic | 40.0% | |
| GTACCTACACTCATTCTCTA+TGG | - | chr5_4:5292349-5292368 | Msa0832240:exon | 40.0% | |
| AACCCATAGAGAATGAGTGT+AGG | + | chr5_4:5292355-5292374 | None:intergenic | 40.0% | |
| TGCAATGCTACTGCAGTATT+CGG | - | chr5_4:5292452-5292471 | Msa0832240:intron | 40.0% | |
| TATCACCTTGAGCTTATCAG+CGG | + | chr5_4:5292490-5292509 | None:intergenic | 40.0% | |
| AAGCTCAAGGTGATATGTTG+CGG | - | chr5_4:5292495-5292514 | Msa0832240:CDS | 40.0% | |
| AGTTGAGGTACACAGATGTT+GGG | + | chr5_4:5292526-5292545 | None:intergenic | 40.0% | |
| GGAAGGAAGGAAGTTTGGAA+GGG | - | chr5_4:5292145-5292164 | Msa0832240:three_prime_UTR | 45.0% | |
| GAAGGAAGTTTGGAAGGGAA+AGG | - | chr5_4:5292150-5292169 | Msa0832240:three_prime_UTR | 45.0% | |
| !! | CAGAAGTTCTGAGACTTGTG+CGG | - | chr5_4:5292214-5292233 | Msa0832240:three_prime_UTR | 45.0% |
| ! | TGGAGAGTAGTGGAATCAGA+AGG | + | chr5_4:5292315-5292334 | None:intergenic | 45.0% |
| AGCTCAAGGTGATATGTTGC+GGG | - | chr5_4:5292496-5292515 | Msa0832240:CDS | 45.0% | |
| CAGTTGAGGTACACAGATGT+TGG | + | chr5_4:5292527-5292546 | None:intergenic | 45.0% | |
| ACTTGTGCGGCGTTTACCAA+AGG | - | chr5_4:5292227-5292246 | Msa0832240:three_prime_UTR | 50.0% | |
| ATCTGCCGCTGATAAGCTCA+AGG | - | chr5_4:5292482-5292501 | Msa0832240:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 5292145 | 5292732 | 5292145 | ID=Msa0832240;Name=Msa0832240 |
| chr5_4 | mRNA | 5292145 | 5292732 | 5292145 | ID=Msa0832240-mRNA-1;Parent=Msa0832240;Name=Msa0832240-mRNA-1;_AED=0.07;_eAED=0.07;_QI=44|1|1|1|1|1|2|211|82 |
| chr5_4 | exon | 5292145 | 5292409 | 5292145 | ID=Msa0832240-mRNA-1:exon:2275;Parent=Msa0832240-mRNA-1 |
| chr5_4 | exon | 5292494 | 5292732 | 5292494 | ID=Msa0832240-mRNA-1:exon:2274;Parent=Msa0832240-mRNA-1 |
| chr5_4 | five_prime_UTR | 5292689 | 5292732 | 5292689 | ID=Msa0832240-mRNA-1:five_prime_utr;Parent=Msa0832240-mRNA-1 |
| chr5_4 | CDS | 5292494 | 5292688 | 5292494 | ID=Msa0832240-mRNA-1:cds;Parent=Msa0832240-mRNA-1 |
| chr5_4 | CDS | 5292356 | 5292409 | 5292356 | ID=Msa0832240-mRNA-1:cds;Parent=Msa0832240-mRNA-1 |
| chr5_4 | three_prime_UTR | 5292145 | 5292355 | 5292145 | ID=Msa0832240-mRNA-1:three_prime_utr;Parent=Msa0832240-mRNA-1 |
| Gene Sequence |
| Protein sequence |
