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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1041560 | KEH23514.1 | 97.222 | 144 | 4 | 0 | 1 | 144 | 275 | 418 | 6.21e-98 | 298 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1041560 | sp|P52914|NTPA_PEA | 69.444 | 144 | 43 | 1 | 1 | 144 | 253 | 395 | 1.29e-57 | 188 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1041560 | A0A072U1D5 | 97.222 | 144 | 4 | 0 | 1 | 144 | 275 | 418 | 2.97e-98 | 298 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012520 | Msa1041560 | 0.806529 | 7.869786e-50 | -8.615850e-47 |
| Msa0152420 | Msa1041560 | 0.811341 | 7.348603e-51 | -8.615850e-47 |
| Msa1025830 | Msa1041560 | 0.805445 | 1.330152e-49 | -8.615850e-47 |
| Msa1041560 | Msa1070490 | 0.933239 | 2.540558e-95 | -8.615850e-47 |
| Msa1041560 | Msa1101140 | 0.939302 | 1.597671e-99 | -8.615850e-47 |
| Msa1041560 | Msa1101620 | 0.819223 | 1.300408e-52 | -8.615850e-47 |
| Msa1041560 | Msa1158350 | 0.879284 | 1.412854e-69 | -8.615850e-47 |
| Msa1041560 | Msa1166460 | 0.995180 | 9.181035e-214 | -8.615850e-47 |
| Msa1041560 | Msa1338520 | 0.959902 | 5.896418e-118 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1041560 | MtrunA17_Chr7g0252891 | 97.222 | 144 | 4 | 0 | 1 | 144 | 275 | 418 | 1.98e-101 | 298 |
| Msa1041560 | MtrunA17_Chr4g0015031 | 79.167 | 144 | 29 | 1 | 1 | 144 | 264 | 406 | 3.40e-69 | 215 |
| Msa1041560 | MtrunA17_Chr7g0252881 | 74.306 | 144 | 36 | 1 | 1 | 144 | 254 | 396 | 2.83e-66 | 207 |
| Msa1041560 | MtrunA17_Chr7g0252911 | 56.944 | 144 | 60 | 2 | 1 | 144 | 254 | 395 | 1.29e-49 | 164 |
| Msa1041560 | MtrunA17_Chr7g0252941 | 54.861 | 144 | 63 | 2 | 1 | 144 | 17 | 158 | 1.26e-42 | 139 |
| Msa1041560 | MtrunA17_Chr7g0252921 | 54.861 | 144 | 63 | 2 | 1 | 144 | 253 | 394 | 5.73e-41 | 142 |
| Msa1041560 | MtrunA17_Chr7g0252861 | 53.103 | 145 | 63 | 4 | 1 | 144 | 277 | 417 | 4.88e-35 | 126 |
| Msa1041560 | MtrunA17_Chr6g0461671 | 50.345 | 145 | 69 | 3 | 1 | 144 | 290 | 432 | 3.53e-29 | 110 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1041560 | AT5G18280.1 | 52.414 | 145 | 66 | 3 | 1 | 144 | 280 | 422 | 1.37e-37 | 133 |
| Msa1041560 | AT3G04080.1 | 48.276 | 145 | 72 | 3 | 1 | 144 | 279 | 421 | 3.32e-32 | 119 |
Find 29 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGAGACTATAAGGTGTATT+TGG | 0.179514 | 7_1:+79138349 | Msa1041550:intron |
| AAGGCCAATGCCCCTGCTTC+TGG | 0.233678 | 7_1:-79138669 | Msa1041560:CDS |
| CCTTATCAGAATTGCACTTT+TGG | 0.272682 | 7_1:-79138585 | Msa1041560:CDS |
| ATATGCTGGAGAAGAATTTA+AGG | 0.312341 | 7_1:-79138688 | Msa1041560:CDS |
| GGTGGAATTTGGAGTGGTGG+AGG | 0.381650 | 7_1:-79138564 | Msa1041560:CDS |
| AAGAAGTGGATAAGTTGATT+TGG | 0.384688 | 7_1:+79138264 | Msa1041550:intron |
| GGACGAAGTGTGAGACTATA+AGG | 0.386803 | 7_1:+79138340 | Msa1041550:intron |
| TTAAAACTGGCTCCAGAAGC+AGG | 0.407764 | 7_1:+79138657 | Msa1041550:intron |
| GGCTCCAGAAGCAGGGGCAT+TGG | 0.420983 | 7_1:+79138665 | Msa1041550:intron |
| TGAGACTATAAGGTGTATTT+GGG | 0.440417 | 7_1:+79138350 | Msa1041550:intron |
| TGGAGTGGTGGAGGAGGAAG+TGG | 0.447986 | 7_1:-79138555 | Msa1041560:CDS |
| TGTTTGCATATTCTACTAAG+AGG | 0.458044 | 7_1:-79138218 | Msa1041560:exon |
| ATCAACTTATCCACTTCTTG+TGG | 0.471679 | 7_1:-79138260 | Msa1041560:CDS |
| CCAGCTAAAATGCAAGGGTT+AGG | 0.472739 | 7_1:+79138970 | Msa1041550:intron |
| TTTGGTGGAATTTGGAGTGG+TGG | 0.483888 | 7_1:-79138567 | Msa1041560:CDS |
| CCAAAAGTGCAATTCTGATA+AGG | 0.489796 | 7_1:+79138585 | Msa1041550:intron |
| GGAATTTGGAGTGGTGGAGG+AGG | 0.496019 | 7_1:-79138561 | Msa1041560:CDS |
| AAAGGGACATACACATATGC+TGG | 0.509416 | 7_1:-79138702 | Msa1041560:intron |
| TAAAACTGGCTCCAGAAGCA+GGG | 0.545057 | 7_1:+79138658 | Msa1041550:intron |
| TCAAATCCAGCTAAAATGCA+AGG | 0.555070 | 7_1:+79138964 | Msa1041550:intron |
| GCTTCAGTCTCAAGATCCAC+AGG | 0.567472 | 7_1:+79138319 | Msa1041550:intron |
| AGCTTGTACATTAAATCTTG+AGG | 0.568041 | 7_1:-79138290 | Msa1041560:CDS |
| ATATTGAAATCCACAAGAAG+TGG | 0.569272 | 7_1:+79138250 | Msa1041550:intron |
| TAGTCTCACACTTCGTCCTG+TGG | 0.572847 | 7_1:-79138335 | Msa1041560:CDS |
| TAATGCATACATCTTCAGCT+AGG | 0.603926 | 7_1:+79138496 | Msa1041550:intron |
| CAAATCCAGCTAAAATGCAA+GGG | 0.619736 | 7_1:+79138965 | Msa1041550:intron |
| AAAACTGGCTCCAGAAGCAG+GGG | 0.621311 | 7_1:+79138659 | Msa1041550:intron |
| GTGCAATTCTGATAAGGACA+TGG | 0.628525 | 7_1:+79138591 | Msa1041550:intron |
| TTGTACATTAAATCTTGAGG+AGG | 0.647392 | 7_1:-79138287 | Msa1041560:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTTTTATTTTTAAAACT+CGG | + | chr7_1:79138413-79138432 | Msa1041550:intron | 10.0% |
| !! | ATCATTAAATCAAAATAATT+TGG | + | chr7_1:79138775-79138794 | Msa1041550:intron | 10.0% |
| !!! | AGTTTTTTATTTTTAAAACT+CGG | + | chr7_1:79138413-79138432 | Msa1041550:intron | 10.0% |
| !! | ATCATTAAATCAAAATAATT+TGG | + | chr7_1:79138775-79138794 | Msa1041550:intron | 10.0% |
| !! | TAAAAATAGCGAAATTAAAA+AGG | + | chr7_1:79138459-79138478 | Msa1041550:intron | 15.0% |
| !!! | ACAAATATTTTGTTTTTCAA+AGG | - | chr7_1:79138488-79138507 | Msa1041560:intron | 15.0% |
| !!! | CAAATATTTTGTTTTTCAAA+GGG | - | chr7_1:79138489-79138508 | Msa1041560:intron | 15.0% |
| !! | AATAAACAATGTAATTAGAA+TGG | + | chr7_1:79138817-79138836 | Msa1041550:intron | 15.0% |
| !!! | CATTGTTTATTATTTTAGAT+TGG | - | chr7_1:79138826-79138845 | Msa1041560:intron | 15.0% |
| !!! | TTTATTATTTTAGATTGGTT+TGG | - | chr7_1:79138831-79138850 | Msa1041560:intron | 15.0% |
| !! | TAAAAATAGCGAAATTAAAA+AGG | + | chr7_1:79138459-79138478 | Msa1041550:intron | 15.0% |
| !!! | ACAAATATTTTGTTTTTCAA+AGG | - | chr7_1:79138488-79138507 | Msa1041560:intron | 15.0% |
| !!! | CAAATATTTTGTTTTTCAAA+GGG | - | chr7_1:79138489-79138508 | Msa1041560:intron | 15.0% |
| !! | AATAAACAATGTAATTAGAA+TGG | + | chr7_1:79138817-79138836 | Msa1041550:intron | 15.0% |
| !!! | CATTGTTTATTATTTTAGAT+TGG | - | chr7_1:79138826-79138845 | Msa1041560:intron | 15.0% |
| !!! | TTTATTATTTTAGATTGGTT+TGG | - | chr7_1:79138831-79138850 | Msa1041560:intron | 15.0% |
| !!! | CTTTTTGCATTTTTTAAAAC+TGG | + | chr7_1:79138567-79138586 | Msa1041550:intron | 20.0% |
| !!! | CTTTTTGCATTTTTTAAAAC+TGG | + | chr7_1:79138567-79138586 | Msa1041550:intron | 20.0% |
| AAGTTGACTAAAACAACTCT+TGG | - | chr7_1:79138363-79138382 | Msa1041560:CDS | 30.0% | |
| ATATGCTGGAGAAGAATTTA+AGG | - | chr7_1:79138520-79138539 | Msa1041560:CDS | 30.0% | |
| TGAGACTATAAGGTGTATTT+GGG | + | chr7_1:79138861-79138880 | Msa1041550:intron | 30.0% | |
| AGCTTGTACATTAAATCTTG+AGG | - | chr7_1:79138918-79138937 | Msa1041560:intron | 30.0% | |
| TTGTACATTAAATCTTGAGG+AGG | - | chr7_1:79138921-79138940 | Msa1041560:intron | 30.0% | |
| !! | AAGAAGTGGATAAGTTGATT+TGG | + | chr7_1:79138947-79138966 | Msa1041550:intron | 30.0% |
| ATATTGAAATCCACAAGAAG+TGG | + | chr7_1:79138961-79138980 | Msa1041550:intron | 30.0% | |
| TGTTTGCATATTCTACTAAG+AGG | - | chr7_1:79138990-79139009 | Msa1041560:CDS | 30.0% | |
| AAGTTGACTAAAACAACTCT+TGG | - | chr7_1:79138363-79138382 | Msa1041560:CDS | 30.0% | |
| ATATGCTGGAGAAGAATTTA+AGG | - | chr7_1:79138520-79138539 | Msa1041560:CDS | 30.0% | |
| TGAGACTATAAGGTGTATTT+GGG | + | chr7_1:79138861-79138880 | Msa1041550:intron | 30.0% | |
| AGCTTGTACATTAAATCTTG+AGG | - | chr7_1:79138918-79138937 | Msa1041560:intron | 30.0% | |
| TTGTACATTAAATCTTGAGG+AGG | - | chr7_1:79138921-79138940 | Msa1041560:intron | 30.0% | |
| !! | AAGAAGTGGATAAGTTGATT+TGG | + | chr7_1:79138947-79138966 | Msa1041550:intron | 30.0% |
| ATATTGAAATCCACAAGAAG+TGG | + | chr7_1:79138961-79138980 | Msa1041550:intron | 30.0% | |
| TGTTTGCATATTCTACTAAG+AGG | - | chr7_1:79138990-79139009 | Msa1041560:CDS | 30.0% | |
| CAAATCCAGCTAAAATGCAA+GGG | + | chr7_1:79138246-79138265 | Msa1041550:intron | 35.0% | |
| TCAAATCCAGCTAAAATGCA+AGG | + | chr7_1:79138247-79138266 | Msa1041550:intron | 35.0% | |
| !!! | TGCATTTTAGCTGGATTTGA+TGG | - | chr7_1:79138247-79138266 | Msa1041560:CDS | 35.0% |
| ATGCAAAAAGATAGTTCGTC+AGG | - | chr7_1:79138577-79138596 | Msa1041560:CDS | 35.0% | |
| ! | CCAAAAGTGCAATTCTGATA+AGG | + | chr7_1:79138626-79138645 | Msa1041550:intron | 35.0% |
| ! | CCTTATCAGAATTGCACTTT+TGG | - | chr7_1:79138623-79138642 | Msa1041560:CDS | 35.0% |
| ! | TATCAGAATTGCACTTTTGG+TGG | - | chr7_1:79138626-79138645 | Msa1041560:CDS | 35.0% |
| ! | ATTGCACTTTTGGTGGAATT+TGG | - | chr7_1:79138633-79138652 | Msa1041560:CDS | 35.0% |
| TAATGCATACATCTTCAGCT+AGG | + | chr7_1:79138715-79138734 | Msa1041550:intron | 35.0% | |
| GTGAGACTATAAGGTGTATT+TGG | + | chr7_1:79138862-79138881 | Msa1041550:intron | 35.0% | |
| ATCAACTTATCCACTTCTTG+TGG | - | chr7_1:79138948-79138967 | Msa1041560:intron | 35.0% | |
| CAAATCCAGCTAAAATGCAA+GGG | + | chr7_1:79138246-79138265 | Msa1041550:intron | 35.0% | |
| TCAAATCCAGCTAAAATGCA+AGG | + | chr7_1:79138247-79138266 | Msa1041550:intron | 35.0% | |
| !!! | TGCATTTTAGCTGGATTTGA+TGG | - | chr7_1:79138247-79138266 | Msa1041560:CDS | 35.0% |
| ATGCAAAAAGATAGTTCGTC+AGG | - | chr7_1:79138577-79138596 | Msa1041560:CDS | 35.0% | |
| ! | CCAAAAGTGCAATTCTGATA+AGG | + | chr7_1:79138626-79138645 | Msa1041550:intron | 35.0% |
| ! | CCTTATCAGAATTGCACTTT+TGG | - | chr7_1:79138623-79138642 | Msa1041560:CDS | 35.0% |
| ! | TATCAGAATTGCACTTTTGG+TGG | - | chr7_1:79138626-79138645 | Msa1041560:CDS | 35.0% |
| ! | ATTGCACTTTTGGTGGAATT+TGG | - | chr7_1:79138633-79138652 | Msa1041560:CDS | 35.0% |
| TAATGCATACATCTTCAGCT+AGG | + | chr7_1:79138715-79138734 | Msa1041550:intron | 35.0% | |
| GTGAGACTATAAGGTGTATT+TGG | + | chr7_1:79138862-79138881 | Msa1041550:intron | 35.0% | |
| ATCAACTTATCCACTTCTTG+TGG | - | chr7_1:79138948-79138967 | Msa1041560:intron | 35.0% | |
| AAAGGGACATACACATATGC+TGG | - | chr7_1:79138506-79138525 | Msa1041560:CDS | 40.0% | |
| GTGCAATTCTGATAAGGACA+TGG | + | chr7_1:79138620-79138639 | Msa1041550:intron | 40.0% | |
| ! | ACTTTTGGTGGAATTTGGAG+TGG | - | chr7_1:79138638-79138657 | Msa1041560:CDS | 40.0% |
| AAAGGGACATACACATATGC+TGG | - | chr7_1:79138506-79138525 | Msa1041560:CDS | 40.0% | |
| GTGCAATTCTGATAAGGACA+TGG | + | chr7_1:79138620-79138639 | Msa1041550:intron | 40.0% | |
| ! | ACTTTTGGTGGAATTTGGAG+TGG | - | chr7_1:79138638-79138657 | Msa1041560:CDS | 40.0% |
| CCAGCTAAAATGCAAGGGTT+AGG | + | chr7_1:79138241-79138260 | Msa1041550:intron | 45.0% | |
| !! | CCTAACCCTTGCATTTTAGC+TGG | - | chr7_1:79138238-79138257 | Msa1041560:CDS | 45.0% |
| TCTTGGTTTAGCCGATCGTT+AGG | - | chr7_1:79138380-79138399 | Msa1041560:intron | 45.0% | |
| TCGGTATCTGACCTAACGAT+CGG | + | chr7_1:79138394-79138413 | Msa1041550:intron | 45.0% | |
| ! | TAAAACTGGCTCCAGAAGCA+GGG | + | chr7_1:79138553-79138572 | Msa1041550:intron | 45.0% |
| ! | TTAAAACTGGCTCCAGAAGC+AGG | + | chr7_1:79138554-79138573 | Msa1041550:intron | 45.0% |
| ! | TTTGGTGGAATTTGGAGTGG+TGG | - | chr7_1:79138641-79138660 | Msa1041560:CDS | 45.0% |
| GGACGAAGTGTGAGACTATA+AGG | + | chr7_1:79138871-79138890 | Msa1041550:intron | 45.0% | |
| CCAGCTAAAATGCAAGGGTT+AGG | + | chr7_1:79138241-79138260 | Msa1041550:intron | 45.0% | |
| !! | CCTAACCCTTGCATTTTAGC+TGG | - | chr7_1:79138238-79138257 | Msa1041560:CDS | 45.0% |
| TCTTGGTTTAGCCGATCGTT+AGG | - | chr7_1:79138380-79138399 | Msa1041560:intron | 45.0% | |
| TCGGTATCTGACCTAACGAT+CGG | + | chr7_1:79138394-79138413 | Msa1041550:intron | 45.0% | |
| ! | TAAAACTGGCTCCAGAAGCA+GGG | + | chr7_1:79138553-79138572 | Msa1041550:intron | 45.0% |
| ! | TTAAAACTGGCTCCAGAAGC+AGG | + | chr7_1:79138554-79138573 | Msa1041550:intron | 45.0% |
| ! | TTTGGTGGAATTTGGAGTGG+TGG | - | chr7_1:79138641-79138660 | Msa1041560:CDS | 45.0% |
| GGACGAAGTGTGAGACTATA+AGG | + | chr7_1:79138871-79138890 | Msa1041550:intron | 45.0% | |
| !! | TTAAAAATAAAAAACTAATA+CGG | - | chr7_1:79138417-79138436 | Msa1041560:intron | 5.0% |
| !! | TTAAAAATAAAAAACTAATA+CGG | - | chr7_1:79138417-79138436 | Msa1041560:intron | 5.0% |
| ! | AAAACTGGCTCCAGAAGCAG+GGG | + | chr7_1:79138552-79138571 | Msa1041550:intron | 50.0% |
| TAGTCTCACACTTCGTCCTG+TGG | - | chr7_1:79138873-79138892 | Msa1041560:intron | 50.0% | |
| GCTTCAGTCTCAAGATCCAC+AGG | + | chr7_1:79138892-79138911 | Msa1041550:intron | 50.0% | |
| ! | AAAACTGGCTCCAGAAGCAG+GGG | + | chr7_1:79138552-79138571 | Msa1041550:intron | 50.0% |
| TAGTCTCACACTTCGTCCTG+TGG | - | chr7_1:79138873-79138892 | Msa1041560:intron | 50.0% | |
| GCTTCAGTCTCAAGATCCAC+AGG | + | chr7_1:79138892-79138911 | Msa1041550:intron | 50.0% | |
| ! | GGTGGAATTTGGAGTGGTGG+AGG | - | chr7_1:79138644-79138663 | Msa1041560:CDS | 55.0% |
| ! | GGAATTTGGAGTGGTGGAGG+AGG | - | chr7_1:79138647-79138666 | Msa1041560:CDS | 55.0% |
| ! | GGTGGAATTTGGAGTGGTGG+AGG | - | chr7_1:79138644-79138663 | Msa1041560:CDS | 55.0% |
| ! | GGAATTTGGAGTGGTGGAGG+AGG | - | chr7_1:79138647-79138666 | Msa1041560:CDS | 55.0% |
| AAGGCCAATGCCCCTGCTTC+TGG | - | chr7_1:79138539-79138558 | Msa1041560:CDS | 60.0% | |
| ! | TGGAGTGGTGGAGGAGGAAG+TGG | - | chr7_1:79138653-79138672 | Msa1041560:CDS | 60.0% |
| AAGGCCAATGCCCCTGCTTC+TGG | - | chr7_1:79138539-79138558 | Msa1041560:CDS | 60.0% | |
| ! | TGGAGTGGTGGAGGAGGAAG+TGG | - | chr7_1:79138653-79138672 | Msa1041560:CDS | 60.0% |
| ! | GGCTCCAGAAGCAGGGGCAT+TGG | + | chr7_1:79138546-79138565 | Msa1041550:intron | 65.0% |
| ! | GGCTCCAGAAGCAGGGGCAT+TGG | + | chr7_1:79138546-79138565 | Msa1041550:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 79138208 | 79139022 | 79138208 | ID=Msa1041560;Name=Msa1041560 |
| chr7_1 | mRNA | 79138208 | 79139022 | 79138208 | ID=Msa1041560-mRNA-1;Parent=Msa1041560;Name=Msa1041560-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|0.66|1|1|0.66|3|14|146 |
| chr7_1 | exon | 79138208 | 79138386 | 79138208 | ID=Msa1041560-mRNA-1:exon:21288;Parent=Msa1041560-mRNA-1 |
| chr7_1 | exon | 79138506 | 79138720 | 79138506 | ID=Msa1041560-mRNA-1:exon:21287;Parent=Msa1041560-mRNA-1 |
| chr7_1 | exon | 79138962 | 79139022 | 79138962 | ID=Msa1041560-mRNA-1:exon:21286;Parent=Msa1041560-mRNA-1 |
| chr7_1 | CDS | 79138962 | 79139022 | 79138962 | ID=Msa1041560-mRNA-1:cds;Parent=Msa1041560-mRNA-1 |
| chr7_1 | CDS | 79138506 | 79138720 | 79138506 | ID=Msa1041560-mRNA-1:cds;Parent=Msa1041560-mRNA-1 |
| chr7_1 | CDS | 79138222 | 79138386 | 79138222 | ID=Msa1041560-mRNA-1:cds;Parent=Msa1041560-mRNA-1 |
| chr7_1 | three_prime_UTR | 79138208 | 79138221 | 79138208 | ID=Msa1041560-mRNA-1:three_prime_utr;Parent=Msa1041560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
