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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166460 | KEH23514.1 | 97.222 | 144 | 4 | 0 | 2 | 145 | 275 | 418 | 7.54e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166460 | sp|P52914|NTPA_PEA | 69.444 | 144 | 43 | 1 | 2 | 145 | 253 | 395 | 1.00e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166460 | A0A072U1D5 | 97.222 | 144 | 4 | 0 | 2 | 145 | 275 | 418 | 3.60e-98 | 298 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012520 | Msa1166460 | 0.807952 | 3.930656e-50 | -8.615850e-47 |
| Msa0152420 | Msa1166460 | 0.813689 | 2.254207e-51 | -8.615850e-47 |
| Msa1025830 | Msa1166460 | 0.809933 | 1.481367e-50 | -8.615850e-47 |
| Msa1041560 | Msa1166460 | 0.995180 | 9.181035e-214 | -8.615850e-47 |
| Msa1070490 | Msa1166460 | 0.937781 | 1.980158e-98 | -8.615850e-47 |
| Msa1101140 | Msa1166460 | 0.942687 | 4.617699e-102 | -8.615850e-47 |
| Msa1101620 | Msa1166460 | 0.820515 | 6.586373e-53 | -8.615850e-47 |
| Msa1158350 | Msa1166460 | 0.884010 | 2.761083e-71 | -8.615850e-47 |
| Msa1166460 | Msa1338520 | 0.967003 | 1.106722e-126 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166460 | MtrunA17_Chr7g0252891 | 97.222 | 144 | 4 | 0 | 2 | 145 | 275 | 418 | 2.74e-101 | 298 |
| Msa1166460 | MtrunA17_Chr4g0015031 | 79.167 | 144 | 29 | 1 | 2 | 145 | 264 | 406 | 2.14e-69 | 216 |
| Msa1166460 | MtrunA17_Chr7g0252881 | 74.306 | 144 | 36 | 1 | 2 | 145 | 254 | 396 | 2.59e-66 | 208 |
| Msa1166460 | MtrunA17_Chr7g0252911 | 56.944 | 144 | 60 | 2 | 2 | 145 | 254 | 395 | 1.22e-49 | 164 |
| Msa1166460 | MtrunA17_Chr7g0252941 | 54.861 | 144 | 63 | 2 | 2 | 145 | 17 | 158 | 1.38e-42 | 139 |
| Msa1166460 | MtrunA17_Chr7g0252921 | 54.861 | 144 | 63 | 2 | 2 | 145 | 253 | 394 | 6.20e-41 | 142 |
| Msa1166460 | MtrunA17_Chr7g0252861 | 53.103 | 145 | 63 | 4 | 2 | 145 | 277 | 417 | 5.33e-35 | 126 |
| Msa1166460 | MtrunA17_Chr6g0461671 | 50.345 | 145 | 69 | 3 | 2 | 145 | 290 | 432 | 3.66e-29 | 110 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1166460 | AT5G18280.1 | 52.414 | 145 | 66 | 3 | 2 | 145 | 280 | 422 | 1.35e-37 | 133 |
| Msa1166460 | AT3G04080.1 | 48.276 | 145 | 72 | 3 | 2 | 145 | 279 | 421 | 3.41e-32 | 119 |
Find 29 sgRNAs with CRISPR-Local
Find 98 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGAGACTATAAGGTGTATT+TGG | 0.179514 | 7_4:+58553842 | Msa1166450:intron |
| AAGGCCAATGCCCCTGCTTC+TGG | 0.233678 | 7_4:-58554162 | Msa1166460:CDS |
| CCTTATCAGAATTGCACTTT+TGG | 0.272682 | 7_4:-58554078 | Msa1166460:CDS |
| ATATGCTGGAGAAGAATTTA+AGG | 0.312341 | 7_4:-58554181 | Msa1166460:CDS |
| GGTGGAATTTGGAGTGGTGG+AGG | 0.381650 | 7_4:-58554057 | Msa1166460:CDS |
| AAGAAGTGGATAAGTTGATT+TGG | 0.384688 | 7_4:+58553757 | Msa1166450:intron |
| GGACGAAGTGTGAGACTATA+AGG | 0.386803 | 7_4:+58553833 | Msa1166450:intron |
| TTAAAACTGGCTCCAGAAGC+AGG | 0.407764 | 7_4:+58554150 | Msa1166450:intron |
| GGCTCCAGAAGCAGGGGCAT+TGG | 0.420983 | 7_4:+58554158 | Msa1166450:intron |
| TGAGACTATAAGGTGTATTT+GGG | 0.440417 | 7_4:+58553843 | Msa1166450:intron |
| TGGAGTGGTGGAGGAGGAAG+TGG | 0.447986 | 7_4:-58554048 | Msa1166460:CDS |
| TGTTTGCATATTCTACTAAG+AGG | 0.458044 | 7_4:-58553711 | Msa1166460:exon |
| ATCAACTTATCCACTTCTTG+TGG | 0.471679 | 7_4:-58553753 | Msa1166460:CDS |
| CCAGCTAAAATGCAAGGGTT+AGG | 0.472739 | 7_4:+58554463 | Msa1166450:intron |
| TTTGGTGGAATTTGGAGTGG+TGG | 0.483888 | 7_4:-58554060 | Msa1166460:CDS |
| CCAAAAGTGCAATTCTGATA+AGG | 0.489796 | 7_4:+58554078 | Msa1166450:intron |
| GGAATTTGGAGTGGTGGAGG+AGG | 0.496019 | 7_4:-58554054 | Msa1166460:CDS |
| AAAGGGACATACACATATGC+TGG | 0.509416 | 7_4:-58554195 | Msa1166460:intron |
| TAAAACTGGCTCCAGAAGCA+GGG | 0.545057 | 7_4:+58554151 | Msa1166450:intron |
| TCAAATCCAGCTAAAATGCA+AGG | 0.555070 | 7_4:+58554457 | Msa1166450:intron |
| GCTTCAGTCTCAAGATCCAC+AGG | 0.567472 | 7_4:+58553812 | Msa1166450:intron |
| AGCTTGTACATTAAATCTTG+AGG | 0.568041 | 7_4:-58553783 | Msa1166460:CDS |
| ATATTGAAATCCACAAGAAG+TGG | 0.569272 | 7_4:+58553743 | Msa1166450:intron |
| TAGTCTCACACTTCGTCCTG+TGG | 0.572847 | 7_4:-58553828 | Msa1166460:CDS |
| TAATGCATACATCTTCAGCT+AGG | 0.603926 | 7_4:+58553989 | Msa1166450:intron |
| CAAATCCAGCTAAAATGCAA+GGG | 0.619736 | 7_4:+58554458 | Msa1166450:intron |
| AAAACTGGCTCCAGAAGCAG+GGG | 0.621311 | 7_4:+58554152 | Msa1166450:intron |
| GTGCAATTCTGATAAGGACA+TGG | 0.628525 | 7_4:+58554084 | Msa1166450:intron |
| TTGTACATTAAATCTTGAGG+AGG | 0.647392 | 7_4:-58553780 | Msa1166460:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTTTTATTTTTAAAACT+CGG | + | chr7_4:58553909-58553928 | Msa1166450:intron | 10.0% |
| !! | ATCATTAAATCAAAATAATT+TGG | + | chr7_4:58554271-58554290 | Msa1166450:intron | 10.0% |
| !!! | AGTTTTTTATTTTTAAAACT+CGG | + | chr7_4:58553909-58553928 | Msa1166450:intron | 10.0% |
| !! | ATCATTAAATCAAAATAATT+TGG | + | chr7_4:58554271-58554290 | Msa1166450:intron | 10.0% |
| !! | TAAAAATAGCGAAATTAAAA+AGG | + | chr7_4:58553955-58553974 | Msa1166450:intron | 15.0% |
| !!! | ACAAATATTTTGTTTTTCAA+AGG | - | chr7_4:58553984-58554003 | Msa1166460:intron | 15.0% |
| !!! | CAAATATTTTGTTTTTCAAA+GGG | - | chr7_4:58553985-58554004 | Msa1166460:intron | 15.0% |
| !! | AATAAACAATGTAATTAGAA+TGG | + | chr7_4:58554313-58554332 | Msa1166450:intron | 15.0% |
| !!! | CATTGTTTATTATTTTAGAT+TGG | - | chr7_4:58554322-58554341 | Msa1166460:intron | 15.0% |
| !!! | TTTATTATTTTAGATTGGTT+TGG | - | chr7_4:58554327-58554346 | Msa1166460:intron | 15.0% |
| !! | TAAAAATAGCGAAATTAAAA+AGG | + | chr7_4:58553955-58553974 | Msa1166450:intron | 15.0% |
| !!! | ACAAATATTTTGTTTTTCAA+AGG | - | chr7_4:58553984-58554003 | Msa1166460:intron | 15.0% |
| !!! | CAAATATTTTGTTTTTCAAA+GGG | - | chr7_4:58553985-58554004 | Msa1166460:intron | 15.0% |
| !! | AATAAACAATGTAATTAGAA+TGG | + | chr7_4:58554313-58554332 | Msa1166450:intron | 15.0% |
| !!! | CATTGTTTATTATTTTAGAT+TGG | - | chr7_4:58554322-58554341 | Msa1166460:intron | 15.0% |
| !!! | TTTATTATTTTAGATTGGTT+TGG | - | chr7_4:58554327-58554346 | Msa1166460:intron | 15.0% |
| !!! | CTTTTTGCATTTTTTAAAAC+TGG | + | chr7_4:58554063-58554082 | Msa1166450:intron | 20.0% |
| !!! | CTTTTTGCATTTTTTAAAAC+TGG | + | chr7_4:58554063-58554082 | Msa1166450:intron | 20.0% |
| AAGTTGACTAAAACAACTCT+TGG | - | chr7_4:58553859-58553878 | Msa1166460:CDS | 30.0% | |
| ATATGCTGGAGAAGAATTTA+AGG | - | chr7_4:58554016-58554035 | Msa1166460:CDS | 30.0% | |
| TGAGACTATAAGGTGTATTT+GGG | + | chr7_4:58554357-58554376 | Msa1166450:intron | 30.0% | |
| AGCTTGTACATTAAATCTTG+AGG | - | chr7_4:58554414-58554433 | Msa1166460:intron | 30.0% | |
| TTGTACATTAAATCTTGAGG+AGG | - | chr7_4:58554417-58554436 | Msa1166460:intron | 30.0% | |
| !! | AAGAAGTGGATAAGTTGATT+TGG | + | chr7_4:58554443-58554462 | Msa1166450:intron | 30.0% |
| ATATTGAAATCCACAAGAAG+TGG | + | chr7_4:58554457-58554476 | Msa1166450:intron | 30.0% | |
| TGTTTGCATATTCTACTAAG+AGG | - | chr7_4:58554486-58554505 | Msa1166460:CDS | 30.0% | |
| TACTAAGAGGTTATGCAAAT+GGG | - | chr7_4:58554499-58554518 | Msa1166460:CDS | 30.0% | |
| AAGTTGACTAAAACAACTCT+TGG | - | chr7_4:58553859-58553878 | Msa1166460:CDS | 30.0% | |
| ATATGCTGGAGAAGAATTTA+AGG | - | chr7_4:58554016-58554035 | Msa1166460:CDS | 30.0% | |
| TGAGACTATAAGGTGTATTT+GGG | + | chr7_4:58554357-58554376 | Msa1166450:intron | 30.0% | |
| AGCTTGTACATTAAATCTTG+AGG | - | chr7_4:58554414-58554433 | Msa1166460:intron | 30.0% | |
| TTGTACATTAAATCTTGAGG+AGG | - | chr7_4:58554417-58554436 | Msa1166460:intron | 30.0% | |
| !! | AAGAAGTGGATAAGTTGATT+TGG | + | chr7_4:58554443-58554462 | Msa1166450:intron | 30.0% |
| ATATTGAAATCCACAAGAAG+TGG | + | chr7_4:58554457-58554476 | Msa1166450:intron | 30.0% | |
| TGTTTGCATATTCTACTAAG+AGG | - | chr7_4:58554486-58554505 | Msa1166460:CDS | 30.0% | |
| CAAATCCAGCTAAAATGCAA+GGG | + | chr7_4:58553742-58553761 | Msa1166450:intron | 35.0% | |
| TCAAATCCAGCTAAAATGCA+AGG | + | chr7_4:58553743-58553762 | Msa1166450:intron | 35.0% | |
| !!! | TGCATTTTAGCTGGATTTGA+TGG | - | chr7_4:58553743-58553762 | Msa1166460:CDS | 35.0% |
| ATGCAAAAAGATAGTTCGTC+AGG | - | chr7_4:58554073-58554092 | Msa1166460:CDS | 35.0% | |
| ! | CCAAAAGTGCAATTCTGATA+AGG | + | chr7_4:58554122-58554141 | Msa1166450:intron | 35.0% |
| ! | CCTTATCAGAATTGCACTTT+TGG | - | chr7_4:58554119-58554138 | Msa1166460:CDS | 35.0% |
| ! | TATCAGAATTGCACTTTTGG+TGG | - | chr7_4:58554122-58554141 | Msa1166460:CDS | 35.0% |
| ! | ATTGCACTTTTGGTGGAATT+TGG | - | chr7_4:58554129-58554148 | Msa1166460:CDS | 35.0% |
| TAATGCATACATCTTCAGCT+AGG | + | chr7_4:58554211-58554230 | Msa1166450:intron | 35.0% | |
| GTGAGACTATAAGGTGTATT+TGG | + | chr7_4:58554358-58554377 | Msa1166450:intron | 35.0% | |
| ATCAACTTATCCACTTCTTG+TGG | - | chr7_4:58554444-58554463 | Msa1166460:intron | 35.0% | |
| CTACTAAGAGGTTATGCAAA+TGG | - | chr7_4:58554498-58554517 | Msa1166460:CDS | 35.0% | |
| CAAATCCAGCTAAAATGCAA+GGG | + | chr7_4:58553742-58553761 | Msa1166450:intron | 35.0% | |
| TCAAATCCAGCTAAAATGCA+AGG | + | chr7_4:58553743-58553762 | Msa1166450:intron | 35.0% | |
| !!! | TGCATTTTAGCTGGATTTGA+TGG | - | chr7_4:58553743-58553762 | Msa1166460:CDS | 35.0% |
| ATGCAAAAAGATAGTTCGTC+AGG | - | chr7_4:58554073-58554092 | Msa1166460:CDS | 35.0% | |
| ! | CCAAAAGTGCAATTCTGATA+AGG | + | chr7_4:58554122-58554141 | Msa1166450:intron | 35.0% |
| ! | CCTTATCAGAATTGCACTTT+TGG | - | chr7_4:58554119-58554138 | Msa1166460:CDS | 35.0% |
| ! | TATCAGAATTGCACTTTTGG+TGG | - | chr7_4:58554122-58554141 | Msa1166460:CDS | 35.0% |
| ! | ATTGCACTTTTGGTGGAATT+TGG | - | chr7_4:58554129-58554148 | Msa1166460:CDS | 35.0% |
| TAATGCATACATCTTCAGCT+AGG | + | chr7_4:58554211-58554230 | Msa1166450:intron | 35.0% | |
| GTGAGACTATAAGGTGTATT+TGG | + | chr7_4:58554358-58554377 | Msa1166450:intron | 35.0% | |
| ATCAACTTATCCACTTCTTG+TGG | - | chr7_4:58554444-58554463 | Msa1166460:intron | 35.0% | |
| AAAGGGACATACACATATGC+TGG | - | chr7_4:58554002-58554021 | Msa1166460:CDS | 40.0% | |
| GTGCAATTCTGATAAGGACA+TGG | + | chr7_4:58554116-58554135 | Msa1166450:intron | 40.0% | |
| ! | ACTTTTGGTGGAATTTGGAG+TGG | - | chr7_4:58554134-58554153 | Msa1166460:CDS | 40.0% |
| AAAGGGACATACACATATGC+TGG | - | chr7_4:58554002-58554021 | Msa1166460:CDS | 40.0% | |
| GTGCAATTCTGATAAGGACA+TGG | + | chr7_4:58554116-58554135 | Msa1166450:intron | 40.0% | |
| ! | ACTTTTGGTGGAATTTGGAG+TGG | - | chr7_4:58554134-58554153 | Msa1166460:CDS | 40.0% |
| CCAGCTAAAATGCAAGGGTT+AGG | + | chr7_4:58553737-58553756 | Msa1166450:intron | 45.0% | |
| !! | CCTAACCCTTGCATTTTAGC+TGG | - | chr7_4:58553734-58553753 | Msa1166460:CDS | 45.0% |
| TCTTGGTTTAGCCGATCGTT+AGG | - | chr7_4:58553876-58553895 | Msa1166460:intron | 45.0% | |
| TCGGTATCTGACCTAACGAT+CGG | + | chr7_4:58553890-58553909 | Msa1166450:intron | 45.0% | |
| ! | TAAAACTGGCTCCAGAAGCA+GGG | + | chr7_4:58554049-58554068 | Msa1166450:intron | 45.0% |
| ! | TTAAAACTGGCTCCAGAAGC+AGG | + | chr7_4:58554050-58554069 | Msa1166450:intron | 45.0% |
| ! | TTTGGTGGAATTTGGAGTGG+TGG | - | chr7_4:58554137-58554156 | Msa1166460:CDS | 45.0% |
| GGACGAAGTGTGAGACTATA+AGG | + | chr7_4:58554367-58554386 | Msa1166450:intron | 45.0% | |
| CCAGCTAAAATGCAAGGGTT+AGG | + | chr7_4:58553737-58553756 | Msa1166450:intron | 45.0% | |
| !! | CCTAACCCTTGCATTTTAGC+TGG | - | chr7_4:58553734-58553753 | Msa1166460:CDS | 45.0% |
| TCTTGGTTTAGCCGATCGTT+AGG | - | chr7_4:58553876-58553895 | Msa1166460:intron | 45.0% | |
| TCGGTATCTGACCTAACGAT+CGG | + | chr7_4:58553890-58553909 | Msa1166450:intron | 45.0% | |
| ! | TAAAACTGGCTCCAGAAGCA+GGG | + | chr7_4:58554049-58554068 | Msa1166450:intron | 45.0% |
| ! | TTAAAACTGGCTCCAGAAGC+AGG | + | chr7_4:58554050-58554069 | Msa1166450:intron | 45.0% |
| ! | TTTGGTGGAATTTGGAGTGG+TGG | - | chr7_4:58554137-58554156 | Msa1166460:CDS | 45.0% |
| GGACGAAGTGTGAGACTATA+AGG | + | chr7_4:58554367-58554386 | Msa1166450:intron | 45.0% | |
| !! | TTAAAAATAAAAAACTAATA+CGG | - | chr7_4:58553913-58553932 | Msa1166460:intron | 5.0% |
| !! | TTAAAAATAAAAAACTAATA+CGG | - | chr7_4:58553913-58553932 | Msa1166460:intron | 5.0% |
| ! | AAAACTGGCTCCAGAAGCAG+GGG | + | chr7_4:58554048-58554067 | Msa1166450:intron | 50.0% |
| TAGTCTCACACTTCGTCCTG+TGG | - | chr7_4:58554369-58554388 | Msa1166460:intron | 50.0% | |
| GCTTCAGTCTCAAGATCCAC+AGG | + | chr7_4:58554388-58554407 | Msa1166450:intron | 50.0% | |
| ! | AAAACTGGCTCCAGAAGCAG+GGG | + | chr7_4:58554048-58554067 | Msa1166450:intron | 50.0% |
| TAGTCTCACACTTCGTCCTG+TGG | - | chr7_4:58554369-58554388 | Msa1166460:intron | 50.0% | |
| GCTTCAGTCTCAAGATCCAC+AGG | + | chr7_4:58554388-58554407 | Msa1166450:intron | 50.0% | |
| ! | GGTGGAATTTGGAGTGGTGG+AGG | - | chr7_4:58554140-58554159 | Msa1166460:CDS | 55.0% |
| ! | GGAATTTGGAGTGGTGGAGG+AGG | - | chr7_4:58554143-58554162 | Msa1166460:CDS | 55.0% |
| ! | GGTGGAATTTGGAGTGGTGG+AGG | - | chr7_4:58554140-58554159 | Msa1166460:CDS | 55.0% |
| ! | GGAATTTGGAGTGGTGGAGG+AGG | - | chr7_4:58554143-58554162 | Msa1166460:CDS | 55.0% |
| AAGGCCAATGCCCCTGCTTC+TGG | - | chr7_4:58554035-58554054 | Msa1166460:CDS | 60.0% | |
| ! | TGGAGTGGTGGAGGAGGAAG+TGG | - | chr7_4:58554149-58554168 | Msa1166460:CDS | 60.0% |
| AAGGCCAATGCCCCTGCTTC+TGG | - | chr7_4:58554035-58554054 | Msa1166460:CDS | 60.0% | |
| ! | TGGAGTGGTGGAGGAGGAAG+TGG | - | chr7_4:58554149-58554168 | Msa1166460:CDS | 60.0% |
| ! | GGCTCCAGAAGCAGGGGCAT+TGG | + | chr7_4:58554042-58554061 | Msa1166450:intron | 65.0% |
| ! | GGCTCCAGAAGCAGGGGCAT+TGG | + | chr7_4:58554042-58554061 | Msa1166450:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 58553701 | 58554518 | 58553701 | ID=Msa1166460;Name=Msa1166460 |
| chr7_4 | mRNA | 58553701 | 58554518 | 58553701 | ID=Msa1166460-mRNA-1;Parent=Msa1166460;Name=Msa1166460-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|1|1|0|0|3|14|147 |
| chr7_4 | exon | 58553701 | 58553879 | 58553701 | ID=Msa1166460-mRNA-1:exon:17983;Parent=Msa1166460-mRNA-1 |
| chr7_4 | exon | 58553999 | 58554213 | 58553999 | ID=Msa1166460-mRNA-1:exon:17982;Parent=Msa1166460-mRNA-1 |
| chr7_4 | exon | 58554455 | 58554518 | 58554455 | ID=Msa1166460-mRNA-1:exon:17981;Parent=Msa1166460-mRNA-1 |
| chr7_4 | CDS | 58554455 | 58554518 | 58554455 | ID=Msa1166460-mRNA-1:cds;Parent=Msa1166460-mRNA-1 |
| chr7_4 | CDS | 58553999 | 58554213 | 58553999 | ID=Msa1166460-mRNA-1:cds;Parent=Msa1166460-mRNA-1 |
| chr7_4 | CDS | 58553715 | 58553879 | 58553715 | ID=Msa1166460-mRNA-1:cds;Parent=Msa1166460-mRNA-1 |
| chr7_4 | three_prime_UTR | 58553701 | 58553714 | 58553701 | ID=Msa1166460-mRNA-1:three_prime_utr;Parent=Msa1166460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
