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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1390200 | sp|P04078|GLNA1_MEDSA | 94.382 | 356 | 0 | 1 | 1 | 336 | 1 | 356 | 0.0 | 678 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002690 | Msa1390200 | -0.807860 | 4.112580e-50 | -8.615850e-47 |
| Msa0002700 | Msa1390200 | -0.801385 | 9.232314e-49 | -8.615850e-47 |
| Msa0004180 | Msa1390200 | -0.854778 | 9.811509e-62 | -8.615850e-47 |
| Msa0011410 | Msa1390200 | -0.852099 | 5.762790e-61 | -8.615850e-47 |
| Msa0011440 | Msa1390200 | -0.840690 | 7.469834e-58 | -8.615850e-47 |
| Msa0011450 | Msa1390200 | -0.830534 | 2.782501e-55 | -8.615850e-47 |
| Msa0014280 | Msa1390200 | 0.804793 | 1.821308e-49 | -8.615850e-47 |
| Msa0027020 | Msa1390200 | -0.820798 | 5.669398e-53 | -8.615850e-47 |
| Msa0031410 | Msa1390200 | 0.801678 | 8.040041e-49 | -8.615850e-47 |
| Msa0034540 | Msa1390200 | 0.805034 | 1.622173e-49 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1390200 | MtrunA17_Chr3g0110261 | 93.539 | 356 | 3 | 1 | 1 | 336 | 1 | 356 | 0.0 | 675 |
| Msa1390200 | MtrunA17_Chr6g0479141 | 84.270 | 356 | 36 | 1 | 1 | 336 | 1 | 356 | 0.0 | 625 |
| Msa1390200 | MtrunA17_Chr5g0434471 | 82.254 | 355 | 43 | 1 | 2 | 336 | 3 | 357 | 0.0 | 607 |
| Msa1390200 | MtrunA17_Chr2g0287211 | 74.157 | 356 | 72 | 1 | 1 | 336 | 57 | 412 | 0.0 | 562 |
| Msa1390200 | MtrunA17_Chr2g0287181 | 70.506 | 356 | 85 | 1 | 1 | 336 | 57 | 412 | 0.0 | 541 |
| Msa1390200 | MtrunA17_Chr8g0364341 | 69.091 | 55 | 17 | 0 | 232 | 286 | 9 | 63 | 6.98e-20 | 82.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1390200 | AT5G37600.1 | 83.989 | 356 | 37 | 1 | 1 | 336 | 1 | 356 | 0.0 | 627 |
| Msa1390200 | AT1G66200.1 | 83.427 | 356 | 39 | 1 | 1 | 336 | 1 | 356 | 0.0 | 625 |
| Msa1390200 | AT5G16570.1 | 84.551 | 356 | 35 | 1 | 1 | 336 | 1 | 356 | 0.0 | 623 |
| Msa1390200 | AT1G66200.3 | 81.370 | 365 | 39 | 1 | 1 | 336 | 1 | 365 | 0.0 | 621 |
| Msa1390200 | AT3G17820.1 | 80.453 | 353 | 49 | 1 | 1 | 333 | 1 | 353 | 0.0 | 593 |
| Msa1390200 | AT5G35630.3 | 72.191 | 356 | 79 | 1 | 1 | 336 | 59 | 414 | 0.0 | 547 |
| Msa1390200 | AT5G35630.2 | 72.191 | 356 | 79 | 1 | 1 | 336 | 59 | 414 | 0.0 | 547 |
| Msa1390200 | AT5G35630.1 | 72.191 | 356 | 79 | 1 | 1 | 336 | 59 | 414 | 0.0 | 547 |
| Msa1390200 | AT1G48470.1 | 75.740 | 338 | 62 | 1 | 16 | 333 | 16 | 353 | 0.0 | 546 |
| Msa1390200 | AT1G66200.2 | 81.349 | 252 | 27 | 1 | 1 | 232 | 1 | 252 | 1.02e-153 | 432 |
Find 136 sgRNAs with CRISPR-Local
Find 570 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGATTATAGAGAAGGTG+AGG | 0.538212 | tig0021332:-64823 | Msa1390200:five_prime_UTR |
| AAAGACATCAATTGGCCTCT+TGG | 0.419531 | tig0021332:-62752 | Msa1390200:CDS |
| AAATCATCGCCGAATACATA+TGG | 0.465828 | tig0021332:-64567 | Msa1390200:intron |
| AACAGAGAAATGAGGCAGTG+TGG | 0.654868 | tig0021332:+64758 | None:intergenic |
| AACTATGATGGTTCCAGCAC+AGG | 0.485647 | tig0021332:-63625 | Msa1390200:CDS |
| AAGGAGCACATTGCTGCTTA+TGG | 0.324475 | tig0021332:-61578 | Msa1390200:CDS |
| AAGGTTATTTCGAGGATAGG+AGG | 0.561130 | tig0021332:-61239 | Msa1390200:CDS |
| AAGTCTATGAGAGAAGATGG+TGG | 0.739470 | tig0021332:-61647 | Msa1390200:CDS |
| AATGGTGGTGTCTGCAATCA+TGG | 0.470051 | tig0021332:+61182 | None:intergenic |
| AATGTGAGTCAACAATGTCA+CGG | 0.681181 | tig0021332:+62371 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAAGATTATAGAGAAGGTG+AGG | - | tig0021332:60753-60772 | Msa1390200:three_prime_UTR | 30.0% | |
| TCAAATCGAATCGAATCTTT+AGG | - | tig0021332:60883-60902 | Msa1390200:three_prime_UTR | 30.0% | |
| CAGAACAGAAAAAATCATCA+TGG | + | tig0021332:61430-61449 | None:intergenic | 30.0% | |
| CGCACAAGAATTTAATATCA+TGG | + | tig0021332:61656-61675 | None:intergenic | 30.0% | |
| TATGTTCATTATGTCAGGAT+TGG | - | tig0021332:61729-61748 | Msa1390200:intron | 30.0% | |
| TCTAAATGGATCCTTGAAAA+TGG | + | tig0021332:62140-62159 | None:intergenic | 30.0% | |
| TTTCAAGGATCCATTTAGAA+GGG | - | tig0021332:62141-62160 | Msa1390200:CDS | 30.0% | |
| ATATTGTTACCCCTTCTAAA+TGG | + | tig0021332:62154-62173 | None:intergenic | 30.0% | |
| ATACATTTAAGGACTAACGA+CGG | + | tig0021332:62248-62267 | None:intergenic | 30.0% | |
| CAGATGATTCAATATACAAC+AGG | + | tig0021332:62482-62501 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0021332 | gene | 60752 | 64846 | 60752 | ID=Msa1390200;Name=Msa1390200 |
| tig0021332 | mRNA | 60752 | 64846 | 60752 | ID=Msa1390200-mRNA-1;Parent=Msa1390200;Name=Msa1390200-mRNA-1;_AED=0.13;_eAED=0.13;_QI=205|0.9|0.90|1|1|1|11|415|336 |
| tig0021332 | exon | 60752 | 61319 | 60752 | ID=Msa1390200-mRNA-1:exon:12068;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 61514 | 61673 | 61514 | ID=Msa1390200-mRNA-1:exon:12067;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 61764 | 61801 | 61764 | ID=Msa1390200-mRNA-1:exon:12066;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 61935 | 61988 | 61935 | ID=Msa1390200-mRNA-1:exon:12065;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 62117 | 62191 | 62117 | ID=Msa1390200-mRNA-1:exon:12064;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 62306 | 62434 | 62306 | ID=Msa1390200-mRNA-1:exon:12063;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 62721 | 62808 | 62721 | ID=Msa1390200-mRNA-1:exon:12062;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 62902 | 63008 | 62902 | ID=Msa1390200-mRNA-1:exon:12061;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 63600 | 63692 | 63600 | ID=Msa1390200-mRNA-1:exon:12060;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 63813 | 63852 | 63813 | ID=Msa1390200-mRNA-1:exon:12059;Parent=Msa1390200-mRNA-1 |
| tig0021332 | exon | 64568 | 64846 | 64568 | ID=Msa1390200-mRNA-1:exon:12058;Parent=Msa1390200-mRNA-1 |
| tig0021332 | five_prime_UTR | 64642 | 64846 | 64642 | ID=Msa1390200-mRNA-1:five_prime_utr;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 64568 | 64641 | 64568 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 63813 | 63852 | 63813 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 63600 | 63692 | 63600 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 62902 | 63008 | 62902 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 62721 | 62808 | 62721 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 62306 | 62434 | 62306 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 62117 | 62191 | 62117 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 61935 | 61988 | 61935 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 61764 | 61801 | 61764 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 61514 | 61673 | 61514 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | CDS | 61167 | 61319 | 61167 | ID=Msa1390200-mRNA-1:cds;Parent=Msa1390200-mRNA-1 |
| tig0021332 | three_prime_UTR | 60752 | 61166 | 60752 | ID=Msa1390200-mRNA-1:three_prime_utr;Parent=Msa1390200-mRNA-1 |
| Gene Sequence |
>Msa1390200 ATGTCTCTCCTTTCAGATCTTATCAACCTTGACCTCTCCGAAACCACCGAGAAAATCATCGCCGAATACATATGGATTGGTGGATCTGGTTTGGACTTGAGGAGCAAAGCAAGGACTCTACCAGGTCCAGTTACTGACCCTTCACAGCTTCCCAAGTGGAACTATGATGGTTCCAGCACAGGTCAAGCTCCTGGAGAAGATAGTGAAGTTATGTGTGATGCATACACTCCAGCTGGAGAACCCATTCCCACCAACAAGAGACATGCAGCTGCCAAGATTTTCAGCCATCCTGATGTTGTTGCTGAAGTACCATGGTATGGTATTGAGCAAGAATACACCTTGTTGCAGAAAGACATCAATTGGCCTCTTGGTTGGCCAGTTGGTGGTTTTCCTGGACCTCAGGGACCATACTATTGTGGTGCTGGTGCTGACAAGGCATTTGGCCGTGACATTGTTGACTCACATTACAAAGCCTGTCTTTATGCCGGCATCAACATCAGTGGAATCAATGGTGAAGTGATGCCTGGTCAATGGGAATTCCAAGTTGGTCCCTCAGTTGGTATCTCTGCTGGTGATGAGATATGGGTTGCTCGTTACATTTTGGAGAGGATCACTGAGGTTGCTGGTGTGGTGCTTTCCTTTGACCCAAAACCAATTAAGGGTGATTGGAATGGTGCTGGTGCTCACACAAATTACAGCACCAAGTCTATGAGAGAAGATGGTGGCTATGAAGTCATCTTGAAAGCAATTGAGAAGCTTGGGAAGAAGCACAAGGAGCACATTGCTGCTTATGGAGAAGGCAACGAGCGTAGATTGACAGGGCGACATGAGACAGCTGACATTAACACCTTCTTATGGGGTGTTGCAAACCGTGGTGCGTCGATTAGAGTTGGAAGGGACACAGAGAAAGCAGGGAAAGGTTATTTCGAGGATAGGAGGCCATCATCTAACATGGATCCATATGTTGTTACTTCCATGATTGCAGACACCACCATTCTCTGGAAACCATAA |
| Protein sequence |
>Msa1390200 MSLLSDLINLDLSETTEKIIAEYIWIGGSGLDLRSKARTLPGPVTDPSQLPKWNYDGSSTGQAPGEDSEVMCDAYTPAGEPIPTNKRHAAAKIFSHPDVVAEVPWYGIEQEYTLLQKDINWPLGWPVGGFPGPQGPYYCGAGADKAFGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPSVGISAGDEIWVARYILERITEVAGVVLSFDPKPIKGDWNGAGAHTNYSTKSMREDGGYEVILKAIEKLGKKHKEHIAAYGEGNERRLTGRHETADINTFLWGVANRGASIRVGRDTEKAGKGYFEDRRPSSNMDPYVVTSMIADTTILWKP* |
