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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0091740 | sp|A0A078ISJ6|TC32B_BRANA | 69.716 | 317 | 96 | 0 | 4 | 320 | 3 | 319 | 1.81e-165 | 466 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0091740 | 0.835859 | 1.312742e-56 | -8.615850e-47 |
| Msa0003370 | Msa0091740 | 0.818651 | 1.753662e-52 | -8.615850e-47 |
| Msa0015370 | Msa0091740 | 0.854268 | 1.377900e-61 | -8.615850e-47 |
| Msa0017060 | Msa0091740 | 0.830357 | 3.073360e-55 | -8.615850e-47 |
| Msa0026120 | Msa0091740 | 0.847535 | 1.087610e-59 | -8.615850e-47 |
| Msa0026770 | Msa0091740 | 0.963883 | 1.237168e-122 | -8.615850e-47 |
| Msa0028050 | Msa0091740 | 0.819537 | 1.102449e-52 | -8.615850e-47 |
| Msa0030030 | Msa0091740 | 0.803087 | 4.120209e-49 | -8.615850e-47 |
| Msa0032040 | Msa0091740 | 0.810116 | 1.352846e-50 | -8.615850e-47 |
| Msa0033600 | Msa0091740 | 0.801520 | 8.660486e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0091740 | MtrunA17_Chr1g0182541 | 98.452 | 323 | 5 | 0 | 1 | 323 | 1 | 323 | 0.0 | 660 |
| Msa0091740 | MtrunA17_Chr7g0262941 | 83.025 | 324 | 54 | 1 | 1 | 323 | 1 | 324 | 0.0 | 574 |
| Msa0091740 | MtrunA17_Chr1g0202931 | 58.361 | 305 | 127 | 0 | 13 | 317 | 8 | 312 | 4.67e-129 | 370 |
| Msa0091740 | MtrunA17_Chr1g0202861 | 57.705 | 305 | 129 | 0 | 13 | 317 | 49 | 353 | 9.03e-128 | 369 |
| Msa0091740 | MtrunA17_Chr8g0386971 | 56.774 | 310 | 134 | 0 | 10 | 319 | 5 | 314 | 1.06e-127 | 367 |
| Msa0091740 | MtrunA17_Chr1g0202891 | 58.361 | 305 | 127 | 0 | 13 | 317 | 8 | 312 | 1.47e-127 | 367 |
| Msa0091740 | MtrunA17_Chr1g0202871 | 58.361 | 305 | 127 | 0 | 13 | 317 | 8 | 312 | 1.63e-127 | 367 |
| Msa0091740 | MtrunA17_Chr6g0470321 | 56.026 | 307 | 132 | 1 | 14 | 317 | 17 | 323 | 2.09e-119 | 346 |
| Msa0091740 | MtrunA17_Chr6g0470501 | 56.209 | 306 | 131 | 1 | 15 | 317 | 37 | 342 | 1.30e-116 | 340 |
| Msa0091740 | MtrunA17_Chr8g0388831 | 49.091 | 330 | 158 | 5 | 1 | 323 | 1 | 327 | 1.49e-99 | 296 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0091740 | AT5G02540.1 | 70.405 | 321 | 95 | 0 | 2 | 322 | 1 | 321 | 2.04e-168 | 471 |
| Msa0091740 | AT2G37540.1 | 68.224 | 321 | 102 | 0 | 2 | 322 | 1 | 321 | 6.69e-168 | 469 |
| Msa0091740 | AT2G37540.2 | 68.400 | 250 | 79 | 0 | 2 | 251 | 1 | 250 | 9.00e-129 | 368 |
| Msa0091740 | AT4G23430.2 | 55.911 | 313 | 137 | 1 | 10 | 321 | 5 | 317 | 4.36e-128 | 369 |
| Msa0091740 | AT4G23420.1 | 56.270 | 311 | 135 | 1 | 10 | 319 | 5 | 315 | 3.09e-127 | 366 |
| Msa0091740 | AT4G23420.2 | 56.270 | 311 | 135 | 1 | 10 | 319 | 5 | 315 | 3.09e-127 | 366 |
| Msa0091740 | AT4G23420.3 | 56.536 | 306 | 132 | 1 | 15 | 319 | 27 | 332 | 5.02e-126 | 364 |
| Msa0091740 | AT4G11410.1 | 56.250 | 304 | 133 | 0 | 13 | 316 | 8 | 311 | 1.27e-125 | 362 |
| Msa0091740 | AT4G23430.1 | 55.591 | 313 | 136 | 2 | 10 | 321 | 5 | 315 | 4.23e-125 | 361 |
| Msa0091740 | AT4G23430.4 | 53.035 | 313 | 136 | 2 | 10 | 321 | 5 | 307 | 5.25e-118 | 343 |
Find 97 sgRNAs with CRISPR-Local
Find 219 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGCATGAATGAATAGTT+TGG | 0.293971 | 1_2:-73920693 | None:intergenic |
| AAACAATCCGCAAAAGCCAC+TGG | 0.513469 | 1_2:+73923184 | Msa0091740:CDS |
| AAAGAAGAGTGTCTCATAAG+AGG | 0.446043 | 1_2:-73923879 | None:intergenic |
| AAAGCATGAATGAATAGTTT+GGG | 0.424969 | 1_2:-73920692 | None:intergenic |
| AAAGTACACACAAAAGAAGA+AGG | 0.544573 | 1_2:-73924629 | None:intergenic |
| AAAGTGGATGATTTCACACA+AGG | 0.625176 | 1_2:+73924864 | Msa0091740:three_prime_UTR |
| AAATGAACAAGTAGTAATGG+TGG | 0.633497 | 1_2:-73920894 | None:intergenic |
| AACTTGTTCAGCTGTTGTAG+AGG | 0.569993 | 1_2:-73921062 | None:intergenic |
| AAGAAACATGGAGTCTGCAA+AGG | 0.621142 | 1_2:+73922643 | Msa0091740:CDS |
| AATCTCACTGCAATTATCAC+AGG | 0.520699 | 1_2:+73921106 | Msa0091740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GATGTGTATATATGCATGTT+GGG | - | chr1_2:73920867-73920886 | None:intergenic | 30.0% | |
| TGATGTGTATATATGCATGT+TGG | - | chr1_2:73920868-73920887 | None:intergenic | 30.0% | |
| AAATGAACAAGTAGTAATGG+TGG | - | chr1_2:73920897-73920916 | None:intergenic | 30.0% | |
| TTGTTCATTTAAGCTCACAA+AGG | + | chr1_2:73920907-73920926 | Msa0091740:five_prime_UTR | 30.0% | |
| TTTCTGACACCAAAAGAATA+TGG | + | chr1_2:73921191-73921210 | Msa0091740:intron | 30.0% | |
| TAAAACATCCACTGTGTATA+TGG | - | chr1_2:73921355-73921374 | None:intergenic | 30.0% | |
| ATAGTGCCAAACATTAAGAA+AGG | + | chr1_2:73921496-73921515 | Msa0091740:intron | 30.0% | |
| AAACATTAAGAAAGGAAGCA+GGG | + | chr1_2:73921504-73921523 | Msa0091740:intron | 30.0% | |
| ACTGTACATACCAAACAAAA+AGG | + | chr1_2:73921725-73921744 | Msa0091740:intron | 30.0% | |
| TTGGGACCGAAAATTATAAA+GGG | + | chr1_2:73921947-73921966 | Msa0091740:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 73920684 | 73924898 | 73920684 | ID=Msa0091740;Name=Msa0091740 |
| chr1_2 | mRNA | 73920684 | 73924898 | 73920684 | ID=Msa0091740-mRNA-1;Parent=Msa0091740;Name=Msa0091740-mRNA-1;_AED=0.22;_eAED=0.22;_QI=323|1|1|1|1|1|8|409|323 |
| chr1_2 | exon | 73920684 | 73921127 | 73920684 | ID=Msa0091740-mRNA-1:exon:26020;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73922570 | 73922801 | 73922570 | ID=Msa0091740-mRNA-1:exon:26021;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73922956 | 73923035 | 73922956 | ID=Msa0091740-mRNA-1:exon:26022;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73923146 | 73923299 | 73923146 | ID=Msa0091740-mRNA-1:exon:26023;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73923390 | 73923468 | 73923390 | ID=Msa0091740-mRNA-1:exon:26024;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73923825 | 73923909 | 73923825 | ID=Msa0091740-mRNA-1:exon:26025;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73924028 | 73924074 | 73924028 | ID=Msa0091740-mRNA-1:exon:26026;Parent=Msa0091740-mRNA-1 |
| chr1_2 | exon | 73924316 | 73924898 | 73924316 | ID=Msa0091740-mRNA-1:exon:26027;Parent=Msa0091740-mRNA-1 |
| chr1_2 | five_prime_UTR | 73920684 | 73921006 | 73920684 | ID=Msa0091740-mRNA-1:five_prime_utr;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73921007 | 73921127 | 73921007 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73922570 | 73922801 | 73922570 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73922956 | 73923035 | 73922956 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73923146 | 73923299 | 73923146 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73923390 | 73923468 | 73923390 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73923825 | 73923909 | 73923825 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73924028 | 73924074 | 73924028 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | CDS | 73924316 | 73924489 | 73924316 | ID=Msa0091740-mRNA-1:cds;Parent=Msa0091740-mRNA-1 |
| chr1_2 | three_prime_UTR | 73924490 | 73924898 | 73924490 | ID=Msa0091740-mRNA-1:three_prime_utr;Parent=Msa0091740-mRNA-1 |
| Gene Sequence |
>Msa0091740 ATGGTGGGTATTTTCTCTTTGGTCACGGGCATGGCTGGACCAAGTGGATTTGGATCCTCTACAACAGCTGAACAAGTTACTGAAGGAATTGATGCAAGCAATCTCACTGCAATTATCACAGGAGGAGCAAGTGGTATAGGCTTGGAGACAGCACGAGTCTTGGCTCTTCGAAAGGCGCATGTCATCATCGCCGCAAGAAACATGGAGTCTGCAAAGGAAGCTAAACAAATTATACTAGAGGACAACAAGTCTGCTCGAGTGGACATAATGAAGCTCGACCTTTGTTCAGTGAAGTCTGTTAGATCGTTTGTTGAAAACTTCCTCGCTCTCGATCTTCCTCTCAACATCTTAATAAACAATGCTGGAGTTATGTTCTGCCCCTTCCAACTAACACAAGATGGAATTGAGATGCAGTTTGCAACAAATCATCTTGGTCATTTCCTTTTGACAAACCTTCTACTTGAGAAAATGAAACAATCCGCAAAAGCCACTGGAATTGAGGGTAGAATCATAAATCTTTCATCAATTGCTCATACCTACACTTATGAAGAAGGCATTCGATTGGATAATATCAATGATCAAATTGGTTACTCTGACAAGAAGGCTTATGGACAGTCCAAGTTAGCCAACATACTACATGCAAATGAGCTTTCTCGTCGCTTGAAGGAAGAAGGTGTCAATATCACAGCCAACTCAGTACACCCAGGAGTAATAATGACTCCTCTTATGAGACACTCTTCTTTACTTATGAACTTCTTGAAGATGTTCACATTTTACATATGGAAGAATGTCCCACAGGGAGCTGCAACAACATGCTATGTTGCTCTTCATCCAAGCTTGAAAGGAGTAACTGGGAAGTACTTTTTGGATTGTAATGAGTTTCAACCAAGTGCATTTGCGTCAAATGGACTCCTAGGAAGAAAACTTTGGGATTTTAGCAACAAGTTGATCAATTCAATTTCAAAGTCTTGA |
| Protein sequence |
>Msa0091740 MVGIFSLVTGMAGPSGFGSSTTAEQVTEGIDASNLTAIITGGASGIGLETARVLALRKAHVIIAARNMESAKEAKQIILEDNKSARVDIMKLDLCSVKSVRSFVENFLALDLPLNILINNAGVMFCPFQLTQDGIEMQFATNHLGHFLLTNLLLEKMKQSAKATGIEGRIINLSSIAHTYTYEEGIRLDNINDQIGYSDKKAYGQSKLANILHANELSRRLKEEGVNITANSVHPGVIMTPLMRHSSLLMNFLKMFTFYIWKNVPQGAATTCYVALHPSLKGVTGKYFLDCNEFQPSAFASNGLLGRKLWDFSNKLINSISKS* |
