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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0071250 | XP_013467817.1 | 83.117 | 616 | 48 | 6 | 1 | 574 | 1 | 602 | 0.0 | 1006 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0071250 | A0A072VIP0 | 83.117 | 616 | 48 | 6 | 1 | 574 | 1 | 602 | 0.0 | 1006 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001520 | Msa0071250 | 0.809694 | 1.667529e-50 | -8.615850e-47 |
| Msa0001830 | Msa0071250 | 0.814388 | 1.580716e-51 | -8.615850e-47 |
| Msa0002560 | Msa0071250 | 0.804346 | 2.257783e-49 | -8.615850e-47 |
| Msa0003630 | Msa0071250 | 0.829020 | 6.500136e-55 | -8.615850e-47 |
| Msa0005270 | Msa0071250 | 0.828502 | 8.677028e-55 | -8.615850e-47 |
| Msa0006110 | Msa0071250 | 0.831332 | 1.772309e-55 | -8.615850e-47 |
| Msa0007440 | Msa0071250 | 0.832038 | 1.187549e-55 | -8.615850e-47 |
| Msa0010490 | Msa0071250 | 0.861829 | 7.791654e-64 | -8.615850e-47 |
| Msa0010500 | Msa0071250 | 0.839469 | 1.555779e-57 | -8.615850e-47 |
| Msa0012710 | Msa0071250 | 0.816532 | 5.269048e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0071250 | MtrunA17_Chr1g0176821 | 83.117 | 616 | 48 | 6 | 1 | 574 | 1 | 602 | 0.0 | 1006 |
| Msa0071250 | MtrunA17_Chr7g0267701 | 53.191 | 423 | 133 | 8 | 1 | 378 | 1 | 403 | 1.82e-136 | 413 |
| Msa0071250 | MtrunA17_Chr7g0267701 | 34.583 | 240 | 125 | 4 | 336 | 574 | 506 | 714 | 2.04e-27 | 117 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0071250 | AT5G06440.3 | 52.412 | 311 | 108 | 7 | 1 | 275 | 1 | 307 | 1.87e-101 | 315 |
| Msa0071250 | AT5G06440.2 | 52.412 | 311 | 108 | 7 | 1 | 275 | 1 | 307 | 1.87e-101 | 315 |
| Msa0071250 | AT5G06440.4 | 50.629 | 318 | 110 | 7 | 1 | 275 | 1 | 314 | 8.94e-99 | 309 |
| Msa0071250 | AT3G11720.1 | 37.923 | 443 | 196 | 12 | 1 | 397 | 1 | 410 | 1.21e-89 | 287 |
| Msa0071250 | AT3G11720.2 | 37.923 | 443 | 196 | 12 | 1 | 397 | 1 | 410 | 1.21e-89 | 287 |
| Msa0071250 | AT5G06440.1 | 51.986 | 277 | 94 | 6 | 1 | 241 | 1 | 274 | 5.22e-89 | 277 |
| Msa0071250 | AT3G11720.3 | 37.923 | 443 | 196 | 12 | 1 | 397 | 55 | 464 | 5.82e-89 | 286 |
| Msa0071250 | AT5G06440.5 | 54.506 | 233 | 72 | 4 | 73 | 275 | 5 | 233 | 1.27e-80 | 259 |
| Msa0071250 | AT5G06440.6 | 54.505 | 222 | 67 | 4 | 84 | 275 | 1 | 218 | 1.17e-76 | 248 |
| Msa0071250 | AT3G11720.4 | 37.143 | 350 | 151 | 9 | 84 | 397 | 1 | 317 | 3.02e-68 | 228 |
Find 148 sgRNAs with CRISPR-Local
Find 347 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATGGGTCCCCTTGCAT+GGG | 0.574113 | 1_2:-42790661 | Msa0071250:CDS |
| AACATTTGTAAGATCAGGTG+AGG | 0.620685 | 1_2:+42795193 | None:intergenic |
| AACGAAAGATTGTGCAGTAT+AGG | 0.423682 | 1_2:-42795238 | Msa0071250:CDS |
| AAGAAAGGATGAAGGTTTCG+TGG | 0.545994 | 1_2:-42793224 | Msa0071250:intron |
| AAGAACTACAAATTTGTGCA+TGG | 0.581856 | 1_2:-42789472 | Msa0071250:three_prime_UTR |
| AAGAATTCAGCAAGGCCTTG+GGG | 0.602284 | 1_2:-42791152 | Msa0071250:CDS |
| AAGGGCGGAGACTTAATCTC+TGG | 0.520143 | 1_2:+42789644 | None:intergenic |
| AATAGCGAATATGGATATAA+AGG | 0.391283 | 1_2:-42792664 | Msa0071250:CDS |
| AATGTACCAAAGAAGTTGAG+TGG | 0.582780 | 1_2:-42790014 | Msa0071250:CDS |
| AATGTTAGTGGAAGGCTTTG+TGG | 0.487941 | 1_2:-42794233 | Msa0071250:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATCTCAACATTTGTAAGATC+AGG | + | chr1_2:42789500-42789519 | None:intergenic | 30.0% | |
| TCATCTTCTAATTCTGATGA+TGG | + | chr1_2:42789554-42789573 | None:intergenic | 30.0% | |
| TCATCAGAATTAGAAGATGA+AGG | - | chr1_2:42789554-42789573 | Msa0071250:three_prime_UTR | 30.0% | |
| TCTAACCATATGATTCAGTT+TGG | + | chr1_2:42789702-42789721 | None:intergenic | 30.0% | |
| TACATCACAAAATGATTGGA+AGG | - | chr1_2:42790025-42790044 | Msa0071250:CDS | 30.0% | |
| CTTCTTCCAATAGTTAAAAC+AGG | - | chr1_2:42790371-42790390 | Msa0071250:intron | 30.0% | |
| TTCCAATAGTTAAAACAGGA+TGG | - | chr1_2:42790375-42790394 | Msa0071250:intron | 30.0% | |
| TCCATTTCATACAATGTTAG+TGG | - | chr1_2:42790440-42790459 | Msa0071250:intron | 30.0% | |
| TCCACTAACATTGTATGAAA+TGG | + | chr1_2:42790444-42790463 | None:intergenic | 30.0% | |
| TTTCATACAATGTTAGTGGA+AGG | - | chr1_2:42790444-42790463 | Msa0071250:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 42789437 | 42795270 | 42789437 | ID=Msa0071250;Name=Msa0071250 |
| chr1_2 | mRNA | 42789437 | 42795270 | 42789437 | ID=Msa0071250-mRNA-1;Parent=Msa0071250;Name=Msa0071250-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|0.75|0.88|1|0.62|0.77|9|540|574 |
| chr1_2 | exon | 42789437 | 42790298 | 42789437 | ID=Msa0071250-mRNA-1:exon:13001;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42790514 | 42791205 | 42790514 | ID=Msa0071250-mRNA-1:exon:13000;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42792587 | 42792689 | 42792587 | ID=Msa0071250-mRNA-1:exon:12999;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42792903 | 42793042 | 42792903 | ID=Msa0071250-mRNA-1:exon:12998;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42793140 | 42793239 | 42793140 | ID=Msa0071250-mRNA-1:exon:12997;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42794060 | 42794099 | 42794060 | ID=Msa0071250-mRNA-1:exon:12996;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42794215 | 42794323 | 42794215 | ID=Msa0071250-mRNA-1:exon:12995;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42794661 | 42794776 | 42794661 | ID=Msa0071250-mRNA-1:exon:12994;Parent=Msa0071250-mRNA-1 |
| chr1_2 | exon | 42795168 | 42795270 | 42795168 | ID=Msa0071250-mRNA-1:exon:12993;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42795168 | 42795270 | 42795168 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42794661 | 42794776 | 42794661 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42794215 | 42794323 | 42794215 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42794060 | 42794099 | 42794060 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42793140 | 42793239 | 42793140 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42792903 | 42793042 | 42792903 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42792587 | 42792689 | 42792587 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42790514 | 42791205 | 42790514 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | CDS | 42789977 | 42790298 | 42789977 | ID=Msa0071250-mRNA-1:cds;Parent=Msa0071250-mRNA-1 |
| chr1_2 | three_prime_UTR | 42789437 | 42789976 | 42789437 | ID=Msa0071250-mRNA-1:three_prime_utr;Parent=Msa0071250-mRNA-1 |
| Gene Sequence |
>Msa0071250 ATGGAGAAGAAACGAAAGATTGTGCAGTATAGGGAGAGGCTAGATAAGACCCTTGCCTCACCTGATCTTACAAATGTTGAGATACTCAAAAAGCTTGTCAAAAAATATAAGGAGAAATTCGTAGAACATAAAACTGCAGAAATATCTAACTTTCTAGATATGTTAAGGAGTACTTCAGATGATCATGGAAGGTCTAATACATCACAAAATGATTGGAAGTTAAAACAGGATGGCGAAGAGTTTCGTGTTATGTATCGTGAAGGACCGGAGGGAACTCCATTTCATACAATGTTAGTGGAAGGCTTTGTGGACGGACCTGTTGATGTTTGTTTATGTATCTCATGGCAGACTTCTCTTTACAAAAAATGGATGAAGGTTTCGTGGCCTCTGTCTTCGAGGGAAGCTGTAGTGCACTATTATCTGTTTGAGTACTTTCAAGATGACTTAATTGTTGTTCTTACGAATTCGGTCCCTGAGTCGAAGAGCATCATGGGAACCCTTTCTGGTTTCAACGACGACGCAATTCCTGAAGTGAAGGATGTCGTGAGAGTTGATTTGGTGGGAGGCTTTGCTTTGCAGAAGGTGACATCAGAAAGAAGTTACTTTCGGACAATAGCGAATATGGATATAAAGGTGGATTTTGTTCCTCCATCCTTGATAAACTTTATTTCAAGGCAGCTCATTGGCAATGGTTTCAGACTTTATCAGAAGGTTGTGGCTTCTGTGATGAGCAGTGATAAAGAAGAATTCAGCAAGGCCTTGGGGGATCCATTGTATGCTAGAATTCGCAAGGCTCTATATAGCACGACTACTAGTGCATCAGAGGTTGCAAATAGCGGAGAGCTTCAACAAGTTGCAAAAATTCACCCTGCTGAATACCTTGTTGAAAGTAAACCAGGTGGAGAAAAAGATGCATCTGAAGAGGATAAAATAAGTCAATGTTCAAATAATGTCATGCCACTGACAATGGATGCAACCGTACGAGAAAATAGCAAAGCATTGAGTGAGATTGTAGAATTAGGTGAGGAAGAGATTATACAAAGTGTGGAGGATGATGAGAAAGTAAATGGCATTCCAATTCGAAATGAGAAAGTTGGTGCAATTGTACAAAAAGGATCGAGGAGTGTATCTATCAGCTCAGATGTCAAACAGGCTATAGAAACATTAGACAAGGCCATTTCAATGATTAGAGAATATCGATTACATTCTGATATGGCCTCGAGCAGCTTTGCCAAAGATGGGTCCCCTTGCATGGGAAAAATAGATAGAGTTGATTCATATTCGACAAGTATTGTTAAACCTTGTGATAAAAATGAGGTTAGAGTTGAGGTACCAAATAAAGATATATTGGAGGGAACTTCACAAGAAGCACGTTCGACACACTCTGGCATCCAAAACTTAAGGTATTCAGGAATAGATCCAAACTTAAAGGAAATAAATCCCAACAAAGTGATTCCAACTCTATCAGAGCGGAGTCTTGCCGGACCTACTGAGGCAAGCCAGGTTGGTTCATATTCTTTGGACAGTGGCGCGATTATGGACCAAACAACATGCCGAAACAAGCAACCGAACACTGATTTGGTCCAAGACATGTCTTCAGATGACAAAGTCAAGTCAAGAAGGCAGAAAAAAACTAACACCATTGTGACTCGAGGTATGTCTTCAAATGTACCAAAGAAGTTGAGTGGTTATAAAAAATATATGTGCTTTGGTTTTCTGCATTAA |
| Protein sequence |
>Msa0071250 MEKKRKIVQYRERLDKTLASPDLTNVEILKKLVKKYKEKFVEHKTAEISNFLDMLRSTSDDHGRSNTSQNDWKLKQDGEEFRVMYREGPEGTPFHTMLVEGFVDGPVDVCLCISWQTSLYKKWMKVSWPLSSREAVVHYYLFEYFQDDLIVVLTNSVPESKSIMGTLSGFNDDAIPEVKDVVRVDLVGGFALQKVTSERSYFRTIANMDIKVDFVPPSLINFISRQLIGNGFRLYQKVVASVMSSDKEEFSKALGDPLYARIRKALYSTTTSASEVANSGELQQVAKIHPAEYLVESKPGGEKDASEEDKISQCSNNVMPLTMDATVRENSKALSEIVELGEEEIIQSVEDDEKVNGIPIRNEKVGAIVQKGSRSVSISSDVKQAIETLDKAISMIREYRLHSDMASSSFAKDGSPCMGKIDRVDSYSTSIVKPCDKNEVRVEVPNKDILEGTSQEARSTHSGIQNLRYSGIDPNLKEINPNKVIPTLSERSLAGPTEASQVGSYSLDSGAIMDQTTCRNKQPNTDLVQDMSSDDKVKSRRQKKTNTIVTRGMSSNVPKKLSGYKKYMCFGFLH* |
