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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436970 | XP_003601359.2 | 85.102 | 490 | 14 | 4 | 1 | 431 | 2 | 491 | 0.0 | 828 |
| Msa0436970 | XP_003601359.2 | 95.098 | 102 | 5 | 0 | 427 | 528 | 554 | 655 | 4.18e-56 | 209 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436970 | sp|Q9M0X5|CRK25_ARATH | 37.778 | 495 | 226 | 10 | 9 | 430 | 11 | 496 | 5.39e-95 | 306 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0371900 | Msa0436970 | 0.812877 | 3.398602e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436970 | MtrunA17_Chr3g0119041 | 85.102 | 490 | 14 | 4 | 1 | 431 | 2 | 491 | 0.0 | 828 |
| Msa0436970 | MtrunA17_Chr3g0119041 | 95.098 | 102 | 5 | 0 | 427 | 528 | 554 | 655 | 3.84e-60 | 209 |
| Msa0436970 | MtrunA17_Chr1g0206231 | 42.405 | 474 | 195 | 9 | 27 | 431 | 33 | 497 | 9.38e-112 | 346 |
| Msa0436970 | MtrunA17_Chr1g0206231 | 51.111 | 90 | 44 | 0 | 427 | 516 | 560 | 649 | 4.54e-23 | 103 |
| Msa0436970 | MtrunA17_Chr1g0205771 | 42.672 | 464 | 202 | 10 | 25 | 430 | 36 | 493 | 4.19e-106 | 332 |
| Msa0436970 | MtrunA17_Chr1g0205771 | 47.126 | 87 | 46 | 0 | 427 | 513 | 557 | 643 | 5.02e-19 | 90.9 |
| Msa0436970 | MtrunA17_Chr5g0428571 | 43.765 | 425 | 203 | 9 | 40 | 437 | 40 | 455 | 6.49e-102 | 317 |
| Msa0436970 | MtrunA17_Chr1g0206461 | 40.947 | 486 | 222 | 12 | 10 | 437 | 12 | 490 | 1.25e-100 | 317 |
| Msa0436970 | MtrunA17_Chr6g0474861 | 42.444 | 450 | 227 | 11 | 1 | 431 | 1 | 437 | 3.34e-99 | 312 |
| Msa0436970 | MtrunA17_Chr1g0206531 | 41.079 | 482 | 212 | 13 | 13 | 430 | 14 | 487 | 1.21e-96 | 307 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436970 | AT4G05200.1 | 37.778 | 495 | 226 | 10 | 9 | 430 | 11 | 496 | 5.48e-96 | 306 |
| Msa0436970 | AT4G05200.2 | 37.778 | 495 | 226 | 10 | 9 | 430 | 29 | 514 | 7.23e-96 | 306 |
| Msa0436970 | AT4G23230.1 | 39.224 | 464 | 207 | 10 | 34 | 430 | 31 | 486 | 2.12e-92 | 295 |
| Msa0436970 | AT4G23230.1 | 41.429 | 70 | 41 | 0 | 431 | 500 | 554 | 623 | 2.33e-13 | 73.2 |
| Msa0436970 | AT4G23130.1 | 38.958 | 480 | 210 | 12 | 28 | 437 | 30 | 496 | 4.25e-88 | 285 |
| Msa0436970 | AT4G23130.1 | 38.372 | 86 | 52 | 1 | 423 | 507 | 549 | 634 | 1.22e-13 | 74.3 |
| Msa0436970 | AT4G23220.1 | 36.660 | 491 | 225 | 11 | 15 | 430 | 6 | 485 | 1.13e-86 | 281 |
| Msa0436970 | AT4G23220.1 | 43.421 | 76 | 43 | 0 | 427 | 502 | 550 | 625 | 5.29e-14 | 75.1 |
| Msa0436970 | AT4G23270.2 | 36.570 | 484 | 243 | 8 | 12 | 437 | 5 | 482 | 7.45e-82 | 268 |
| Msa0436970 | AT4G23270.1 | 36.570 | 484 | 243 | 8 | 12 | 437 | 5 | 482 | 7.45e-82 | 268 |
Find 74 sgRNAs with CRISPR-Local
Find 157 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAATGTCAGGTCGACCA+AGG | 0.648972 | 3_2:-90920953 | Msa0436970:CDS |
| AAAGCAATTGTTGCCATTGT+TGG | 0.354321 | 3_2:+90921068 | None:intergenic |
| AAATAAGCAATTGGAATTAT+TGG | 0.154859 | 3_2:-90921183 | Msa0436970:CDS |
| AAATTCAAGTCAAGGAGCTG+TGG | 0.605065 | 3_2:-90922358 | Msa0436970:CDS |
| AAGATAGGGGAAGGTGGTTT+TGG | 0.235547 | 3_2:-90922534 | Msa0436970:CDS |
| AAGATTTCTGTGTTGAAGCT+TGG | 0.463237 | 3_2:+90922308 | None:intergenic |
| AAGGGCTCAATGGATTATGA+AGG | 0.597972 | 3_2:-90923312 | Msa0436970:CDS |
| AATGCAAAGATATCAGATTT+TGG | 0.213835 | 3_2:-90921939 | Msa0436970:CDS |
| AATGCTAAATTCTTTGATGC+TGG | 0.425216 | 3_2:-90923268 | Msa0436970:CDS |
| AATGGCGGCTGTTGAGGTAG+TGG | 0.530511 | 3_2:+90921017 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTATGGTTGTGCAATTGTAA+TGG | + | chr3_2:90921021-90921040 | None:intergenic | 30.0% | |
| AGTACAATCGATGAAAAAGA+AGG | - | chr3_2:90921142-90921161 | Msa0436970:CDS | 30.0% | |
| ATAGGATACACAAATAACTG+TGG | - | chr3_2:90921190-90921209 | Msa0436970:CDS | 30.0% | |
| TATTCTGATCGATCTTTCTT+CGG | - | chr3_2:90921304-90921323 | Msa0436970:intron | 30.0% | |
| AATGCTAAATTCTTTGATGC+TGG | - | chr3_2:90921402-90921421 | Msa0436970:intron | 30.0% | |
| TCAAGCTATTAAAGCTTCAA+CGG | - | chr3_2:90921468-90921487 | Msa0436970:intron | 30.0% | |
| TTTGAGGACAAATTCTTGTA+TGG | - | chr3_2:90921529-90921548 | Msa0436970:intron | 30.0% | |
| TGTGCTAAAAGAAAGATTAG+AGG | - | chr3_2:90921634-90921653 | Msa0436970:intron | 30.0% | |
| TCATATCTAACAACACAACT+TGG | + | chr3_2:90921673-90921692 | None:intergenic | 30.0% | |
| GGTAATGATATTTGTGATGT+AGG | - | chr3_2:90922243-90922262 | Msa0436970:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 90920929 | 90923763 | 90920929 | ID=Msa0436970;Name=Msa0436970 |
| chr3_2 | mRNA | 90920929 | 90923763 | 90920929 | ID=Msa0436970-mRNA-1;Parent=Msa0436970;Name=Msa0436970-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0|0|0|1|0.42|0.37|8|0|528 |
| chr3_2 | exon | 90923517 | 90923763 | 90923517 | ID=Msa0436970-mRNA-1:exon:27171;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90923263 | 90923498 | 90923263 | ID=Msa0436970-mRNA-1:exon:27170;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90923034 | 90923235 | 90923034 | ID=Msa0436970-mRNA-1:exon:27169;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90922803 | 90922883 | 90922803 | ID=Msa0436970-mRNA-1:exon:27168;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90922521 | 90922645 | 90922521 | ID=Msa0436970-mRNA-1:exon:27167;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90922217 | 90922427 | 90922217 | ID=Msa0436970-mRNA-1:exon:27166;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90921926 | 90922113 | 90921926 | ID=Msa0436970-mRNA-1:exon:27165;Parent=Msa0436970-mRNA-1 |
| chr3_2 | exon | 90920929 | 90921225 | 90920929 | ID=Msa0436970-mRNA-1:exon:27164;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90923517 | 90923763 | 90923517 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90923263 | 90923498 | 90923263 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90923034 | 90923235 | 90923034 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90922803 | 90922883 | 90922803 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90922521 | 90922645 | 90922521 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90922217 | 90922427 | 90922217 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90921926 | 90922113 | 90921926 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| chr3_2 | CDS | 90920929 | 90921225 | 90920929 | ID=Msa0436970-mRNA-1:cds;Parent=Msa0436970-mRNA-1 |
| Gene Sequence |
>Msa0436970 ATGGCTTACAATCTGAAACAGAAACTGTTCTCAATTACTCTTCTGTTCTGCATAATTTTTTCACCAACTGAAACAGCATCAACATTCAGCCATTACAATTGCACAACCATAAAAAAGTTTAGTCCAAAAAGCACTTACCAAACCAATCTAACCACACTCTTATCAACACTTTCTTCCAAAGCACTCAACCATGGCTACTACAACACTAGTATTAGTACAATCGATGAAAAAGAAGGCGCTATCTATGGATACACAAATAACTGTGGAGAATGTGTTAAAAACTCTACCAAAATACTTACCTCAATGTGTACCTTAAATAAAGAAGCTATAATTTGGTCTGATGAATGCTTAGTGCGTTATTCTGATCGATCTTTCTTCGGCACTTTGGAAGAATCTCCGTCATGGTGTGTGAAGGGCTCAATGGATTATGAAGGTCCATTGAAAGGATTCAACAAAATGCTAAATTCTTTGATGCTGGAACTTAAGCCTGTAACTCAAGCTATTAAAGCTTCAACGGGAAATTCTATCAAATTTGTTCTCAAGAGAGCAATTTTCTTTGAGGACAAATTCTTGTATGGCCTTGCTCAATGCATACCAAATCTCTCTAATGATAATTGCATGCAGTGTTTAAATGATGCTATAAATTATCTGCAAACCTCATGTGCTAAAAGAAAGATTAGAGGAATAAAAAGCGAGGAAAATGAAGAACAATCATTTAAAATATTTTTTCACGTTCTTGCTCCTGTCATGATTTGCTCGGTTGCGGTTGGGGAAGAGATTACATCAGAAGTGAACTCTCTGCAATTTGATTTCGATATGATTCGACTAGCAACAAACAAGTTCTCTGAAGATAACAAGATAGGGGAAGGTGGTTTTGGAGATGTTTACAAGGGAATGTTTCCTAATGGATATGAAATAGCAGTAAAGAGGCTCATAAGAAATTCAAGTCAAGGAGCTGTGGAATTTAAGAATGAGGTATTGTTAATAGCCAAGCTTCAACACAGAAATCTTGTGAGATTGTTAGGATTTTGCATTCAAAGGAATGAGAAGATACTCATTTATGAATATATGCACAACAAAAGCCTTGATTATTACCTATTCAGTCCTGAGAACCATAGAAAATTAACTTGGCATGCACGCTACAAGATTATAAGAGGGATTGCACGAGGTATTCTTTATCTACATGAGGATTCTCATCTGAAAATCATACACTGTGATCTTAAACCCAGCAACATTTTGTTGGATGACAAAATGAATGCAAAGATATCAGATTTTGGCTTGGCAAGGATTGCATGGAAGAAATGGACTGAAAATAAGCAATTGGAATTATTGGATCCTGCATTGACATACTCATTTTCAGAAACAGAAGTCAATCGGTGCATACAACTTGGTCTACTATGTGTGCAAGAAAATCCAGATCAGAGGCCAACAATGGCAACAATTGCTTTGTATTTCAATATTGATTCAATTGATCTGCCACTACCTCAACAGCCGCCATTTTACATGCGTGGAAAAATAGAATCAAAGGTGGCTAGTAAAAAAACAATGTCAGGTCGACCAAGGAGTTATTCAGTGACAAGGTTTTAA |
| Protein sequence |
>Msa0436970 MAYNLKQKLFSITLLFCIIFSPTETASTFSHYNCTTIKKFSPKSTYQTNLTTLLSTLSSKALNHGYYNTSISTIDEKEGAIYGYTNNCGECVKNSTKILTSMCTLNKEAIIWSDECLVRYSDRSFFGTLEESPSWCVKGSMDYEGPLKGFNKMLNSLMLELKPVTQAIKASTGNSIKFVLKRAIFFEDKFLYGLAQCIPNLSNDNCMQCLNDAINYLQTSCAKRKIRGIKSEENEEQSFKIFFHVLAPVMICSVAVGEEITSEVNSLQFDFDMIRLATNKFSEDNKIGEGGFGDVYKGMFPNGYEIAVKRLIRNSSQGAVEFKNEVLLIAKLQHRNLVRLLGFCIQRNEKILIYEYMHNKSLDYYLFSPENHRKLTWHARYKIIRGIARGILYLHEDSHLKIIHCDLKPSNILLDDKMNAKISDFGLARIAWKKWTENKQLELLDPALTYSFSETEVNRCIQLGLLCVQENPDQRPTMATIALYFNIDSIDLPLPQQPPFYMRGKIESKVASKKTMSGRPRSYSVTRF* |
