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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0537960 | XP_039689406.1 | 91.975 | 324 | 24 | 2 | 97 | 419 | 37 | 359 | 0.0 | 597 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0537960 | A0A396I089 | 91.975 | 324 | 24 | 2 | 97 | 419 | 70 | 392 | 0.0 | 597 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0537960 | 0.804944 | 1.693419e-49 | -8.615850e-47 |
| Msa0000220 | Msa0537960 | 0.819608 | 1.062275e-52 | -8.615850e-47 |
| Msa0000610 | Msa0537960 | 0.838662 | 2.516735e-57 | -8.615850e-47 |
| Msa0000800 | Msa0537960 | -0.824838 | 6.498733e-54 | -8.615850e-47 |
| Msa0001040 | Msa0537960 | 0.807359 | 5.254668e-50 | -8.615850e-47 |
| Msa0001510 | Msa0537960 | 0.899805 | 1.376885e-77 | -8.615850e-47 |
| Msa0001540 | Msa0537960 | 0.811462 | 6.918030e-51 | -8.615850e-47 |
| Msa0002110 | Msa0537960 | 0.848817 | 4.811671e-60 | -8.615850e-47 |
| Msa0002690 | Msa0537960 | 0.880309 | 6.105112e-70 | -8.615850e-47 |
| Msa0002700 | Msa0537960 | 0.877457 | 6.187228e-69 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0537960 | MtrunA17_Chr4g0000231 | 91.975 | 324 | 24 | 2 | 97 | 419 | 70 | 392 | 0.0 | 597 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0537960 | AT1G78915.1 | 58.867 | 406 | 137 | 7 | 22 | 419 | 1 | 384 | 2.20e-158 | 452 |
| Msa0537960 | AT1G78915.2 | 56.501 | 423 | 137 | 7 | 22 | 419 | 1 | 401 | 2.60e-155 | 445 |
| Msa0537960 | AT1G78915.3 | 56.103 | 426 | 137 | 7 | 22 | 419 | 1 | 404 | 6.98e-155 | 444 |
Find 97 sgRNAs with CRISPR-Local
Find 296 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACATTGGAGATGCTGAG+AGG | 0.689706 | 4_1:+17063325 | Msa0537960:CDS |
| AAATATCCACGAAAATCATC+AGG | 0.401839 | 4_1:-17062931 | None:intergenic |
| AACAATTGGCTTTGCTACCA+AGG | 0.510682 | 4_1:+17059648 | Msa0537960:CDS |
| AACGCCTCAACGCTATTAAA+AGG | 0.279505 | 4_1:+17059460 | Msa0537960:CDS |
| AATATCCACGAAAATCATCA+GGG | 0.664165 | 4_1:-17062930 | None:intergenic |
| AATCTGGCAGAGTAGGCTTA+AGG | 0.480849 | 4_1:+17060223 | Msa0537960:intron |
| AATTCTCGTGGCTTCGGAGG+AGG | 0.473229 | 4_1:+17059078 | Msa0537960:CDS |
| ACAAACCTCATCTGGCTTCT+TGG | 0.302807 | 4_1:-17061294 | None:intergenic |
| ACAGGCTGTTCAATTACTTT+TGG | 0.317877 | 4_1:+17061507 | Msa0537960:intron |
| ACATTAAACAGAAGGAAGGA+AGG | 0.620796 | 4_1:+17058940 | Msa0537960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTTTAATGTAGTAGTGACA+TGG | - | chr4_1:17058930-17058949 | None:intergenic | 30.0% | |
| TCACTACTACATTAAACAGA+AGG | + | chr4_1:17058932-17058951 | Msa0537960:CDS | 30.0% | |
| TACTACATTAAACAGAAGGA+AGG | + | chr4_1:17058936-17058955 | Msa0537960:CDS | 30.0% | |
| TCACGAATGAATCAATGATA+AGG | - | chr4_1:17058969-17058988 | None:intergenic | 30.0% | |
| GCAGAAGAGAATAAACAATT+TGG | + | chr4_1:17059574-17059593 | Msa0537960:CDS | 30.0% | |
| CATGTAAATGAACATGATGA+GGG | - | chr4_1:17059820-17059839 | None:intergenic | 30.0% | |
| CAATGATAAATTGTCAGAGA+AGG | + | chr4_1:17059914-17059933 | Msa0537960:CDS | 30.0% | |
| AAAGAAGATTATTGCCAGAA+GGG | - | chr4_1:17059981-17060000 | None:intergenic | 30.0% | |
| AAAAGAAGATTATTGCCAGA+AGG | - | chr4_1:17059982-17060001 | None:intergenic | 30.0% | |
| ACAAGGAAAGGAAACAAAAT+AGG | - | chr4_1:17060015-17060034 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 17058845 | 17063983 | 17058845 | ID=Msa0537960;Name=Msa0537960 |
| chr4_1 | mRNA | 17058845 | 17063983 | 17058845 | ID=Msa0537960-mRNA-1;Parent=Msa0537960;Name=Msa0537960-mRNA-1;_AED=0.11;_eAED=0.11;_QI=77|1|1|1|0.92|0.85|14|231|419 |
| chr4_1 | exon | 17058845 | 17059178 | 17058845 | ID=Msa0537960-mRNA-1:exon:5006;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17059287 | 17059312 | 17059287 | ID=Msa0537960-mRNA-1:exon:5007;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17059406 | 17059481 | 17059406 | ID=Msa0537960-mRNA-1:exon:5008;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17059552 | 17059740 | 17059552 | ID=Msa0537960-mRNA-1:exon:5009;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17059890 | 17059953 | 17059890 | ID=Msa0537960-mRNA-1:exon:5010;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17060233 | 17060295 | 17060233 | ID=Msa0537960-mRNA-1:exon:5011;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17060365 | 17060436 | 17060365 | ID=Msa0537960-mRNA-1:exon:5012;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17060784 | 17060885 | 17060784 | ID=Msa0537960-mRNA-1:exon:5013;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17061236 | 17061310 | 17061236 | ID=Msa0537960-mRNA-1:exon:5014;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17061511 | 17061615 | 17061511 | ID=Msa0537960-mRNA-1:exon:5015;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17062844 | 17062960 | 17062844 | ID=Msa0537960-mRNA-1:exon:5016;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17063303 | 17063359 | 17063303 | ID=Msa0537960-mRNA-1:exon:5017;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17063509 | 17063723 | 17063509 | ID=Msa0537960-mRNA-1:exon:5018;Parent=Msa0537960-mRNA-1 |
| chr4_1 | exon | 17063911 | 17063983 | 17063911 | ID=Msa0537960-mRNA-1:exon:5019;Parent=Msa0537960-mRNA-1 |
| chr4_1 | five_prime_UTR | 17058845 | 17058921 | 17058845 | ID=Msa0537960-mRNA-1:five_prime_utr;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17058922 | 17059178 | 17058922 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17059287 | 17059312 | 17059287 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17059406 | 17059481 | 17059406 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17059552 | 17059740 | 17059552 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17059890 | 17059953 | 17059890 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17060233 | 17060295 | 17060233 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17060365 | 17060436 | 17060365 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17060784 | 17060885 | 17060784 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17061236 | 17061310 | 17061236 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17061511 | 17061615 | 17061511 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17062844 | 17062960 | 17062844 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17063303 | 17063359 | 17063303 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | CDS | 17063509 | 17063565 | 17063509 | ID=Msa0537960-mRNA-1:cds;Parent=Msa0537960-mRNA-1 |
| chr4_1 | three_prime_UTR | 17063566 | 17063723 | 17063566 | ID=Msa0537960-mRNA-1:three_prime_utr;Parent=Msa0537960-mRNA-1 |
| chr4_1 | three_prime_UTR | 17063911 | 17063983 | 17063911 | ID=Msa0537960-mRNA-1:three_prime_utr;Parent=Msa0537960-mRNA-1 |
| Gene Sequence |
>Msa0537960 ATGTGCCATGTCACTACTACATTAAACAGAAGGAAGGAAGGAAACCTTATCATTGATTCATTCGTGATGTGGACTGCAATGTCCATCGGAAGCATCAACTGCAACGGTGGTTTGCTCCCGGTTCGAAGAATAATAATAAAAAATTGCTCGGATTCAAATTCTCGTGGCTTCGGAGGAGGTGCAGATAACAATAACAATAAAGTTGCTGCTGCTGCTGATAAGAAGAAGAAGAAGAAGCAGCAGCAGCAGCAGCAAGGGAAATCATCCACCAAACAGTCTCCTAAGCCGGCACCGCTTTTAACTTCACAGGTTGATGCTACAGACATTGACTTTCAGGAACGCCTCAACGCTATTAAAAGGTCAGCACTTGAGCAAAAGAAGGCAGAAGAGAATAAACAATTTGGACCAATTGACTATGATGCACCTATTTCTATTTCTTCAGAGTCAGACAACAAAACAATTGGCTTTGCTACCAAGGTTGGAATAGGTGTAGCTGTTGCAGTCTTTGGTCTCGTTTTTGCTCTTGGAGATTTTCTCCCATCAGGAAGTCCCAACCAAGACAGTGCTGTGGTCAATGATAAATTGTCAGAGAAGGATAAAGCTGCTCTTCAGAGTAGGCTTAAGGAATTTGAAGCAACATTAAGTAACTCCCCAAGAGATCCAACTGCTCTCGAAGGAGCTGCAGTAACTTTGGCAGAACTAGGAGAGTATCCAAGAGCTGCTTCTCTACTTGATGATTTGACAAAGGAAAAACCAAATGATGCTGATGCTTTTCGTTTGCTTGGAGAAGTAAAATATGAACTCAAAGATTATGAAGGGAGTGTTGCTGCATATAAAAGTTCAGCAAAGGTATCTGAAGATATCAAATTTGAAGTTCTTCGTGGCCTTACCAATTCATTACTTGCTGCCAAGAAGCCAGATGAGGCTGTTCAATTACTTTTGGCCTGCCGTGAGCGTCTGAGTTCAGAAGACTTCAGCAGAAAATCTGATAGCAGCCCAACAGACTCACAGAAACTGGATCCAATTCAAGTTGAATTACTTCTAGGGAAAGCCTATTCAGACTGGGGCCACGTCGGTGATGCCATAGCTATTTACGATCAGCTCATATCAACTCACCCTGATGATTTTCGTGGATATTTAGCCAAGGGAATTATCCTAAAAGAAAACAAAAACATTGGAGATGCTGAGAGGATGTTCATTCAAGCTAGGTTCTTTGCACCAGATAAAGCTAAAGCACTCGTGGACCGTTATTCAAGATAA |
| Protein sequence |
>Msa0537960 MCHVTTTLNRRKEGNLIIDSFVMWTAMSIGSINCNGGLLPVRRIIIKNCSDSNSRGFGGGADNNNNKVAAAADKKKKKKQQQQQQGKSSTKQSPKPAPLLTSQVDATDIDFQERLNAIKRSALEQKKAEENKQFGPIDYDAPISISSESDNKTIGFATKVGIGVAVAVFGLVFALGDFLPSGSPNQDSAVVNDKLSEKDKAALQSRLKEFEATLSNSPRDPTALEGAAVTLAELGEYPRAASLLDDLTKEKPNDADAFRLLGEVKYELKDYEGSVAAYKSSAKVSEDIKFEVLRGLTNSLLAAKKPDEAVQLLLACRERLSSEDFSRKSDSSPTDSQKLDPIQVELLLGKAYSDWGHVGDAIAIYDQLISTHPDDFRGYLAKGIILKENKNIGDAERMFIQARFFAPDKAKALVDRYSR* |
