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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0649140 | AES89766.1 | 97.727 | 220 | 5 | 0 | 46 | 265 | 148 | 367 | 4.94e-154 | 447 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0649140 | 0.821469 | 3.971485e-53 | -8.615850e-47 |
| Msa0000220 | Msa0649140 | 0.882292 | 1.177449e-70 | -8.615850e-47 |
| Msa0001040 | Msa0649140 | 0.820456 | 6.792446e-53 | -8.615850e-47 |
| Msa0001420 | Msa0649140 | 0.850161 | 2.030194e-60 | -8.615850e-47 |
| Msa0001510 | Msa0649140 | 0.921071 | 5.725176e-88 | -8.615850e-47 |
| Msa0001540 | Msa0649140 | 0.889953 | 1.525449e-73 | -8.615850e-47 |
| Msa0002060 | Msa0649140 | 0.844230 | 8.598362e-59 | -8.615850e-47 |
| Msa0002110 | Msa0649140 | 0.831581 | 1.539555e-55 | -8.615850e-47 |
| Msa0002690 | Msa0649140 | 0.932715 | 5.611964e-95 | -8.615850e-47 |
| Msa0002700 | Msa0649140 | 0.927173 | 1.699553e-91 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0649140 | MtrunA17_Chr4g0041041 | 97.727 | 220 | 5 | 0 | 46 | 265 | 164 | 383 | 3.15e-157 | 446 |
| Msa0649140 | MtrunA17_Chr3g0131371 | 57.971 | 69 | 29 | 0 | 276 | 344 | 261 | 329 | 7.77e-19 | 87.4 |
| Msa0649140 | MtrunA17_Chr6g0469751 | 57.812 | 64 | 27 | 0 | 284 | 347 | 106 | 169 | 4.04e-15 | 73.6 |
| Msa0649140 | MtrunA17_Chr5g0446781 | 55.172 | 58 | 26 | 0 | 287 | 344 | 71 | 128 | 7.45e-15 | 72.8 |
| Msa0649140 | MtrunA17_Chr5g0431011 | 60.345 | 58 | 23 | 0 | 287 | 344 | 389 | 446 | 1.14e-13 | 72.0 |
| Msa0649140 | MtrunA17_Chr8g0359381 | 60.345 | 58 | 23 | 0 | 287 | 344 | 737 | 794 | 1.41e-13 | 72.0 |
| Msa0649140 | MtrunA17_Chr3g0085661 | 44.595 | 74 | 38 | 1 | 271 | 344 | 311 | 381 | 1.50e-12 | 68.6 |
| Msa0649140 | MtrunA17_Chr4g0002791 | 60.345 | 58 | 23 | 0 | 287 | 344 | 327 | 384 | 1.99e-12 | 68.2 |
| Msa0649140 | MtrunA17_Chr7g0231281 | 54.386 | 57 | 26 | 0 | 288 | 344 | 10 | 66 | 4.76e-12 | 64.3 |
Find 89 sgRNAs with CRISPR-Local
Find 331 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGATACATGCAAATG+GGG | 0.624426 | 4_3:-55733076 | Msa0649140:CDS |
| AACCAGCTTCCTTCAGTGTT+TGG | 0.362900 | 4_3:+55731887 | None:intergenic |
| AACCCTTGAACTCCGTGAAG+CGG | 0.571877 | 4_3:+55734755 | None:intergenic |
| AAGTAGTACTCGTCAAGAAA+GGG | 0.541395 | 4_3:+55731922 | None:intergenic |
| AATCAATTCTTACCAACCCT+AGG | 0.624884 | 4_3:-55731852 | Msa0649140:CDS |
| AATCCTACACTCCGCTACCA+AGG | 0.616626 | 4_3:+55729177 | None:intergenic |
| AATGAAGTTTGGCCGCTTCA+CGG | 0.489539 | 4_3:-55734767 | Msa0649140:CDS |
| ACAAGATCAAATGATTTAGA+AGG | 0.410624 | 4_3:+55733039 | None:intergenic |
| ACATGCAAATGGGGAAGACA+CGG | 0.570127 | 4_3:-55733067 | Msa0649140:CDS |
| ACATTCACTATGGCTCTTGC+AGG | 0.387189 | 4_3:+55732579 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTAAGATGACACATTAAGA+AGG | + | chr4_3:55729129-55729148 | None:intergenic | 30.0% | |
| CTTACAAGTCTCTTTATCAA+TGG | - | chr4_3:55729143-55729162 | Msa0649140:CDS | 30.0% | |
| CACTTGTTCTAATGAATAGT+TGG | - | chr4_3:55729194-55729213 | Msa0649140:CDS | 30.0% | |
| TCAAAAGTTGTAACTCTTCA+TGG | - | chr4_3:55729395-55729414 | Msa0649140:intron | 30.0% | |
| CAAAAGTTGTAACTCTTCAT+GGG | - | chr4_3:55729396-55729415 | Msa0649140:intron | 30.0% | |
| TGGGAATCATTCATATACAT+TGG | - | chr4_3:55729415-55729434 | Msa0649140:intron | 30.0% | |
| ATACACTTGAATCAATGCAA+AGG | + | chr4_3:55729528-55729547 | None:intergenic | 30.0% | |
| ATTAAACATCCCTTTGTCAA+AGG | + | chr4_3:55729561-55729580 | None:intergenic | 30.0% | |
| ACTATAAATGCTTGGCATTT+GGG | - | chr4_3:55729643-55729662 | Msa0649140:intron | 30.0% | |
| ACTGTATATTGGATGCAATA+AGG | + | chr4_3:55729870-55729889 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 55729051 | 55734788 | 55729051 | ID=Msa0649140;Name=Msa0649140 |
| chr4_3 | mRNA | 55729051 | 55734788 | 55729051 | ID=Msa0649140-mRNA-1;Parent=Msa0649140;Name=Msa0649140-mRNA-1;_AED=0.56;_eAED=0.56;_QI=0|0.57|0.5|0.75|1|1|8|0|351 |
| chr4_3 | exon | 55734758 | 55734788 | 55734758 | ID=Msa0649140-mRNA-1:exon:14368;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55733759 | 55733862 | 55733759 | ID=Msa0649140-mRNA-1:exon:14367;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55733278 | 55733511 | 55733278 | ID=Msa0649140-mRNA-1:exon:14366;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55733023 | 55733175 | 55733023 | ID=Msa0649140-mRNA-1:exon:14365;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55732518 | 55732613 | 55732518 | ID=Msa0649140-mRNA-1:exon:14364;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55732413 | 55732433 | 55732413 | ID=Msa0649140-mRNA-1:exon:14363;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55731831 | 55731986 | 55731831 | ID=Msa0649140-mRNA-1:exon:14362;Parent=Msa0649140-mRNA-1 |
| chr4_3 | exon | 55729051 | 55729311 | 55729051 | ID=Msa0649140-mRNA-1:exon:14361;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55734758 | 55734788 | 55734758 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55733759 | 55733862 | 55733759 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55733278 | 55733511 | 55733278 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55733023 | 55733175 | 55733023 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55732518 | 55732613 | 55732518 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55732413 | 55732433 | 55732413 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55731831 | 55731986 | 55731831 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| chr4_3 | CDS | 55729051 | 55729311 | 55729051 | ID=Msa0649140-mRNA-1:cds;Parent=Msa0649140-mRNA-1 |
| Gene Sequence |
>Msa0649140 ATGAAGTTTGGCCGCTTCACGGAGTTCAAGGGTTTCAAATATAGCAGCATCTTCCCAACAATCAAGATATACAACAAATATTTGGAATTTATGTGCACACTTCATCATAGTCATCTTCATCATCTTCTTGGTCAAGCAGCAGCAGAAGCCGAGGCTGCTACTAAGTCAATGGCAAGACGAGCGATTCCTACCGCTTCATCAGTAGAAGAAGCGACGCAGATAATGCGTGACAATTGGCTTAATGCAATTGAACAACATCATCTACAGCATTCACAAACATCTATGATTGGTGACATTCTAGACATTGGATGTTCTGTGGGAGTAAGCTCAAGATTTCTTGCGGACAAGTTCCCTACGGCCAATGTCATTGGGCTAGATATGTCACCCTATTTTCTAGCTGTGGCTCAGCATAAGGAAAAGAGCGGAACGCCTAGAAAAAATCCTATAAAATGGATACATGCAAATGGGGAAGACACGGGCTTGCCTTCTAAATCATTTGATCTTGTGTCTATTTCTTATGTGTTTCATGAATGTCCTGCAAGAGCCATAGTGAATGTAGTAAAGGAAGCATTCCGTCTCCTTCGGCCTGGAGGCACGTTTGCTATGACAGATAATTCGCCAAAGTCAAAGGTCCTACAGGAGTTGTCTCCTGTCCTGTTTACATTGATGAAGAGCACAGAACCCTTTCTTGACGAGTACTACTTGACTGATATGGACCAAACACTGAAGGAAGCTGGTTTCGTGAACATAAAATCAATTCTTACCAACCCTAGGCACGTGACTTTAACGGCTACTGCATCAGGTCTTAAATGTTTAAGAGCTCATGTAGAAGATAGTTATAATAACTTTTTAAAAAGAGGTGGGGAGGCTTGGAAGTGGAGGAGGAGGTTATGGGCGTGGGAGGAGGCCTTGGTAGCGGAGTGTAGGATTTTATTACTCATTGTGGTGTTGCAGGTGGATATTGATGATGTGTGGATCTGGTCACATGATCCAGTTGGTGGGTACTCTGTTAGTGGAGCTTACCGTTTACTTAGAGATAGGAGGCCTACTCCTTAG |
| Protein sequence |
>Msa0649140 MKFGRFTEFKGFKYSSIFPTIKIYNKYLEFMCTLHHSHLHHLLGQAAAEAEAATKSMARRAIPTASSVEEATQIMRDNWLNAIEQHHLQHSQTSMIGDILDIGCSVGVSSRFLADKFPTANVIGLDMSPYFLAVAQHKEKSGTPRKNPIKWIHANGEDTGLPSKSFDLVSISYVFHECPARAIVNVVKEAFRLLRPGGTFAMTDNSPKSKVLQELSPVLFTLMKSTEPFLDEYYLTDMDQTLKEAGFVNIKSILTNPRHVTLTATASGLKCLRAHVEDSYNNFLKRGGEAWKWRRRLWAWEEALVAECRILLLIVVLQVDIDDVWIWSHDPVGGYSVSGAYRLLRDRRPTP* |
