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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0942080 | XP_013451336.1 | 100.000 | 447 | 0 | 0 | 1 | 447 | 1 | 447 | 0.0 | 918 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0942080 | sp|O64937|EF1A_ORYSJ | 96.868 | 447 | 14 | 0 | 1 | 447 | 1 | 447 | 0.0 | 901 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000550 | Msa0942080 | 0.808589 | 2.875549e-50 | -8.615850e-47 |
| Msa0004790 | Msa0942080 | 0.852572 | 4.228342e-61 | -8.615850e-47 |
| Msa0013050 | Msa0942080 | 0.804258 | 2.355289e-49 | -8.615850e-47 |
| Msa0014710 | Msa0942080 | -0.806196 | 9.250788e-50 | -8.615850e-47 |
| Msa0017510 | Msa0942080 | -0.801447 | 8.965549e-49 | -8.615850e-47 |
| Msa0024210 | Msa0942080 | 0.821262 | 4.434127e-53 | -8.615850e-47 |
| Msa0029850 | Msa0942080 | -0.838130 | 3.453226e-57 | -8.615850e-47 |
| Msa0033440 | Msa0942080 | -0.841510 | 4.548882e-58 | -8.615850e-47 |
| Msa0037880 | Msa0942080 | -0.803491 | 3.399692e-49 | -8.615850e-47 |
| Msa0039330 | Msa0942080 | -0.802183 | 6.329852e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0942080 | MtrunA17_Chr6g0458111 | 100.000 | 447 | 0 | 0 | 1 | 447 | 1 | 447 | 0.0 | 918 |
| Msa0942080 | MtrunA17_Chr6g0458091 | 100.000 | 447 | 0 | 0 | 1 | 447 | 1 | 447 | 0.0 | 918 |
| Msa0942080 | MtrunA17_Chr1g0200071 | 96.652 | 448 | 14 | 1 | 1 | 447 | 1 | 448 | 0.0 | 895 |
| Msa0942080 | MtrunA17_Chr1g0200091 | 96.652 | 448 | 14 | 1 | 1 | 447 | 1 | 448 | 0.0 | 895 |
| Msa0942080 | MtrunA17_Chr1g0200121 | 96.429 | 448 | 15 | 1 | 1 | 447 | 1 | 448 | 0.0 | 895 |
| Msa0942080 | MtrunA17_Chr4g0005781 | 95.302 | 447 | 21 | 0 | 1 | 447 | 1 | 447 | 0.0 | 891 |
| Msa0942080 | MtrunA17_Chr1g0150331 | 88.470 | 451 | 22 | 3 | 1 | 447 | 1 | 425 | 0.0 | 805 |
| Msa0942080 | MtrunA17_Chr1g0193591 | 81.336 | 434 | 81 | 0 | 1 | 434 | 1 | 434 | 0.0 | 739 |
| Msa0942080 | MtrunA17_Chr1g0204031 | 80.182 | 439 | 82 | 3 | 1 | 439 | 1 | 434 | 0.0 | 726 |
| Msa0942080 | MtrunA17_Chr1g0156421 | 78.802 | 434 | 92 | 0 | 1 | 434 | 1 | 434 | 0.0 | 724 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0942080 | AT1G07920.1 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT1G07940.4 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT1G07940.1 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT1G07940.2 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT1G07940.3 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT5G60390.3 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT5G60390.1 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT5G60390.2 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT1G07930.1 | 95.516 | 446 | 20 | 0 | 1 | 446 | 1 | 446 | 0.0 | 890 |
| Msa0942080 | AT1G07930.2 | 98.824 | 255 | 3 | 0 | 1 | 255 | 1 | 255 | 0.0 | 530 |
Find 156 sgRNAs with CRISPR-Local
Find 908 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCGGAGATTGGAACGAA+TGG | 0.520045 | 6_3:-16317641 | None:intergenic |
| AAACTTCACAGCAATGTGAG+AGG | 0.653594 | 6_3:-16318134 | None:intergenic |
| AACAACTTGTGAAGTAACCA+TGG | 0.627034 | 6_3:-16318428 | None:intergenic |
| AACCGGAGATTGGAACGAAT+GGG | 0.531600 | 6_3:-16317640 | None:intergenic |
| AACTTCAGTTGTCAAACCAG+TGG | 0.589445 | 6_3:-16317885 | None:intergenic |
| AACTTGATAAGCCAAATTGC+AGG | 0.414820 | 6_3:-16329584 | None:intergenic |
| AACTTGTGAAGTAACCATGG+AGG | 0.700696 | 6_3:-16318425 | None:intergenic |
| AACTTGTTACCAAGATCGAC+AGG | 0.569913 | 6_3:+16318161 | Msa0942080:CDS |
| AAGATAACAAACTATTAAAA+AGG | 0.305342 | 6_3:-16318451 | None:intergenic |
| AAGCCTGAGGGGCTTGTCTG+TGG | 0.432212 | 6_3:-16317762 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCGATTTATGCTTGTAATCT+TGG | + | chr6_3:16316198-16316217 | Msa0942080:intron | 30.0% | |
| CTATCATTTCAGACAAGAAT+CGG | - | chr6_3:16316338-16316357 | None:intergenic | 30.0% | |
| TGTAACTAATAACAAGTGTC+TGG | + | chr6_3:16316520-16316539 | Msa0942080:intron | 30.0% | |
| TTCATCAAGAACATGATTAC+TGG | + | chr6_3:16317272-16317291 | Msa0942080:CDS | 30.0% | |
| ATCTTGTAAACATCTTGCAA+TGG | - | chr6_3:16317788-16317807 | None:intergenic | 30.0% | |
| TTGCAAGATGTTTACAAGAT+TGG | + | chr6_3:16317788-16317807 | Msa0942080:CDS | 30.0% | |
| TAAGAGTCTTGAGTTTCAAA+AGG | + | chr6_3:16318579-16318598 | Msa0942080:intron | 30.0% | |
| ATATTGTCCTTGATTGTTTG+TGG | + | chr6_3:16318720-16318739 | Msa0942080:intron | 30.0% | |
| AAAGAAATTCACTACAGTCT+AGG | + | chr6_3:16318916-16318935 | Msa0942080:intron | 30.0% | |
| TCTAATCTCTCTTAACTGTT+TGG | + | chr6_3:16319157-16319176 | Msa0942080:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 16315947 | 16329657 | 16315947 | ID=Msa0942080;Name=Msa0942080 |
| chr6_3 | mRNA | 16315947 | 16329657 | 16315947 | ID=Msa0942080-mRNA-1;Parent=Msa0942080;Name=Msa0942080-mRNA-1;_AED=0.27;_eAED=0.27;_QI=100|1|1|1|0.25|0|5|469|447 |
| chr6_3 | exon | 16315947 | 16316034 | 16315947 | ID=Msa0942080-mRNA-1:exon:5024;Parent=Msa0942080-mRNA-1 |
| chr6_3 | exon | 16316969 | 16317442 | 16316969 | ID=Msa0942080-mRNA-1:exon:5025;Parent=Msa0942080-mRNA-1 |
| chr6_3 | exon | 16317539 | 16318555 | 16317539 | ID=Msa0942080-mRNA-1:exon:5026;Parent=Msa0942080-mRNA-1 |
| chr6_3 | exon | 16319461 | 16319490 | 16319461 | ID=Msa0942080-mRNA-1:exon:5027;Parent=Msa0942080-mRNA-1 |
| chr6_3 | exon | 16329354 | 16329657 | 16329354 | ID=Msa0942080-mRNA-1:exon:5028;Parent=Msa0942080-mRNA-1 |
| chr6_3 | five_prime_UTR | 16315947 | 16316034 | 16315947 | ID=Msa0942080-mRNA-1:five_prime_utr;Parent=Msa0942080-mRNA-1 |
| chr6_3 | five_prime_UTR | 16316969 | 16316980 | 16316969 | ID=Msa0942080-mRNA-1:five_prime_utr;Parent=Msa0942080-mRNA-1 |
| chr6_3 | CDS | 16316981 | 16317442 | 16316981 | ID=Msa0942080-mRNA-1:cds;Parent=Msa0942080-mRNA-1 |
| chr6_3 | CDS | 16317539 | 16318420 | 16317539 | ID=Msa0942080-mRNA-1:cds;Parent=Msa0942080-mRNA-1 |
| chr6_3 | three_prime_UTR | 16318421 | 16318555 | 16318421 | ID=Msa0942080-mRNA-1:three_prime_utr;Parent=Msa0942080-mRNA-1 |
| chr6_3 | three_prime_UTR | 16319461 | 16319490 | 16319461 | ID=Msa0942080-mRNA-1:three_prime_utr;Parent=Msa0942080-mRNA-1 |
| chr6_3 | three_prime_UTR | 16329354 | 16329657 | 16329354 | ID=Msa0942080-mRNA-1:three_prime_utr;Parent=Msa0942080-mRNA-1 |
| Gene Sequence |
>Msa0942080 ATGGGAAAAGAAAAGATTCATATCAACATTGTCGTCATTGGACATGTCGATTCTGGAAAATCAACAACAACTGGTCACTTGATCTACAAGCTAGGAGGTATTGACAAGCGTGTGATCGAGAGATTTGAGAAGGAAGCTGCTGAAATGAACAAGCGTTCATTCAAGTACGCATGGGTTCTTGACAAACTTAAAGCTGAGCGTGAAAGAGGAATTACCATCGATATTGCCTTGTGGAAATTCGAGACCACCAAGTACTACTGCACAGTCATTGATGCTCCAGGACATCGTGATTTCATCAAGAACATGATTACTGGAACCTCCCAGGCTGATTGTGCAGTCCTTATCATTGACTCCACCACTGGTGGTTTTGAAGCTGGTATCTCTAAGGATGGACAGACCCGTGAGCACGCTCTTCTCGCTTTTACTCTTGGAGTGAAGCAGATGATCTGTTGTTGTAACAAGATGGATGCTACCACCCCTAAGTACTCAAAGGCTCGGTACGATGAAATCGTGAAGGAAGTTTCATCCTACTTGAAGAAGGTTGGTTACAACCCAGACAAAATCCCATTCGTTCCAATCTCCGGTTTTGAAGGTGACAACATGATTGAGAGGTCCACCAACCTTGACTGGTACAAGGGACCAACTCTCCTTGAGGCTCTTGACCAGATCAACGAGCCCAAGAGACCCACAGACAAGCCCCTCAGGCTTCCATTGCAAGATGTTTACAAGATTGGTGGTATTGGAACTGTGCCAGTTGGACGTGTTGAGACCGGTATTGTGAAGCCCGGTATGGTTGTGACTTTTGGACCCACTGGTTTGACAACTGAAGTTAAGTCTGTTGAGATGCACCACGAGGCTCTCACTGAAGCTCTTCCAGGAGACAATGTCGGATTCAATGTTAAGAATGTTGCTGTGAAGGATCTCAAGCGTGGTTTCGTTGCATCCAACTCCAAGGATGACCCTGCCAAGGAAGCTGCCAACTTCACTTCCCAAGTCATCATCATGAACCACCCTGGTCAGATTGGAAACGGATATGCACCAGTGCTCGATTGCCACACCTCTCACATTGCTGTGAAGTTTGCTGAACTTGTTACCAAGATCGACAGGCGATCTGGTAAGGAGATTGAAAAGGAGCCCAAGTTCTTGAAGAATGGTGATGCTGGTATCATTAAGATGGTTCCCACCAAGCCCATGGTGGTTGAGACCTTTGCTGAATATCCTCCACTTGGACGTTTTGCTGTCAGAGACATGCGTCAAACAGTTGCTGTTGGTGTCATCAAGGCTGTGGAGAAGAAGGATCCCACTGGAGCCAAAGTCACCAAAGCTGCTGCCAAGAAGAAGTGA |
| Protein sequence |
>Msa0942080 MGKEKIHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIERSTNLDWYKGPTLLEALDQINEPKRPTDKPLRLPLQDVYKIGGIGTVPVGRVETGIVKPGMVVTFGPTGLTTEVKSVEMHHEALTEALPGDNVGFNVKNVAVKDLKRGFVASNSKDDPAKEAANFTSQVIIMNHPGQIGNGYAPVLDCHTSHIAVKFAELVTKIDRRSGKEIEKEPKFLKNGDAGIIKMVPTKPMVVETFAEYPPLGRFAVRDMRQTVAVGVIKAVEKKDPTGAKVTKAAAKKK* |
