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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1089020 | RHN76282.1 | 65.116 | 86 | 7 | 1 | 1 | 86 | 1 | 63 | 1.90e-19 | 85.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1089020 | A0A396JG60 | 65.116 | 86 | 7 | 1 | 1 | 86 | 1 | 63 | 9.08e-20 | 85.9 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003890 | Msa1089020 | 0.810560 | 1.084764e-50 | -8.615850e-47 |
| Msa0011170 | Msa1089020 | 0.804095 | 2.546720e-49 | -8.615850e-47 |
| Msa0012040 | Msa1089020 | 0.811785 | 5.883281e-51 | -8.615850e-47 |
| Msa0012080 | Msa1089020 | 0.827947 | 1.180838e-54 | -8.615850e-47 |
| Msa0017510 | Msa1089020 | 0.835617 | 1.511841e-56 | -8.615850e-47 |
| Msa0020420 | Msa1089020 | 0.809726 | 1.641297e-50 | -8.615850e-47 |
| Msa0029270 | Msa1089020 | 0.800563 | 1.358887e-48 | -8.615850e-47 |
| Msa0032580 | Msa1089020 | 0.805415 | 1.349486e-49 | -8.615850e-47 |
| Msa0033980 | Msa1089020 | 0.804133 | 2.499906e-49 | -8.615850e-47 |
| Msa0037700 | Msa1089020 | 0.804758 | 1.852354e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1089020 | MtrunA17_Chr2g0330351 | 65.116 | 86 | 7 | 1 | 1 | 86 | 1 | 63 | 1.75e-23 | 85.9 |
Find 146 sgRNAs with CRISPR-Local
Find 264 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTTATTGGCGCGATAA+CGG | 0.469157 | 7_3:+2367968 | Msa1089020:five_prime_UTR |
| AAATGCTGTTCTTGTCATGG+AGG | 0.741667 | 7_3:+2367808 | Msa1089020:five_prime_UTR |
| AACATTGTTAAGTGTATGGC+AGG | 0.509537 | 7_3:+2367703 | Msa1089020:five_prime_UTR |
| AAGCTGAAGGCTGGCTGACG+CGG | 0.506384 | 7_3:+2369734 | Msa1089020:three_prime_UTR |
| AAGGAGGTTATAGTCCCAGT+AGG | 0.631328 | 7_3:-2367542 | None:intergenic |
| AAGGAGTTGTGCCTCCTACT+GGG | 0.549624 | 7_3:+2367528 | Msa1089020:five_prime_UTR |
| AAGTGCATCGGCCACTTTCC+TGG | 0.348306 | 7_3:-2367480 | None:intergenic |
| AATATGATGGACTGGTCTTA+GGG | 0.395801 | 7_3:+2370011 | Msa1089020:three_prime_UTR |
| AATTCAGTTGTTTGGGAATT+TGG | 0.146474 | 7_3:+2366989 | Msa1089020:five_prime_UTR |
| ACATATAATGTTGTTGTTGG+TGG | 0.521286 | 7_3:+2367143 | Msa1089020:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCTTCAAAAACTAAAGGGTA+AGG | + | chr7_3:2366656-2366675 | Msa1089020:five_prime_UTR | 30.0% | |
| TAGTTACCATGTCATTGTTA+AGG | + | chr7_3:2366830-2366849 | Msa1089020:five_prime_UTR | 30.0% | |
| TTAGATGAGATGAGATTGAA+TGG | + | chr7_3:2366894-2366913 | Msa1089020:five_prime_UTR | 30.0% | |
| TCAAAAGCAATTCAGTTGTT+TGG | + | chr7_3:2366981-2367000 | Msa1089020:five_prime_UTR | 30.0% | |
| CAAAAGCAATTCAGTTGTTT+GGG | + | chr7_3:2366982-2367001 | Msa1089020:five_prime_UTR | 30.0% | |
| AATTCAGTTGTTTGGGAATT+TGG | + | chr7_3:2366989-2367008 | Msa1089020:five_prime_UTR | 30.0% | |
| GACACATATAATGTTGTTGT+TGG | + | chr7_3:2367140-2367159 | Msa1089020:five_prime_UTR | 30.0% | |
| TGAGATTGAGAAAGTTATGA+AGG | + | chr7_3:2367190-2367209 | Msa1089020:five_prime_UTR | 30.0% | |
| TGAGAAAGTTATGAAGGAAA+TGG | + | chr7_3:2367196-2367215 | Msa1089020:five_prime_UTR | 30.0% | |
| TTCTCATGATTTCAATACGA+TGG | + | chr7_3:2367232-2367251 | Msa1089020:five_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 2366586 | 2370148 | 2366586 | ID=Msa1089020;Name=Msa1089020 |
| chr7_3 | mRNA | 2366586 | 2370148 | 2366586 | ID=Msa1089020-mRNA-1;Parent=Msa1089020;Name=Msa1089020-mRNA-1;_AED=0.04;_eAED=0.04;_QI=1453|1|1|1|1|1|2|468|95 |
| chr7_3 | exon | 2366586 | 2368098 | 2366586 | ID=Msa1089020-mRNA-1:exon:923;Parent=Msa1089020-mRNA-1 |
| chr7_3 | exon | 2369453 | 2370148 | 2369453 | ID=Msa1089020-mRNA-1:exon:924;Parent=Msa1089020-mRNA-1 |
| chr7_3 | five_prime_UTR | 2366586 | 2368038 | 2366586 | ID=Msa1089020-mRNA-1:five_prime_utr;Parent=Msa1089020-mRNA-1 |
| chr7_3 | CDS | 2368039 | 2368098 | 2368039 | ID=Msa1089020-mRNA-1:cds;Parent=Msa1089020-mRNA-1 |
| chr7_3 | CDS | 2369453 | 2369680 | 2369453 | ID=Msa1089020-mRNA-1:cds;Parent=Msa1089020-mRNA-1 |
| chr7_3 | three_prime_UTR | 2369681 | 2370148 | 2369681 | ID=Msa1089020-mRNA-1:three_prime_utr;Parent=Msa1089020-mRNA-1 |
| Gene Sequence |
>Msa1089020 ATGCCATTTGATTTTCACATATCTGGTCTTTGGCTACTTCCTCGCAACATTACGGATCTAGATTCCAACAAGATGGATACCATGCAAGCTTCCATAAGCAAGATTTCTGACATGATCTCAAATCTTCAGCACAAAAACATTGAAACCGTAACAGATCTTGGACCAGCAGTCAAGAAGAACGACACACTTACAAACTCGGATCGAGATTCAGATGATGATCAAGAACAGACCCGTTCTTGGATGAAAAAGCTGGTTTTACACCTACCTTCAAAGGCACGGATCCAATAG |
| Protein sequence |
>Msa1089020 MPFDFHISGLWLLPRNITDLDSNKMDTMQASISKISDMISNLQHKNIETVTDLGPAVKKNDTLTNSDRDSDDDQEQTRSWMKKLVLHLPSKARIQ* |
