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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006853.01.T01 | XP_003593732.1 | 98.75 | 80 | 1 | 0 | 1 | 80 | 1 | 80 | 6.80E-46 | 151 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080047831.01 | MsG0280006853.01 | 0.859942 | 2.917009e-63 | 7.839029e-60 |
| MsG0080048059.01 | MsG0280006853.01 | -0.810721 | 1.001369e-50 | 6.082002e-48 |
| MsG0080048595.01 | MsG0280006853.01 | 0.829660 | 4.545084e-55 | 4.682272e-52 |
| MsG0080048694.01 | MsG0280006853.01 | -0.801818 | 7.526552e-49 | 3.629119e-46 |
| MsG0080048695.01 | MsG0280006853.01 | -0.802390 | 5.738222e-49 | 2.807598e-46 |
| MsG0080048889.01 | MsG0280006853.01 | 0.816140 | 6.447011e-52 | 4.531254e-49 |
| MsG0080049023.01 | MsG0280006853.01 | -0.811307 | 7.474758e-51 | 4.610685e-48 |
| MsG0080049066.01 | MsG0280006853.01 | -0.824297 | 8.709631e-54 | 7.683091e-51 |
| MsG0080049133.01 | MsG0280006853.01 | -0.822708 | 2.050403e-53 | 1.729432e-50 |
| MsG0180000322.01 | MsG0280006853.01 | -0.809246 | 2.079995e-50 | 1.215042e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006853.01.T01 | MTR_2g015540 | 98.750 | 80 | 1 | 0 | 1 | 80 | 1 | 80 | 8.24e-50 | 151 |
| MsG0280006853.01.T01 | MTR_4g079680 | 75.000 | 76 | 19 | 0 | 5 | 80 | 2 | 77 | 7.79e-35 | 113 |
| MsG0280006853.01.T01 | MTR_2g090695 | 59.459 | 74 | 30 | 0 | 7 | 80 | 5 | 78 | 1.24e-20 | 77.8 |
| MsG0280006853.01.T01 | MTR_4g078840 | 56.944 | 72 | 31 | 0 | 9 | 80 | 8 | 79 | 2.12e-14 | 62.0 |
Find 25 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCACTCCATAACCTTAAT+TGG | 0.239487 | 2:-7104498 | None:intergenic |
| AGAAAGCAAAAGGAAGGCCT+AGG | 0.499755 | 2:-7104236 | None:intergenic |
| AGGCCTAGGAGAAAACCAAG+AGG | 0.747286 | 2:-7104222 | None:intergenic |
| AGGGTCACGCAAAGACAGCA+TGG | 0.623057 | 2:-7104441 | None:intergenic |
| ATATCTCTTCTATTCTAACA+TGG | 0.596081 | 2:-7104534 | None:intergenic |
| ATGAGAGACAAGAAAGCAAA+AGG | 0.478563 | 2:-7104246 | None:intergenic |
| CAAGGCTCCAATTAAGGTTA+TGG | 0.360751 | 2:+7104491 | MsG0280006853.01.T01:CDS |
| CAGAGCAAACTCAACTATGA+GGG | 0.623831 | 2:-7104460 | None:intergenic |
| CATGTGTTGCTGTTGTGGTG+AGG | 0.609312 | 2:+7104185 | None:intergenic |
| CCAAATAACTGCACCTACAA+AGG | 0.535186 | 2:-7104274 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AACCACTCCATAACCTTAAT+TGG | - | Chr2:7104501-7104520 | None:intergenic | 35.0% | |
| ACTAATAGATGGGAAAAGAG+AGG | - | Chr2:7104315-7104334 | None:intergenic | 35.0% | |
| ATGAGAGACAAGAAAGCAAA+AGG | - | Chr2:7104249-7104268 | None:intergenic | 35.0% | |
| CTAATAGATGGGAAAAGAGA+GGG | - | Chr2:7104314-7104333 | None:intergenic | 35.0% | |
| GTGCAGTTATTTGGATTGTT+GGG | + | Chr2:7104283-7104302 | MsG0280006853.01.T01:CDS | 35.0% | |
| TCTCTCATAATCTCCTTTGT+AGG | + | Chr2:7104261-7104280 | MsG0280006853.01.T01:CDS | 35.0% | |
| TGTATGATGCTATATATGGC+AGG | + | Chr2:7104397-7104416 | MsG0280006853.01.T01:intron | 35.0% | |
| CAAGGCTCCAATTAAGGTTA+TGG | + | Chr2:7104491-7104510 | MsG0280006853.01.T01:CDS | 40.0% | |
| CAGAGCAAACTCAACTATGA+GGG | - | Chr2:7104463-7104482 | None:intergenic | 40.0% | |
| CCAAATAACTGCACCTACAA+AGG | - | Chr2:7104277-7104296 | None:intergenic | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr2 | gene | 7104186 | 7104542 | 7104186 | ID=MsG0280006853.01;Name=MsG0280006853.01 |
| Chr2 | mRNA | 7104186 | 7104542 | 7104186 | ID=MsG0280006853.01.T01;Parent=MsG0280006853.01;Name=MsG0280006853.01.T01;_AED=0.48;_eAED=0.49;_QI=0|0|0|1|0|0|2|0|80 |
| Chr2 | exon | 7104186 | 7104304 | 7104186 | ID=MsG0280006853.01.T01:exon:2126;Parent=MsG0280006853.01.T01 |
| Chr2 | exon | 7104419 | 7104542 | 7104419 | ID=MsG0280006853.01.T01:exon:2127;Parent=MsG0280006853.01.T01 |
| Chr2 | CDS | 7104186 | 7104304 | 7104186 | ID=MsG0280006853.01.T01:cds;Parent=MsG0280006853.01.T01 |
| Chr2 | CDS | 7104419 | 7104542 | 7104419 | ID=MsG0280006853.01.T01:cds;Parent=MsG0280006853.01.T01 |
| Gene Sequence |
>MsG0280006853.01.T01 ATGTGTTGCTGTTGTGGTGAGGATTGTAAATTCAGGCCTCTTGGTTTTCTCCTAGGCCTTCCTTTTGCTTTCTTGTCTCTCATAATCTCCTTTGTAGGTGCAGTTATTTGGATTGTTGGGTTGACTTTGACATGTATATGTCCATGCTGTCTTTGCGTGACCCTCATAGTTGAGTTTGCTCTGGCTCTCATCAAGGCTCCAATTAAGGTTATGGAGTGGTTCACATCCAAGATTCCATGTTAG |
| Protein sequence |
>MsG0280006853.01.T01 MCCCCGEDCKFRPLGFLLGLPFAFLSLIISFVGAVIWIVGLTLTCICPCCLCVTLIVEFALALIKAPIKVMEWFTSKIPC* |
