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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549540 | XP_013456336.1 | 98.092 | 262 | 5 | 0 | 1 | 262 | 1 | 262 | 0.0 | 528 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549540 | A0A072UL21 | 98.092 | 262 | 5 | 0 | 1 | 262 | 1 | 262 | 0.0 | 528 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004340 | Msa0549540 | 0.845485 | 3.944273e-59 | -8.615850e-47 |
| Msa0006050 | Msa0549540 | 0.846547 | 2.027583e-59 | -8.615850e-47 |
| Msa0012380 | Msa0549540 | 0.909592 | 4.803210e-82 | -8.615850e-47 |
| Msa0014410 | Msa0549540 | 0.870951 | 9.899374e-67 | -8.615850e-47 |
| Msa0020320 | Msa0549540 | 0.822334 | 2.504020e-53 | -8.615850e-47 |
| Msa0024900 | Msa0549540 | 0.822518 | 2.269133e-53 | -8.615850e-47 |
| Msa0026930 | Msa0549540 | 0.809173 | 2.156900e-50 | -8.615850e-47 |
| Msa0037270 | Msa0549540 | 0.829914 | 3.943303e-55 | -8.615850e-47 |
| Msa0040550 | Msa0549540 | -0.827327 | 1.663697e-54 | -8.615850e-47 |
| Msa0040780 | Msa0549540 | 0.807835 | 4.162500e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549540 | MtrunA17_Chr4g0034241 | 98.092 | 262 | 5 | 0 | 1 | 262 | 1 | 262 | 0.0 | 528 |
| Msa0549540 | MtrunA17_Chr5g0408291 | 47.701 | 174 | 75 | 4 | 77 | 245 | 88 | 250 | 2.89e-48 | 160 |
| Msa0549540 | MtrunA17_Chr4g0042851 | 37.079 | 178 | 104 | 2 | 84 | 261 | 123 | 292 | 1.21e-37 | 134 |
| Msa0549540 | MtrunA17_Chr3g0089791 | 90.196 | 51 | 5 | 0 | 144 | 194 | 5 | 55 | 3.78e-26 | 97.4 |
| Msa0549540 | MtrunA17_Chr3g0089821 | 67.532 | 77 | 11 | 1 | 186 | 262 | 1 | 63 | 5.76e-26 | 96.7 |
| Msa0549540 | MtrunA17_Chr3g0089631 | 64.286 | 56 | 8 | 2 | 137 | 192 | 1 | 44 | 2.65e-12 | 60.5 |
| Msa0549540 | MtrunA17_Chr3g0089521 | 60.714 | 56 | 10 | 2 | 137 | 192 | 1 | 44 | 6.19e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549540 | AT5G13720.1 | 70.943 | 265 | 70 | 4 | 1 | 262 | 1 | 261 | 8.82e-121 | 345 |
| Msa0549540 | AT4G19390.1 | 53.073 | 179 | 78 | 1 | 81 | 259 | 98 | 270 | 2.34e-58 | 187 |
| Msa0549540 | AT4G19390.2 | 51.099 | 182 | 83 | 1 | 78 | 259 | 7 | 182 | 4.85e-57 | 181 |
Find 77 sgRNAs with CRISPR-Local
Find 613 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGTAGTCATTGCCAC+AGG | 0.629232 | 4_1:+44763603 | Msa0549540:CDS |
| AAAGAGAGAGGATCCTTTAA+GGG | 0.401841 | 4_1:-44763311 | None:intergenic |
| AAAGGCAGGCTCAGTTGGCC+TGG | 0.464199 | 4_1:-44757398 | None:intergenic |
| AAAGTACTCAACAACTCCAT+TGG | 0.497255 | 4_1:+44763997 | Msa0549540:three_prime_UTR |
| AAATCAAACTGTGGTAGCCT+TGG | 0.494020 | 4_1:-44763954 | None:intergenic |
| AAGCCTCACAAATCAAACTG+TGG | 0.716416 | 4_1:-44763963 | None:intergenic |
| AATGTTTGAGAGGAGCAAAA+TGG | 0.492842 | 4_1:+44763587 | Msa0549540:CDS |
| ACAACATTTATAAGGATATT+AGG | 0.225930 | 4_1:+44763806 | Msa0549540:three_prime_UTR |
| ACAGAAGGTTGCACATCATG+AGG | 0.628237 | 4_1:-44763280 | None:intergenic |
| ACTATACATTTAGAAAGCAG+AGG | 0.602382 | 4_1:-44762410 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GCTTAGTTACATATCTTCAA+TGG | + | chr4_1:44757219-44757238 | Msa0549540:exon | 30.0% | |
| TTTGTAAAAGAAACTCGATG+GGG | - | chr4_1:44757316-44757335 | None:intergenic | 30.0% | |
| GTTGTTGAATGCATAGTTAA+AGG | - | chr4_1:44757419-44757438 | None:intergenic | 30.0% | |
| TATGCATTCAACAACACTAA+TGG | + | chr4_1:44757424-44757443 | Msa0549540:CDS | 30.0% | |
| TAACCAAAATACCCTTTCAA+TGG | - | chr4_1:44757488-44757507 | None:intergenic | 30.0% | |
| TTTAATCCTTCGATTCTTAG+AGG | + | chr4_1:44757602-44757621 | Msa0549540:intron | 30.0% | |
| GGACTATCTTGTAATTAGTT+TGG | + | chr4_1:44757890-44757909 | Msa0549540:intron | 30.0% | |
| TGTTCTCATCCAAGATATTA+AGG | - | chr4_1:44757926-44757945 | None:intergenic | 30.0% | |
| TATTCAAACACATAGCGTTA+CGG | + | chr4_1:44758352-44758371 | Msa0549540:intron | 30.0% | |
| AAGGAATTCATTTAGTTGGT+TGG | - | chr4_1:44759283-44759302 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 44757215 | 44764273 | 44757215 | ID=Msa0549540;Name=Msa0549540 |
| chr4_1 | mRNA | 44757215 | 44764273 | 44757215 | ID=Msa0549540-mRNA-1;Parent=Msa0549540;Name=Msa0549540-mRNA-1;_AED=0.09;_eAED=0.09;_QI=23|1|1|1|1|1|5|563|262 |
| chr4_1 | exon | 44757215 | 44757495 | 44757215 | ID=Msa0549540-mRNA-1:exon:11675;Parent=Msa0549540-mRNA-1 |
| chr4_1 | exon | 44762348 | 44762425 | 44762348 | ID=Msa0549540-mRNA-1:exon:11676;Parent=Msa0549540-mRNA-1 |
| chr4_1 | exon | 44762896 | 44762995 | 44762896 | ID=Msa0549540-mRNA-1:exon:11677;Parent=Msa0549540-mRNA-1 |
| chr4_1 | exon | 44763209 | 44763351 | 44763209 | ID=Msa0549540-mRNA-1:exon:11678;Parent=Msa0549540-mRNA-1 |
| chr4_1 | exon | 44763501 | 44764273 | 44763501 | ID=Msa0549540-mRNA-1:exon:11679;Parent=Msa0549540-mRNA-1 |
| chr4_1 | five_prime_UTR | 44757215 | 44757237 | 44757215 | ID=Msa0549540-mRNA-1:five_prime_utr;Parent=Msa0549540-mRNA-1 |
| chr4_1 | CDS | 44757238 | 44757495 | 44757238 | ID=Msa0549540-mRNA-1:cds;Parent=Msa0549540-mRNA-1 |
| chr4_1 | CDS | 44762348 | 44762425 | 44762348 | ID=Msa0549540-mRNA-1:cds;Parent=Msa0549540-mRNA-1 |
| chr4_1 | CDS | 44762896 | 44762995 | 44762896 | ID=Msa0549540-mRNA-1:cds;Parent=Msa0549540-mRNA-1 |
| chr4_1 | CDS | 44763209 | 44763351 | 44763209 | ID=Msa0549540-mRNA-1:cds;Parent=Msa0549540-mRNA-1 |
| chr4_1 | CDS | 44763501 | 44763710 | 44763501 | ID=Msa0549540-mRNA-1:cds;Parent=Msa0549540-mRNA-1 |
| chr4_1 | three_prime_UTR | 44763711 | 44764273 | 44763711 | ID=Msa0549540-mRNA-1:three_prime_utr;Parent=Msa0549540-mRNA-1 |
| Gene Sequence |
>Msa0549540 ATGGCTCTCTCTTGTTACACTTTCATCACTCCCTCTACACCTTATTCTCTTCACATCAACCGTTCATCACATCTTCCCCATCGAGTTTCTTTTACAAAAGCTTCCTTAAGCTCTTCTTCATCTGATTCAAAAGCACCATCATCACAACAAAGTGTGCCATCCAGGCCAACTGAGCCTGCCTTTAACTATGCATTCAACAACACTAATGGCAACCCACTTGTTAGGATGGTTCAAAATACCGAGTCTTCCATTGAAAGGGTAATTTTTGACTTTCGTTTTTTGGCACTGCTTGCTGTTGGAGGTTCCTTGGCTGGCTCACTCCTCTGCTTTCTAAATGGCTGTGTTTATATTGTTGAAGCATACAAAGTCTATTGGACAAGTTGTGTCAAAGGAGTTCACACTGGAAAGATGGTTCTGCTTCTAGTTGAAGCAATTGATGTTTATCTTGCTGGTACTGTTATGTTGATTTTTGGCATGGGCTTATACGGACTATTCATCAGCAACACACCTCATGATGTGCAACCTTCTGTCGACCGTGCCCTTAAAGGATCCTCTCTCTTTGGAATGTTCGCTTTGAAGGAAAGGCCTAAGTGGATGAAAATCAGTTCACTTGATGAACTGAAAACAAAAGTGGGGCATGTTATTGTAATGATTCTTCTTGTAAAAATGTTTGAGAGGAGCAAAATGGTAGTCATTGCCACAGGATTGGATTTACTAAGTTATTCAGTTTGTATCTTCTTATCATCTGCATCTTTGTATATCCTTCATAATCTGCATAAGCAAGATTAA |
| Protein sequence |
>Msa0549540 MALSCYTFITPSTPYSLHINRSSHLPHRVSFTKASLSSSSSDSKAPSSQQSVPSRPTEPAFNYAFNNTNGNPLVRMVQNTESSIERVIFDFRFLALLAVGGSLAGSLLCFLNGCVYIVEAYKVYWTSCVKGVHTGKMVLLLVEAIDVYLAGTVMLIFGMGLYGLFISNTPHDVQPSVDRALKGSSLFGMFALKERPKWMKISSLDELKTKVGHVIVMILLVKMFERSKMVVIATGLDLLSYSVCIFLSSASLYILHNLHKQD* |
