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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146440 | RZB48484.1 | 92.715 | 151 | 3 | 1 | 8 | 158 | 96 | 238 | 1.58e-93 | 281 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146440 | sp|Q9M5Z9|RS23_EUPES | 92.667 | 150 | 3 | 1 | 9 | 158 | 1 | 142 | 5.22e-95 | 274 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146440 | A0A445FI55 | 92.715 | 151 | 3 | 1 | 8 | 158 | 96 | 238 | 7.56e-94 | 281 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0705000 | Msa1146440 | 0.803467 | 3.437922e-49 | -8.615850e-47 |
| Msa0705040 | Msa1146440 | 0.808587 | 2.878993e-50 | -8.615850e-47 |
| Msa0367910 | Msa1146440 | 0.968476 | 9.895427e-129 | -8.615850e-47 |
| Msa0999610 | Msa1146440 | 0.875901 | 2.138483e-68 | -8.615850e-47 |
| Msa1146440 | Msa1452980 | 0.941108 | 7.374092e-101 | -8.615850e-47 |
| Msa0887590 | Msa1146440 | 0.854534 | 1.154428e-61 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146440 | MtrunA17_Chr1g0181621 | 93.333 | 150 | 2 | 1 | 9 | 158 | 1 | 142 | 5.52e-97 | 276 |
| Msa1146440 | MtrunA17_Chr7g0263691 | 87.333 | 150 | 11 | 1 | 9 | 158 | 1 | 142 | 6.01e-90 | 258 |
| Msa1146440 | MtrunA17_Chr7g0239631 | 60.000 | 55 | 20 | 1 | 71 | 125 | 29 | 81 | 2.47e-15 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1146440 | AT5G02960.1 | 88.667 | 150 | 9 | 1 | 9 | 158 | 1 | 142 | 5.84e-90 | 258 |
| Msa1146440 | AT3G09680.1 | 86.667 | 150 | 12 | 1 | 9 | 158 | 1 | 142 | 1.71e-86 | 249 |
Find 47 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCAAGGTTGTGAAGGTCTC+TGG | 0.340450 | 7_4:+24049776 | Msa1146440:CDS |
| TCTCCTTCTTCTCCTTGAAA+AGG | 0.352760 | 7_4:-24049814 | None:intergenic |
| ATTCCACAAATCTAAGATCT+TGG | 0.379899 | 7_4:-24049839 | None:intergenic |
| CAGCTATTCGTAAGTGTGCC+AGG | 0.413818 | 7_4:+24049461 | Msa1146440:CDS |
| CATGCTGTGGGAGATATTCC+TGG | 0.414411 | 7_4:+24049746 | Msa1146440:CDS |
| CTCCTTCTTCTCCTTGAAAA+GGG | 0.418297 | 7_4:-24049813 | None:intergenic |
| ACACAAGGACCAAGCAGCCA+TGG | 0.440627 | 7_4:+24049164 | Msa1146440:CDS |
| CACTTACGAATAGCTGAGTT+GGG | 0.449683 | 7_4:-24049454 | None:intergenic |
| TCATACAAGAAGTCTCATCT+TGG | 0.473075 | 7_4:+24049258 | Msa1146440:CDS |
| TCAAGGTTGTGAAGGTCTCT+GGG | 0.478339 | 7_4:+24049777 | Msa1146440:CDS |
| TGCTGGTTCTTCCCACGCAA+AGG | 0.487634 | 7_4:+24049302 | Msa1146440:CDS |
| CTCACCGCAGGAGGCAAAGG+TGG | 0.491520 | 7_4:+24049226 | Msa1146440:CDS |
| CATGGGGAATACACATGGAA+TGG | 0.495178 | 7_4:+24049182 | Msa1146440:CDS |
| GCTGGTTCTTCCCACGCAAA+GGG | 0.497054 | 7_4:+24049303 | Msa1146440:CDS |
| TAGTTTAAACAACCATCGTT+GGG | 0.498002 | 7_4:-24049526 | None:intergenic |
| GTGTATTCCCCATGGCTGCT+TGG | 0.498685 | 7_4:-24049173 | None:intergenic |
| ATTGCTGGATTTGGAAGAAA+GGG | 0.499669 | 7_4:+24049722 | Msa1146440:CDS |
| GCGTGGGAAGAACCAGCAAA+AGG | 0.504542 | 7_4:-24049297 | None:intergenic |
| CATACAAGAAGTCTCATCTT+GGG | 0.508352 | 7_4:+24049259 | Msa1146440:CDS |
| GATTGCTGGATTTGGAAGAA+AGG | 0.508603 | 7_4:+24049721 | Msa1146440:CDS |
| TATTCCTGGAGTTAGATTCA+AGG | 0.508883 | 7_4:+24049760 | Msa1146440:CDS |
| ACACTTACGAATAGCTGAGT+TGG | 0.509353 | 7_4:-24049455 | None:intergenic |
| CACAAGGACCAAGCAGCCAT+GGG | 0.511008 | 7_4:+24049165 | Msa1146440:CDS |
| AGGGTACAACTAATCAAGAA+TGG | 0.513747 | 7_4:+24049481 | Msa1146440:CDS |
| CAGCCCACCTTTGCCTCCTG+CGG | 0.522174 | 7_4:-24049230 | None:intergenic |
| CGAGGACAATTCCCTTTGCG+TGG | 0.534957 | 7_4:-24049314 | None:intergenic |
| ATGGGGAATACACATGGAAT+GGG | 0.535864 | 7_4:+24049183 | Msa1146440:CDS |
| GTAGTTTAAACAACCATCGT+TGG | 0.552087 | 7_4:-24049527 | None:intergenic |
| GCAAGCTGAAGTCTCACCGC+AGG | 0.557712 | 7_4:+24049214 | Msa1146440:CDS |
| CATTCCATGTGTATTCCCCA+TGG | 0.562380 | 7_4:-24049181 | None:intergenic |
| AGTCTCACCGCAGGAGGCAA+AGG | 0.562641 | 7_4:+24049223 | Msa1146440:CDS |
| AGCTGAAGTCTCACCGCAGG+AGG | 0.569090 | 7_4:+24049217 | Msa1146440:CDS |
| AGTCTCATCTTGGGAATGAG+TGG | 0.571456 | 7_4:+24049268 | Msa1146440:CDS |
| ACAACCATCGTTGGGAACAA+AGG | 0.572957 | 7_4:-24049518 | None:intergenic |
| ATTCTTGATTAGTTGTACCC+TGG | 0.574592 | 7_4:-24049479 | None:intergenic |
| TGGAAGAAAGGGTCATGCTG+TGG | 0.584767 | 7_4:+24049733 | Msa1146440:CDS |
| GGAAGAAAGGGTCATGCTGT+GGG | 0.588458 | 7_4:+24049734 | Msa1146440:CDS |
| AGTTAGATTCAAGGTTGTGA+AGG | 0.593952 | 7_4:+24049769 | Msa1146440:CDS |
| TCACCGCAGGAGGCAAAGGT+GGG | 0.600190 | 7_4:+24049227 | Msa1146440:CDS |
| ACAACCTTGAATCTAACTCC+AGG | 0.602701 | 7_4:-24049764 | None:intergenic |
| GCTGCCTTTGTTCCCAACGA+TGG | 0.607412 | 7_4:+24049514 | Msa1146440:CDS |
| ACCTCCGAGCTCAACACACA+AGG | 0.619600 | 7_4:+24049149 | None:intergenic |
| GAGGACAATTCCCTTTGCGT+GGG | 0.632164 | 7_4:-24049313 | None:intergenic |
| AGCTATTCGTAAGTGTGCCA+GGG | 0.641920 | 7_4:+24049462 | Msa1146440:CDS |
| GCAGCCATGGGGAATACACA+TGG | 0.647637 | 7_4:+24049177 | Msa1146440:CDS |
| CAAGGTTGTGAAGGTCTCTG+GGG | 0.680000 | 7_4:+24049778 | Msa1146440:CDS |
| ACAAGGACCAAGCAGCCATG+GGG | 0.741823 | 7_4:+24049166 | Msa1146440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GATTGTTGTTTTATTTACAA+AGG | + | chr7_4:24049415-24049434 | Msa1146440:CDS | 20.0% |
| !!! | TTTTATTTACAAAGGTATTG+AGG | + | chr7_4:24049423-24049442 | Msa1146440:CDS | 20.0% |
| !! | TGATTTTAAACTGTTATGTC+TGG | + | chr7_4:24049599-24049618 | Msa1146440:intron | 25.0% |
| TAGTTTAAACAACCATCGTT+GGG | - | chr7_4:24049529-24049548 | None:intergenic | 30.0% | |
| ! | TCCTTGCTTGTATTTTCTAT+TGG | + | chr7_4:24049567-24049586 | Msa1146440:intron | 30.0% |
| ACCAATAGAAAATACAAGCA+AGG | - | chr7_4:24049571-24049590 | None:intergenic | 30.0% | |
| TCATACAAGAAGTCTCATCT+TGG | + | chr7_4:24049258-24049277 | Msa1146440:CDS | 35.0% | |
| CATACAAGAAGTCTCATCTT+GGG | + | chr7_4:24049259-24049278 | Msa1146440:CDS | 35.0% | |
| ! | ATTCTTGATTAGTTGTACCC+TGG | - | chr7_4:24049482-24049501 | None:intergenic | 35.0% |
| AGGGTACAACTAATCAAGAA+TGG | + | chr7_4:24049481-24049500 | Msa1146440:CDS | 35.0% | |
| GTAGTTTAAACAACCATCGT+TGG | - | chr7_4:24049530-24049549 | None:intergenic | 35.0% | |
| ACACACAATGTCACACAATA+TGG | - | chr7_4:24049675-24049694 | None:intergenic | 35.0% | |
| !!! | GAAGTTTTGATTGCTGGATT+TGG | + | chr7_4:24049713-24049732 | Msa1146440:CDS | 35.0% |
| ATTGCTGGATTTGGAAGAAA+GGG | + | chr7_4:24049722-24049741 | Msa1146440:CDS | 35.0% | |
| TATTCCTGGAGTTAGATTCA+AGG | + | chr7_4:24049760-24049779 | Msa1146440:CDS | 35.0% | |
| AGTTAGATTCAAGGTTGTGA+AGG | + | chr7_4:24049769-24049788 | Msa1146440:CDS | 35.0% | |
| ATGGGGAATACACATGGAAT+GGG | + | chr7_4:24049183-24049202 | Msa1146440:CDS | 40.0% | |
| TCCTCGAAAAGAAGTAAGAG+TGG | + | chr7_4:24049331-24049350 | Msa1146440:intron | 40.0% | |
| ! | ACCACTCTTACTTCTTTTCG+AGG | - | chr7_4:24049335-24049354 | None:intergenic | 40.0% |
| GAAGTAAGAGTGGTTAAGCT+TGG | + | chr7_4:24049341-24049360 | Msa1146440:intron | 40.0% | |
| CACTTACGAATAGCTGAGTT+GGG | - | chr7_4:24049457-24049476 | None:intergenic | 40.0% | |
| ACACTTACGAATAGCTGAGT+TGG | - | chr7_4:24049458-24049477 | None:intergenic | 40.0% | |
| !!! | CAGGATGAAGTTTTGATTGC+TGG | + | chr7_4:24049707-24049726 | Msa1146440:intron | 40.0% |
| GATTGCTGGATTTGGAAGAA+AGG | + | chr7_4:24049721-24049740 | Msa1146440:CDS | 40.0% | |
| ACAACCTTGAATCTAACTCC+AGG | - | chr7_4:24049767-24049786 | None:intergenic | 40.0% | |
| CTCCTTCTTCTCCTTGAAAA+GGG | - | chr7_4:24049816-24049835 | None:intergenic | 40.0% | |
| TCTCCTTCTTCTCCTTGAAA+AGG | - | chr7_4:24049817-24049836 | None:intergenic | 40.0% | |
| CATTCCATGTGTATTCCCCA+TGG | - | chr7_4:24049184-24049203 | None:intergenic | 45.0% | |
| CATGGGGAATACACATGGAA+TGG | + | chr7_4:24049182-24049201 | Msa1146440:CDS | 45.0% | |
| AGTCTCATCTTGGGAATGAG+TGG | + | chr7_4:24049268-24049287 | Msa1146440:CDS | 45.0% | |
| ! | GAGTGGAAGAAACCTTTTGC+TGG | + | chr7_4:24049285-24049304 | Msa1146440:CDS | 45.0% |
| AGCTATTCGTAAGTGTGCCA+GGG | + | chr7_4:24049462-24049481 | Msa1146440:CDS | 45.0% | |
| ACAACCATCGTTGGGAACAA+AGG | - | chr7_4:24049521-24049540 | None:intergenic | 45.0% | |
| GTGACATTGTGTGTGACTGA+TGG | + | chr7_4:24049681-24049700 | Msa1146440:intron | 45.0% | |
| TTCAAGGTTGTGAAGGTCTC+TGG | + | chr7_4:24049776-24049795 | Msa1146440:CDS | 45.0% | |
| TCAAGGTTGTGAAGGTCTCT+GGG | + | chr7_4:24049777-24049796 | Msa1146440:CDS | 45.0% | |
| ! | GTCTCTTCTTGCCCTTTTCA+AGG | + | chr7_4:24049802-24049821 | Msa1146440:CDS | 45.0% |
| !! | TGCCCTTTTCAAGGAGAAGA+AGG | + | chr7_4:24049811-24049830 | Msa1146440:CDS | 45.0% |
| GAGGACAATTCCCTTTGCGT+GGG | - | chr7_4:24049316-24049335 | None:intergenic | 50.0% | |
| CAGCTATTCGTAAGTGTGCC+AGG | + | chr7_4:24049461-24049480 | Msa1146440:CDS | 50.0% | |
| TGTGTGTGACTGATGGTTGC+AGG | + | chr7_4:24049688-24049707 | Msa1146440:intron | 50.0% | |
| TGGAAGAAAGGGTCATGCTG+TGG | + | chr7_4:24049733-24049752 | Msa1146440:CDS | 50.0% | |
| GGAAGAAAGGGTCATGCTGT+GGG | + | chr7_4:24049734-24049753 | Msa1146440:CDS | 50.0% | |
| CATGCTGTGGGAGATATTCC+TGG | + | chr7_4:24049746-24049765 | Msa1146440:CDS | 50.0% | |
| CAAGGTTGTGAAGGTCTCTG+GGG | + | chr7_4:24049778-24049797 | Msa1146440:CDS | 50.0% | |
| ACACAAGGACCAAGCAGCCA+TGG | + | chr7_4:24049164-24049183 | Msa1146440:CDS | 55.0% | |
| CACAAGGACCAAGCAGCCAT+GGG | + | chr7_4:24049165-24049184 | Msa1146440:CDS | 55.0% | |
| ACAAGGACCAAGCAGCCATG+GGG | + | chr7_4:24049166-24049185 | Msa1146440:CDS | 55.0% | |
| GTGTATTCCCCATGGCTGCT+TGG | - | chr7_4:24049176-24049195 | None:intergenic | 55.0% | |
| GCAGCCATGGGGAATACACA+TGG | + | chr7_4:24049177-24049196 | Msa1146440:CDS | 55.0% | |
| GCGTGGGAAGAACCAGCAAA+AGG | - | chr7_4:24049300-24049319 | None:intergenic | 55.0% | |
| !! | TGCTGGTTCTTCCCACGCAA+AGG | + | chr7_4:24049302-24049321 | Msa1146440:CDS | 55.0% |
| ! | GCTGGTTCTTCCCACGCAAA+GGG | + | chr7_4:24049303-24049322 | Msa1146440:CDS | 55.0% |
| CGAGGACAATTCCCTTTGCG+TGG | - | chr7_4:24049317-24049336 | None:intergenic | 55.0% | |
| GCTGCCTTTGTTCCCAACGA+TGG | + | chr7_4:24049514-24049533 | Msa1146440:CDS | 55.0% | |
| GCAAGCTGAAGTCTCACCGC+AGG | + | chr7_4:24049214-24049233 | Msa1146440:CDS | 60.0% | |
| AGCTGAAGTCTCACCGCAGG+AGG | + | chr7_4:24049217-24049236 | Msa1146440:CDS | 60.0% | |
| AGTCTCACCGCAGGAGGCAA+AGG | + | chr7_4:24049223-24049242 | Msa1146440:CDS | 60.0% | |
| TCACCGCAGGAGGCAAAGGT+GGG | + | chr7_4:24049227-24049246 | Msa1146440:CDS | 60.0% | |
| CTCACCGCAGGAGGCAAAGG+TGG | + | chr7_4:24049226-24049245 | Msa1146440:CDS | 65.0% | |
| CAGCCCACCTTTGCCTCCTG+CGG | - | chr7_4:24049233-24049252 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 24049159 | 24049850 | 24049159 | ID=Msa1146440;Name=Msa1146440 |
| chr7_4 | mRNA | 24049159 | 24049850 | 24049159 | ID=Msa1146440-mRNA-1;Parent=Msa1146440;Name=Msa1146440-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|0.5|0.33|3|0|158 |
| chr7_4 | exon | 24049159 | 24049343 | 24049159 | ID=Msa1146440-mRNA-1:exon:6000;Parent=Msa1146440-mRNA-1 |
| chr7_4 | exon | 24049411 | 24049561 | 24049411 | ID=Msa1146440-mRNA-1:exon:6001;Parent=Msa1146440-mRNA-1 |
| chr7_4 | exon | 24049710 | 24049850 | 24049710 | ID=Msa1146440-mRNA-1:exon:6002;Parent=Msa1146440-mRNA-1 |
| chr7_4 | CDS | 24049159 | 24049343 | 24049159 | ID=Msa1146440-mRNA-1:cds;Parent=Msa1146440-mRNA-1 |
| chr7_4 | CDS | 24049411 | 24049561 | 24049411 | ID=Msa1146440-mRNA-1:cds;Parent=Msa1146440-mRNA-1 |
| chr7_4 | CDS | 24049710 | 24049850 | 24049710 | ID=Msa1146440-mRNA-1:cds;Parent=Msa1146440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
