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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0196410 | XP_024631822.1 | 46.040 | 202 | 83 | 4 | 8 | 207 | 11 | 188 | 9.84e-32 | 127 |
| Msa0196410 | XP_024631822.1 | 66.667 | 99 | 18 | 2 | 179 | 277 | 104 | 187 | 3.58e-24 | 107 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0196410 | A0A396J7F9 | 46.040 | 202 | 83 | 4 | 8 | 207 | 11 | 188 | 4.70e-32 | 127 |
| Msa0196410 | A0A396J7F9 | 66.667 | 99 | 18 | 2 | 179 | 277 | 104 | 187 | 1.71e-24 | 107 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0196410 | Msa0275720 | 0.817793 | 2.742179e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0196410 | MtrunA17_Chr2g0288061 | 46.040 | 202 | 83 | 4 | 8 | 207 | 11 | 188 | 9.05e-36 | 127 |
| Msa0196410 | MtrunA17_Chr2g0288061 | 66.667 | 99 | 18 | 2 | 179 | 277 | 104 | 187 | 3.29e-28 | 107 |
| Msa0196410 | MtrunA17_Chr2g0287401 | 51.351 | 74 | 36 | 0 | 1 | 74 | 2 | 75 | 5.41e-15 | 71.2 |
| Msa0196410 | MtrunA17_Chr2g0286581 | 40.164 | 122 | 55 | 3 | 1 | 117 | 12 | 120 | 5.71e-15 | 72.0 |
| Msa0196410 | MtrunA17_Chr1g0170131 | 47.059 | 68 | 32 | 1 | 1 | 68 | 1 | 64 | 1.22e-14 | 71.6 |
| Msa0196410 | MtrunA17_Chr2g0287311 | 48.649 | 74 | 38 | 0 | 1 | 74 | 12 | 85 | 3.87e-14 | 70.1 |
| Msa0196410 | MtrunA17_Chr2g0287421 | 59.259 | 54 | 22 | 0 | 1 | 54 | 2 | 55 | 6.68e-14 | 68.6 |
| Msa0196410 | MtrunA17_Chr2g0287321 | 52.055 | 73 | 35 | 0 | 1 | 73 | 11 | 83 | 8.49e-14 | 68.2 |
| Msa0196410 | MtrunA17_Chr1g0156951 | 48.438 | 64 | 29 | 1 | 1 | 64 | 1 | 60 | 1.41e-11 | 62.8 |
| Msa0196410 | MtrunA17_Chr4g0019961 | 47.143 | 70 | 37 | 0 | 1 | 70 | 1 | 70 | 8.16e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 78 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTCGAAAAGAAGAGGATT+TGG | 0.329420 | 2_1:+13638605 | Msa0196410:CDS |
| AACGGACCTGCAGAATGTTT+TGG | 0.341546 | 2_1:-13639187 | None:intergenic |
| CGATTCTTTCTCCTCTTCTT+CGG | 0.361649 | 2_1:-13639021 | None:intergenic |
| GGAAGACTTTAATCGTTTAA+CGG | 0.443117 | 2_1:-13638577 | None:intergenic |
| CATTCATGACTTGAGATAAA+CGG | 0.459596 | 2_1:-13639205 | None:intergenic |
| GGCGCTGATGGCGGAAGGCA+CGG | 0.460933 | 2_1:+13638368 | None:intergenic |
| CGCTTGGTTCAACTCTAGAA+AGG | 0.462208 | 2_1:-13638437 | None:intergenic |
| CGAGTTGCTTCGAAAAGAAG+AGG | 0.487698 | 2_1:+13638599 | Msa0196410:CDS |
| CAAGCGTTTATCTGCAATTG+AGG | 0.488368 | 2_1:+13638454 | Msa0196410:CDS |
| ATTTCGATAATCAGATCCTC+CGG | 0.496089 | 2_1:-13638414 | None:intergenic |
| AGAAGAAGAAGAAAATGAAG+AGG | 0.514580 | 2_1:+13638635 | Msa0196410:CDS |
| CTCAATTGCAGATAAACGCT+TGG | 0.514934 | 2_1:-13638453 | None:intergenic |
| GTGTCTCCAAAACATTCTGC+AGG | 0.545478 | 2_1:+13639181 | Msa0196410:CDS |
| TATTGAGTTTCTGCGGCAGA+AGG | 0.548094 | 2_1:+13639058 | Msa0196410:CDS |
| GCAGAAGGAGGCAGTTCCGT+TGG | 0.553372 | 2_1:+13639073 | Msa0196410:CDS |
| CGAAGAAGAGGAGAAAGAAT+CGG | 0.562542 | 2_1:+13639022 | Msa0196410:CDS |
| GTCACAGAACGCGATACTCC+CGG | 0.563110 | 2_1:+13638395 | Msa0196410:CDS |
| TGGTGGTGGTTCCGAAGAAG+AGG | 0.564301 | 2_1:+13639010 | Msa0196410:CDS |
| CGAAAAGAAGAGGATTTGGA+TGG | 0.572187 | 2_1:+13638609 | Msa0196410:CDS |
| AATTGAGGTGCGTATGCAAA+TGG | 0.587049 | 2_1:+13638469 | Msa0196410:CDS |
| GATAATGTTGATGAAGAGAA+TGG | 0.595991 | 2_1:+13638990 | Msa0196410:CDS |
| ACGACGGCGCTGATGGCGGA+AGG | 0.604197 | 2_1:+13638363 | None:intergenic |
| TGAGTTTCTGCGGCAGAAGG+AGG | 0.614751 | 2_1:+13639061 | Msa0196410:CDS |
| TTTCGATAATCAGATCCTCC+GGG | 0.622988 | 2_1:-13638413 | None:intergenic |
| TTTGATGATGATGAAGACAA+TGG | 0.624005 | 2_1:+13638765 | Msa0196410:CDS |
| GTTGATGAAGAGAATGGTGG+TGG | 0.643848 | 2_1:+13638996 | Msa0196410:CDS |
| CAGAGATGAAATGCAAATAG+CGG | 0.644769 | 2_1:+13639145 | Msa0196410:CDS |
| AAGTAGTTATTGAGTTTCTG+CGG | 0.650429 | 2_1:+13639051 | Msa0196410:CDS |
| AGATGAAATGCAAATAGCGG+AGG | 0.653702 | 2_1:+13639148 | Msa0196410:CDS |
| GATGATGAAGACAATGGTGG+TGG | 0.658810 | 2_1:+13638771 | Msa0196410:CDS |
| TGAGGTGCGTATGCAAATGG+TGG | 0.665483 | 2_1:+13638472 | Msa0196410:CDS |
| GATGATGATGAAGACAATGG+TGG | 0.671380 | 2_1:+13638768 | Msa0196410:CDS |
| AATGTTGATGAAGAGAATGG+TGG | 0.672464 | 2_1:+13638993 | Msa0196410:CDS |
| AAGAGGAGAAAGAATCGGCG+TGG | 0.679826 | 2_1:+13639027 | Msa0196410:CDS |
| GCTGATGGCGGAAGGCACGG+CGG | 0.728631 | 2_1:+13638371 | None:intergenic |
| ACAGAACGCGATACTCCCGG+AGG | 0.809853 | 2_1:+13638398 | Msa0196410:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATTTTTTGAAGATTTTG+AGG | + | chr2_1:13639096-13639115 | Msa0196410:CDS | 15.0% |
| !!! | TAATTTTTTGAAGATTTTGA+GGG | + | chr2_1:13639097-13639116 | Msa0196410:CDS | 15.0% |
| !!! | ATAATTTTTTGAAGATTTTG+AGG | + | chr2_1:13639096-13639115 | Msa0196410:CDS | 15.0% |
| !!! | TAATTTTTTGAAGATTTTGA+GGG | + | chr2_1:13639097-13639116 | Msa0196410:CDS | 15.0% |
| !!! | TGTTTTTGATCGTTATTTAT+TGG | + | chr2_1:13638503-13638522 | Msa0196410:CDS | 20.0% |
| !! | ATCTTCAAAAAATTATCCAA+CGG | - | chr2_1:13639092-13639111 | None:intergenic | 20.0% |
| !!! | AATTTTTTGAAGATTTTGAG+GGG | + | chr2_1:13639098-13639117 | Msa0196410:CDS | 20.0% |
| !!! | TGTTTTTGATCGTTATTTAT+TGG | + | chr2_1:13638503-13638522 | Msa0196410:CDS | 20.0% |
| !! | ATCTTCAAAAAATTATCCAA+CGG | - | chr2_1:13639092-13639111 | None:intergenic | 20.0% |
| !!! | AATTTTTTGAAGATTTTGAG+GGG | + | chr2_1:13639098-13639117 | Msa0196410:CDS | 20.0% |
| GGAAGACTTTAATCGTTTAA+CGG | - | chr2_1:13638580-13638599 | None:intergenic | 30.0% | |
| AGAAGAAGAAGAAAATGAAG+AGG | + | chr2_1:13638635-13638654 | Msa0196410:CDS | 30.0% | |
| !! | TTTGATGATGATGAAGACAA+TGG | + | chr2_1:13638765-13638784 | Msa0196410:CDS | 30.0% |
| ! | GATAATGTTGATGAAGAGAA+TGG | + | chr2_1:13638990-13639009 | Msa0196410:CDS | 30.0% |
| AAGTAGTTATTGAGTTTCTG+CGG | + | chr2_1:13639051-13639070 | Msa0196410:CDS | 30.0% | |
| CATTCATGACTTGAGATAAA+CGG | - | chr2_1:13639208-13639227 | None:intergenic | 30.0% | |
| GGAAGACTTTAATCGTTTAA+CGG | - | chr2_1:13638580-13638599 | None:intergenic | 30.0% | |
| AGAAGAAGAAGAAAATGAAG+AGG | + | chr2_1:13638635-13638654 | Msa0196410:CDS | 30.0% | |
| !! | TTTGATGATGATGAAGACAA+TGG | + | chr2_1:13638765-13638784 | Msa0196410:CDS | 30.0% |
| ! | GATAATGTTGATGAAGAGAA+TGG | + | chr2_1:13638990-13639009 | Msa0196410:CDS | 30.0% |
| AAGTAGTTATTGAGTTTCTG+CGG | + | chr2_1:13639051-13639070 | Msa0196410:CDS | 30.0% | |
| CATTCATGACTTGAGATAAA+CGG | - | chr2_1:13639208-13639227 | None:intergenic | 30.0% | |
| ATTTCGATAATCAGATCCTC+CGG | - | chr2_1:13638417-13638436 | None:intergenic | 35.0% | |
| ! | AATGTTGATGAAGAGAATGG+TGG | + | chr2_1:13638993-13639012 | Msa0196410:CDS | 35.0% |
| CAGAGATGAAATGCAAATAG+CGG | + | chr2_1:13639145-13639164 | Msa0196410:CDS | 35.0% | |
| ATTTCGATAATCAGATCCTC+CGG | - | chr2_1:13638417-13638436 | None:intergenic | 35.0% | |
| ! | AATGTTGATGAAGAGAATGG+TGG | + | chr2_1:13638993-13639012 | Msa0196410:CDS | 35.0% |
| CAGAGATGAAATGCAAATAG+CGG | + | chr2_1:13639145-13639164 | Msa0196410:CDS | 35.0% | |
| TTTCGATAATCAGATCCTCC+GGG | - | chr2_1:13638416-13638435 | None:intergenic | 40.0% | |
| CTCAATTGCAGATAAACGCT+TGG | - | chr2_1:13638456-13638475 | None:intergenic | 40.0% | |
| CAAGCGTTTATCTGCAATTG+AGG | + | chr2_1:13638454-13638473 | Msa0196410:CDS | 40.0% | |
| AATTGAGGTGCGTATGCAAA+TGG | + | chr2_1:13638469-13638488 | Msa0196410:CDS | 40.0% | |
| ! | CTCTTCTTTTCGAAGCAACT+CGG | - | chr2_1:13638601-13638620 | None:intergenic | 40.0% |
| GCTTCGAAAAGAAGAGGATT+TGG | + | chr2_1:13638605-13638624 | Msa0196410:CDS | 40.0% | |
| CGAAAAGAAGAGGATTTGGA+TGG | + | chr2_1:13638609-13638628 | Msa0196410:CDS | 40.0% | |
| ! | GATGATGATGAAGACAATGG+TGG | + | chr2_1:13638768-13638787 | Msa0196410:CDS | 40.0% |
| CGATTCTTTCTCCTCTTCTT+CGG | - | chr2_1:13639024-13639043 | None:intergenic | 40.0% | |
| CGAAGAAGAGGAGAAAGAAT+CGG | + | chr2_1:13639022-13639041 | Msa0196410:CDS | 40.0% | |
| AGATGAAATGCAAATAGCGG+AGG | + | chr2_1:13639148-13639167 | Msa0196410:CDS | 40.0% | |
| TTTCGATAATCAGATCCTCC+GGG | - | chr2_1:13638416-13638435 | None:intergenic | 40.0% | |
| CTCAATTGCAGATAAACGCT+TGG | - | chr2_1:13638456-13638475 | None:intergenic | 40.0% | |
| CAAGCGTTTATCTGCAATTG+AGG | + | chr2_1:13638454-13638473 | Msa0196410:CDS | 40.0% | |
| AATTGAGGTGCGTATGCAAA+TGG | + | chr2_1:13638469-13638488 | Msa0196410:CDS | 40.0% | |
| ! | CTCTTCTTTTCGAAGCAACT+CGG | - | chr2_1:13638601-13638620 | None:intergenic | 40.0% |
| GCTTCGAAAAGAAGAGGATT+TGG | + | chr2_1:13638605-13638624 | Msa0196410:CDS | 40.0% | |
| CGAAAAGAAGAGGATTTGGA+TGG | + | chr2_1:13638609-13638628 | Msa0196410:CDS | 40.0% | |
| ! | GATGATGATGAAGACAATGG+TGG | + | chr2_1:13638768-13638787 | Msa0196410:CDS | 40.0% |
| CGATTCTTTCTCCTCTTCTT+CGG | - | chr2_1:13639024-13639043 | None:intergenic | 40.0% | |
| CGAAGAAGAGGAGAAAGAAT+CGG | + | chr2_1:13639022-13639041 | Msa0196410:CDS | 40.0% | |
| AGATGAAATGCAAATAGCGG+AGG | + | chr2_1:13639148-13639167 | Msa0196410:CDS | 40.0% | |
| ! | CGCTTGGTTCAACTCTAGAA+AGG | - | chr2_1:13638440-13638459 | None:intergenic | 45.0% |
| CGAGTTGCTTCGAAAAGAAG+AGG | + | chr2_1:13638599-13638618 | Msa0196410:CDS | 45.0% | |
| GATGATGAAGACAATGGTGG+TGG | + | chr2_1:13638771-13638790 | Msa0196410:CDS | 45.0% | |
| ! | GTTGATGAAGAGAATGGTGG+TGG | + | chr2_1:13638996-13639015 | Msa0196410:CDS | 45.0% |
| TATTGAGTTTCTGCGGCAGA+AGG | + | chr2_1:13639058-13639077 | Msa0196410:CDS | 45.0% | |
| GTGTCTCCAAAACATTCTGC+AGG | + | chr2_1:13639181-13639200 | Msa0196410:CDS | 45.0% | |
| ! | AACGGACCTGCAGAATGTTT+TGG | - | chr2_1:13639190-13639209 | None:intergenic | 45.0% |
| ! | CGCTTGGTTCAACTCTAGAA+AGG | - | chr2_1:13638440-13638459 | None:intergenic | 45.0% |
| CGAGTTGCTTCGAAAAGAAG+AGG | + | chr2_1:13638599-13638618 | Msa0196410:CDS | 45.0% | |
| GATGATGAAGACAATGGTGG+TGG | + | chr2_1:13638771-13638790 | Msa0196410:CDS | 45.0% | |
| ! | GTTGATGAAGAGAATGGTGG+TGG | + | chr2_1:13638996-13639015 | Msa0196410:CDS | 45.0% |
| TATTGAGTTTCTGCGGCAGA+AGG | + | chr2_1:13639058-13639077 | Msa0196410:CDS | 45.0% | |
| GTGTCTCCAAAACATTCTGC+AGG | + | chr2_1:13639181-13639200 | Msa0196410:CDS | 45.0% | |
| ! | AACGGACCTGCAGAATGTTT+TGG | - | chr2_1:13639190-13639209 | None:intergenic | 45.0% |
| TGAGGTGCGTATGCAAATGG+TGG | + | chr2_1:13638472-13638491 | Msa0196410:CDS | 50.0% | |
| AAGAGGAGAAAGAATCGGCG+TGG | + | chr2_1:13639027-13639046 | Msa0196410:CDS | 50.0% | |
| TGAGGTGCGTATGCAAATGG+TGG | + | chr2_1:13638472-13638491 | Msa0196410:CDS | 50.0% | |
| AAGAGGAGAAAGAATCGGCG+TGG | + | chr2_1:13639027-13639046 | Msa0196410:CDS | 50.0% | |
| GTCACAGAACGCGATACTCC+CGG | + | chr2_1:13638395-13638414 | Msa0196410:CDS | 55.0% | |
| !! | TGGTGGTGGTTCCGAAGAAG+AGG | + | chr2_1:13639010-13639029 | Msa0196410:CDS | 55.0% |
| TGAGTTTCTGCGGCAGAAGG+AGG | + | chr2_1:13639061-13639080 | Msa0196410:CDS | 55.0% | |
| GTCACAGAACGCGATACTCC+CGG | + | chr2_1:13638395-13638414 | Msa0196410:CDS | 55.0% | |
| !! | TGGTGGTGGTTCCGAAGAAG+AGG | + | chr2_1:13639010-13639029 | Msa0196410:CDS | 55.0% |
| TGAGTTTCTGCGGCAGAAGG+AGG | + | chr2_1:13639061-13639080 | Msa0196410:CDS | 55.0% | |
| ACAGAACGCGATACTCCCGG+AGG | + | chr2_1:13638398-13638417 | Msa0196410:CDS | 60.0% | |
| GCAGAAGGAGGCAGTTCCGT+TGG | + | chr2_1:13639073-13639092 | Msa0196410:CDS | 60.0% | |
| ACAGAACGCGATACTCCCGG+AGG | + | chr2_1:13638398-13638417 | Msa0196410:CDS | 60.0% | |
| GCAGAAGGAGGCAGTTCCGT+TGG | + | chr2_1:13639073-13639092 | Msa0196410:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 13638375 | 13639232 | 13638375 | ID=Msa0196410;Name=Msa0196410 |
| chr2_1 | mRNA | 13638375 | 13639232 | 13638375 | ID=Msa0196410-mRNA-1;Parent=Msa0196410;Name=Msa0196410-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|-1|0|1|-1|1|1|0|285 |
| chr2_1 | exon | 13638375 | 13639232 | 13638375 | ID=Msa0196410-mRNA-1:exon:5873;Parent=Msa0196410-mRNA-1 |
| chr2_1 | CDS | 13638375 | 13639232 | 13638375 | ID=Msa0196410-mRNA-1:cds;Parent=Msa0196410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
