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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1049100 | AFK35798.1 | 90.083 | 121 | 9 | 1 | 1 | 118 | 52 | 172 | 2.19e-68 | 215 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1049100 | sp|Q9LVP9|VTI13_ARATH | 63.636 | 121 | 41 | 1 | 1 | 118 | 52 | 172 | 6.20e-48 | 156 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1049100 | I3S6A6 | 90.083 | 121 | 9 | 1 | 1 | 118 | 52 | 172 | 1.05e-68 | 215 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0622170 | Msa1049100 | -0.804710 | 1.895479e-49 | -8.615850e-47 |
| Msa0178510 | Msa1049100 | 0.811452 | 6.952366e-51 | -8.615850e-47 |
| Msa0187830 | Msa1049100 | 0.803509 | 3.370459e-49 | -8.615850e-47 |
| Msa1039710 | Msa1049100 | -0.810147 | 1.331665e-50 | -8.615850e-47 |
| Msa1049100 | Msa1304890 | -0.800426 | 1.449456e-48 | -8.615850e-47 |
| Msa0526070 | Msa1049100 | -0.807595 | 4.682076e-50 | -8.615850e-47 |
| Msa0936390 | Msa1049100 | 0.803348 | 3.638727e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1049100 | MtrunA17_Chr7g0217961 | 90.083 | 121 | 9 | 1 | 1 | 118 | 52 | 172 | 2.22e-72 | 215 |
| Msa1049100 | MtrunA17_Chr6g0453631 | 79.339 | 121 | 22 | 1 | 1 | 118 | 52 | 172 | 2.19e-62 | 190 |
| Msa1049100 | MtrunA17_Chr3g0091631 | 61.983 | 121 | 43 | 1 | 1 | 118 | 115 | 235 | 3.98e-44 | 145 |
| Msa1049100 | MtrunA17_Chr5g0418041 | 63.559 | 118 | 40 | 1 | 1 | 115 | 53 | 170 | 6.20e-43 | 140 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1049100 | AT3G29100.1 | 63.636 | 121 | 41 | 1 | 1 | 118 | 26 | 146 | 3.57e-49 | 155 |
| Msa1049100 | AT3G29100.3 | 63.636 | 121 | 41 | 1 | 1 | 118 | 52 | 172 | 6.30e-49 | 156 |
| Msa1049100 | AT5G39510.1 | 63.636 | 121 | 41 | 1 | 1 | 118 | 52 | 172 | 9.74e-49 | 155 |
| Msa1049100 | AT3G29100.2 | 64.407 | 118 | 39 | 1 | 4 | 118 | 1 | 118 | 6.64e-48 | 151 |
| Msa1049100 | AT3G29100.4 | 64.407 | 118 | 39 | 1 | 4 | 118 | 1 | 118 | 6.64e-48 | 151 |
| Msa1049100 | AT3G29100.5 | 64.407 | 118 | 39 | 1 | 4 | 118 | 1 | 118 | 6.64e-48 | 151 |
| Msa1049100 | AT1G26670.1 | 58.824 | 119 | 46 | 1 | 1 | 116 | 53 | 171 | 1.83e-41 | 137 |
| Msa1049100 | AT5G39630.1 | 40.870 | 115 | 67 | 1 | 1 | 115 | 52 | 165 | 5.89e-18 | 76.3 |
Find 27 sgRNAs with CRISPR-Local
Find 84 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGTTTGTAGATTCGGAAAA+TGG | 0.196698 | 7_2:-11994165 | None:intergenic |
| AAGTTTGCAGCCAAACATTA+AGG | 0.247833 | 7_2:-11994129 | Msa1049100:CDS |
| CAAATCTAGTGATAGAATTA+AGG | 0.322137 | 7_2:-11993408 | Msa1049100:CDS |
| GGCAGAGGGGTTCATGTTAC+CGG | 0.389739 | 7_2:+11994031 | None:intergenic |
| CTCTGCCCTGGATATGTTGT+TGG | 0.395337 | 7_2:-11994015 | Msa1049100:CDS |
| CTGGATATGTTGTTGGAATC+AGG | 0.403178 | 7_2:-11994008 | Msa1049100:CDS |
| TGTTGGAAACAGAAGAGCTT+GGG | 0.403395 | 7_2:-11993370 | Msa1049100:CDS |
| TGTACTTCTTGCTAAGTTGC+GGG | 0.406118 | 7_2:-11994105 | Msa1049100:CDS |
| AGAAGTACACCCTTAATGTT+TGG | 0.429162 | 7_2:+11994119 | None:intergenic |
| AGTTTGCAGCCAAACATTAA+GGG | 0.439151 | 7_2:-11994128 | Msa1049100:CDS |
| GCTGAGAATGCAAATCTTGA+AGG | 0.459483 | 7_2:+11993339 | None:intergenic |
| GTGATAGAATTAAGGACAGT+AGG | 0.467390 | 7_2:-11993400 | Msa1049100:CDS |
| CTGATTCCAACAACATATCC+AGG | 0.467665 | 7_2:+11994009 | None:intergenic |
| TAACATGAACCCCTCTGCCC+TGG | 0.487808 | 7_2:-11994027 | Msa1049100:CDS |
| GGACAGTAGGAGAACAATGT+TGG | 0.515991 | 7_2:-11993387 | Msa1049100:CDS |
| GTGTACTTCTTGCTAAGTTG+CGG | 0.523629 | 7_2:-11994106 | Msa1049100:CDS |
| GAACTTCAGAAACTTGTATC+CGG | 0.554136 | 7_2:-11994050 | Msa1049100:CDS |
| ATGTTGGAAACAGAAGAGCT+TGG | 0.588803 | 7_2:-11993371 | Msa1049100:CDS |
| AACAACATATCCAGGGCAGA+GGG | 0.590723 | 7_2:+11994017 | None:intergenic |
| GATTCGGAAAATGGATCTTG+AGG | 0.594367 | 7_2:-11994156 | Msa1049100:CDS |
| CAACAACATATCCAGGGCAG+AGG | 0.603867 | 7_2:+11994016 | None:intergenic |
| GTTGGAAACAGAAGAGCTTG+GGG | 0.612851 | 7_2:-11993369 | Msa1049100:CDS |
| AGGCATGGAAGATGCAATGA+CGG | 0.637305 | 7_2:-11993988 | Msa1049100:intron |
| TATGTTGTTGGAATCAGGCA+TGG | 0.637439 | 7_2:-11994003 | Msa1049100:CDS |
| GCGAGCGAATCATAAATGAA+AGG | 0.647519 | 7_2:+11993268 | None:intergenic |
| TGATTCCAACAACATATCCA+GGG | 0.654844 | 7_2:+11994010 | None:intergenic |
| ACAACATATCCAGGGCAGAG+GGG | 0.732517 | 7_2:+11994018 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATATATATTGTAAAGATT+TGG | - | chr7_2:11993605-11993624 | Msa1049100:intron | 10.0% |
| !!! | ACAAATAAAGAATAAAATTT+TGG | - | chr7_2:11993720-11993739 | Msa1049100:intron | 10.0% |
| !! | ATATATATATTGTAAAGATT+TGG | - | chr7_2:11993605-11993624 | Msa1049100:intron | 10.0% |
| !!! | ACAAATAAAGAATAAAATTT+TGG | - | chr7_2:11993720-11993739 | Msa1049100:intron | 10.0% |
| !! | ATTGCTAATATGATAAAAAC+AGG | - | chr7_2:11993954-11993973 | Msa1049100:intron | 20.0% |
| !! | ATTGCTAATATGATAAAAAC+AGG | - | chr7_2:11993954-11993973 | Msa1049100:intron | 20.0% |
| !! | TAACTTGAAACTTTAGAGAT+TGG | + | chr7_2:11993561-11993580 | None:intergenic | 25.0% |
| ! | TTAAAACATCAGGAATCAAA+TGG | + | chr7_2:11993892-11993911 | None:intergenic | 25.0% |
| !! | CTCAATCAATTTAAAACATC+AGG | + | chr7_2:11993902-11993921 | None:intergenic | 25.0% |
| ! | CAAATCTAGTGATAGAATTA+AGG | - | chr7_2:11994024-11994043 | Msa1049100:CDS | 25.0% |
| !! | TAACTTGAAACTTTAGAGAT+TGG | + | chr7_2:11993561-11993580 | None:intergenic | 25.0% |
| ! | TTAAAACATCAGGAATCAAA+TGG | + | chr7_2:11993892-11993911 | None:intergenic | 25.0% |
| !! | CTCAATCAATTTAAAACATC+AGG | + | chr7_2:11993902-11993921 | None:intergenic | 25.0% |
| ! | CAAATCTAGTGATAGAATTA+AGG | - | chr7_2:11994024-11994043 | Msa1049100:CDS | 25.0% |
| TGGTTTCACATAACAATGAA+TGG | + | chr7_2:11993513-11993532 | None:intergenic | 30.0% | |
| TTGAGTCCTAATGTTGTAAA+TGG | - | chr7_2:11993858-11993877 | Msa1049100:intron | 30.0% | |
| ! | GAAATGCCATTTACAACATT+AGG | + | chr7_2:11993867-11993886 | None:intergenic | 30.0% |
| TGGTTTCACATAACAATGAA+TGG | + | chr7_2:11993513-11993532 | None:intergenic | 30.0% | |
| TTGAGTCCTAATGTTGTAAA+TGG | - | chr7_2:11993858-11993877 | Msa1049100:intron | 30.0% | |
| ! | GAAATGCCATTTACAACATT+AGG | + | chr7_2:11993867-11993886 | None:intergenic | 30.0% |
| AAGTTTGCAGCCAAACATTA+AGG | - | chr7_2:11993303-11993322 | Msa1049100:CDS | 35.0% | |
| AGTTTGCAGCCAAACATTAA+GGG | - | chr7_2:11993304-11993323 | Msa1049100:CDS | 35.0% | |
| ! | AGAAGTACACCCTTAATGTT+TGG | + | chr7_2:11993316-11993335 | None:intergenic | 35.0% |
| GAACTTCAGAAACTTGTATC+CGG | - | chr7_2:11993382-11993401 | Msa1049100:CDS | 35.0% | |
| TGATTCCAACAACATATCCA+GGG | + | chr7_2:11993425-11993444 | None:intergenic | 35.0% | |
| GAAACCATGATTGCTATGTA+CGG | - | chr7_2:11993526-11993545 | Msa1049100:intron | 35.0% | |
| AAACCATGATTGCTATGTAC+GGG | - | chr7_2:11993527-11993546 | Msa1049100:intron | 35.0% | |
| GTGATAGAATTAAGGACAGT+AGG | - | chr7_2:11994032-11994051 | Msa1049100:CDS | 35.0% | |
| AAGTTTGCAGCCAAACATTA+AGG | - | chr7_2:11993303-11993322 | Msa1049100:CDS | 35.0% | |
| AGTTTGCAGCCAAACATTAA+GGG | - | chr7_2:11993304-11993323 | Msa1049100:CDS | 35.0% | |
| ! | AGAAGTACACCCTTAATGTT+TGG | + | chr7_2:11993316-11993335 | None:intergenic | 35.0% |
| GAACTTCAGAAACTTGTATC+CGG | - | chr7_2:11993382-11993401 | Msa1049100:CDS | 35.0% | |
| TGATTCCAACAACATATCCA+GGG | + | chr7_2:11993425-11993444 | None:intergenic | 35.0% | |
| GAAACCATGATTGCTATGTA+CGG | - | chr7_2:11993526-11993545 | Msa1049100:intron | 35.0% | |
| AAACCATGATTGCTATGTAC+GGG | - | chr7_2:11993527-11993546 | Msa1049100:intron | 35.0% | |
| GTGATAGAATTAAGGACAGT+AGG | - | chr7_2:11994032-11994051 | Msa1049100:CDS | 35.0% | |
| GTGTACTTCTTGCTAAGTTG+CGG | - | chr7_2:11993326-11993345 | Msa1049100:CDS | 40.0% | |
| TGTACTTCTTGCTAAGTTGC+GGG | - | chr7_2:11993327-11993346 | Msa1049100:CDS | 40.0% | |
| CTGATTCCAACAACATATCC+AGG | + | chr7_2:11993426-11993445 | None:intergenic | 40.0% | |
| CTGGATATGTTGTTGGAATC+AGG | - | chr7_2:11993424-11993443 | Msa1049100:CDS | 40.0% | |
| TATGTTGTTGGAATCAGGCA+TGG | - | chr7_2:11993429-11993448 | Msa1049100:CDS | 40.0% | |
| TCTTCAGACACTTGTCATGT+TGG | - | chr7_2:11993785-11993804 | Msa1049100:intron | 40.0% | |
| ATGTTGGAAACAGAAGAGCT+TGG | - | chr7_2:11994061-11994080 | Msa1049100:CDS | 40.0% | |
| TGTTGGAAACAGAAGAGCTT+GGG | - | chr7_2:11994062-11994081 | Msa1049100:CDS | 40.0% | |
| GCTGAGAATGCAAATCTTGA+AGG | + | chr7_2:11994096-11994115 | None:intergenic | 40.0% | |
| GTGTACTTCTTGCTAAGTTG+CGG | - | chr7_2:11993326-11993345 | Msa1049100:CDS | 40.0% | |
| TGTACTTCTTGCTAAGTTGC+GGG | - | chr7_2:11993327-11993346 | Msa1049100:CDS | 40.0% | |
| CTGATTCCAACAACATATCC+AGG | + | chr7_2:11993426-11993445 | None:intergenic | 40.0% | |
| CTGGATATGTTGTTGGAATC+AGG | - | chr7_2:11993424-11993443 | Msa1049100:CDS | 40.0% | |
| TATGTTGTTGGAATCAGGCA+TGG | - | chr7_2:11993429-11993448 | Msa1049100:CDS | 40.0% | |
| TCTTCAGACACTTGTCATGT+TGG | - | chr7_2:11993785-11993804 | Msa1049100:intron | 40.0% | |
| ATGTTGGAAACAGAAGAGCT+TGG | - | chr7_2:11994061-11994080 | Msa1049100:CDS | 40.0% | |
| TGTTGGAAACAGAAGAGCTT+GGG | - | chr7_2:11994062-11994081 | Msa1049100:CDS | 40.0% | |
| GCTGAGAATGCAAATCTTGA+AGG | + | chr7_2:11994096-11994115 | None:intergenic | 40.0% | |
| AACAACATATCCAGGGCAGA+GGG | + | chr7_2:11993418-11993437 | None:intergenic | 45.0% | |
| AGGCATGGAAGATGCAATGA+CGG | - | chr7_2:11993444-11993463 | Msa1049100:CDS | 45.0% | |
| AAGCCCGTACATAGCAATCA+TGG | + | chr7_2:11993533-11993552 | None:intergenic | 45.0% | |
| TCAGACACTTGTCATGTTGG+TGG | - | chr7_2:11993788-11993807 | Msa1049100:intron | 45.0% | |
| TGATATGTTGAGCCCTGTTG+TGG | - | chr7_2:11993823-11993842 | Msa1049100:intron | 45.0% | |
| GGACAGTAGGAGAACAATGT+TGG | - | chr7_2:11994045-11994064 | Msa1049100:CDS | 45.0% | |
| GTTGGAAACAGAAGAGCTTG+GGG | - | chr7_2:11994063-11994082 | Msa1049100:CDS | 45.0% | |
| AACAACATATCCAGGGCAGA+GGG | + | chr7_2:11993418-11993437 | None:intergenic | 45.0% | |
| AGGCATGGAAGATGCAATGA+CGG | - | chr7_2:11993444-11993463 | Msa1049100:CDS | 45.0% | |
| AAGCCCGTACATAGCAATCA+TGG | + | chr7_2:11993533-11993552 | None:intergenic | 45.0% | |
| TCAGACACTTGTCATGTTGG+TGG | - | chr7_2:11993788-11993807 | Msa1049100:intron | 45.0% | |
| TGATATGTTGAGCCCTGTTG+TGG | - | chr7_2:11993823-11993842 | Msa1049100:intron | 45.0% | |
| GGACAGTAGGAGAACAATGT+TGG | - | chr7_2:11994045-11994064 | Msa1049100:CDS | 45.0% | |
| GTTGGAAACAGAAGAGCTTG+GGG | - | chr7_2:11994063-11994082 | Msa1049100:CDS | 45.0% | |
| ACAACATATCCAGGGCAGAG+GGG | + | chr7_2:11993417-11993436 | None:intergenic | 50.0% | |
| CAACAACATATCCAGGGCAG+AGG | + | chr7_2:11993419-11993438 | None:intergenic | 50.0% | |
| CTCTGCCCTGGATATGTTGT+TGG | - | chr7_2:11993417-11993436 | Msa1049100:CDS | 50.0% | |
| !! | CATGTTGGTGGCGCACAAAA+TGG | - | chr7_2:11993800-11993819 | Msa1049100:intron | 50.0% |
| GCTTGTGCTTTGCCACAACA+GGG | + | chr7_2:11993838-11993857 | None:intergenic | 50.0% | |
| AGCTTGTGCTTTGCCACAAC+AGG | + | chr7_2:11993839-11993858 | None:intergenic | 50.0% | |
| ACAACATATCCAGGGCAGAG+GGG | + | chr7_2:11993417-11993436 | None:intergenic | 50.0% | |
| CAACAACATATCCAGGGCAG+AGG | + | chr7_2:11993419-11993438 | None:intergenic | 50.0% | |
| CTCTGCCCTGGATATGTTGT+TGG | - | chr7_2:11993417-11993436 | Msa1049100:CDS | 50.0% | |
| !! | CATGTTGGTGGCGCACAAAA+TGG | - | chr7_2:11993800-11993819 | Msa1049100:intron | 50.0% |
| GCTTGTGCTTTGCCACAACA+GGG | + | chr7_2:11993838-11993857 | None:intergenic | 50.0% | |
| AGCTTGTGCTTTGCCACAAC+AGG | + | chr7_2:11993839-11993858 | None:intergenic | 50.0% | |
| GGCAGAGGGGTTCATGTTAC+CGG | + | chr7_2:11993404-11993423 | None:intergenic | 55.0% | |
| TAACATGAACCCCTCTGCCC+TGG | - | chr7_2:11993405-11993424 | Msa1049100:CDS | 55.0% | |
| GGCAGAGGGGTTCATGTTAC+CGG | + | chr7_2:11993404-11993423 | None:intergenic | 55.0% | |
| TAACATGAACCCCTCTGCCC+TGG | - | chr7_2:11993405-11993424 | Msa1049100:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 11993277 | 11994177 | 11993277 | ID=Msa1049100;Name=Msa1049100 |
| chr7_2 | mRNA | 11993277 | 11994177 | 11993277 | ID=Msa1049100-mRNA-1;Parent=Msa1049100;Name=Msa1049100-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|0|0|1|0|0.5|2|0|127 |
| chr7_2 | exon | 11993989 | 11994177 | 11993989 | ID=Msa1049100-mRNA-1:exon:3040;Parent=Msa1049100-mRNA-1 |
| chr7_2 | exon | 11993277 | 11993471 | 11993277 | ID=Msa1049100-mRNA-1:exon:3039;Parent=Msa1049100-mRNA-1 |
| chr7_2 | CDS | 11993989 | 11994177 | 11993989 | ID=Msa1049100-mRNA-1:cds;Parent=Msa1049100-mRNA-1 |
| chr7_2 | CDS | 11993277 | 11993471 | 11993277 | ID=Msa1049100-mRNA-1:cds;Parent=Msa1049100-mRNA-1 |
| Gene Sequence |
| Protein sequence |
