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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1290620 | XP_003628696.1 | 94.444 | 144 | 8 | 0 | 1 | 144 | 1 | 144 | 1.61e-94 | 279 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1290620 | sp|F4JZT3|ARR24_ARATH | 56.780 | 118 | 49 | 1 | 10 | 127 | 16 | 131 | 1.00e-36 | 125 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1290620 | G7LG58 | 94.444 | 144 | 8 | 0 | 1 | 144 | 1 | 144 | 7.68e-95 | 279 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1290620 | TR | Others |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1290620 | MtrunA17_Chr8g0364781 | 94.444 | 144 | 8 | 0 | 1 | 144 | 1 | 144 | 1.48e-98 | 279 |
| Msa1290620 | MtrunA17_Chr7g0262351 | 58.400 | 125 | 49 | 1 | 5 | 129 | 15 | 136 | 2.01e-42 | 137 |
| Msa1290620 | MtrunA17_Chr7g0262671 | 62.821 | 78 | 28 | 1 | 1 | 78 | 1 | 77 | 1.69e-27 | 98.2 |
| Msa1290620 | MtrunA17_Chr7g0262681 | 65.672 | 67 | 18 | 2 | 66 | 132 | 1 | 62 | 5.01e-20 | 78.2 |
| Msa1290620 | MtrunA17_Chr6g0472261 | 54.795 | 73 | 33 | 0 | 6 | 78 | 4 | 76 | 1.50e-19 | 77.4 |
| Msa1290620 | MtrunA17_Chr6g0451941 | 34.259 | 108 | 69 | 1 | 12 | 119 | 33 | 138 | 2.23e-14 | 65.9 |
| Msa1290620 | MtrunA17_Chr8g0371601 | 31.915 | 141 | 73 | 4 | 12 | 131 | 1029 | 1167 | 1.22e-13 | 67.0 |
| Msa1290620 | MtrunA17_Chr8g0392301 | 31.159 | 138 | 67 | 4 | 15 | 132 | 864 | 993 | 3.74e-13 | 65.5 |
| Msa1290620 | MtrunA17_Chr1g0194731 | 38.017 | 121 | 55 | 5 | 15 | 122 | 331 | 444 | 6.75e-12 | 61.6 |
| Msa1290620 | MtrunA17_Chr5g0447641 | 41.791 | 67 | 39 | 0 | 15 | 81 | 1077 | 1143 | 2.25e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1290620 | AT5G26594.1 | 56.780 | 118 | 49 | 1 | 10 | 127 | 16 | 131 | 1.02e-37 | 125 |
| Msa1290620 | AT3G04280.1 | 50.000 | 116 | 56 | 2 | 12 | 126 | 22 | 136 | 2.17e-31 | 109 |
| Msa1290620 | AT3G04280.2 | 50.000 | 116 | 56 | 2 | 12 | 126 | 22 | 136 | 2.17e-31 | 109 |
| Msa1290620 | AT3G04280.3 | 50.000 | 116 | 56 | 2 | 12 | 126 | 22 | 136 | 2.17e-31 | 109 |
| Msa1290620 | AT2G17820.1 | 27.329 | 161 | 79 | 3 | 15 | 139 | 1047 | 1205 | 1.56e-12 | 64.3 |
| Msa1290620 | AT2G01830.5 | 30.579 | 121 | 66 | 3 | 15 | 122 | 937 | 1052 | 5.96e-12 | 62.4 |
| Msa1290620 | AT2G01830.1 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 6.19e-12 | 62.4 |
| Msa1290620 | AT2G01830.4 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 6.19e-12 | 62.4 |
| Msa1290620 | AT2G01830.6 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 6.19e-12 | 62.4 |
| Msa1290620 | AT2G01830.3 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 6.19e-12 | 62.4 |
| Msa1290620 | AT2G01830.2 | 30.579 | 121 | 66 | 3 | 15 | 122 | 948 | 1063 | 6.50e-12 | 62.4 |
Find 28 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAAATAGTGATAAAATTTA+TGG | 0.245050 | 8_3:-45540230 | Msa1290620:CDS |
| TGGTGTATCCTCACACTCTA+TGG | 0.342570 | 8_3:-45540260 | Msa1290620:CDS |
| TGACCTAATCTTGATGGATA+AGG | 0.347722 | 8_3:-45540537 | Msa1290620:CDS |
| ACGTCATTTGATGAATTCTT+CGG | 0.351042 | 8_3:+45540639 | None:intergenic |
| CACAACAAGTGCTGTTAACT+TGG | 0.355344 | 8_3:+45540679 | None:intergenic |
| CGTCATTTGATGAATTCTTC+GGG | 0.366651 | 8_3:+45540640 | None:intergenic |
| AACAAAGCAACTAAGGTTGA+TGG | 0.449452 | 8_3:-45540302 | Msa1290620:CDS |
| GTGATAAAATTTATGGAAGC+AGG | 0.456780 | 8_3:-45540223 | Msa1290620:CDS |
| AATTCCATTCTTCATGCCGT+TGG | 0.460947 | 8_3:-45540157 | Msa1290620:CDS |
| TATCCTTATCCATCAAGATT+AGG | 0.462938 | 8_3:+45540534 | None:intergenic |
| TCTTGAGAAACCATTGGATA+AGG | 0.467024 | 8_3:-45540188 | Msa1290620:CDS |
| GGGATATCTAGCACTATTGT+TGG | 0.469032 | 8_3:-45540280 | Msa1290620:CDS |
| TCATTCCATCTTGTGAGGAA+TGG | 0.470437 | 8_3:+45540111 | None:intergenic |
| TATAGGCAACAAAGCAACTA+AGG | 0.474253 | 8_3:-45540309 | Msa1290620:intron |
| CAAATGACGTTGAGTAACTT+AGG | 0.479404 | 8_3:-45540626 | Msa1290620:CDS |
| ACCTCAGCTCCATTCATCTC+AGG | 0.491878 | 8_3:+45540509 | None:intergenic |
| AAGGATATGCCTGAGATGAA+TGG | 0.499108 | 8_3:-45540518 | Msa1290620:CDS |
| ACAAAGCAACTAAGGTTGAT+GGG | 0.523464 | 8_3:-45540301 | Msa1290620:CDS |
| CGAATATCTTGAGAAACCAT+TGG | 0.533361 | 8_3:-45540194 | Msa1290620:CDS |
| CTCCTCTTCCATAGAGTGTG+AGG | 0.555361 | 8_3:+45540252 | None:intergenic |
| AAATTCCATTCCTCACAAGA+TGG | 0.561625 | 8_3:-45540116 | Msa1290620:CDS |
| ATCCTCACACTCTATGGAAG+AGG | 0.570487 | 8_3:-45540254 | Msa1290620:CDS |
| TTTGTTCATTCCATCTTGTG+AGG | 0.573958 | 8_3:+45540106 | None:intergenic |
| CAAGTTAACAGCACTTGTTG+TGG | 0.584291 | 8_3:-45540678 | Msa1290620:CDS |
| CTCACACTCTATGGAAGAGG+AGG | 0.604784 | 8_3:-45540251 | Msa1290620:CDS |
| CAAAGCAACTAAGGTTGATG+GGG | 0.617733 | 8_3:-45540300 | Msa1290620:CDS |
| GCAGTGGAAATTCATCAGCA+TGG | 0.649906 | 8_3:-45540569 | Msa1290620:CDS |
| GCCTGAGATGAATGGAGCTG+AGG | 0.680215 | 8_3:-45540510 | Msa1290620:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTATGTGTTTCTTATAT+AGG | - | chr8_3:45540492-45540511 | Msa1290620:intron | 15.0% |
| !!! | TTTTTCTTTTATTTTTCCAA+CGG | + | chr8_3:45540680-45540699 | None:intergenic | 15.0% |
| !! | GGAAATAGTGATAAAATTTA+TGG | - | chr8_3:45540588-45540607 | Msa1290620:CDS | 20.0% |
| !! | AATTTTTGACCTAATCTTGA+TGG | - | chr8_3:45540275-45540294 | Msa1290620:CDS | 25.0% |
| !!! | TTGGATGTAAAGTTTTGAGA+TGG | + | chr8_3:45540123-45540142 | None:intergenic | 30.0% |
| ACGTCATTTGATGAATTCTT+CGG | + | chr8_3:45540182-45540201 | None:intergenic | 30.0% | |
| AACAACACTTGTGTGAAAAA+CGG | - | chr8_3:45540219-45540238 | Msa1290620:CDS | 30.0% | |
| TATCCTTATCCATCAAGATT+AGG | + | chr8_3:45540287-45540306 | None:intergenic | 30.0% | |
| GAGTTCATTCTTGCTTATTT+AGG | - | chr8_3:45540390-45540409 | Msa1290620:intron | 30.0% | |
| GTGATAAAATTTATGGAAGC+AGG | - | chr8_3:45540595-45540614 | Msa1290620:CDS | 30.0% | |
| CGTCATTTGATGAATTCTTC+GGG | + | chr8_3:45540181-45540200 | None:intergenic | 35.0% | |
| CAAATGACGTTGAGTAACTT+AGG | - | chr8_3:45540192-45540211 | Msa1290620:CDS | 35.0% | |
| ! | TGACCTAATCTTGATGGATA+AGG | - | chr8_3:45540281-45540300 | Msa1290620:CDS | 35.0% |
| TATAGGCAACAAAGCAACTA+AGG | - | chr8_3:45540509-45540528 | Msa1290620:intron | 35.0% | |
| AACAAAGCAACTAAGGTTGA+TGG | - | chr8_3:45540516-45540535 | Msa1290620:CDS | 35.0% | |
| ! | ACAAAGCAACTAAGGTTGAT+GGG | - | chr8_3:45540517-45540536 | Msa1290620:CDS | 35.0% |
| CGAATATCTTGAGAAACCAT+TGG | - | chr8_3:45540624-45540643 | Msa1290620:CDS | 35.0% | |
| TCTTGAGAAACCATTGGATA+AGG | - | chr8_3:45540630-45540649 | Msa1290620:CDS | 35.0% | |
| ! | TTGAGTTTTGCCTTATCCAA+TGG | + | chr8_3:45540643-45540662 | None:intergenic | 35.0% |
| AAATTCCATTCCTCACAAGA+TGG | - | chr8_3:45540702-45540721 | Msa1290620:CDS | 35.0% | |
| ! | CACAACAAGTGCTGTTAACT+TGG | + | chr8_3:45540142-45540161 | None:intergenic | 40.0% |
| ! | CAAGTTAACAGCACTTGTTG+TGG | - | chr8_3:45540140-45540159 | Msa1290620:CDS | 40.0% |
| GAAAAACGGAAAAGAAGCAG+TGG | - | chr8_3:45540233-45540252 | Msa1290620:CDS | 40.0% | |
| AAGGATATGCCTGAGATGAA+TGG | - | chr8_3:45540300-45540319 | Msa1290620:CDS | 40.0% | |
| CATTCTTGCTTATTTAGGCG+TGG | - | chr8_3:45540395-45540414 | Msa1290620:intron | 40.0% | |
| !! | CAAAGCAACTAAGGTTGATG+GGG | - | chr8_3:45540518-45540537 | Msa1290620:CDS | 40.0% |
| GGGATATCTAGCACTATTGT+TGG | - | chr8_3:45540538-45540557 | Msa1290620:CDS | 40.0% | |
| AATTCCATTCTTCATGCCGT+TGG | - | chr8_3:45540661-45540680 | Msa1290620:CDS | 40.0% | |
| ! | TTTTCCAACGGCATGAAGAA+TGG | + | chr8_3:45540668-45540687 | None:intergenic | 40.0% |
| TCATTCCATCTTGTGAGGAA+TGG | + | chr8_3:45540710-45540729 | None:intergenic | 40.0% | |
| GCAGTGGAAATTCATCAGCA+TGG | - | chr8_3:45540249-45540268 | Msa1290620:CDS | 45.0% | |
| TGGTGTATCCTCACACTCTA+TGG | - | chr8_3:45540558-45540577 | Msa1290620:CDS | 45.0% | |
| ATCCTCACACTCTATGGAAG+AGG | - | chr8_3:45540564-45540583 | Msa1290620:CDS | 45.0% | |
| !! | ATATATAAATGTAAAATTTA+GGG | + | chr8_3:45540354-45540373 | None:intergenic | 5.0% |
| !! | TATATATAAATGTAAAATTT+AGG | + | chr8_3:45540355-45540374 | None:intergenic | 5.0% |
| ACCTCAGCTCCATTCATCTC+AGG | + | chr8_3:45540312-45540331 | None:intergenic | 50.0% | |
| CTCCTCTTCCATAGAGTGTG+AGG | + | chr8_3:45540569-45540588 | None:intergenic | 50.0% | |
| CTCACACTCTATGGAAGAGG+AGG | - | chr8_3:45540567-45540586 | Msa1290620:CDS | 50.0% | |
| GCCTGAGATGAATGGAGCTG+AGG | - | chr8_3:45540308-45540327 | Msa1290620:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 45540111 | 45540729 | 45540111 | ID=Msa1290620;Name=Msa1290620 |
| chr8_3 | mRNA | 45540111 | 45540729 | 45540111 | ID=Msa1290620-mRNA-1;Parent=Msa1290620;Name=Msa1290620-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|0|0|1|1|1|2|0|144 |
| chr8_3 | exon | 45540511 | 45540729 | 45540511 | ID=Msa1290620-mRNA-1:exon:12574;Parent=Msa1290620-mRNA-1 |
| chr8_3 | exon | 45540111 | 45540326 | 45540111 | ID=Msa1290620-mRNA-1:exon:12573;Parent=Msa1290620-mRNA-1 |
| chr8_3 | CDS | 45540511 | 45540729 | 45540511 | ID=Msa1290620-mRNA-1:cds;Parent=Msa1290620-mRNA-1 |
| chr8_3 | CDS | 45540111 | 45540326 | 45540111 | ID=Msa1290620-mRNA-1:cds;Parent=Msa1290620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
