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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1249190 | XP_003628696.1 | 93.750 | 144 | 9 | 0 | 1 | 144 | 1 | 144 | 8.25e-94 | 277 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1249190 | sp|F4JZT3|ARR24_ARATH | 56.780 | 118 | 49 | 1 | 10 | 127 | 16 | 131 | 1.01e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1249190 | G7LG58 | 93.750 | 144 | 9 | 0 | 1 | 144 | 1 | 144 | 3.94e-94 | 277 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1249190 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1249190 | MtrunA17_Chr8g0364781 | 93.750 | 144 | 9 | 0 | 1 | 144 | 1 | 144 | 7.59e-98 | 277 |
| Msa1249190 | MtrunA17_Chr7g0262351 | 58.400 | 125 | 49 | 1 | 5 | 129 | 15 | 136 | 1.69e-42 | 137 |
| Msa1249190 | MtrunA17_Chr7g0262671 | 62.821 | 78 | 28 | 1 | 1 | 78 | 1 | 77 | 1.75e-27 | 98.2 |
| Msa1249190 | MtrunA17_Chr7g0262681 | 65.672 | 67 | 18 | 2 | 66 | 132 | 1 | 62 | 4.79e-20 | 78.2 |
| Msa1249190 | MtrunA17_Chr6g0472261 | 54.795 | 73 | 33 | 0 | 6 | 78 | 4 | 76 | 1.47e-19 | 77.4 |
| Msa1249190 | MtrunA17_Chr6g0451941 | 34.259 | 108 | 69 | 1 | 12 | 119 | 33 | 138 | 2.05e-14 | 66.2 |
| Msa1249190 | MtrunA17_Chr8g0371601 | 31.915 | 141 | 73 | 4 | 12 | 131 | 1029 | 1167 | 1.20e-13 | 67.0 |
| Msa1249190 | MtrunA17_Chr8g0392301 | 31.159 | 138 | 67 | 4 | 15 | 132 | 864 | 993 | 3.46e-13 | 65.5 |
| Msa1249190 | MtrunA17_Chr1g0194731 | 38.017 | 121 | 55 | 5 | 15 | 122 | 331 | 444 | 6.13e-12 | 62.0 |
| Msa1249190 | MtrunA17_Chr5g0447641 | 41.791 | 67 | 39 | 0 | 15 | 81 | 1077 | 1143 | 2.38e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1249190 | AT5G26594.1 | 56.780 | 118 | 49 | 1 | 10 | 127 | 16 | 131 | 1.03e-37 | 125 |
| Msa1249190 | AT3G04280.1 | 50.000 | 116 | 56 | 2 | 12 | 126 | 22 | 136 | 2.26e-31 | 109 |
| Msa1249190 | AT3G04280.2 | 50.000 | 116 | 56 | 2 | 12 | 126 | 22 | 136 | 2.26e-31 | 109 |
| Msa1249190 | AT3G04280.3 | 50.000 | 116 | 56 | 2 | 12 | 126 | 22 | 136 | 2.26e-31 | 109 |
| Msa1249190 | AT2G17820.1 | 27.329 | 161 | 79 | 3 | 15 | 139 | 1047 | 1205 | 1.60e-12 | 64.3 |
| Msa1249190 | AT2G01830.5 | 30.579 | 121 | 66 | 3 | 15 | 122 | 937 | 1052 | 5.57e-12 | 62.4 |
| Msa1249190 | AT2G01830.2 | 30.579 | 121 | 66 | 3 | 15 | 122 | 948 | 1063 | 5.74e-12 | 62.4 |
| Msa1249190 | AT2G01830.1 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 5.78e-12 | 62.4 |
| Msa1249190 | AT2G01830.4 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 5.78e-12 | 62.4 |
| Msa1249190 | AT2G01830.6 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 5.78e-12 | 62.4 |
| Msa1249190 | AT2G01830.3 | 30.579 | 121 | 66 | 3 | 15 | 122 | 925 | 1040 | 5.78e-12 | 62.4 |
Find 27 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAAATAGTGATAAAATTTA+TGG | 0.245050 | 8_2:-43698691 | Msa1249190:CDS |
| TGGTGTATCCTCACACTCTA+TGG | 0.342570 | 8_2:-43698721 | Msa1249190:CDS |
| TGACCTAATCTTGATGGATA+AGG | 0.347722 | 8_2:-43698998 | Msa1249190:CDS |
| ACGTCATTTGATGAATTCTT+CGG | 0.351042 | 8_2:+43699100 | None:intergenic |
| CACAACAAGTGCTGTTAACT+TGG | 0.355344 | 8_2:+43699140 | None:intergenic |
| CGTCATTTGATGAATTCTTC+GGG | 0.366651 | 8_2:+43699101 | None:intergenic |
| AACAAAGCAACTAAGGTTGA+TGG | 0.449452 | 8_2:-43698763 | Msa1249190:CDS |
| GTGATAAAATTTATGGAAGC+AGG | 0.456780 | 8_2:-43698684 | Msa1249190:CDS |
| AATTCCATTCTTCATGCCGT+TGG | 0.460947 | 8_2:-43698618 | Msa1249190:CDS |
| TATCCTTATCCATCAAGATT+AGG | 0.462938 | 8_2:+43698995 | None:intergenic |
| TCTTGAGAAACCATTGGATA+AGG | 0.467024 | 8_2:-43698649 | Msa1249190:CDS |
| GGGATATCTAGCACTATTGT+TGG | 0.469032 | 8_2:-43698741 | Msa1249190:CDS |
| TATAGGCAACAAAGCAACTA+AGG | 0.474253 | 8_2:-43698770 | Msa1249190:intron |
| TCATTTCATCTTGTGAGGAA+TGG | 0.476235 | 8_2:+43698572 | None:intergenic |
| CAAATGACGTTGAGTAACTT+AGG | 0.479404 | 8_2:-43699087 | Msa1249190:CDS |
| ACCTCAGCTCCATTCATCTC+AGG | 0.491878 | 8_2:+43698970 | None:intergenic |
| AAGGATATGCCTGAGATGAA+TGG | 0.499108 | 8_2:-43698979 | Msa1249190:CDS |
| ACAAAGCAACTAAGGTTGAT+GGG | 0.523464 | 8_2:-43698762 | Msa1249190:CDS |
| CGAATATCTTGAGAAACCAT+TGG | 0.533361 | 8_2:-43698655 | Msa1249190:CDS |
| TTTGTTCATTTCATCTTGTG+AGG | 0.533712 | 8_2:+43698567 | None:intergenic |
| CTCCTCTTCCATAGAGTGTG+AGG | 0.555361 | 8_2:+43698713 | None:intergenic |
| ATCCTCACACTCTATGGAAG+AGG | 0.570487 | 8_2:-43698715 | Msa1249190:CDS |
| CAAGTTAACAGCACTTGTTG+TGG | 0.584291 | 8_2:-43699139 | Msa1249190:CDS |
| CTCACACTCTATGGAAGAGG+AGG | 0.604784 | 8_2:-43698712 | Msa1249190:CDS |
| CAAAGCAACTAAGGTTGATG+GGG | 0.617733 | 8_2:-43698761 | Msa1249190:CDS |
| GCAGTGGAAATTCATCAGCA+TGG | 0.649906 | 8_2:-43699030 | Msa1249190:CDS |
| GCCTGAGATGAATGGAGCTG+AGG | 0.680215 | 8_2:-43698971 | Msa1249190:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTATGTGTTTCTTATAT+AGG | - | chr8_2:43698953-43698972 | Msa1249190:intron | 15.0% |
| !!! | TTTTTCTTTTATTTTTCCAA+CGG | + | chr8_2:43699141-43699160 | None:intergenic | 15.0% |
| !! | GGAAATAGTGATAAAATTTA+TGG | - | chr8_2:43699049-43699068 | Msa1249190:CDS | 20.0% |
| !! | AATTTTTGACCTAATCTTGA+TGG | - | chr8_2:43698736-43698755 | Msa1249190:CDS | 25.0% |
| !!! | TTGGATGTAAAGTTTTGAGA+TGG | + | chr8_2:43698584-43698603 | None:intergenic | 30.0% |
| ACGTCATTTGATGAATTCTT+CGG | + | chr8_2:43698643-43698662 | None:intergenic | 30.0% | |
| AACAACACTTGTGTGAAAAA+CGG | - | chr8_2:43698680-43698699 | Msa1249190:CDS | 30.0% | |
| TATCCTTATCCATCAAGATT+AGG | + | chr8_2:43698748-43698767 | None:intergenic | 30.0% | |
| GAGTTCATTCTTGCTTATTT+AGG | - | chr8_2:43698851-43698870 | Msa1249190:intron | 30.0% | |
| GTGATAAAATTTATGGAAGC+AGG | - | chr8_2:43699056-43699075 | Msa1249190:CDS | 30.0% | |
| CGTCATTTGATGAATTCTTC+GGG | + | chr8_2:43698642-43698661 | None:intergenic | 35.0% | |
| CAAATGACGTTGAGTAACTT+AGG | - | chr8_2:43698653-43698672 | Msa1249190:CDS | 35.0% | |
| ! | TGACCTAATCTTGATGGATA+AGG | - | chr8_2:43698742-43698761 | Msa1249190:CDS | 35.0% |
| TATAGGCAACAAAGCAACTA+AGG | - | chr8_2:43698970-43698989 | Msa1249190:intron | 35.0% | |
| AACAAAGCAACTAAGGTTGA+TGG | - | chr8_2:43698977-43698996 | Msa1249190:CDS | 35.0% | |
| ! | ACAAAGCAACTAAGGTTGAT+GGG | - | chr8_2:43698978-43698997 | Msa1249190:CDS | 35.0% |
| CGAATATCTTGAGAAACCAT+TGG | - | chr8_2:43699085-43699104 | Msa1249190:CDS | 35.0% | |
| TCTTGAGAAACCATTGGATA+AGG | - | chr8_2:43699091-43699110 | Msa1249190:CDS | 35.0% | |
| ! | TTGAGTTTTGCCTTATCCAA+TGG | + | chr8_2:43699104-43699123 | None:intergenic | 35.0% |
| TCATTTCATCTTGTGAGGAA+TGG | + | chr8_2:43699171-43699190 | None:intergenic | 35.0% | |
| ! | CACAACAAGTGCTGTTAACT+TGG | + | chr8_2:43698603-43698622 | None:intergenic | 40.0% |
| ! | CAAGTTAACAGCACTTGTTG+TGG | - | chr8_2:43698601-43698620 | Msa1249190:CDS | 40.0% |
| GAAAAACGGAAAAGAAGCAG+TGG | - | chr8_2:43698694-43698713 | Msa1249190:CDS | 40.0% | |
| AAGGATATGCCTGAGATGAA+TGG | - | chr8_2:43698761-43698780 | Msa1249190:CDS | 40.0% | |
| CATTCTTGCTTATTTAGGCG+TGG | - | chr8_2:43698856-43698875 | Msa1249190:intron | 40.0% | |
| !! | CAAAGCAACTAAGGTTGATG+GGG | - | chr8_2:43698979-43698998 | Msa1249190:CDS | 40.0% |
| GGGATATCTAGCACTATTGT+TGG | - | chr8_2:43698999-43699018 | Msa1249190:CDS | 40.0% | |
| AATTCCATTCTTCATGCCGT+TGG | - | chr8_2:43699122-43699141 | Msa1249190:CDS | 40.0% | |
| ! | TTTTCCAACGGCATGAAGAA+TGG | + | chr8_2:43699129-43699148 | None:intergenic | 40.0% |
| GCAGTGGAAATTCATCAGCA+TGG | - | chr8_2:43698710-43698729 | Msa1249190:CDS | 45.0% | |
| TGGTGTATCCTCACACTCTA+TGG | - | chr8_2:43699019-43699038 | Msa1249190:CDS | 45.0% | |
| ATCCTCACACTCTATGGAAG+AGG | - | chr8_2:43699025-43699044 | Msa1249190:CDS | 45.0% | |
| !! | ATATATAAATGTAAAATTTA+GGG | + | chr8_2:43698815-43698834 | None:intergenic | 5.0% |
| !! | TATATATAAATGTAAAATTT+AGG | + | chr8_2:43698816-43698835 | None:intergenic | 5.0% |
| ACCTCAGCTCCATTCATCTC+AGG | + | chr8_2:43698773-43698792 | None:intergenic | 50.0% | |
| CTCCTCTTCCATAGAGTGTG+AGG | + | chr8_2:43699030-43699049 | None:intergenic | 50.0% | |
| CTCACACTCTATGGAAGAGG+AGG | - | chr8_2:43699028-43699047 | Msa1249190:CDS | 50.0% | |
| GCCTGAGATGAATGGAGCTG+AGG | - | chr8_2:43698769-43698788 | Msa1249190:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 43698572 | 43699190 | 43698572 | ID=Msa1249190;Name=Msa1249190 |
| chr8_2 | mRNA | 43698572 | 43699190 | 43698572 | ID=Msa1249190-mRNA-1;Parent=Msa1249190;Name=Msa1249190-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|0|0|1|1|1|2|0|144 |
| chr8_2 | exon | 43698972 | 43699190 | 43698972 | ID=Msa1249190-mRNA-1:exon:13304;Parent=Msa1249190-mRNA-1 |
| chr8_2 | exon | 43698572 | 43698787 | 43698572 | ID=Msa1249190-mRNA-1:exon:13303;Parent=Msa1249190-mRNA-1 |
| chr8_2 | CDS | 43698972 | 43699190 | 43698972 | ID=Msa1249190-mRNA-1:cds;Parent=Msa1249190-mRNA-1 |
| chr8_2 | CDS | 43698572 | 43698787 | 43698572 | ID=Msa1249190-mRNA-1:cds;Parent=Msa1249190-mRNA-1 |
| Gene Sequence |
| Protein sequence |
