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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0992380 | AES76910.1 | 85.470 | 117 | 17 | 0 | 52 | 168 | 54 | 170 | 6.70e-64 | 205 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0992380 | sp|Q8H7S7|ORR21_ORYSJ | 34.375 | 96 | 60 | 1 | 36 | 128 | 43 | 138 | 2.95e-13 | 70.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0992380 | G7KPX8 | 85.470 | 117 | 17 | 0 | 52 | 168 | 54 | 170 | 3.20e-64 | 205 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0992380 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0992380 | MtrunA17_Chr6g0473731 | 78.409 | 88 | 12 | 1 | 82 | 169 | 10 | 90 | 5.51e-41 | 142 |
| Msa0992380 | MtrunA17_Chr7g0223971 | 71.429 | 63 | 18 | 0 | 84 | 146 | 1 | 63 | 9.78e-26 | 102 |
| Msa0992380 | MtrunA17_Chr4g0067981 | 33.333 | 96 | 61 | 1 | 36 | 128 | 62 | 157 | 8.98e-14 | 68.2 |
| Msa0992380 | MtrunA17_Chr2g0294911 | 31.579 | 95 | 62 | 1 | 36 | 127 | 60 | 154 | 1.10e-12 | 65.1 |
| Msa0992380 | MtrunA17_Chr3g0134481 | 27.642 | 123 | 87 | 2 | 35 | 157 | 41 | 161 | 1.66e-11 | 59.7 |
| Msa0992380 | MtrunA17_Chr8g0376881 | 28.571 | 119 | 69 | 2 | 51 | 169 | 74 | 176 | 4.46e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0992380 | AT2G01760.1 | 35.065 | 77 | 49 | 1 | 50 | 125 | 55 | 131 | 4.29e-13 | 66.2 |
| Msa0992380 | AT2G01760.2 | 35.065 | 77 | 49 | 1 | 50 | 125 | 83 | 159 | 6.08e-13 | 65.9 |
| Msa0992380 | AT3G16857.1 | 28.713 | 101 | 70 | 1 | 52 | 152 | 83 | 181 | 1.10e-11 | 62.4 |
| Msa0992380 | AT3G16857.2 | 28.713 | 101 | 70 | 1 | 52 | 152 | 83 | 181 | 1.19e-11 | 62.4 |
| Msa0992380 | AT3G16857.3 | 28.713 | 101 | 70 | 1 | 52 | 152 | 13 | 111 | 1.22e-11 | 62.4 |
Find 29 sgRNAs with CRISPR-Local
Find 102 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGGTGAGTTTCATATATT+TGG | 0.084119 | 6_4:+60695319 | Msa0992380:CDS |
| ACCTTAAGACAATGGGTTTA+TGG | 0.140422 | 6_4:+60694860 | None:intergenic |
| CCTTAAGACAATGGGTTTAT+GGG | 0.254785 | 6_4:+60694861 | None:intergenic |
| AAAGATGCTCATCATGCTTT+TGG | 0.301305 | 6_4:+60695269 | Msa0992380:CDS |
| ATTCATCTTGAATTTGCATT+TGG | 0.327017 | 6_4:-60695360 | None:intergenic |
| AAAAGCATGATGAGCATCTT+TGG | 0.332930 | 6_4:-60695267 | None:intergenic |
| CTGAAGTCTTCAGCACAAAA+TGG | 0.336425 | 6_4:-60695648 | None:intergenic |
| CTGAAGACTTCAGAGACATT+TGG | 0.388892 | 6_4:+60695658 | Msa0992380:CDS |
| GAATTTCAACTTCCTGTGAT+AGG | 0.414421 | 6_4:+60695379 | Msa0992380:CDS |
| ATTTATAGCAAGTGAAGAAG+AGG | 0.451966 | 6_4:+60695728 | Msa0992380:CDS |
| AATACGTGAAAAGATATCCT+TGG | 0.452182 | 6_4:-60694957 | None:intergenic |
| ATCACAACTCCCCTTCATCT+TGG | 0.464059 | 6_4:-60695815 | None:intergenic |
| TTTCATATATTTGGAATGAG+TGG | 0.486732 | 6_4:+60695328 | Msa0992380:CDS |
| TGTGATGATCACCAAGATGA+AGG | 0.493131 | 6_4:+60695804 | Msa0992380:CDS |
| ATACGTGAAAAGATATCCTT+GGG | 0.508849 | 6_4:-60694956 | None:intergenic |
| TGTCTCATATTGACTAGGAA+TGG | 0.535436 | 6_4:-60694913 | None:intergenic |
| AGACATTTGGAAGTATGCAC+TGG | 0.537346 | 6_4:+60695671 | Msa0992380:CDS |
| ACTAGGAATGGAGGAAACAT+AGG | 0.538135 | 6_4:-60694901 | None:intergenic |
| GTGATGATCACCAAGATGAA+GGG | 0.545998 | 6_4:+60695805 | Msa0992380:CDS |
| AAACATAGGATATATAAGAG+AGG | 0.550610 | 6_4:-60694887 | None:intergenic |
| TGCTCCATGTTCTAAAGTCA+TGG | 0.581987 | 6_4:-60695607 | None:intergenic |
| AACATAGGATATATAAGAGA+GGG | 0.586327 | 6_4:-60694886 | None:intergenic |
| AACTCACACTTGATTACCCA+AGG | 0.592227 | 6_4:+60694940 | Msa0992380:CDS |
| GATACTTAATCACCTATCAC+AGG | 0.597824 | 6_4:-60695391 | None:intergenic |
| TATTATGTCTCATATTGACT+AGG | 0.600172 | 6_4:-60694918 | None:intergenic |
| CTCATATTGACTAGGAATGG+AGG | 0.609091 | 6_4:-60694910 | None:intergenic |
| TGATGATCACCAAGATGAAG+GGG | 0.621201 | 6_4:+60695806 | Msa0992380:CDS |
| ATCTCCATGACTTTAGAACA+TGG | 0.647039 | 6_4:+60695603 | Msa0992380:CDS |
| GATGTCTAAAGACAATAGAG+AGG | 0.681369 | 6_4:+60695575 | Msa0992380:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATTTTTTTTTTTTTTGGAA+GGG | - | chr6_4:60695423-60695442 | None:intergenic | 10.0% |
| !!! | TTATTTTTTTTTTTTTTGGA+AGG | - | chr6_4:60695424-60695443 | None:intergenic | 10.0% |
| !!! | AGACTTATTTTTTTTTTTTT+TGG | - | chr6_4:60695428-60695447 | None:intergenic | 10.0% |
| !!! | AATAAATAGTTTATTTTTCT+TGG | - | chr6_4:60695700-60695719 | None:intergenic | 10.0% |
| !!! | TATTTTTTTTTTTTTTGGAA+GGG | - | chr6_4:60695423-60695442 | None:intergenic | 10.0% |
| !!! | TTATTTTTTTTTTTTTTGGA+AGG | - | chr6_4:60695424-60695443 | None:intergenic | 10.0% |
| !!! | AGACTTATTTTTTTTTTTTT+TGG | - | chr6_4:60695428-60695447 | None:intergenic | 10.0% |
| !!! | AATAAATAGTTTATTTTTCT+TGG | - | chr6_4:60695700-60695719 | None:intergenic | 10.0% |
| !! | TTGTACATTTAATATTTCTT+CGG | - | chr6_4:60695135-60695154 | None:intergenic | 15.0% |
| !! | AAATAAAAAAAACAATTGCA+AGG | - | chr6_4:60695472-60695491 | None:intergenic | 15.0% |
| !! | TTGTACATTTAATATTTCTT+CGG | - | chr6_4:60695135-60695154 | None:intergenic | 15.0% |
| !! | AAATAAAAAAAACAATTGCA+AGG | - | chr6_4:60695472-60695491 | None:intergenic | 15.0% |
| ! | AACATAGGATATATAAGAGA+GGG | - | chr6_4:60694889-60694908 | None:intergenic | 25.0% |
| ! | AAACATAGGATATATAAGAG+AGG | - | chr6_4:60694890-60694909 | None:intergenic | 25.0% |
| !! | TATTATGTCTCATATTGACT+AGG | - | chr6_4:60694921-60694940 | None:intergenic | 25.0% |
| ! | ACATAAATGAATCCAAGTTA+AGG | - | chr6_4:60695108-60695127 | None:intergenic | 25.0% |
| !! | GAAACTTTTGATCTCATAAT+TGG | + | chr6_4:60695301-60695320 | Msa0992380:CDS | 25.0% |
| ! | ATTGGTGAGTTTCATATATT+TGG | + | chr6_4:60695319-60695338 | Msa0992380:CDS | 25.0% |
| !! | TTTCATATATTTGGAATGAG+TGG | + | chr6_4:60695328-60695347 | Msa0992380:CDS | 25.0% |
| ! | ATTCATCTTGAATTTGCATT+TGG | - | chr6_4:60695363-60695382 | None:intergenic | 25.0% |
| ! | TGAAACAAAAAGGTAAACAA+GGG | - | chr6_4:60695549-60695568 | None:intergenic | 25.0% |
| ! | TTGAAACAAAAAGGTAAACA+AGG | - | chr6_4:60695550-60695569 | None:intergenic | 25.0% |
| !! | CATCACTATTTGAAACAAAA+AGG | - | chr6_4:60695559-60695578 | None:intergenic | 25.0% |
| ! | AACATAGGATATATAAGAGA+GGG | - | chr6_4:60694889-60694908 | None:intergenic | 25.0% |
| ! | AAACATAGGATATATAAGAG+AGG | - | chr6_4:60694890-60694909 | None:intergenic | 25.0% |
| !! | TATTATGTCTCATATTGACT+AGG | - | chr6_4:60694921-60694940 | None:intergenic | 25.0% |
| ! | ACATAAATGAATCCAAGTTA+AGG | - | chr6_4:60695108-60695127 | None:intergenic | 25.0% |
| !! | GAAACTTTTGATCTCATAAT+TGG | + | chr6_4:60695301-60695320 | Msa0992380:CDS | 25.0% |
| ! | ATTGGTGAGTTTCATATATT+TGG | + | chr6_4:60695319-60695338 | Msa0992380:CDS | 25.0% |
| !! | TTTCATATATTTGGAATGAG+TGG | + | chr6_4:60695328-60695347 | Msa0992380:CDS | 25.0% |
| ! | ATTCATCTTGAATTTGCATT+TGG | - | chr6_4:60695363-60695382 | None:intergenic | 25.0% |
| ! | TGAAACAAAAAGGTAAACAA+GGG | - | chr6_4:60695549-60695568 | None:intergenic | 25.0% |
| ! | TTGAAACAAAAAGGTAAACA+AGG | - | chr6_4:60695550-60695569 | None:intergenic | 25.0% |
| !! | CATCACTATTTGAAACAAAA+AGG | - | chr6_4:60695559-60695578 | None:intergenic | 25.0% |
| ATACGTGAAAAGATATCCTT+GGG | - | chr6_4:60694959-60694978 | None:intergenic | 30.0% | |
| AATACGTGAAAAGATATCCT+TGG | - | chr6_4:60694960-60694979 | None:intergenic | 30.0% | |
| ! | GTATTTTGCAACAAATCCAT+AGG | + | chr6_4:60694975-60694994 | Msa0992380:intron | 30.0% |
| TATTTGCATATGATGACCTA+TGG | - | chr6_4:60694994-60695013 | None:intergenic | 30.0% | |
| CATTGAATACTTCCTTAACT+TGG | + | chr6_4:60695093-60695112 | Msa0992380:intron | 30.0% | |
| ATTTATAGCAAGTGAAGAAG+AGG | + | chr6_4:60695728-60695747 | Msa0992380:CDS | 30.0% | |
| ATACGTGAAAAGATATCCTT+GGG | - | chr6_4:60694959-60694978 | None:intergenic | 30.0% | |
| AATACGTGAAAAGATATCCT+TGG | - | chr6_4:60694960-60694979 | None:intergenic | 30.0% | |
| ! | GTATTTTGCAACAAATCCAT+AGG | + | chr6_4:60694975-60694994 | Msa0992380:intron | 30.0% |
| TATTTGCATATGATGACCTA+TGG | - | chr6_4:60694994-60695013 | None:intergenic | 30.0% | |
| CATTGAATACTTCCTTAACT+TGG | + | chr6_4:60695093-60695112 | Msa0992380:intron | 30.0% | |
| ATTTATAGCAAGTGAAGAAG+AGG | + | chr6_4:60695728-60695747 | Msa0992380:CDS | 30.0% | |
| ! | TGTCTCATATTGACTAGGAA+TGG | - | chr6_4:60694916-60694935 | None:intergenic | 35.0% |
| ATGAAGAAGATGAGAATCGA+GGG | - | chr6_4:60695045-60695064 | None:intergenic | 35.0% | |
| ! | AAAAGCATGATGAGCATCTT+TGG | - | chr6_4:60695270-60695289 | None:intergenic | 35.0% |
| ! | AAAGATGCTCATCATGCTTT+TGG | + | chr6_4:60695269-60695288 | Msa0992380:CDS | 35.0% |
| GAATTTCAACTTCCTGTGAT+AGG | + | chr6_4:60695379-60695398 | Msa0992380:CDS | 35.0% | |
| GATACTTAATCACCTATCAC+AGG | - | chr6_4:60695394-60695413 | None:intergenic | 35.0% | |
| GATGTCTAAAGACAATAGAG+AGG | + | chr6_4:60695575-60695594 | Msa0992380:CDS | 35.0% | |
| !! | ATCTCCATGACTTTAGAACA+TGG | + | chr6_4:60695603-60695622 | Msa0992380:CDS | 35.0% |
| ! | TGTCTCATATTGACTAGGAA+TGG | - | chr6_4:60694916-60694935 | None:intergenic | 35.0% |
| ATGAAGAAGATGAGAATCGA+GGG | - | chr6_4:60695045-60695064 | None:intergenic | 35.0% | |
| ! | AAAAGCATGATGAGCATCTT+TGG | - | chr6_4:60695270-60695289 | None:intergenic | 35.0% |
| ! | AAAGATGCTCATCATGCTTT+TGG | + | chr6_4:60695269-60695288 | Msa0992380:CDS | 35.0% |
| GAATTTCAACTTCCTGTGAT+AGG | + | chr6_4:60695379-60695398 | Msa0992380:CDS | 35.0% | |
| GATACTTAATCACCTATCAC+AGG | - | chr6_4:60695394-60695413 | None:intergenic | 35.0% | |
| GATGTCTAAAGACAATAGAG+AGG | + | chr6_4:60695575-60695594 | Msa0992380:CDS | 35.0% | |
| !! | ATCTCCATGACTTTAGAACA+TGG | + | chr6_4:60695603-60695622 | Msa0992380:CDS | 35.0% |
| ACTAGGAATGGAGGAAACAT+AGG | - | chr6_4:60694904-60694923 | None:intergenic | 40.0% | |
| ! | CTCATATTGACTAGGAATGG+AGG | - | chr6_4:60694913-60694932 | None:intergenic | 40.0% |
| AACTCACACTTGATTACCCA+AGG | + | chr6_4:60694940-60694959 | Msa0992380:CDS | 40.0% | |
| TGAAGAAGATGAGAATCGAG+GGG | - | chr6_4:60695044-60695063 | None:intergenic | 40.0% | |
| GATGAAGAAGATGAGAATCG+AGG | - | chr6_4:60695046-60695065 | None:intergenic | 40.0% | |
| TCATCTTCTTCATCCTATCC+CGG | + | chr6_4:60695052-60695071 | Msa0992380:intron | 40.0% | |
| !! | TGCTCCATGTTCTAAAGTCA+TGG | - | chr6_4:60695610-60695629 | None:intergenic | 40.0% |
| CTGAAGTCTTCAGCACAAAA+TGG | - | chr6_4:60695651-60695670 | None:intergenic | 40.0% | |
| CTGAAGACTTCAGAGACATT+TGG | + | chr6_4:60695658-60695677 | Msa0992380:CDS | 40.0% | |
| ! | AGACATTTGGAAGTATGCAC+TGG | + | chr6_4:60695671-60695690 | Msa0992380:CDS | 40.0% |
| TGTGATGATCACCAAGATGA+AGG | + | chr6_4:60695804-60695823 | Msa0992380:CDS | 40.0% | |
| GTGATGATCACCAAGATGAA+GGG | + | chr6_4:60695805-60695824 | Msa0992380:CDS | 40.0% | |
| TGATGATCACCAAGATGAAG+GGG | + | chr6_4:60695806-60695825 | Msa0992380:CDS | 40.0% | |
| ACTAGGAATGGAGGAAACAT+AGG | - | chr6_4:60694904-60694923 | None:intergenic | 40.0% | |
| ! | CTCATATTGACTAGGAATGG+AGG | - | chr6_4:60694913-60694932 | None:intergenic | 40.0% |
| AACTCACACTTGATTACCCA+AGG | + | chr6_4:60694940-60694959 | Msa0992380:CDS | 40.0% | |
| TGAAGAAGATGAGAATCGAG+GGG | - | chr6_4:60695044-60695063 | None:intergenic | 40.0% | |
| GATGAAGAAGATGAGAATCG+AGG | - | chr6_4:60695046-60695065 | None:intergenic | 40.0% | |
| TCATCTTCTTCATCCTATCC+CGG | + | chr6_4:60695052-60695071 | Msa0992380:intron | 40.0% | |
| !! | TGCTCCATGTTCTAAAGTCA+TGG | - | chr6_4:60695610-60695629 | None:intergenic | 40.0% |
| CTGAAGTCTTCAGCACAAAA+TGG | - | chr6_4:60695651-60695670 | None:intergenic | 40.0% | |
| CTGAAGACTTCAGAGACATT+TGG | + | chr6_4:60695658-60695677 | Msa0992380:CDS | 40.0% | |
| ! | AGACATTTGGAAGTATGCAC+TGG | + | chr6_4:60695671-60695690 | Msa0992380:CDS | 40.0% |
| TGTGATGATCACCAAGATGA+AGG | + | chr6_4:60695804-60695823 | Msa0992380:CDS | 40.0% | |
| GTGATGATCACCAAGATGAA+GGG | + | chr6_4:60695805-60695824 | Msa0992380:CDS | 40.0% | |
| TGATGATCACCAAGATGAAG+GGG | + | chr6_4:60695806-60695825 | Msa0992380:CDS | 40.0% | |
| CATCTTCTTCATCCTATCCC+GGG | + | chr6_4:60695053-60695072 | Msa0992380:intron | 45.0% | |
| CATCTTCTTCATCCTATCCC+GGG | + | chr6_4:60695053-60695072 | Msa0992380:intron | 45.0% | |
| AAGATGAGAATCGAGGGGAG+TGG | - | chr6_4:60695039-60695058 | None:intergenic | 50.0% | |
| AACATAAGACAGCCCGGGAT+AGG | - | chr6_4:60695068-60695087 | None:intergenic | 50.0% | |
| CCAACAACATAAGACAGCCC+GGG | - | chr6_4:60695073-60695092 | None:intergenic | 50.0% | |
| GCCAACAACATAAGACAGCC+CGG | - | chr6_4:60695074-60695093 | None:intergenic | 50.0% | |
| AAGATGAGAATCGAGGGGAG+TGG | - | chr6_4:60695039-60695058 | None:intergenic | 50.0% | |
| AACATAAGACAGCCCGGGAT+AGG | - | chr6_4:60695068-60695087 | None:intergenic | 50.0% | |
| CCAACAACATAAGACAGCCC+GGG | - | chr6_4:60695073-60695092 | None:intergenic | 50.0% | |
| GCCAACAACATAAGACAGCC+CGG | - | chr6_4:60695074-60695093 | None:intergenic | 50.0% | |
| CGAGGGGAGTGGACAAGATA+TGG | - | chr6_4:60695028-60695047 | None:intergenic | 55.0% | |
| CCCGGGCTGTCTTATGTTGT+TGG | + | chr6_4:60695070-60695089 | Msa0992380:intron | 55.0% | |
| CGAGGGGAGTGGACAAGATA+TGG | - | chr6_4:60695028-60695047 | None:intergenic | 55.0% | |
| CCCGGGCTGTCTTATGTTGT+TGG | + | chr6_4:60695070-60695089 | Msa0992380:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 60694871 | 60695836 | 60694871 | ID=Msa0992380;Name=Msa0992380 |
| chr6_4 | mRNA | 60694871 | 60695836 | 60694871 | ID=Msa0992380-mRNA-1;Parent=Msa0992380;Name=Msa0992380-mRNA-1;_AED=0.24;_eAED=0.30;_QI=0|0|0|0.66|1|1|3|0|169 |
| chr6_4 | exon | 60694871 | 60694974 | 60694871 | ID=Msa0992380-mRNA-1:exon:11811;Parent=Msa0992380-mRNA-1 |
| chr6_4 | exon | 60695258 | 60695400 | 60695258 | ID=Msa0992380-mRNA-1:exon:11812;Parent=Msa0992380-mRNA-1 |
| chr6_4 | exon | 60695574 | 60695836 | 60695574 | ID=Msa0992380-mRNA-1:exon:11813;Parent=Msa0992380-mRNA-1 |
| chr6_4 | CDS | 60694871 | 60694974 | 60694871 | ID=Msa0992380-mRNA-1:cds;Parent=Msa0992380-mRNA-1 |
| chr6_4 | CDS | 60695258 | 60695400 | 60695258 | ID=Msa0992380-mRNA-1:cds;Parent=Msa0992380-mRNA-1 |
| chr6_4 | CDS | 60695574 | 60695836 | 60695574 | ID=Msa0992380-mRNA-1:cds;Parent=Msa0992380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
