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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0077380 | XP_003590795.1 | 90.000 | 70 | 7 | 0 | 1 | 70 | 1 | 70 | 4.55e-38 | 131 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0077380 | sp|P19873|ITH5_CUCMA | 60.294 | 68 | 27 | 0 | 3 | 70 | 1 | 68 | 1.55e-23 | 87.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0077380 | G7I3Z2 | 90.000 | 70 | 7 | 0 | 1 | 70 | 1 | 70 | 2.17e-38 | 131 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001830 | Msa0077380 | 0.804929 | 1.706018e-49 | -8.615850e-47 |
| Msa0077370 | Msa0077380 | 0.864719 | 9.931874e-65 | -8.615850e-47 |
| Msa0077380 | Msa0082420 | 0.808539 | 2.946389e-50 | -8.615850e-47 |
| Msa0077380 | Msa0101960 | 0.808295 | 3.321800e-50 | -8.615850e-47 |
| Msa0077380 | Msa0117520 | 0.814486 | 1.503682e-51 | -8.615850e-47 |
| Msa0077380 | Msa0125320 | 0.854715 | 1.023466e-61 | -8.615850e-47 |
| Msa0077380 | Msa0170000 | 0.821051 | 4.957286e-53 | -8.615850e-47 |
| Msa0077380 | Msa0196670 | 0.807106 | 5.943587e-50 | -8.615850e-47 |
| Msa0077380 | Msa0213540 | 0.822237 | 2.637270e-53 | -8.615850e-47 |
| Msa0077380 | Msa0316390 | 0.811498 | 6.794825e-51 | -8.615850e-47 |
| Msa0077380 | Msa0431900 | 0.816493 | 5.375654e-52 | -8.615850e-47 |
| Msa0077380 | Msa0520770 | 0.811262 | 7.646048e-51 | -8.615850e-47 |
| Msa0077380 | Msa0528990 | 0.910220 | 2.388555e-82 | -8.615850e-47 |
| Msa0077380 | Msa0529000 | 0.848846 | 4.724112e-60 | -8.615850e-47 |
| Msa0077380 | Msa0545050 | 0.813498 | 2.482958e-51 | -8.615850e-47 |
| Msa0077380 | Msa0574930 | 0.846628 | 1.927281e-59 | -8.615850e-47 |
| Msa0077380 | Msa0600590 | 0.805531 | 1.276294e-49 | -8.615850e-47 |
| Msa0077380 | Msa0641130 | 0.809421 | 1.907794e-50 | -8.615850e-47 |
| Msa0077380 | Msa0654900 | 0.810833 | 9.469707e-51 | -8.615850e-47 |
| Msa0077380 | Msa0698460 | 0.800393 | 1.471617e-48 | -8.615850e-47 |
| Msa0077380 | Msa0744640 | 0.804264 | 2.348654e-49 | -8.615850e-47 |
| Msa0077380 | Msa0795340 | 0.815701 | 8.079124e-52 | -8.615850e-47 |
| Msa0077380 | Msa0841730 | 0.804762 | 1.848922e-49 | -8.615850e-47 |
| Msa0077380 | Msa0930740 | 0.803683 | 3.101165e-49 | -8.615850e-47 |
| Msa0077380 | Msa1062040 | 0.822949 | 1.801349e-53 | -8.615850e-47 |
| Msa0077380 | Msa1070540 | 0.805810 | 1.115371e-49 | -8.615850e-47 |
| Msa0077380 | Msa1082360 | 0.803837 | 2.880482e-49 | -8.615850e-47 |
| Msa0077380 | Msa1107200 | 0.807963 | 3.908950e-50 | -8.615850e-47 |
| Msa0077380 | Msa1109810 | 0.800562 | 1.359825e-48 | -8.615850e-47 |
| Msa0077380 | Msa1368610 | 0.815914 | 7.242372e-52 | -8.615850e-47 |
| Msa0077380 | Msa1400200 | 0.812163 | 4.868076e-51 | -8.615850e-47 |
| Msa0077380 | Msa1405420 | 0.859126 | 5.132088e-63 | -8.615850e-47 |
| Msa0077380 | Msa1407760 | 0.815783 | 7.744544e-52 | -8.615850e-47 |
| Msa0077380 | Msa1437730 | 0.800283 | 1.549514e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0077380 | MtrunA17_Chr1g0187161 | 90.000 | 70 | 7 | 0 | 1 | 70 | 1 | 70 | 4.19e-42 | 131 |
| Msa0077380 | MtrunA17_Chr1g0187221 | 83.824 | 68 | 11 | 0 | 3 | 70 | 5 | 72 | 1.46e-36 | 117 |
| Msa0077380 | MtrunA17_Chr5g0442291 | 84.286 | 70 | 11 | 0 | 1 | 70 | 1 | 70 | 2.17e-36 | 116 |
| Msa0077380 | MtrunA17_Chr1g0187201 | 79.412 | 68 | 14 | 0 | 3 | 70 | 4 | 71 | 6.68e-32 | 105 |
| Msa0077380 | MtrunA17_Chr1g0184401 | 57.576 | 66 | 28 | 0 | 5 | 70 | 8 | 73 | 9.20e-23 | 82.4 |
| Msa0077380 | MtrunA17_Chr1g0184411 | 54.286 | 70 | 32 | 0 | 1 | 70 | 1 | 70 | 7.06e-22 | 80.1 |
| Msa0077380 | MtrunA17_Chr5g0419531 | 53.731 | 67 | 31 | 0 | 4 | 70 | 3 | 69 | 5.34e-19 | 72.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0077380 | AT2G38870.1 | 52.857 | 70 | 33 | 0 | 1 | 70 | 1 | 70 | 1.51e-21 | 79.7 |
| Msa0077380 | AT5G43580.1 | 55.556 | 72 | 30 | 1 | 1 | 70 | 28 | 99 | 5.06e-21 | 79.0 |
| Msa0077380 | AT3G46860.1 | 46.032 | 63 | 34 | 0 | 8 | 70 | 23 | 85 | 4.13e-13 | 58.5 |
| Msa0077380 | AT5G43570.1 | 46.575 | 73 | 33 | 1 | 1 | 67 | 1 | 73 | 6.27e-12 | 56.2 |
| Msa0077380 | AT2G38900.1 | 42.188 | 64 | 37 | 0 | 7 | 70 | 10 | 73 | 2.12e-11 | 53.9 |
| Msa0077380 | AT2G38900.2 | 42.188 | 64 | 37 | 0 | 7 | 70 | 25 | 88 | 3.22e-11 | 53.9 |
| Msa0077380 | AT5G43570.2 | 50.000 | 60 | 30 | 0 | 8 | 67 | 24 | 83 | 6.66e-11 | 53.9 |
Find 33 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTCCACTCCAACCAATTC+TGG | 0.174728 | 1_2:-54253810 | None:intergenic |
| CTGTGACAGGGTTTGGGTTT+GGG | 0.259063 | 1_2:+54253923 | Msa0077380:CDS |
| ACTTCCGCTGTGACAGGGTT+TGG | 0.267379 | 1_2:+54253916 | Msa0077380:CDS |
| CTTCCGCTGTGACAGGGTTT+GGG | 0.309008 | 1_2:+54253917 | Msa0077380:CDS |
| AATTGCAGAAAGAAAGAAAA+AGG | 0.323958 | 1_2:+54253561 | Msa0077380:five_prime_UTR |
| GCTGTGACAGGGTTTGGGTT+TGG | 0.326505 | 1_2:+54253922 | Msa0077380:CDS |
| TAAAGATGGAATTGTCTATC+AGG | 0.326953 | 1_2:+54253950 | Msa0077380:CDS |
| CCTTTGACTTCCGCTGTGAC+AGG | 0.333094 | 1_2:+54253910 | Msa0077380:CDS |
| ATAAATTTAATGTTTCAATA+AGG | 0.348781 | 1_2:+54254030 | Msa0077380:three_prime_UTR |
| TAAGAGTTCATGGCCAGAAT+TGG | 0.414180 | 1_2:+54253797 | Msa0077380:CDS |
| ATAGTAGTATAGTATAGAAT+TGG | 0.416384 | 1_2:-54254068 | None:intergenic |
| TGGGTTTGGGTTAATAAAGA+TGG | 0.418377 | 1_2:+54253936 | Msa0077380:CDS |
| GAAACATTAAATTTATAACT+TGG | 0.423304 | 1_2:-54254023 | None:intergenic |
| TGTGGTCAGGTAAGAGTTCA+TGG | 0.426967 | 1_2:+54253787 | Msa0077380:intron |
| CTTTGACTTCCGCTGTGACA+GGG | 0.463269 | 1_2:+54253911 | Msa0077380:CDS |
| CTGTCACAGCGGAAGTCAAA+GGG | 0.467050 | 1_2:-54253909 | None:intergenic |
| CAAATATCCATACATATTGA+AGG | 0.497702 | 1_2:+54253588 | Msa0077380:five_prime_UTR |
| GATGCCATCATTGTGCTAGA+AGG | 0.504821 | 1_2:+54253876 | Msa0077380:CDS |
| CCAGAATTGGTTGGAGTGGA+AGG | 0.515293 | 1_2:+54253810 | Msa0077380:CDS |
| AGTTCCTTCTAGCACAATGA+TGG | 0.538007 | 1_2:-54253880 | None:intergenic |
| AATTCAGAGGGAGAATCCAT+TGG | 0.542280 | 1_2:+54253851 | Msa0077380:CDS |
| CCTGTCACAGCGGAAGTCAA+AGG | 0.545493 | 1_2:-54253910 | None:intergenic |
| GTGATATATAATGCATTGCA+AGG | 0.551843 | 1_2:-54253529 | None:intergenic |
| ATGGCCAGAATTGGTTGGAG+TGG | 0.561764 | 1_2:+54253806 | Msa0077380:CDS |
| AGTTCATGGCCAGAATTGGT+TGG | 0.565712 | 1_2:+54253801 | Msa0077380:CDS |
| ATTGGTTGGAGTGGAAGGAA+AGG | 0.570071 | 1_2:+54253815 | Msa0077380:CDS |
| AAATTGGATAGAAAGTTTCG+TGG | 0.579547 | 1_2:+54253979 | Msa0077380:exon |
| AGCAGAAGCTACAATTCAGA+GGG | 0.593359 | 1_2:+54253839 | Msa0077380:CDS |
| TAGCAGAAGCTACAATTCAG+AGG | 0.596029 | 1_2:+54253838 | Msa0077380:CDS |
| ACAATGATGGCATCAACCAA+TGG | 0.650325 | 1_2:-54253867 | None:intergenic |
| AAAATGTCTGATGAATGCAA+AGG | 0.675933 | 1_2:+54253627 | Msa0077380:exon |
| TGTCACAGCGGAAGTCAAAG+GGG | 0.698463 | 1_2:-54253908 | None:intergenic |
| AAACCCAAACCCTGTCACAG+CGG | 0.730650 | 1_2:-54253920 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATATGAATAATAAATTGAA+TGG | + | chr1_2:54253717-54253736 | Msa0077380:intron | 10.0% |
| !!! | AAATTTTTATTATAACTTGA+TGG | + | chr1_2:54253746-54253765 | Msa0077380:intron | 10.0% |
| !! | ATAAATTTAATGTTTCAATA+AGG | + | chr1_2:54254030-54254049 | Msa0077380:three_prime_UTR | 10.0% |
| !!! | TTACATGCATATATATTTTT+TGG | + | chr1_2:54253680-54253699 | Msa0077380:intron | 15.0% |
| !! | GAAACATTAAATTTATAACT+TGG | - | chr1_2:54254026-54254045 | None:intergenic | 15.0% |
| !!! | TTTTTATCCTTCAATATGTA+TGG | - | chr1_2:54253598-54253617 | None:intergenic | 20.0% |
| !! | TACATATTGAAGGATAAAAA+AGG | + | chr1_2:54253598-54253617 | Msa0077380:five_prime_UTR | 20.0% |
| !! | ATAGTAGTATAGTATAGAAT+TGG | - | chr1_2:54254071-54254090 | None:intergenic | 20.0% |
| ! | AATTGCAGAAAGAAAGAAAA+AGG | + | chr1_2:54253561-54253580 | Msa0077380:five_prime_UTR | 25.0% |
| ! | CAAATATCCATACATATTGA+AGG | + | chr1_2:54253588-54253607 | Msa0077380:five_prime_UTR | 25.0% |
| ! | TTGAATGAATCAATATTGTG+TGG | + | chr1_2:54253769-54253788 | Msa0077380:intron | 25.0% |
| !! | GAAACTTTCTATCCAATTTT+TGG | - | chr1_2:54253978-54253997 | None:intergenic | 25.0% |
| !! | AACTTGTAATTCGTTTTCTT+TGG | + | chr1_2:54254138-54254157 | Msa0077380:three_prime_UTR | 25.0% |
| AAAATGTCTGATGAATGCAA+AGG | + | chr1_2:54253627-54253646 | Msa0077380:exon | 30.0% | |
| TAAAGATGGAATTGTCTATC+AGG | + | chr1_2:54253950-54253969 | Msa0077380:CDS | 30.0% | |
| AAATTGGATAGAAAGTTTCG+TGG | + | chr1_2:54253979-54253998 | Msa0077380:exon | 30.0% | |
| TGAATCAATATTGTGTGGTC+AGG | + | chr1_2:54253774-54253793 | Msa0077380:intron | 35.0% | |
| ! | TGGGTTTGGGTTAATAAAGA+TGG | + | chr1_2:54253936-54253955 | Msa0077380:CDS | 35.0% |
| GTCTATCAGGTTCCAAAAAT+TGG | + | chr1_2:54253963-54253982 | Msa0077380:CDS | 35.0% | |
| GTCTGATGAATGCAAAGGTA+AGG | + | chr1_2:54253632-54253651 | Msa0077380:intron | 40.0% | |
| TAAGAGTTCATGGCCAGAAT+TGG | + | chr1_2:54253797-54253816 | Msa0077380:CDS | 40.0% | |
| TAGCAGAAGCTACAATTCAG+AGG | + | chr1_2:54253838-54253857 | Msa0077380:CDS | 40.0% | |
| AGCAGAAGCTACAATTCAGA+GGG | + | chr1_2:54253839-54253858 | Msa0077380:CDS | 40.0% | |
| AATTCAGAGGGAGAATCCAT+TGG | + | chr1_2:54253851-54253870 | Msa0077380:CDS | 40.0% | |
| ACAATGATGGCATCAACCAA+TGG | - | chr1_2:54253870-54253889 | None:intergenic | 40.0% | |
| AGTTCCTTCTAGCACAATGA+TGG | - | chr1_2:54253883-54253902 | None:intergenic | 40.0% | |
| TGTGGTCAGGTAAGAGTTCA+TGG | + | chr1_2:54253787-54253806 | Msa0077380:intron | 45.0% | |
| AGTTCATGGCCAGAATTGGT+TGG | + | chr1_2:54253801-54253820 | Msa0077380:CDS | 45.0% | |
| ATTGGTTGGAGTGGAAGGAA+AGG | + | chr1_2:54253815-54253834 | Msa0077380:CDS | 45.0% | |
| GATGCCATCATTGTGCTAGA+AGG | + | chr1_2:54253876-54253895 | Msa0077380:CDS | 45.0% | |
| ATGGCCAGAATTGGTTGGAG+TGG | + | chr1_2:54253806-54253825 | Msa0077380:CDS | 50.0% | |
| CCTTCCACTCCAACCAATTC+TGG | - | chr1_2:54253813-54253832 | None:intergenic | 50.0% | |
| CCAGAATTGGTTGGAGTGGA+AGG | + | chr1_2:54253810-54253829 | Msa0077380:CDS | 50.0% | |
| TGTCACAGCGGAAGTCAAAG+GGG | - | chr1_2:54253911-54253930 | None:intergenic | 50.0% | |
| CTGTCACAGCGGAAGTCAAA+GGG | - | chr1_2:54253912-54253931 | None:intergenic | 50.0% | |
| ! | CTTTGACTTCCGCTGTGACA+GGG | + | chr1_2:54253911-54253930 | Msa0077380:CDS | 50.0% |
| AAACCCAAACCCTGTCACAG+CGG | - | chr1_2:54253923-54253942 | None:intergenic | 50.0% | |
| ! | CTGTGACAGGGTTTGGGTTT+GGG | + | chr1_2:54253923-54253942 | Msa0077380:CDS | 50.0% |
| CCTGTCACAGCGGAAGTCAA+AGG | - | chr1_2:54253913-54253932 | None:intergenic | 55.0% | |
| ! | CCTTTGACTTCCGCTGTGAC+AGG | + | chr1_2:54253910-54253929 | Msa0077380:CDS | 55.0% |
| ACTTCCGCTGTGACAGGGTT+TGG | + | chr1_2:54253916-54253935 | Msa0077380:CDS | 55.0% | |
| CTTCCGCTGTGACAGGGTTT+GGG | + | chr1_2:54253917-54253936 | Msa0077380:CDS | 55.0% | |
| ! | GCTGTGACAGGGTTTGGGTT+TGG | + | chr1_2:54253922-54253941 | Msa0077380:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 54253532 | 54254182 | 54253532 | ID=Msa0077380;Name=Msa0077380 |
| chr1_2 | mRNA | 54253532 | 54254182 | 54253532 | ID=Msa0077380-mRNA-1;Parent=Msa0077380;Name=Msa0077380-mRNA-1;_AED=0.25;_eAED=0.25;_QI=98|1|1|1|1|1|2|193|70 |
| chr1_2 | exon | 54253532 | 54253648 | 54253532 | ID=Msa0077380-mRNA-1:exon:16737;Parent=Msa0077380-mRNA-1 |
| chr1_2 | exon | 54253796 | 54254182 | 54253796 | ID=Msa0077380-mRNA-1:exon:16738;Parent=Msa0077380-mRNA-1 |
| chr1_2 | five_prime_UTR | 54253532 | 54253629 | 54253532 | ID=Msa0077380-mRNA-1:five_prime_utr;Parent=Msa0077380-mRNA-1 |
| chr1_2 | CDS | 54253630 | 54253648 | 54253630 | ID=Msa0077380-mRNA-1:cds;Parent=Msa0077380-mRNA-1 |
| chr1_2 | CDS | 54253796 | 54253989 | 54253796 | ID=Msa0077380-mRNA-1:cds;Parent=Msa0077380-mRNA-1 |
| chr1_2 | three_prime_UTR | 54253990 | 54254182 | 54253990 | ID=Msa0077380-mRNA-1:three_prime_utr;Parent=Msa0077380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
