Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050140.t1 | RHN60704.1 | 93.5 | 153 | 10 | 0 | 1 | 153 | 38 | 190 | 5.90E-73 | 283.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050140.t1 | Q8L817 | 43.3 | 203 | 59 | 1 | 1 | 147 | 68 | 270 | 9.0e-38 | 157.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050140.t1 | A0A396I8Z0 | 93.5 | 153 | 10 | 0 | 1 | 153 | 38 | 190 | 4.3e-73 | 283.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050140 | MS.gene51189 | 0.821875 | 3.20E-53 | -1.69E-46 |
| MS.gene050140 | MS.gene54517 | 0.801157 | 1.03E-48 | -1.69E-46 |
| MS.gene050140 | MS.gene76954 | 0.807492 | 4.92E-50 | -1.69E-46 |
| MS.gene050140 | MS.gene92276 | 0.805203 | 1.49E-49 | -1.69E-46 |
| MS.gene050140 | MS.gene98550 | 0.802631 | 5.12E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050140.t1 | MTR_0219s0070 | 50.244 | 205 | 44 | 4 | 1 | 148 | 65 | 268 | 2.83e-55 | 175 |
| MS.gene050140.t1 | MTR_1g062880 | 51.240 | 121 | 54 | 2 | 1 | 116 | 67 | 187 | 1.74e-38 | 132 |
| MS.gene050140.t1 | MTR_7g102960 | 52.500 | 120 | 51 | 4 | 1 | 114 | 60 | 179 | 6.77e-36 | 125 |
| MS.gene050140.t1 | MTR_7g090950 | 52.294 | 109 | 52 | 0 | 1 | 109 | 61 | 169 | 7.86e-33 | 117 |
| MS.gene050140.t1 | MTR_1g062860 | 47.788 | 113 | 55 | 2 | 1 | 109 | 66 | 178 | 7.96e-32 | 115 |
| MS.gene050140.t1 | MTR_0219s0130 | 91.111 | 45 | 4 | 0 | 111 | 155 | 27 | 71 | 2.17e-22 | 85.1 |
| MS.gene050140.t1 | MTR_1g059940 | 42.857 | 112 | 63 | 1 | 2 | 112 | 55 | 166 | 9.32e-22 | 88.6 |
| MS.gene050140.t1 | MTR_1g059960 | 41.071 | 112 | 65 | 1 | 2 | 112 | 34 | 145 | 4.32e-20 | 83.6 |
| MS.gene050140.t1 | MTR_1g059960 | 41.071 | 112 | 65 | 1 | 2 | 112 | 55 | 166 | 6.27e-20 | 83.6 |
| MS.gene050140.t1 | MTR_1g059900 | 42.268 | 97 | 55 | 1 | 17 | 112 | 4 | 100 | 2.86e-18 | 77.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene050140.t1 | AT1G08080 | 44.335 | 203 | 57 | 2 | 1 | 147 | 68 | 270 | 6.72e-51 | 164 |
| MS.gene050140.t1 | AT5G56330 | 51.176 | 170 | 64 | 3 | 1 | 151 | 168 | 337 | 5.01e-47 | 156 |
| MS.gene050140.t1 | AT1G08065 | 41.463 | 205 | 62 | 4 | 1 | 147 | 63 | 267 | 3.15e-41 | 139 |
| MS.gene050140.t1 | AT2G28210 | 46.154 | 156 | 74 | 3 | 1 | 155 | 67 | 213 | 9.21e-41 | 138 |
| MS.gene050140.t1 | AT4G20990 | 35.678 | 199 | 74 | 3 | 2 | 147 | 65 | 262 | 1.22e-32 | 117 |
| MS.gene050140.t1 | AT5G56330 | 53.636 | 110 | 49 | 1 | 1 | 108 | 168 | 277 | 2.32e-32 | 117 |
| MS.gene050140.t1 | AT5G04180 | 36.585 | 205 | 73 | 3 | 2 | 149 | 55 | 259 | 3.45e-32 | 115 |
| MS.gene050140.t1 | AT4G21000 | 44.800 | 125 | 64 | 2 | 1 | 121 | 65 | 188 | 7.01e-32 | 114 |
| MS.gene050140.t1 | AT2G28210 | 58.974 | 78 | 31 | 1 | 1 | 77 | 67 | 144 | 1.62e-27 | 100 |
| MS.gene050140.t1 | AT3G52720 | 34.821 | 112 | 73 | 0 | 1 | 112 | 57 | 168 | 1.60e-17 | 76.6 |
| MS.gene050140.t1 | AT3G52720 | 34.821 | 112 | 73 | 0 | 1 | 112 | 57 | 168 | 2.87e-17 | 76.6 |
| MS.gene050140.t1 | AT3G52720 | 34.821 | 112 | 73 | 0 | 1 | 112 | 57 | 168 | 2.87e-17 | 76.6 |
| MS.gene050140.t1 | AT3G52720 | 34.821 | 112 | 73 | 0 | 1 | 112 | 57 | 168 | 2.87e-17 | 76.6 |
Find 25 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAATTGATTTGTTGAATAAA+AGG | 0.154986 | 4.1:-39687166 | MS.gene050140:CDS |
| TCAAGCTATCTACAAATTAA+TGG | 0.229085 | 4.1:-39686924 | MS.gene050140:CDS |
| TGCACTAATCGGTTGTTTAA+TGG | 0.250631 | 4.1:+39685651 | None:intergenic |
| GTGCAACTCAACAAACTAAA+AGG | 0.319614 | 4.1:-39685633 | MS.gene050140:CDS |
| CCCTCTGAACACACCATAGA+TGG | 0.349456 | 4.1:-39686864 | MS.gene050140:CDS |
| GTTCAAATTGTGTCCAATCT+AGG | 0.410254 | 4.1:-39687143 | MS.gene050140:CDS |
| AATTGATTTGTTGAATAAAA+GGG | 0.415946 | 4.1:-39687165 | MS.gene050140:CDS |
| ATCACTGCTGTTTCTCCTGA+TGG | 0.415965 | 4.1:+39686380 | None:intergenic |
| GTTTGTTGAGTTGCACTAAT+CGG | 0.422096 | 4.1:+39685640 | None:intergenic |
| GTTGGATCTAGAGTTACATT+TGG | 0.435599 | 4.1:-39686414 | MS.gene050140:CDS |
| ATTGGAATATTGTACAAGAC+TGG | 0.439070 | 4.1:-39686359 | MS.gene050140:CDS |
| TCAGGAGAAACAGCAGTGAT+TGG | 0.457822 | 4.1:-39686377 | MS.gene050140:CDS |
| ACCAATGACAAGAAAAGATC+TGG | 0.465955 | 4.1:+39686332 | None:intergenic |
| GCCATCTATGGTGTGTTCAG+AGG | 0.478240 | 4.1:+39686863 | None:intergenic |
| AAATAGGGGTTATGATATCA+TGG | 0.485494 | 4.1:-39687078 | MS.gene050140:intron |
| GATCTGAAGTGGTCCTAGAT+TGG | 0.490623 | 4.1:+39687130 | None:intergenic |
| CCATCTATGGTGTGTTCAGA+GGG | 0.499462 | 4.1:+39686864 | None:intergenic |
| CGGTTGTTTAATGGTTGCAA+TGG | 0.510738 | 4.1:+39685660 | None:intergenic |
| AACACACCATAGATGGCAAA+AGG | 0.530334 | 4.1:-39686857 | MS.gene050140:intron |
| TCAGGTGAAATTTGTTTCAA+CGG | 0.542186 | 4.1:-39685902 | MS.gene050140:intron |
| TTGGTACATGAAACTCCATC+AGG | 0.557615 | 4.1:-39686395 | MS.gene050140:CDS |
| TTGGAATATTGTACAAGACT+GGG | 0.586914 | 4.1:-39686358 | MS.gene050140:CDS |
| GGATTGTAGTTGATCTGAAG+TGG | 0.602641 | 4.1:+39687119 | None:intergenic |
| AAAGTAACTTACATCATGAA+CGG | 0.606564 | 4.1:+39685855 | None:intergenic |
| ATGTACTTAAACAGTTACAT+TGG | 0.630332 | 4.1:-39686893 | MS.gene050140:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACCAAAAAAAAAAAAAATTT+GGG | - | chr4.1:39686153-39686172 | MS.gene050140:intron | 10.0% |
| !! | ATTAATTCAAAGAAATTATT+AGG | + | chr4.1:39685820-39685839 | None:intergenic | 10.0% |
| !! | TACCAAAAAAAAAAAAAATT+TGG | - | chr4.1:39686152-39686171 | MS.gene050140:intron | 10.0% |
| !! | TTAATTCAAAGAAATTATTA+GGG | + | chr4.1:39685819-39685838 | None:intergenic | 10.0% |
| !!! | AATAAAATAACTAGTTTAAT+TGG | - | chr4.1:39686802-39686821 | MS.gene050140:intron | 10.0% |
| !! | ATCAATAAAATATTTATGCA+AGG | - | chr4.1:39687044-39687063 | MS.gene050140:intron | 15.0% |
| !! | TAATTCAAAGAAATTATTAG+GGG | + | chr4.1:39685818-39685837 | None:intergenic | 15.0% |
| !! | TTTATATATATAGTTGAGAA+AGG | - | chr4.1:39686590-39686609 | MS.gene050140:intron | 15.0% |
| !!! | AATTGATTTGTTGAATAAAA+GGG | - | chr4.1:39685631-39685650 | MS.gene050140:CDS | 15.0% |
| !!! | GTTTAAAACATAAGATATTA+TGG | + | chr4.1:39687076-39687095 | None:intergenic | 15.0% |
| !!! | TATTCTAAGTATTGAATTAA+CGG | - | chr4.1:39686064-39686083 | MS.gene050140:intron | 15.0% |
| !! | AAGATATCAGGTTTAAATTT+GGG | - | chr4.1:39686118-39686137 | MS.gene050140:intron | 20.0% |
| !! | AGACGCTTATAATAAAATAT+AGG | + | chr4.1:39686976-39686995 | None:intergenic | 20.0% |
| !! | ATGCATTATTATAGATACAT+TGG | - | chr4.1:39686693-39686712 | MS.gene050140:intron | 20.0% |
| !! | TAAGATATCAGGTTTAAATT+TGG | - | chr4.1:39686117-39686136 | MS.gene050140:intron | 20.0% |
| !! | TAATGCAACTCTTAAAAATA+GGG | - | chr4.1:39685703-39685722 | MS.gene050140:intron | 20.0% |
| !! | TATAATCTATTCAAATGATC+AGG | - | chr4.1:39686876-39686895 | MS.gene050140:CDS | 20.0% |
| !! | TATTTATTTGATCACTCATA+CGG | - | chr4.1:39686269-39686288 | MS.gene050140:intron | 20.0% |
| !! | TTTAATTGGTCACATTTATT+AGG | - | chr4.1:39686816-39686835 | MS.gene050140:intron | 20.0% |
| !!! | CAATTGATTTGTTGAATAAA+AGG | - | chr4.1:39685630-39685649 | MS.gene050140:CDS | 20.0% |
| !!! | CTTTTATTCAACAAATCAAT+TGG | + | chr4.1:39685632-39685651 | None:intergenic | 20.0% |
| !!! | GCCCAAATTTTTTTTTTTTT+TGG | + | chr4.1:39686157-39686176 | None:intergenic | 20.0% |
| ! | AAAGTAACTTACATCATGAA+CGG | + | chr4.1:39686944-39686963 | None:intergenic | 25.0% |
| ! | AATGCAACTCTTAAAAATAG+GGG | - | chr4.1:39685704-39685723 | MS.gene050140:intron | 25.0% |
| ! | ATGTACTTAAACAGTTACAT+TGG | - | chr4.1:39685903-39685922 | MS.gene050140:intron | 25.0% |
| ! | CTAATGCAACTCTTAAAAAT+AGG | - | chr4.1:39685702-39685721 | MS.gene050140:intron | 25.0% |
| ! | GAGTATCATTATTTAGATAG+TGG | + | chr4.1:39686011-39686030 | None:intergenic | 25.0% |
| ! | GAGTTATCTATCCATATATA+AGG | + | chr4.1:39686209-39686228 | None:intergenic | 25.0% |
| ! | TCAAGCTATCTACAAATTAA+TGG | - | chr4.1:39685872-39685891 | MS.gene050140:CDS | 25.0% |
| !! | AGGTACATACTTTTATAACA+TGG | - | chr4.1:39685959-39685978 | MS.gene050140:intron | 25.0% |
| !!! | ATTTTTAAGAGTTGCATTAG+AGG | + | chr4.1:39685702-39685721 | None:intergenic | 25.0% |
| !!! | GAATGTGTCCATTTTAATAT+CGG | - | chr4.1:39686177-39686196 | MS.gene050140:intron | 25.0% |
| !!! | GATCTACATGTTTTTATGAT+AGG | - | chr4.1:39686522-39686541 | MS.gene050140:intron | 25.0% |
| !!! | TTAATTTGCTTATGAATAGC+TGG | - | chr4.1:39685835-39685854 | MS.gene050140:intron | 25.0% |
| !!! | TTTTTAAGAGTTGCATTAGA+GGG | + | chr4.1:39685701-39685720 | None:intergenic | 25.0% |
| AAATAGGGGTTATGATATCA+TGG | - | chr4.1:39685718-39685737 | MS.gene050140:intron | 30.0% | |
| ATAGTTGAGAAAGGATTTAG+AGG | - | chr4.1:39686599-39686618 | MS.gene050140:intron | 30.0% | |
| ATCTGATTCCTGCAAAATTT+AGG | + | chr4.1:39687104-39687123 | None:intergenic | 30.0% | |
| ATTGGAATATTGTACAAGAC+TGG | - | chr4.1:39686437-39686456 | MS.gene050140:intron | 30.0% | |
| TTGGAATATTGTACAAGACT+GGG | - | chr4.1:39686438-39686457 | MS.gene050140:intron | 30.0% | |
| TTGTTGAATTGAATCATCCT+AGG | + | chr4.1:39686672-39686691 | None:intergenic | 30.0% | |
| ! | AACATTGACCTAAATTTTGC+AGG | - | chr4.1:39687093-39687112 | MS.gene050140:CDS | 30.0% |
| ! | ATCGGTAAAAGCCTTATATA+TGG | - | chr4.1:39686195-39686214 | MS.gene050140:intron | 30.0% |
| ! | GGCTTTTACCGATATTAAAA+TGG | + | chr4.1:39686188-39686207 | None:intergenic | 30.0% |
| ! | TCAATAATTGATTGAGTTGC+AGG | - | chr4.1:39686360-39686379 | MS.gene050140:CDS | 30.0% |
| ! | TCAGGTGAAATTTGTTTCAA+CGG | - | chr4.1:39686894-39686913 | MS.gene050140:CDS | 30.0% |
| !! | ACACACAATTCTAAGATATC+AGG | - | chr4.1:39686106-39686125 | MS.gene050140:intron | 30.0% |
| ACCAATGACAAGAAAAGATC+TGG | + | chr4.1:39686467-39686486 | None:intergenic | 35.0% | |
| GTGCAACTCAACAAACTAAA+AGG | - | chr4.1:39687163-39687182 | MS.gene050140:CDS | 35.0% | |
| GTTCAAATTGTGTCCAATCT+AGG | - | chr4.1:39685653-39685672 | MS.gene050140:CDS | 35.0% | |
| TAGTGGTTCAAGTAGAACTT+TGG | + | chr4.1:39685994-39686013 | None:intergenic | 35.0% | |
| TGCACTAATCGGTTGTTTAA+TGG | + | chr4.1:39687148-39687167 | None:intergenic | 35.0% | |
| ! | ACCAGATCTTTTCTTGTCAT+TGG | - | chr4.1:39686463-39686482 | MS.gene050140:intron | 35.0% |
| ! | GTTGGATCTAGAGTTACATT+TGG | - | chr4.1:39686382-39686401 | MS.gene050140:CDS | 35.0% |
| ! | GTTTGTTGAGTTGCACTAAT+CGG | + | chr4.1:39687159-39687178 | None:intergenic | 35.0% |
| ! | TAATTGATTGAGTTGCAGGT+TGG | - | chr4.1:39686364-39686383 | MS.gene050140:CDS | 35.0% |
| ! | TATGTACCTTTTGCCATCTA+TGG | + | chr4.1:39685948-39685967 | None:intergenic | 35.0% |
| AACACACCATAGATGGCAAA+AGG | - | chr4.1:39685939-39685958 | MS.gene050140:intron | 40.0% | |
| CGGTTGTTTAATGGTTGCAA+TGG | + | chr4.1:39687139-39687158 | None:intergenic | 40.0% | |
| GAGGCAATTTCTACTAGTAC+AGG | - | chr4.1:39686618-39686637 | MS.gene050140:intron | 40.0% | |
| GGATTGTAGTTGATCTGAAG+TGG | + | chr4.1:39685680-39685699 | None:intergenic | 40.0% | |
| TAACAATTGTCCAAGTCGCA+AGG | + | chr4.1:39686735-39686754 | None:intergenic | 40.0% | |
| TTGGTACATGAAACTCCATC+AGG | - | chr4.1:39686401-39686420 | MS.gene050140:CDS | 40.0% | |
| ! | CAGTTGGTGTAATTGATCCT+AGG | - | chr4.1:39686652-39686671 | MS.gene050140:intron | 40.0% |
| ACAGGAGAAGAAAGAGCAGT+TGG | - | chr4.1:39686636-39686655 | MS.gene050140:intron | 45.0% | |
| CCATCTATGGTGTGTTCAGA+GGG | + | chr4.1:39685935-39685954 | None:intergenic | 45.0% | |
| TCAGGAGAAACAGCAGTGAT+TGG | - | chr4.1:39686419-39686438 | MS.gene050140:intron | 45.0% | |
| ! | GATCTGAAGTGGTCCTAGAT+TGG | + | chr4.1:39685669-39685688 | None:intergenic | 45.0% |
| !! | ATCACTGCTGTTTCTCCTGA+TGG | + | chr4.1:39686419-39686438 | None:intergenic | 45.0% |
| !! | ATATACTAATTTAATTAATT+AGG | + | chr4.1:39686551-39686570 | None:intergenic | 5.0% |
| !!! | ATTTTATTTAATAAATTAAG+AGG | + | chr4.1:39686790-39686809 | None:intergenic | 5.0% |
| CAATTGTCCAAGTCGCAAGG+AGG | + | chr4.1:39686732-39686751 | None:intergenic | 50.0% | |
| CCCTCTGAACACACCATAGA+TGG | - | chr4.1:39685932-39685951 | MS.gene050140:intron | 50.0% | |
| GCCATCTATGGTGTGTTCAG+AGG | + | chr4.1:39685936-39685955 | None:intergenic | 50.0% | |
| GACTACTCCTCCTTGCGACT+TGG | - | chr4.1:39686722-39686741 | MS.gene050140:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 39685620 | 39687198 | 39685620 | ID=MS.gene050140 |
| chr4.1 | mRNA | 39685620 | 39687198 | 39685620 | ID=MS.gene050140.t1;Parent=MS.gene050140 |
| chr4.1 | exon | 39687079 | 39687198 | 39687079 | ID=MS.gene050140.t1.exon1;Parent=MS.gene050140.t1 |
| chr4.1 | CDS | 39687079 | 39687198 | 39687079 | ID=cds.MS.gene050140.t1;Parent=MS.gene050140.t1 |
| chr4.1 | exon | 39686858 | 39686964 | 39686858 | ID=MS.gene050140.t1.exon2;Parent=MS.gene050140.t1 |
| chr4.1 | CDS | 39686858 | 39686964 | 39686858 | ID=cds.MS.gene050140.t1;Parent=MS.gene050140.t1 |
| chr4.1 | exon | 39686334 | 39686436 | 39686334 | ID=MS.gene050140.t1.exon3;Parent=MS.gene050140.t1 |
| chr4.1 | CDS | 39686334 | 39686436 | 39686334 | ID=cds.MS.gene050140.t1;Parent=MS.gene050140.t1 |
| chr4.1 | exon | 39685867 | 39685920 | 39685867 | ID=MS.gene050140.t1.exon4;Parent=MS.gene050140.t1 |
| chr4.1 | CDS | 39685867 | 39685920 | 39685867 | ID=cds.MS.gene050140.t1;Parent=MS.gene050140.t1 |
| chr4.1 | exon | 39685620 | 39685703 | 39685620 | ID=MS.gene050140.t1.exon5;Parent=MS.gene050140.t1 |
| chr4.1 | CDS | 39685620 | 39685703 | 39685620 | ID=cds.MS.gene050140.t1;Parent=MS.gene050140.t1 |
| Gene Sequence |
| Protein sequence |
