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.gene75590.t1 | XP_024634267.1 | 97.8 | 136 | 3 | 0 | 4 | 139 | 16 | 151 | 2.00E-72 | 281.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75590.t1 | Q8LBZ4 | 66.4 | 131 | 44 | 0 | 5 | 135 | 173 | 303 | 5.6e-47 | 188.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75590.t1 | A0A396IU62 | 97.8 | 136 | 3 | 0 | 4 | 139 | 16 | 151 | 1.5e-72 | 281.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050868 | MS.gene75590 | 0.823841 | 1.11E-53 | -1.69E-46 |
| MS.gene050871 | MS.gene75590 | 0.822813 | 1.94E-53 | -1.69E-46 |
| MS.gene051509 | MS.gene75590 | 0.803357 | 3.62E-49 | -1.69E-46 |
| MS.gene052966 | MS.gene75590 | 0.810822 | 9.52E-51 | -1.69E-46 |
| MS.gene055722 | MS.gene75590 | 0.805057 | 1.60E-49 | -1.69E-46 |
| MS.gene06097 | MS.gene75590 | 0.823584 | 1.28E-53 | -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.gene75590.t1 | MTR_3g085620 | 97.778 | 135 | 3 | 0 | 5 | 139 | 43 | 177 | 3.78e-99 | 282 |
| MS.gene75590.t1 | MTR_1g052405 | 70.455 | 132 | 39 | 0 | 5 | 136 | 195 | 326 | 6.11e-67 | 206 |
| MS.gene75590.t1 | MTR_1g052380 | 60.150 | 133 | 52 | 1 | 5 | 136 | 61 | 193 | 1.09e-55 | 174 |
| MS.gene75590.t1 | MTR_1g492730 | 51.493 | 134 | 63 | 1 | 5 | 136 | 170 | 303 | 3.30e-47 | 154 |
| MS.gene75590.t1 | MTR_4g014750 | 29.333 | 150 | 88 | 4 | 3 | 135 | 80 | 228 | 1.63e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75590.t1 | AT3G57810 | 66.412 | 131 | 44 | 0 | 5 | 135 | 173 | 303 | 5.03e-62 | 193 |
| MS.gene75590.t1 | AT3G57810 | 66.412 | 131 | 44 | 0 | 5 | 135 | 173 | 303 | 5.03e-62 | 193 |
| MS.gene75590.t1 | AT3G57810 | 66.412 | 131 | 44 | 0 | 5 | 135 | 173 | 303 | 5.03e-62 | 193 |
| MS.gene75590.t1 | AT2G38025 | 29.560 | 159 | 82 | 6 | 4 | 136 | 57 | 211 | 3.46e-13 | 64.3 |
| MS.gene75590.t1 | AT2G38025 | 29.560 | 159 | 82 | 6 | 4 | 136 | 80 | 234 | 4.58e-13 | 64.3 |
| MS.gene75590.t1 | AT3G57810 | 63.415 | 41 | 15 | 0 | 5 | 45 | 173 | 213 | 2.15e-11 | 59.3 |
Find 32 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGCTGCATGACCACTGTTAT+AGG | 0.279175 | 3.3:-71428228 | None:intergenic |
| CCATCATAGATGACTCTAAT+AGG | 0.322276 | 3.3:-71428312 | None:intergenic |
| GCTGAATACGGCCAGGAGTA+TGG | 0.331664 | 3.3:+71428279 | MS.gene75590:CDS |
| AGAGTCATCTATGATGGTTT+TGG | 0.346483 | 3.3:+71428318 | MS.gene75590:CDS |
| AAATGAGAAAGTCTCAAGTA+TGG | 0.374440 | 3.3:+71428034 | MS.gene75590:CDS |
| CTTTCTCATTTGAACTGTAT+AGG | 0.374650 | 3.3:-71428022 | None:intergenic |
| TGCGACGACATGAGAAGTTC+AGG | 0.431577 | 3.3:-71428066 | None:intergenic |
| TGGGTCCCCTCTTCTGAGGC+AGG | 0.435858 | 3.3:-71426886 | None:intergenic |
| CTTAAAATTATAGCTGAATA+CGG | 0.456379 | 3.3:+71428267 | MS.gene75590:CDS |
| CCTATTAGAGTCATCTATGA+TGG | 0.458058 | 3.3:+71428312 | MS.gene75590:CDS |
| ATGTTTAGATCTGTGGTCTA+TGG | 0.466866 | 3.3:+71426861 | MS.gene75590:CDS |
| GCCTGGTGAGACTTGGAGGT+GGG | 0.474250 | 3.3:-71426905 | None:intergenic |
| GATTCTCCTTTCCATACTCC+TGG | 0.503121 | 3.3:-71428290 | None:intergenic |
| AATGAGAAAGTCTCAAGTAT+GGG | 0.519563 | 3.3:+71428035 | MS.gene75590:CDS |
| ATATTGTACAGGTTTCTTGA+AGG | 0.524544 | 3.3:+71427988 | MS.gene75590:intron |
| AACATACATCTACCATCTCC+TGG | 0.526181 | 3.3:-71426843 | None:intergenic |
| AGAGGAGAGTAGACACTGAA+TGG | 0.540031 | 3.3:+71427202 | MS.gene75590:CDS |
| TGCCTGGTGAGACTTGGAGG+TGG | 0.552260 | 3.3:-71426906 | None:intergenic |
| AATTATAGCTGAATACGGCC+AGG | 0.560297 | 3.3:+71428272 | MS.gene75590:CDS |
| ATTTAGGATGCCTATAACAG+TGG | 0.560992 | 3.3:+71428218 | MS.gene75590:intron |
| GAGGTGGGTCCCCTCTTCTG+AGG | 0.564647 | 3.3:-71426890 | None:intergenic |
| ATGGTGCCTGCCTCAGAAGA+GGG | 0.565144 | 3.3:+71426880 | MS.gene75590:CDS |
| ACCCACCTCCAAGTCTCACC+AGG | 0.567674 | 3.3:+71426904 | MS.gene75590:CDS |
| GTTATAGGAATACCAGGAGA+TGG | 0.570785 | 3.3:+71426831 | MS.gene75590:intron |
| TATGGTGCCTGCCTCAGAAG+AGG | 0.606464 | 3.3:+71426879 | MS.gene75590:CDS |
| AACACTTCAATACATCATAG+TGG | 0.613291 | 3.3:-71428341 | None:intergenic |
| TAGATGTATGTTTAGATCTG+TGG | 0.614910 | 3.3:+71426854 | MS.gene75590:CDS |
| ATGAGAAAGTCTCAAGTATG+GGG | 0.628007 | 3.3:+71428036 | MS.gene75590:CDS |
| TTGTGGACGAGTTCATCAAG+AGG | 0.642968 | 3.3:+71427184 | MS.gene75590:CDS |
| TGGTGCCTGCCTCAGAAGAG+GGG | 0.646066 | 3.3:+71426881 | MS.gene75590:CDS |
| AGAAAGTCTCAAGTATGGGG+AGG | 0.654651 | 3.3:+71428039 | MS.gene75590:CDS |
| ATACGGCCAGGAGTATGGAA+AGG | 0.662932 | 3.3:+71428284 | MS.gene75590:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGCATATAATCAAAATATTA+GGG | - | chr3.3:71427474-71427493 | None:intergenic | 15.0% |
| !!! | TTGAAACATTTTTTTGTTAT+AGG | + | chr3.3:71426816-71426835 | MS.gene75590:intron | 15.0% |
| !! | AATAGAGCACAAATTATATA+TGG | + | chr3.3:71427087-71427106 | MS.gene75590:intron | 20.0% |
| !! | ATAGAAACGATAAATTGTTT+AGG | - | chr3.3:71427712-71427731 | None:intergenic | 20.0% |
| !! | ATGTAACAATGTTATAATCT+AGG | - | chr3.3:71427897-71427916 | None:intergenic | 20.0% |
| !! | CTTAAAATTATAGCTGAATA+CGG | + | chr3.3:71428267-71428286 | MS.gene75590:CDS | 20.0% |
| !! | GATATAAATATCCACAATAT+AGG | - | chr3.3:71427499-71427518 | None:intergenic | 20.0% |
| !! | GTGCATATAATCAAAATATT+AGG | - | chr3.3:71427475-71427494 | None:intergenic | 20.0% |
| !! | TAGAAACGATAAATTGTTTA+GGG | - | chr3.3:71427711-71427730 | None:intergenic | 20.0% |
| !! | TTGAAATTATGTAGTGTAAT+TGG | + | chr3.3:71427030-71427049 | MS.gene75590:intron | 20.0% |
| !!! | AAACAAAACATATTTTTCCA+TGG | + | chr3.3:71427628-71427647 | MS.gene75590:intron | 20.0% |
| !!! | AAATATGTTTTGTTTTGTCA+CGG | - | chr3.3:71427623-71427642 | None:intergenic | 20.0% |
| !!! | AAATTTGTAACCAAACTTTT+TGG | - | chr3.3:71427246-71427265 | None:intergenic | 20.0% |
| !!! | AGCTATAATTTTAAGGTTAT+TGG | - | chr3.3:71428262-71428281 | None:intergenic | 20.0% |
| ! | AGAAACGATAAATTGTTTAG+GGG | - | chr3.3:71427710-71427729 | None:intergenic | 25.0% |
| ! | ATAATCAAAATATTAGGGAC+TGG | - | chr3.3:71427469-71427488 | None:intergenic | 25.0% |
| ! | ATAGAAAATAAAAGGTCAGA+GGG | - | chr3.3:71427751-71427770 | None:intergenic | 25.0% |
| ! | ATGCATTTGAATCTTTATGA+TGG | + | chr3.3:71427140-71427159 | MS.gene75590:intron | 25.0% |
| ! | CTATCTTTAACCAAAAAGTT+TGG | + | chr3.3:71427233-71427252 | MS.gene75590:intron | 25.0% |
| ! | GGATATTTATATCTTAAGTG+AGG | + | chr3.3:71427506-71427525 | MS.gene75590:intron | 25.0% |
| ! | GTGTTTAATTCATATTGTAC+AGG | + | chr3.3:71427977-71427996 | MS.gene75590:intron | 25.0% |
| ! | TCTGAGTCATAGAAAATAAA+AGG | - | chr3.3:71427759-71427778 | None:intergenic | 25.0% |
| ! | TGCATTTGAATCTTTATGAT+GGG | + | chr3.3:71427141-71427160 | MS.gene75590:intron | 25.0% |
| ! | TTTAATCATGTTGTGTCTTA+TGG | + | chr3.3:71428195-71428214 | MS.gene75590:intron | 25.0% |
| !! | AACATATTTTTCCATGGAAA+TGG | + | chr3.3:71427634-71427653 | MS.gene75590:intron | 25.0% |
| !! | AGTTCATTGGAATAATTTTG+AGG | + | chr3.3:71427373-71427392 | MS.gene75590:intron | 25.0% |
| !! | ATTATCATACAAGCAAGTTT+TGG | + | chr3.3:71427321-71427340 | MS.gene75590:intron | 25.0% |
| !! | CGTATTCAGCTATAATTTTA+AGG | - | chr3.3:71428269-71428288 | None:intergenic | 25.0% |
| !! | TAGTATAATGAGACTGATTT+GGG | + | chr3.3:71427280-71427299 | MS.gene75590:intron | 25.0% |
| !!! | ACTACTACTATTTTTGTCAA+AGG | - | chr3.3:71427549-71427568 | None:intergenic | 25.0% |
| !!! | AGTTTTGGTTCATTTTTTTC+TGG | + | chr3.3:71427336-71427355 | MS.gene75590:intron | 25.0% |
| !!! | TTTTTTGTTATAGGAATACC+AGG | + | chr3.3:71426825-71426844 | MS.gene75590:intron | 25.0% |
| AAATGAGAAAGTCTCAAGTA+TGG | + | chr3.3:71428034-71428053 | MS.gene75590:CDS | 30.0% | |
| AACACTTCAATACATCATAG+TGG | - | chr3.3:71428344-71428363 | None:intergenic | 30.0% | |
| AATGAGAAAGTCTCAAGTAT+GGG | + | chr3.3:71428035-71428054 | MS.gene75590:CDS | 30.0% | |
| AATGTTCTTGTCATGTATCT+CGG | - | chr3.3:71428166-71428185 | None:intergenic | 30.0% | |
| ACATTATTATTTGCAGGTTG+TGG | + | chr3.3:71427167-71427186 | MS.gene75590:intron | 30.0% | |
| ATAAACATGATGTTCTAGCA+AGG | - | chr3.3:71427443-71427462 | None:intergenic | 30.0% | |
| ATATTGTACAGGTTTCTTGA+AGG | + | chr3.3:71427988-71428007 | MS.gene75590:intron | 30.0% | |
| ATGTTGTGTCTTATGGATTT+AGG | + | chr3.3:71428202-71428221 | MS.gene75590:intron | 30.0% | |
| CATAGAAAATAAAAGGTCAG+AGG | - | chr3.3:71427752-71427771 | None:intergenic | 30.0% | |
| CTAGTATAATGAGACTGATT+TGG | + | chr3.3:71427279-71427298 | MS.gene75590:intron | 30.0% | |
| CTTTCTCATTTGAACTGTAT+AGG | - | chr3.3:71428025-71428044 | None:intergenic | 30.0% | |
| GGGAAAACATTATTATTTGC+AGG | + | chr3.3:71427161-71427180 | MS.gene75590:intron | 30.0% | |
| TAGAAAATAAAAGGTCAGAG+GGG | - | chr3.3:71427750-71427769 | None:intergenic | 30.0% | |
| TAGATGTATGTTTAGATCTG+TGG | + | chr3.3:71426854-71426873 | MS.gene75590:CDS | 30.0% | |
| TCATAAGACTCTCCATTAAA+CGG | + | chr3.3:71427781-71427800 | MS.gene75590:intron | 30.0% | |
| TTATATGCACACCTATATTG+TGG | + | chr3.3:71427485-71427504 | MS.gene75590:intron | 30.0% | |
| ! | AAAAGGTGAGAGATTTTCAT+CGG | - | chr3.3:71427667-71427686 | None:intergenic | 30.0% |
| !! | GATTAGTCTGTCAATTACTT+TGG | - | chr3.3:71426958-71426977 | None:intergenic | 30.0% |
| !!! | AACAGCAAGTTTTAGTTCAT+TGG | + | chr3.3:71427360-71427379 | MS.gene75590:intron | 30.0% |
| !!! | ATGTAGTGTAATTGGTTTTC+TGG | + | chr3.3:71427038-71427057 | MS.gene75590:intron | 30.0% |
| !!! | ATTTTGAGGTCAATCATGTT+AGG | + | chr3.3:71427387-71427406 | MS.gene75590:intron | 30.0% |
| ATCATACTTGTGTTGCAACT+CGG | - | chr3.3:71427572-71427591 | None:intergenic | 35.0% | |
| ATGAGAAAGTCTCAAGTATG+GGG | + | chr3.3:71428036-71428055 | MS.gene75590:CDS | 35.0% | |
| ATGTTTAGATCTGTGGTCTA+TGG | + | chr3.3:71426861-71426880 | MS.gene75590:CDS | 35.0% | |
| CCATCATAGATGACTCTAAT+AGG | - | chr3.3:71428315-71428334 | None:intergenic | 35.0% | |
| CCTATTAGAGTCATCTATGA+TGG | + | chr3.3:71428312-71428331 | MS.gene75590:CDS | 35.0% | |
| ! | AGAGTCATCTATGATGGTTT+TGG | + | chr3.3:71428318-71428337 | MS.gene75590:CDS | 35.0% |
| ! | ATTTAGGATGCCTATAACAG+TGG | + | chr3.3:71428218-71428237 | MS.gene75590:intron | 35.0% |
| ! | TTTTGTACCACTTCATGGTA+AGG | - | chr3.3:71427872-71427891 | None:intergenic | 35.0% |
| !! | AATGAGACTGATTTGGGAAT+GGG | + | chr3.3:71427286-71427305 | MS.gene75590:intron | 35.0% |
| !! | TAATGAGACTGATTTGGGAA+TGG | + | chr3.3:71427285-71427304 | MS.gene75590:intron | 35.0% |
| AACATACATCTACCATCTCC+TGG | - | chr3.3:71426846-71426865 | None:intergenic | 40.0% | |
| AATTATAGCTGAATACGGCC+AGG | + | chr3.3:71428272-71428291 | MS.gene75590:CDS | 40.0% | |
| ACCAGATCATCTCCGTTTAA+TGG | - | chr3.3:71427796-71427815 | None:intergenic | 40.0% | |
| ATCTCGGTCTTCTTAACACT+GGG | - | chr3.3:71428150-71428169 | None:intergenic | 40.0% | |
| CTGAATTCCTTACCATGAAG+TGG | + | chr3.3:71427862-71427881 | MS.gene75590:intron | 40.0% | |
| GTTATAGGAATACCAGGAGA+TGG | + | chr3.3:71426831-71426850 | MS.gene75590:intron | 40.0% | |
| TATCTCGGTCTTCTTAACAC+TGG | - | chr3.3:71428151-71428170 | None:intergenic | 40.0% | |
| TCCATTAAACGGAGATGATC+TGG | + | chr3.3:71427792-71427811 | MS.gene75590:intron | 40.0% | |
| ! | AGGCATTTTGTACCACTTCA+TGG | - | chr3.3:71427877-71427896 | None:intergenic | 40.0% |
| ! | ATCTGCAAGTTCTTTTTGCC+TGG | - | chr3.3:71426925-71426944 | None:intergenic | 40.0% |
| !!! | GTGTAATTGGTTTTCTGGTG+TGG | + | chr3.3:71427043-71427062 | MS.gene75590:intron | 40.0% |
| AGAAAGTCTCAAGTATGGGG+AGG | + | chr3.3:71428039-71428058 | MS.gene75590:CDS | 45.0% | |
| AGAGGAGAGTAGACACTGAA+TGG | + | chr3.3:71427202-71427221 | MS.gene75590:CDS | 45.0% | |
| CGATAAATTGTTTAGGGGCG+TGG | - | chr3.3:71427705-71427724 | None:intergenic | 45.0% | |
| GATTCTCCTTTCCATACTCC+TGG | - | chr3.3:71428293-71428312 | None:intergenic | 45.0% | |
| GGATTGTCTCGCAGAAGAAA+AGG | - | chr3.3:71427684-71427703 | None:intergenic | 45.0% | |
| TCGGAGAGAATCCATTTCCA+TGG | - | chr3.3:71427648-71427667 | None:intergenic | 45.0% | |
| TTGTGGACGAGTTCATCAAG+AGG | + | chr3.3:71427184-71427203 | MS.gene75590:CDS | 45.0% | |
| ! | TCTTTTTGCCTGGTGAGACT+TGG | - | chr3.3:71426915-71426934 | None:intergenic | 45.0% |
| ACGGTCACGTGATTAACGTG+AGG | - | chr3.3:71427604-71427623 | None:intergenic | 50.0% | |
| CGCTGCATGACCACTGTTAT+AGG | - | chr3.3:71428231-71428250 | None:intergenic | 50.0% | |
| TGCGACGACATGAGAAGTTC+AGG | - | chr3.3:71428069-71428088 | None:intergenic | 50.0% | |
| ! | ATACGGCCAGGAGTATGGAA+AGG | + | chr3.3:71428284-71428303 | MS.gene75590:CDS | 50.0% |
| ! | TTTTGCCTGGTGAGACTTGG+AGG | - | chr3.3:71426912-71426931 | None:intergenic | 50.0% |
| ATGGTGCCTGCCTCAGAAGA+GGG | + | chr3.3:71426880-71426899 | MS.gene75590:CDS | 55.0% | |
| GCTGAATACGGCCAGGAGTA+TGG | + | chr3.3:71428279-71428298 | MS.gene75590:CDS | 55.0% | |
| TATGGTGCCTGCCTCAGAAG+AGG | + | chr3.3:71426879-71426898 | MS.gene75590:CDS | 55.0% | |
| ACCCACCTCCAAGTCTCACC+AGG | + | chr3.3:71426904-71426923 | MS.gene75590:CDS | 60.0% | |
| GCCTGGTGAGACTTGGAGGT+GGG | - | chr3.3:71426908-71426927 | None:intergenic | 60.0% | |
| TGCCTGGTGAGACTTGGAGG+TGG | - | chr3.3:71426909-71426928 | None:intergenic | 60.0% | |
| TGGTGCCTGCCTCAGAAGAG+GGG | + | chr3.3:71426881-71426900 | MS.gene75590:CDS | 60.0% | |
| GAGGTGGGTCCCCTCTTCTG+AGG | - | chr3.3:71426893-71426912 | None:intergenic | 65.0% | |
| !! | TGGGTCCCCTCTTCTGAGGC+AGG | - | chr3.3:71426889-71426908 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 71426735 | 71428371 | 71426735 | ID=MS.gene75590 |
| chr3.3 | mRNA | 71426735 | 71428371 | 71426735 | ID=MS.gene75590.t1;Parent=MS.gene75590 |
| chr3.3 | exon | 71426735 | 71426744 | 71426735 | ID=MS.gene75590.t1.exon1;Parent=MS.gene75590.t1 |
| chr3.3 | CDS | 71426735 | 71426744 | 71426735 | ID=cds.MS.gene75590.t1;Parent=MS.gene75590.t1 |
| chr3.3 | exon | 71426838 | 71426959 | 71426838 | ID=MS.gene75590.t1.exon2;Parent=MS.gene75590.t1 |
| chr3.3 | CDS | 71426838 | 71426959 | 71426838 | ID=cds.MS.gene75590.t1;Parent=MS.gene75590.t1 |
| chr3.3 | exon | 71427183 | 71427223 | 71427183 | ID=MS.gene75590.t1.exon3;Parent=MS.gene75590.t1 |
| chr3.3 | CDS | 71427183 | 71427223 | 71427183 | ID=cds.MS.gene75590.t1;Parent=MS.gene75590.t1 |
| chr3.3 | exon | 71427999 | 71428097 | 71427999 | ID=MS.gene75590.t1.exon4;Parent=MS.gene75590.t1 |
| chr3.3 | CDS | 71427999 | 71428097 | 71427999 | ID=cds.MS.gene75590.t1;Parent=MS.gene75590.t1 |
| chr3.3 | exon | 71428224 | 71428371 | 71428224 | ID=MS.gene75590.t1.exon5;Parent=MS.gene75590.t1 |
| chr3.3 | CDS | 71428224 | 71428371 | 71428224 | ID=cds.MS.gene75590.t1;Parent=MS.gene75590.t1 |
| Gene Sequence |
| Protein sequence |
