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.gene83877.t1 | XP_013451506.1 | 80.9 | 115 | 22 | 0 | 1 | 115 | 1 | 115 | 3.30E-44 | 187.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83877.t1 | Q9SEZ4 | 43.6 | 55 | 31 | 0 | 61 | 115 | 90 | 144 | 2.1e-07 | 56.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83877.t1 | A0A072U6Z3 | 80.9 | 115 | 22 | 0 | 1 | 115 | 1 | 115 | 2.4e-44 | 187.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene83877.t1 | TF | MYB-related |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83877.t1 | MTR_6g027360 | 80.870 | 115 | 22 | 0 | 1 | 115 | 1 | 115 | 3.32e-53 | 169 |
| MS.gene83877.t1 | MTR_6g027370 | 55.147 | 136 | 40 | 3 | 1 | 115 | 1 | 136 | 2.24e-36 | 127 |
| MS.gene83877.t1 | MTR_6g027340 | 94.340 | 53 | 3 | 0 | 63 | 115 | 1 | 53 | 2.04e-30 | 107 |
| MS.gene83877.t1 | MTR_3g089045 | 57.895 | 38 | 16 | 0 | 78 | 115 | 16 | 53 | 1.04e-11 | 60.1 |
| MS.gene83877.t1 | MTR_7g086960 | 57.895 | 38 | 16 | 0 | 78 | 115 | 89 | 126 | 4.71e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83877.t1 | AT1G69560 | 43.636 | 55 | 31 | 0 | 61 | 115 | 106 | 160 | 8.32e-11 | 57.8 |
| MS.gene83877.t1 | AT1G69560 | 43.636 | 55 | 31 | 0 | 61 | 115 | 90 | 144 | 8.74e-11 | 57.8 |
Find 33 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGAAATCCCAAAGGGTATTT+TGG | 0.171827 | 6.1:-9364151 | None:intergenic |
| TAAAATTTCCTCCATTGTTT+TGG | 0.231459 | 6.1:-9364209 | None:intergenic |
| ATCATCTTCTACTCCCCTTC+AGG | 0.338308 | 6.1:+9364098 | MS.gene83877:CDS |
| CTAAGCCTTTCAAAGCTCAT+TGG | 0.383578 | 6.1:+9364238 | MS.gene83877:CDS |
| GAAAAGTCCAAAATACCCTT+TGG | 0.408522 | 6.1:+9364144 | MS.gene83877:CDS |
| AAAAGTCCAAAATACCCTTT+GGG | 0.428010 | 6.1:+9364145 | MS.gene83877:CDS |
| GGACCATGCTCTCATTAGGT+TGG | 0.436179 | 6.1:-9364188 | None:intergenic |
| AAACAACTTATCGCTGATCA+TGG | 0.467600 | 6.1:+9364285 | MS.gene83877:CDS |
| CTTTGGGATTTCGAACCCTC+CGG | 0.484306 | 6.1:+9364161 | MS.gene83877:CDS |
| AACAACTTATCGCTGATCAT+GGG | 0.490010 | 6.1:+9364286 | MS.gene83877:CDS |
| GAACAACTACAAGGAAGAAC+AGG | 0.490599 | 6.1:+9364333 | MS.gene83877:CDS |
| TTTCAAGTTTAGTGAACTCA+TGG | 0.500351 | 6.1:-9364016 | None:intergenic |
| CTCTCATTAGGTTGGATCAC+CGG | 0.504011 | 6.1:-9364180 | None:intergenic |
| TCATCTTCTACTCCCCTTCA+GGG | 0.505070 | 6.1:+9364099 | MS.gene83877:CDS |
| ACTCCCCTTCAGGGTCATGT+TGG | 0.552989 | 6.1:+9364108 | MS.gene83877:CDS |
| GGTTTCCAATGAGCTTTGAA+AGG | 0.559132 | 6.1:-9364243 | None:intergenic |
| TCATTAGGTTGGATCACCGG+AGG | 0.577019 | 6.1:-9364177 | None:intergenic |
| TTAAGCTTAGCATCTTCAGA+TGG | 0.584279 | 6.1:-9364264 | None:intergenic |
| GAGAGCATGGTCCAAAACAA+TGG | 0.587715 | 6.1:+9364198 | MS.gene83877:CDS |
| GTTACCAACATGACCCTGAA+GGG | 0.597809 | 6.1:-9364112 | None:intergenic |
| AACATTGCTGAACAACTACA+AGG | 0.597959 | 6.1:+9364324 | MS.gene83877:CDS |
| CATTAGGTTGGATCACCGGA+GGG | 0.604916 | 6.1:-9364176 | None:intergenic |
| GGAGGGTTCGAAATCCCAAA+GGG | 0.615161 | 6.1:-9364159 | None:intergenic |
| TGTTACCAACATGACCCTGA+AGG | 0.615497 | 6.1:-9364113 | None:intergenic |
| TGATGTAAGTTGACATGGAA+GGG | 0.621849 | 6.1:-9364076 | None:intergenic |
| GATCCAACCTAATGAGAGCA+TGG | 0.627553 | 6.1:+9364185 | MS.gene83877:CDS |
| GATGATGATGTAAGTTGACA+TGG | 0.628162 | 6.1:-9364081 | None:intergenic |
| ACAACTTATCGCTGATCATG+GGG | 0.628696 | 6.1:+9364287 | MS.gene83877:CDS |
| CGGAGGGTTCGAAATCCCAA+AGG | 0.641460 | 6.1:-9364160 | None:intergenic |
| AGCATGGTCCAAAACAATGG+AGG | 0.663492 | 6.1:+9364201 | MS.gene83877:CDS |
| TTACCAACATGACCCTGAAG+GGG | 0.664721 | 6.1:-9364111 | None:intergenic |
| GGGTCATGTTGGTAACAATG+AGG | 0.688477 | 6.1:+9364119 | MS.gene83877:CDS |
| ATGATGTAAGTTGACATGGA+AGG | 0.710504 | 6.1:-9364077 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAAAAAACAATTTAAGT+TGG | + | chr6.1:9364945-9364964 | MS.gene83877:intron | 10.0% |
| !! | TATTTGTAATTTAACATTTA+GGG | + | chr6.1:9364589-9364608 | MS.gene83877:intron | 10.0% |
| !! | TTATTTGTAATTTAACATTT+AGG | + | chr6.1:9364588-9364607 | MS.gene83877:intron | 10.0% |
| !! | TTTATGTCAATTAATAAATA+TGG | - | chr6.1:9364760-9364779 | None:intergenic | 10.0% |
| !!! | AATAAAAAACAATTTAAGTT+GGG | + | chr6.1:9364946-9364965 | MS.gene83877:intron | 10.0% |
| !!! | TACTATTCATTTTTTTTTAT+AGG | - | chr6.1:9364919-9364938 | None:intergenic | 10.0% |
| !! | ATATATATAATTGTCTTCAA+GGG | - | chr6.1:9364785-9364804 | None:intergenic | 15.0% |
| !! | TAAATTATTGTTTAACGAAA+TGG | + | chr6.1:9364410-9364429 | MS.gene83877:intron | 15.0% |
| !! | TATATATATAATTGTCTTCA+AGG | - | chr6.1:9364786-9364805 | None:intergenic | 15.0% |
| !!! | ATAAAAAACAATTTAAGTTG+GGG | + | chr6.1:9364947-9364966 | MS.gene83877:intron | 15.0% |
| !!! | AAAAATTGAACATTTTCAAG+CGG | + | chr6.1:9364495-9364514 | MS.gene83877:intron | 20.0% |
| !!! | TAAAAAACAATTTAAGTTGG+GGG | + | chr6.1:9364948-9364967 | MS.gene83877:intron | 20.0% |
| !!! | TAGACTTTTCACATAAAAAA+TGG | + | chr6.1:9364976-9364995 | MS.gene83877:intron | 20.0% |
| ! | AAAAAGGAAAGAAAGTAATG+TGG | - | chr6.1:9365057-9365076 | None:intergenic | 25.0% |
| ! | AAAAATGTGTTATGTTGTGT+AGG | - | chr6.1:9364365-9364384 | None:intergenic | 25.0% |
| ! | AAAAGGAAAGAAAGTAATGT+GGG | - | chr6.1:9365056-9365075 | None:intergenic | 25.0% |
| ! | AACTTGAAAAATGATGGTTA+TGG | + | chr6.1:9364030-9364049 | MS.gene83877:CDS | 25.0% |
| ! | AAGAAAAAGAATAGAAAGTG+AGG | + | chr6.1:9364673-9364692 | MS.gene83877:intron | 25.0% |
| ! | AAGTAAGGAAACATTAAATG+AGG | + | chr6.1:9364649-9364668 | MS.gene83877:intron | 25.0% |
| ! | AGAAAAAGAATAGAAAGTGA+GGG | + | chr6.1:9364674-9364693 | MS.gene83877:intron | 25.0% |
| ! | GTAAAAGGAAAGAAAAAGTA+AGG | + | chr6.1:9364634-9364653 | MS.gene83877:intron | 25.0% |
| ! | TATAAAGCATAAACATACTG+TGG | + | chr6.1:9364802-9364821 | MS.gene83877:intron | 25.0% |
| ! | TCACTAAACTTGAAAAATGA+TGG | + | chr6.1:9364024-9364043 | MS.gene83877:CDS | 25.0% |
| ! | TTGTTTGGTATAAAAGAAAG+TGG | + | chr6.1:9364708-9364727 | MS.gene83877:intron | 25.0% |
| !! | AAAACAATGGAGGAAATTTT+AGG | + | chr6.1:9364211-9364230 | MS.gene83877:CDS | 25.0% |
| !! | ATTTTTCTATGGCATACAAT+TGG | - | chr6.1:9364843-9364862 | None:intergenic | 25.0% |
| !! | TAAAATTTCCTCCATTGTTT+TGG | - | chr6.1:9364212-9364231 | None:intergenic | 25.0% |
| !! | TTAGACGTAATTTTACTCTA+AGG | - | chr6.1:9365178-9365197 | None:intergenic | 25.0% |
| !! | TTCTCTTTTCTTAAGTTTGT+AGG | + | chr6.1:9365266-9365285 | MS.gene83877:intron | 25.0% |
| !! | TTTAACATTTAGGGTTTGTT+TGG | + | chr6.1:9364598-9364617 | MS.gene83877:intron | 25.0% |
| !!! | AGTGAGTTGATAAAATAAAG+AGG | + | chr6.1:9364868-9364887 | MS.gene83877:intron | 25.0% |
| AAAAGTCCAAAATACCCTTT+GGG | + | chr6.1:9364145-9364164 | MS.gene83877:CDS | 30.0% | |
| AAAGTGGAATAGAAAGTTGA+AGG | + | chr6.1:9364724-9364743 | MS.gene83877:intron | 30.0% | |
| AAGATTGAGGAAGAAAAGAT+TGG | - | chr6.1:9365140-9365159 | None:intergenic | 30.0% | |
| CCAAACTATGGAACAATATT+TGG | + | chr6.1:9365092-9365111 | MS.gene83877:intron | 30.0% | |
| CCAAATATTGTTCCATAGTT+TGG | - | chr6.1:9365095-9365114 | None:intergenic | 30.0% | |
| GAAAAAGAATAGAAAGTGAG+GGG | + | chr6.1:9364675-9364694 | MS.gene83877:intron | 30.0% | |
| GGATGATCAAAGAAAGTAAA+AGG | + | chr6.1:9364619-9364638 | MS.gene83877:intron | 30.0% | |
| GTTCAAGGGAACAATTAAAA+AGG | - | chr6.1:9365073-9365092 | None:intergenic | 30.0% | |
| !! | CTCACTCTTTCATTTTTCTA+TGG | - | chr6.1:9364854-9364873 | None:intergenic | 30.0% |
| !!! | TTTTACTCTAAGGCTTTGTT+TGG | - | chr6.1:9365168-9365187 | None:intergenic | 30.0% |
| AAACAACTTATCGCTGATCA+TGG | + | chr6.1:9364285-9364304 | MS.gene83877:CDS | 35.0% | |
| AACAACTTATCGCTGATCAT+GGG | + | chr6.1:9364286-9364305 | MS.gene83877:CDS | 35.0% | |
| AACATTGCTGAACAACTACA+AGG | + | chr6.1:9364324-9364343 | MS.gene83877:CDS | 35.0% | |
| AGCATAAACATACTGTGGTT+AGG | + | chr6.1:9364807-9364826 | MS.gene83877:intron | 35.0% | |
| GAAAAGTCCAAAATACCCTT+TGG | + | chr6.1:9364144-9364163 | MS.gene83877:CDS | 35.0% | |
| TTAAGCTTAGCATCTTCAGA+TGG | - | chr6.1:9364267-9364286 | None:intergenic | 35.0% | |
| ! | AAGAAAAGATTGGTTGTGGA+TGG | - | chr6.1:9365130-9365149 | None:intergenic | 35.0% |
| ! | ATGATGTAAGTTGACATGGA+AGG | - | chr6.1:9364080-9364099 | None:intergenic | 35.0% |
| ! | GATGATGATGTAAGTTGACA+TGG | - | chr6.1:9364084-9364103 | None:intergenic | 35.0% |
| ! | TGATGTAAGTTGACATGGAA+GGG | - | chr6.1:9364079-9364098 | None:intergenic | 35.0% |
| ! | TGTTCCATAGTTTGGTTCAA+GGG | - | chr6.1:9365087-9365106 | None:intergenic | 35.0% |
| ! | TTGTTCCATAGTTTGGTTCA+AGG | - | chr6.1:9365088-9365107 | None:intergenic | 35.0% |
| !!! | AGGGGATTGTTTTGATTGTT+TGG | + | chr6.1:9364693-9364712 | MS.gene83877:intron | 35.0% |
| ACAAAAAGAGTAGAGCCACA+TGG | - | chr6.1:9365230-9365249 | None:intergenic | 40.0% | |
| ACAACTTATCGCTGATCATG+GGG | + | chr6.1:9364287-9364306 | MS.gene83877:CDS | 40.0% | |
| CTAAGCCTTTCAAAGCTCAT+TGG | + | chr6.1:9364238-9364257 | MS.gene83877:CDS | 40.0% | |
| CTGATCATGGGGCTAAAAAT+TGG | + | chr6.1:9364298-9364317 | MS.gene83877:CDS | 40.0% | |
| GAACAACTACAAGGAAGAAC+AGG | + | chr6.1:9364333-9364352 | MS.gene83877:CDS | 40.0% | |
| TGTTCCCTTGAACCAAACTA+TGG | + | chr6.1:9365080-9365099 | MS.gene83877:intron | 40.0% | |
| ! | GAGGAAGAAAAGATTGGTTG+TGG | - | chr6.1:9365134-9365153 | None:intergenic | 40.0% |
| ! | TTGTTTGGTTCGCAAGATTG+AGG | - | chr6.1:9365153-9365172 | None:intergenic | 40.0% |
| ! | TTTTGGACCATGCTCTCATT+AGG | - | chr6.1:9364195-9364214 | None:intergenic | 40.0% |
| !! | GCAGAAAGGTTTTTAGGCAT+GGG | + | chr6.1:9365029-9365048 | MS.gene83877:intron | 40.0% |
| !! | GGTTTCCAATGAGCTTTGAA+AGG | - | chr6.1:9364246-9364265 | None:intergenic | 40.0% |
| !!! | CGAAATCCCAAAGGGTATTT+TGG | - | chr6.1:9364154-9364173 | None:intergenic | 40.0% |
| AAGAGTAGAGCCACATGGTT+CGG | - | chr6.1:9365225-9365244 | None:intergenic | 45.0% | |
| AGCATGGTCCAAAACAATGG+AGG | + | chr6.1:9364201-9364220 | MS.gene83877:CDS | 45.0% | |
| ATCATCTTCTACTCCCCTTC+AGG | + | chr6.1:9364098-9364117 | MS.gene83877:CDS | 45.0% | |
| CAAGAGTAAACCGAACCATG+TGG | + | chr6.1:9365212-9365231 | MS.gene83877:intron | 45.0% | |
| GATCCAACCTAATGAGAGCA+TGG | + | chr6.1:9364185-9364204 | MS.gene83877:CDS | 45.0% | |
| GTTACCAACATGACCCTGAA+GGG | - | chr6.1:9364115-9364134 | None:intergenic | 45.0% | |
| TCATCTTCTACTCCCCTTCA+GGG | + | chr6.1:9364099-9364118 | MS.gene83877:CDS | 45.0% | |
| TGTTACCAACATGACCCTGA+AGG | - | chr6.1:9364116-9364135 | None:intergenic | 45.0% | |
| TTACCAACATGACCCTGAAG+GGG | - | chr6.1:9364114-9364133 | None:intergenic | 45.0% | |
| TTGGTTGTGGATGGAAAGCA+CGG | - | chr6.1:9365121-9365140 | None:intergenic | 45.0% | |
| ! | AGCAGCGCAGAAAGGTTTTT+AGG | + | chr6.1:9365023-9365042 | MS.gene83877:intron | 45.0% |
| ! | GAGAGCATGGTCCAAAACAA+TGG | + | chr6.1:9364198-9364217 | MS.gene83877:CDS | 45.0% |
| !! | CGCAGAAAGGTTTTTAGGCA+TGG | + | chr6.1:9365028-9365047 | MS.gene83877:intron | 45.0% |
| !! | CTCTCATTAGGTTGGATCAC+CGG | - | chr6.1:9364183-9364202 | None:intergenic | 45.0% |
| !! | GGGTCATGTTGGTAACAATG+AGG | + | chr6.1:9364119-9364138 | MS.gene83877:CDS | 45.0% |
| AAAACCTTTCTGCGCTGCTG+AGG | - | chr6.1:9365022-9365041 | None:intergenic | 50.0% | |
| GGACCATGCTCTCATTAGGT+TGG | - | chr6.1:9364191-9364210 | None:intergenic | 50.0% | |
| GGAGGGTTCGAAATCCCAAA+GGG | - | chr6.1:9364162-9364181 | None:intergenic | 50.0% | |
| !! | CATTAGGTTGGATCACCGGA+GGG | - | chr6.1:9364179-9364198 | None:intergenic | 50.0% |
| !! | CTTTGGGATTTCGAACCCTC+CGG | + | chr6.1:9364161-9364180 | MS.gene83877:CDS | 50.0% |
| !! | TCATTAGGTTGGATCACCGG+AGG | - | chr6.1:9364180-9364199 | None:intergenic | 50.0% |
| ACTCCCCTTCAGGGTCATGT+TGG | + | chr6.1:9364108-9364127 | MS.gene83877:CDS | 55.0% | |
| CGGAGGGTTCGAAATCCCAA+AGG | - | chr6.1:9364163-9364182 | None:intergenic | 55.0% | |
| ACCTTTCTGCGCTGCTGAGG+AGG | - | chr6.1:9365019-9365038 | None:intergenic | 60.0% | |
| CCTTTCTGCGCTGCTGAGGA+GGG | - | chr6.1:9365018-9365037 | None:intergenic | 60.0% | |
| CCCTCCTCAGCAGCGCAGAA+AGG | + | chr6.1:9365015-9365034 | MS.gene83877:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.1 | gene | 9364018 | 9365304 | 9364018 | ID=MS.gene83877 |
| chr6.1 | mRNA | 9364018 | 9365304 | 9364018 | ID=MS.gene83877.t1;Parent=MS.gene83877 |
| chr6.1 | exon | 9364018 | 9364354 | 9364018 | ID=MS.gene83877.t1.exon1;Parent=MS.gene83877.t1 |
| chr6.1 | CDS | 9364018 | 9364354 | 9364018 | ID=cds.MS.gene83877.t1;Parent=MS.gene83877.t1 |
| chr6.1 | exon | 9365288 | 9365304 | 9365288 | ID=MS.gene83877.t1.exon2;Parent=MS.gene83877.t1 |
| chr6.1 | CDS | 9365288 | 9365304 | 9365288 | ID=cds.MS.gene83877.t1;Parent=MS.gene83877.t1 |
| Gene Sequence |
| Protein sequence |
