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.gene40838.t1 | XP_003591148.1 | 93.5 | 168 | 1 | 1 | 1 | 158 | 1 | 168 | 3.50E-81 | 310.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40838.t1 | Q5J907 | 85.1 | 168 | 15 | 1 | 1 | 158 | 1 | 168 | 8.5e-76 | 284.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40838.t1 | G7I8P9 | 93.5 | 168 | 1 | 1 | 1 | 158 | 1 | 168 | 2.5e-81 | 310.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049293 | MS.gene40838 | -0.831112 | 2.01E-55 | -1.69E-46 |
| MS.gene052818 | MS.gene40838 | -0.830513 | 2.82E-55 | -1.69E-46 |
| MS.gene053298 | MS.gene40838 | 0.805535 | 1.27E-49 | -1.69E-46 |
| MS.gene054222 | MS.gene40838 | 0.839464 | 1.56E-57 | -1.69E-46 |
| MS.gene05469 | MS.gene40838 | 0.802188 | 6.32E-49 | -1.69E-46 |
| MS.gene056068 | MS.gene40838 | 0.903146 | 4.69E-79 | -1.69E-46 |
| MS.gene057999 | MS.gene40838 | 0.805807 | 1.12E-49 | -1.69E-46 |
| MS.gene059872 | MS.gene40838 | -0.81834 | 2.06E-52 | -1.69E-46 |
| MS.gene060879 | MS.gene40838 | 0.807645 | 4.57E-50 | -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.gene40838.t1 | MTR_1g083350 | 93.452 | 168 | 1 | 1 | 1 | 158 | 1 | 168 | 7.90e-111 | 312 |
| MS.gene40838.t1 | MTR_1g083380 | 92.857 | 168 | 2 | 1 | 1 | 158 | 1 | 168 | 8.27e-110 | 309 |
| MS.gene40838.t1 | MTR_2g436620 | 80.952 | 168 | 21 | 2 | 1 | 158 | 1 | 167 | 5.91e-93 | 267 |
| MS.gene40838.t1 | MTR_1g083340 | 85.350 | 157 | 3 | 2 | 1 | 137 | 1 | 157 | 6.19e-88 | 254 |
| MS.gene40838.t1 | MTR_6g071090 | 75.776 | 161 | 28 | 2 | 1 | 151 | 1 | 160 | 2.21e-80 | 235 |
| MS.gene40838.t1 | MTR_2g436620 | 78.169 | 142 | 20 | 2 | 27 | 158 | 1 | 141 | 1.42e-73 | 217 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40838.t1 | AT3G16640 | 73.214 | 168 | 35 | 1 | 1 | 158 | 1 | 168 | 4.13e-86 | 249 |
| MS.gene40838.t1 | AT3G05540 | 76.331 | 169 | 28 | 3 | 1 | 158 | 1 | 168 | 1.46e-79 | 233 |
Find 34 sgRNAs with CRISPR-Local
Find 80 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTGTAGGTCTTTGAGTTT+TGG | 0.259902 | 1.2:-59954212 | None:intergenic |
| GTTTACCAGGATCTTCTTAC+AGG | 0.263960 | 1.2:+59953093 | MS.gene40838:CDS |
| CTACTTTGCTTATGGCTTGA+AGG | 0.363173 | 1.2:+59954424 | MS.gene40838:CDS |
| TCCATTCTCAATTTCCTTGT+AGG | 0.365251 | 1.2:-59953777 | None:intergenic |
| GATGAAACACATACAATTGT+AGG | 0.393371 | 1.2:-59954226 | None:intergenic |
| TGCAACCATGCTTGTTTACC+AGG | 0.395604 | 1.2:+59953080 | None:intergenic |
| AATTGAGAATGGAATGCTTT+GGG | 0.401755 | 1.2:+59953787 | MS.gene40838:CDS |
| CCATTCTCAATTTCCTTGTA+GGG | 0.404442 | 1.2:-59953776 | None:intergenic |
| AATTGCTTCTTATCAAAAGC+TGG | 0.428621 | 1.2:-59954083 | None:intergenic |
| GAATGGAATGCTTTGGGAAG+TGG | 0.450476 | 1.2:+59953793 | MS.gene40838:CDS |
| TAAGCAAAGTAGAGAAAAGT+TGG | 0.453692 | 1.2:-59954413 | None:intergenic |
| AAATTGAGAATGGAATGCTT+TGG | 0.455334 | 1.2:+59953786 | MS.gene40838:CDS |
| CCTTGTGTTTGCTTACTACA+AGG | 0.455642 | 1.2:+59954376 | MS.gene40838:CDS |
| CCCTACAAGGAAATTGAGAA+TGG | 0.477742 | 1.2:+59953776 | MS.gene40838:CDS |
| TATTTGCAGTGGGTTGTTCA+AGG | 0.483236 | 1.2:+59953939 | MS.gene40838:intron |
| CTCTGACTCATTCCCCTACA+AGG | 0.486361 | 1.2:+59953763 | MS.gene40838:CDS |
| GGAGCAGTGGATGTGAATAT+TGG | 0.501116 | 1.2:+59953960 | MS.gene40838:CDS |
| TTATACCTGTAAGAAGATCC+TGG | 0.509601 | 1.2:-59953098 | None:intergenic |
| GGTGCTAATCCTTCTGCTGA+GGG | 0.511283 | 1.2:+59953981 | MS.gene40838:CDS |
| GCTTTGGGAAGTGGAAGGAA+AGG | 0.531642 | 1.2:+59953802 | MS.gene40838:CDS |
| GTGTTTGCTTACTACAAGGA+TGG | 0.538874 | 1.2:+59954380 | MS.gene40838:CDS |
| CATTCTCAATTTCCTTGTAG+GGG | 0.549656 | 1.2:-59953775 | None:intergenic |
| TGGTGCTAATCCTTCTGCTG+AGG | 0.557106 | 1.2:+59953980 | MS.gene40838:CDS |
| TCGTCTCCACCCTCAGCAGA+AGG | 0.563383 | 1.2:-59953990 | None:intergenic |
| GGGGAGAGCATGCATGATGA+TGG | 0.565967 | 1.2:+59954350 | MS.gene40838:CDS |
| GCTAATCCTTCTGCTGAGGG+TGG | 0.579304 | 1.2:+59953984 | MS.gene40838:CDS |
| TTCTGCTGAGGGTGGAGACG+AGG | 0.580750 | 1.2:+59953992 | MS.gene40838:CDS |
| AAGATCCTGGTAAACAAGCA+TGG | 0.602746 | 1.2:-59953085 | None:intergenic |
| GTAGAGAAAAGTTGGATCAG+TGG | 0.605758 | 1.2:-59954405 | None:intergenic |
| GAGGGTGGAGACGAGGATGA+TGG | 0.616662 | 1.2:+59953999 | MS.gene40838:CDS |
| CCTTGTAGTAAGCAAACACA+AGG | 0.635355 | 1.2:-59954376 | None:intergenic |
| GTGGGTTGTTCAAGGAGCAG+TGG | 0.636439 | 1.2:+59953947 | MS.gene40838:intron |
| GGAATGCTTTGGGAAGTGGA+AGG | 0.659950 | 1.2:+59953797 | MS.gene40838:CDS |
| CGATGATCAAGCTGTCAAAG+TGG | 0.698235 | 1.2:+59954025 | MS.gene40838:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTATTTATGAACATATATT+TGG | - | chr1.2:59953890-59953909 | None:intergenic | 10.0% |
| !! | TAAACTTAATAAAACCAAAA+AGG | - | chr1.2:59954264-59954283 | None:intergenic | 15.0% |
| !!! | AAAATTTTGATAAAACTTGT+TGG | + | chr1.2:59953461-59953480 | MS.gene40838:intron | 15.0% |
| !!! | AACAAGTTTTATCAAAATTT+TGG | - | chr1.2:59953462-59953481 | None:intergenic | 15.0% |
| !!! | ATATTTAAGATTATTGCTTT+TGG | + | chr1.2:59953667-59953686 | MS.gene40838:intron | 15.0% |
| !! | AAAAAAATCTCAAAGATGAA+AGG | - | chr1.2:59953127-59953146 | None:intergenic | 20.0% |
| !!! | AAACTTCTCTGTTTTATATA+TGG | - | chr1.2:59953298-59953317 | None:intergenic | 20.0% |
| !!! | AACTTCTCTGTTTTATATAT+GGG | - | chr1.2:59953297-59953316 | None:intergenic | 20.0% |
| !!! | AATTATTTAAAACCAAAGTG+AGG | - | chr1.2:59953269-59953288 | None:intergenic | 20.0% |
| !!! | TATAAAACAGAGAAGTTTTA+TGG | + | chr1.2:59953300-59953319 | MS.gene40838:intron | 20.0% |
| ! | AAAATCCACAATCAAGTATT+AGG | - | chr1.2:59953592-59953611 | None:intergenic | 25.0% |
| ! | AAATATTCATGTAACACTTG+TGG | - | chr1.2:59953543-59953562 | None:intergenic | 25.0% |
| ! | GAAAAACAAACGAAAACTAA+AGG | - | chr1.2:59953150-59953169 | None:intergenic | 25.0% |
| ! | GATTAATTACTCAATCAGTT+AGG | - | chr1.2:59954313-59954332 | None:intergenic | 25.0% |
| ! | TAATGTTGCTAACTTTACTT+TGG | + | chr1.2:59953711-59953730 | MS.gene40838:intron | 25.0% |
| !! | CAAAAAACAGAGAAGTTTTA+AGG | + | chr1.2:59953349-59953368 | MS.gene40838:intron | 25.0% |
| !!! | AATCAATGTTACAGTTTTGT+TGG | + | chr1.2:59954329-59954348 | MS.gene40838:intron | 25.0% |
| !!! | ATCAATGTTACAGTTTTGTT+GGG | + | chr1.2:59954330-59954349 | MS.gene40838:intron | 25.0% |
| !!! | CTTAAAACTTCTCTGTTTTT+TGG | - | chr1.2:59953351-59953370 | None:intergenic | 25.0% |
| !!! | GATTGTGGATTTTATTTTCT+TGG | + | chr1.2:59953599-59953618 | MS.gene40838:intron | 25.0% |
| AAATTGAGAATGGAATGCTT+TGG | + | chr1.2:59953786-59953805 | MS.gene40838:CDS | 30.0% | |
| AATTGAGAATGGAATGCTTT+GGG | + | chr1.2:59953787-59953806 | MS.gene40838:CDS | 30.0% | |
| AATTGCTTCTTATCAAAAGC+TGG | - | chr1.2:59954086-59954105 | None:intergenic | 30.0% | |
| CACAATCAAGTATTAGGTTA+GGG | - | chr1.2:59953586-59953605 | None:intergenic | 30.0% | |
| CACATCACACAATAAACTTT+AGG | - | chr1.2:59953917-59953936 | None:intergenic | 30.0% | |
| GATGAAACACATACAATTGT+AGG | - | chr1.2:59954229-59954248 | None:intergenic | 30.0% | |
| GGTTTAACCTTTAGATTTGA+AGG | + | chr1.2:59953412-59953431 | MS.gene40838:intron | 30.0% | |
| GTTAGGGTAATCATGTTTAA+GGG | - | chr1.2:59953570-59953589 | None:intergenic | 30.0% | |
| TAAGCAAAGTAGAGAAAAGT+TGG | - | chr1.2:59954416-59954435 | None:intergenic | 30.0% | |
| TCCAATTATGCACTAAATAC+AGG | - | chr1.2:59953223-59953242 | None:intergenic | 30.0% | |
| TCCTGTATTTAGTGCATAAT+TGG | + | chr1.2:59953219-59953238 | MS.gene40838:intron | 30.0% | |
| TTGATATTGTTGACACTTTC+AGG | + | chr1.2:59954048-59954067 | MS.gene40838:intron | 30.0% | |
| TTTCACTCCTTCAAATCTAA+AGG | - | chr1.2:59953422-59953441 | None:intergenic | 30.0% | |
| ! | ACTTTTCTCTACTTTGCTTA+TGG | + | chr1.2:59954416-59954435 | MS.gene40838:CDS | 30.0% |
| ! | TCACTATCTTTCATCCTTTT+TGG | + | chr1.2:59954247-59954266 | MS.gene40838:intron | 30.0% |
| !! | AATTGTAGGTCTTTGAGTTT+TGG | - | chr1.2:59954215-59954234 | None:intergenic | 30.0% |
| !! | ATTGTAGGTCTTTGAGTTTT+GGG | - | chr1.2:59954214-59954233 | None:intergenic | 30.0% |
| !! | ATTTTCTTGGTTACTGATTG+TGG | + | chr1.2:59953612-59953631 | MS.gene40838:intron | 30.0% |
| !!! | AAAGTTGTTGTTTTTGTGAC+AGG | + | chr1.2:59953493-59953512 | MS.gene40838:intron | 30.0% |
| !!! | AAGTTGTTGTTTTTGTGACA+GGG | + | chr1.2:59953494-59953513 | MS.gene40838:intron | 30.0% |
| !!! | TCAATGTTACAGTTTTGTTG+GGG | + | chr1.2:59954331-59954350 | MS.gene40838:intron | 30.0% |
| CATTCTCAATTTCCTTGTAG+GGG | - | chr1.2:59953778-59953797 | None:intergenic | 35.0% | |
| CCACAATCAAGTATTAGGTT+AGG | - | chr1.2:59953587-59953606 | None:intergenic | 35.0% | |
| CCATTCTCAATTTCCTTGTA+GGG | - | chr1.2:59953779-59953798 | None:intergenic | 35.0% | |
| CCTAACCTAATACTTGATTG+TGG | + | chr1.2:59953584-59953603 | MS.gene40838:intron | 35.0% | |
| GGTTAGGGTAATCATGTTTA+AGG | - | chr1.2:59953571-59953590 | None:intergenic | 35.0% | |
| GTGATGTGATTATTTGCAGT+GGG | + | chr1.2:59953929-59953948 | MS.gene40838:intron | 35.0% | |
| GTTTCTCATAAACCTCACTT+TGG | + | chr1.2:59953254-59953273 | MS.gene40838:intron | 35.0% | |
| TCCATTCTCAATTTCCTTGT+AGG | - | chr1.2:59953780-59953799 | None:intergenic | 35.0% | |
| TGTGATGTGATTATTTGCAG+TGG | + | chr1.2:59953928-59953947 | MS.gene40838:intron | 35.0% | |
| TTATACCTGTAAGAAGATCC+TGG | - | chr1.2:59953101-59953120 | None:intergenic | 35.0% | |
| ! | AGTTTTCTGTTTGTGTTCTG+TGG | + | chr1.2:59953391-59953410 | MS.gene40838:intron | 35.0% |
| ! | CTTTGGCGATGAATTTTTCT+AGG | + | chr1.2:59953728-59953747 | MS.gene40838:intron | 35.0% |
| !! | TTGAACAACTCTTGCTTTTC+TGG | - | chr1.2:59954158-59954177 | None:intergenic | 35.0% |
| !!! | AGTTGTTGTTTTTGTGACAG+GGG | + | chr1.2:59953495-59953514 | MS.gene40838:intron | 35.0% |
| CCCTACAAGGAAATTGAGAA+TGG | + | chr1.2:59953776-59953795 | MS.gene40838:CDS | 40.0% | |
| CCTTGTAGTAAGCAAACACA+AGG | - | chr1.2:59954379-59954398 | None:intergenic | 40.0% | |
| CCTTGTGTTTGCTTACTACA+AGG | + | chr1.2:59954376-59954395 | MS.gene40838:CDS | 40.0% | |
| CTACTTTGCTTATGGCTTGA+AGG | + | chr1.2:59954424-59954443 | MS.gene40838:CDS | 40.0% | |
| GTAGAGAAAAGTTGGATCAG+TGG | - | chr1.2:59954408-59954427 | None:intergenic | 40.0% | |
| GTGTTTGCTTACTACAAGGA+TGG | + | chr1.2:59954380-59954399 | MS.gene40838:CDS | 40.0% | |
| GTTTACCAGGATCTTCTTAC+AGG | + | chr1.2:59953093-59953112 | MS.gene40838:CDS | 40.0% | |
| !! | TATTTGCAGTGGGTTGTTCA+AGG | + | chr1.2:59953939-59953958 | MS.gene40838:intron | 40.0% |
| CGATGATCAAGCTGTCAAAG+TGG | + | chr1.2:59954025-59954044 | MS.gene40838:CDS | 45.0% | |
| GGAGCAGTGGATGTGAATAT+TGG | + | chr1.2:59953960-59953979 | MS.gene40838:CDS | 45.0% | |
| TGTTGACACTTTCAGGCTTC+AGG | + | chr1.2:59954055-59954074 | MS.gene40838:intron | 45.0% | |
| !! | GAATGGAATGCTTTGGGAAG+TGG | + | chr1.2:59953793-59953812 | MS.gene40838:CDS | 45.0% |
| !!! | GGTCTTTGAGTTTTGGGAGA+AGG | - | chr1.2:59954208-59954227 | None:intergenic | 45.0% |
| CTCTGACTCATTCCCCTACA+AGG | + | chr1.2:59953763-59953782 | MS.gene40838:CDS | 50.0% | |
| GGGAAGTGGAAGGAAAGGTT+TGG | + | chr1.2:59953807-59953826 | MS.gene40838:intron | 50.0% | |
| GGTGCTAATCCTTCTGCTGA+GGG | + | chr1.2:59953981-59954000 | MS.gene40838:CDS | 50.0% | |
| ! | TGGTGCTAATCCTTCTGCTG+AGG | + | chr1.2:59953980-59953999 | MS.gene40838:CDS | 50.0% |
| !! | GCTTTGGGAAGTGGAAGGAA+AGG | + | chr1.2:59953802-59953821 | MS.gene40838:CDS | 50.0% |
| !! | GGAATGCTTTGGGAAGTGGA+AGG | + | chr1.2:59953797-59953816 | MS.gene40838:CDS | 50.0% |
| GCTAATCCTTCTGCTGAGGG+TGG | + | chr1.2:59953984-59954003 | MS.gene40838:CDS | 55.0% | |
| ! | GGGGAGAGCATGCATGATGA+TGG | + | chr1.2:59954350-59954369 | MS.gene40838:CDS | 55.0% |
| ! | GTGGGTTGTTCAAGGAGCAG+TGG | + | chr1.2:59953947-59953966 | MS.gene40838:intron | 55.0% |
| GAGGGTGGAGACGAGGATGA+TGG | + | chr1.2:59953999-59954018 | MS.gene40838:CDS | 60.0% | |
| TCGTCTCCACCCTCAGCAGA+AGG | - | chr1.2:59953993-59954012 | None:intergenic | 60.0% | |
| TTCTGCTGAGGGTGGAGACG+AGG | + | chr1.2:59953992-59954011 | MS.gene40838:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 59953087 | 59954460 | 59953087 | ID=MS.gene40838 |
| chr1.2 | mRNA | 59953087 | 59954460 | 59953087 | ID=MS.gene40838.t1;Parent=MS.gene40838 |
| chr1.2 | exon | 59953087 | 59953114 | 59953087 | ID=MS.gene40838.t1.exon1;Parent=MS.gene40838.t1 |
| chr1.2 | CDS | 59953087 | 59953114 | 59953087 | ID=cds.MS.gene40838.t1;Parent=MS.gene40838.t1 |
| chr1.2 | exon | 59953750 | 59953823 | 59953750 | ID=MS.gene40838.t1.exon2;Parent=MS.gene40838.t1 |
| chr1.2 | CDS | 59953750 | 59953823 | 59953750 | ID=cds.MS.gene40838.t1;Parent=MS.gene40838.t1 |
| chr1.2 | exon | 59953948 | 59954046 | 59953948 | ID=MS.gene40838.t1.exon3;Parent=MS.gene40838.t1 |
| chr1.2 | CDS | 59953948 | 59954046 | 59953948 | ID=cds.MS.gene40838.t1;Parent=MS.gene40838.t1 |
| chr1.2 | exon | 59954077 | 59954234 | 59954077 | ID=MS.gene40838.t1.exon4;Parent=MS.gene40838.t1 |
| chr1.2 | CDS | 59954077 | 59954234 | 59954077 | ID=cds.MS.gene40838.t1;Parent=MS.gene40838.t1 |
| chr1.2 | exon | 59954343 | 59954460 | 59954343 | ID=MS.gene40838.t1.exon5;Parent=MS.gene40838.t1 |
| chr1.2 | CDS | 59954343 | 59954460 | 59954343 | ID=cds.MS.gene40838.t1;Parent=MS.gene40838.t1 |
| Gene Sequence |
| Protein sequence |
