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.gene44134.t1 | XP_003591148.1 | 98.8 | 168 | 2 | 0 | 1 | 168 | 1 | 168 | 4.90E-89 | 337 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene44134.t1 | Q5J907 | 90.5 | 168 | 16 | 0 | 1 | 168 | 1 | 168 | 1.2e-83 | 310.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene44134.t1 | G7I8P9 | 98.8 | 168 | 2 | 0 | 1 | 168 | 1 | 168 | 3.5e-89 | 337.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene056068 | MS.gene44134 | 0.968772 | 3.73E-129 | -1.69E-46 |
| MS.gene060879 | MS.gene44134 | 0.803736 | 3.02E-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.gene44134.t1 | MTR_1g083350 | 98.810 | 168 | 2 | 0 | 1 | 168 | 1 | 168 | 1.06e-120 | 337 |
| MS.gene44134.t1 | MTR_1g083380 | 98.214 | 168 | 3 | 0 | 1 | 168 | 1 | 168 | 9.82e-120 | 335 |
| MS.gene44134.t1 | MTR_2g436620 | 85.714 | 168 | 23 | 1 | 1 | 168 | 1 | 167 | 1.63e-102 | 291 |
| MS.gene44134.t1 | MTR_1g083340 | 91.083 | 157 | 4 | 1 | 1 | 147 | 1 | 157 | 6.49e-98 | 280 |
| MS.gene44134.t1 | MTR_6g071090 | 80.745 | 161 | 30 | 1 | 1 | 161 | 1 | 160 | 7.95e-90 | 259 |
| MS.gene44134.t1 | MTR_2g436620 | 83.803 | 142 | 22 | 1 | 27 | 168 | 1 | 141 | 5.15e-83 | 241 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene44134.t1 | AT3G16640 | 78.571 | 168 | 36 | 0 | 1 | 168 | 1 | 168 | 5.30e-96 | 275 |
| MS.gene44134.t1 | AT3G05540 | 80.473 | 169 | 31 | 2 | 1 | 168 | 1 | 168 | 6.59e-90 | 259 |
Find 39 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGATATTGTTGACACTTTC+AGG | 0.110440 | 1.3:-58949410 | MS.gene44134:CDS |
| AATTGTAGGTCTTTGAGTTT+AGG | 0.257674 | 1.3:+58949246 | None:intergenic |
| GTTTACCAGGATCTTCTTAC+AGG | 0.263960 | 1.3:-58950363 | MS.gene44134:intron |
| ATTGTAGGTCTTTGAGTTTA+GGG | 0.290821 | 1.3:+58949247 | None:intergenic |
| TGTTGACACTTTCAGGCTTC+AGG | 0.310211 | 1.3:-58949403 | MS.gene44134:CDS |
| CTACTTTGCTTATGGCTTGA+AGG | 0.363173 | 1.3:-58948824 | MS.gene44134:CDS |
| TCCATTCTCAATTTCCTTGT+AGG | 0.365251 | 1.3:+58949679 | None:intergenic |
| GATGAAACACATACAATTGT+AGG | 0.393371 | 1.3:+58949232 | None:intergenic |
| TGCAACCATGCTTGTTTACC+AGG | 0.395604 | 1.3:-58950376 | None:intergenic |
| AATTGAGAATGGAATGCTTT+GGG | 0.401755 | 1.3:-58949669 | MS.gene44134:CDS |
| CCATTCTCAATTTCCTTGTA+GGG | 0.404442 | 1.3:+58949680 | None:intergenic |
| AATTGCTTCTTATCAAAAGC+TGG | 0.428621 | 1.3:+58949375 | None:intergenic |
| GAATGGAATGCTTTGGGAAG+TGG | 0.450476 | 1.3:-58949663 | MS.gene44134:CDS |
| TAAGCAAAGTAGAGAAAAGT+TGG | 0.453692 | 1.3:+58948835 | None:intergenic |
| AAATTGAGAATGGAATGCTT+TGG | 0.455334 | 1.3:-58949670 | MS.gene44134:CDS |
| CCTTGTGTTTGCTTACTACA+AGG | 0.455642 | 1.3:-58948872 | MS.gene44134:CDS |
| CCCTACAAGGAAATTGAGAA+TGG | 0.477742 | 1.3:-58949680 | MS.gene44134:CDS |
| TATTTGCAGTGGGTTGTTCA+AGG | 0.483236 | 1.3:-58949519 | MS.gene44134:intron |
| CTCTGACTCATTCCCCTACA+AGG | 0.486361 | 1.3:-58949693 | MS.gene44134:CDS |
| GGTCTTTGAGTTTAGGGAGA+AGG | 0.500494 | 1.3:+58949253 | None:intergenic |
| GGAGCAGTGGATGTGAATAT+TGG | 0.501116 | 1.3:-58949498 | MS.gene44134:CDS |
| TTATACCTGTAAGAAGATCC+TGG | 0.509601 | 1.3:+58950358 | None:intergenic |
| TCATCCTCGTCTCCACCCTC+AGG | 0.513276 | 1.3:+58949462 | None:intergenic |
| GGTGCTAATCCTTCTCCTGA+GGG | 0.522402 | 1.3:-58949477 | MS.gene44134:CDS |
| GCTTTGGGAAGTGGAAGGAA+AGG | 0.531642 | 1.3:-58949654 | MS.gene44134:intron |
| TCGTCTCCACCCTCAGGAGA+AGG | 0.535899 | 1.3:+58949468 | None:intergenic |
| GTGTTTGCTTACTACAAGGA+TGG | 0.538874 | 1.3:-58948868 | MS.gene44134:CDS |
| CATTCTCAATTTCCTTGTAG+GGG | 0.549656 | 1.3:+58949681 | None:intergenic |
| TGGTGCTAATCCTTCTCCTG+AGG | 0.556782 | 1.3:-58949478 | MS.gene44134:CDS |
| GGGGAGAGCATGCATGATGA+TGG | 0.565967 | 1.3:-58948898 | MS.gene44134:CDS |
| TTCTCCTGAGGGTGGAGACG+AGG | 0.580750 | 1.3:-58949466 | MS.gene44134:CDS |
| GCTAATCCTTCTCCTGAGGG+TGG | 0.586998 | 1.3:-58949474 | MS.gene44134:CDS |
| AAGATCCTGGTAAACAAGCA+TGG | 0.602746 | 1.3:+58950371 | None:intergenic |
| GTAGAGAAAAGTTGGATCAG+TGG | 0.605758 | 1.3:+58948843 | None:intergenic |
| GAGGGTGGAGACGAGGATGA+TGG | 0.616662 | 1.3:-58949459 | MS.gene44134:CDS |
| CCTTGTAGTAAGCAAACACA+AGG | 0.635355 | 1.3:+58948872 | None:intergenic |
| GTGGGTTGTTCAAGGAGCAG+TGG | 0.636439 | 1.3:-58949511 | MS.gene44134:CDS |
| GGAATGCTTTGGGAAGTGGA+AGG | 0.659950 | 1.3:-58949659 | MS.gene44134:CDS |
| CGATGATCAAGCTGTCAAAG+TGG | 0.698235 | 1.3:-58949433 | MS.gene44134:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTATTTATGAACATATATT+TGG | + | chr1.3:58949611-58949630 | None:intergenic | 10.0% |
| !! | TAAACTTAATAAAACCAAAA+AGG | + | chr1.3:58949985-58950004 | None:intergenic | 15.0% |
| !!! | AAAATTTTGATAAAACTTGT+TGG | - | chr1.3:58949184-58949203 | MS.gene44134:intron | 15.0% |
| !!! | AACAAGTTTTATCAAAATTT+TGG | + | chr1.3:58949185-58949204 | None:intergenic | 15.0% |
| !!! | AATTATTTAAAACCAAAATG+AGG | + | chr1.3:58948992-58949011 | None:intergenic | 15.0% |
| !!! | ATATTTAAGATTATTGCTTT+TGG | - | chr1.3:58949390-58949409 | MS.gene44134:CDS | 15.0% |
| !! | AAAAAAATCTCAAAGATGAA+AGG | + | chr1.3:58948850-58948869 | None:intergenic | 20.0% |
| !! | AATCAGTTAGGATTATTTAT+TGG | + | chr1.3:58950232-58950251 | None:intergenic | 20.0% |
| !!! | AAACTTCTCTGTTTTATATA+TGG | + | chr1.3:58949021-58949040 | None:intergenic | 20.0% |
| !!! | AACTTCTCTGTTTTATATAT+GGG | + | chr1.3:58949020-58949039 | None:intergenic | 20.0% |
| !!! | TATAAAACAGAGAAGTTTTA+TGG | - | chr1.3:58949023-58949042 | MS.gene44134:intron | 20.0% |
| ! | AAAATCCACAATCAAGTATT+AGG | + | chr1.3:58949315-58949334 | None:intergenic | 25.0% |
| ! | AAATATTCATGTAACACTTG+TGG | + | chr1.3:58949266-58949285 | None:intergenic | 25.0% |
| ! | GAAAAACAAACGAAAACTAA+AGG | + | chr1.3:58948873-58948892 | None:intergenic | 25.0% |
| ! | GATTAATTACTCAATCAGTT+AGG | + | chr1.3:58950244-58950263 | None:intergenic | 25.0% |
| ! | TAATGTTGCTAACTTTACTT+TGG | - | chr1.3:58949434-58949453 | MS.gene44134:CDS | 25.0% |
| !! | CAAAAAACAGAGAAGTTTTA+AGG | - | chr1.3:58949072-58949091 | MS.gene44134:intron | 25.0% |
| !!! | AATCAATGTTACAGTTTTGT+TGG | - | chr1.3:58950260-58950279 | MS.gene44134:intron | 25.0% |
| !!! | ATCAATGTTACAGTTTTGTT+GGG | - | chr1.3:58950261-58950280 | MS.gene44134:intron | 25.0% |
| !!! | CTTAAAACTTCTCTGTTTTT+TGG | + | chr1.3:58949074-58949093 | None:intergenic | 25.0% |
| !!! | GATTGTGGATTTTATTTTCT+TGG | - | chr1.3:58949322-58949341 | MS.gene44134:CDS | 25.0% |
| AAATTGAGAATGGAATGCTT+TGG | - | chr1.3:58949509-58949528 | MS.gene44134:CDS | 30.0% | |
| AATTGAGAATGGAATGCTTT+GGG | - | chr1.3:58949510-58949529 | MS.gene44134:CDS | 30.0% | |
| AATTGCTTCTTATCAAAAGC+TGG | + | chr1.3:58949807-58949826 | None:intergenic | 30.0% | |
| CACAATCAAGTATTAGGTTA+GGG | + | chr1.3:58949309-58949328 | None:intergenic | 30.0% | |
| CACATCACACAATAAACTTT+AGG | + | chr1.3:58949638-58949657 | None:intergenic | 30.0% | |
| GATGAAACACATACAATTGT+AGG | + | chr1.3:58949950-58949969 | None:intergenic | 30.0% | |
| GGTTTAACCTTTAGATTTGA+AGG | - | chr1.3:58949135-58949154 | MS.gene44134:intron | 30.0% | |
| GTTAGGGTAATCATGTTTAA+GGG | + | chr1.3:58949293-58949312 | None:intergenic | 30.0% | |
| TAAGCAAAGTAGAGAAAAGT+TGG | + | chr1.3:58950347-58950366 | None:intergenic | 30.0% | |
| TCCAATTATGCACTAATTAC+AGG | + | chr1.3:58948946-58948965 | None:intergenic | 30.0% | |
| TCCTGTAATTAGTGCATAAT+TGG | - | chr1.3:58948942-58948961 | MS.gene44134:intron | 30.0% | |
| TTGATATTGTTGACACTTTC+AGG | - | chr1.3:58949769-58949788 | MS.gene44134:intron | 30.0% | |
| TTTCACTCCTTCAAATCTAA+AGG | + | chr1.3:58949145-58949164 | None:intergenic | 30.0% | |
| ! | AATTGTAGGTCTTTGAGTTT+AGG | + | chr1.3:58949936-58949955 | None:intergenic | 30.0% |
| ! | ACTTTTCTCTACTTTGCTTA+TGG | - | chr1.3:58950347-58950366 | MS.gene44134:intron | 30.0% |
| ! | ATTGTAGGTCTTTGAGTTTA+GGG | + | chr1.3:58949935-58949954 | None:intergenic | 30.0% |
| ! | GTTTCTCATAAACCTCATTT+TGG | - | chr1.3:58948977-58948996 | MS.gene44134:intron | 30.0% |
| ! | TCACTATCTTTCATCCTTTT+TGG | - | chr1.3:58949968-58949987 | MS.gene44134:intron | 30.0% |
| !! | ATTTTCTTGGTTACTGATTG+TGG | - | chr1.3:58949335-58949354 | MS.gene44134:CDS | 30.0% |
| !!! | AAAGTTGTTGTTTTTGTGAC+AGG | - | chr1.3:58949216-58949235 | MS.gene44134:intron | 30.0% |
| !!! | AAGTTGTTGTTTTTGTGACA+GGG | - | chr1.3:58949217-58949236 | MS.gene44134:intron | 30.0% |
| !!! | TCAATGTTACAGTTTTGTTG+GGG | - | chr1.3:58950262-58950281 | MS.gene44134:intron | 30.0% |
| CATTCTCAATTTCCTTGTAG+GGG | + | chr1.3:58949501-58949520 | None:intergenic | 35.0% | |
| CCACAATCAAGTATTAGGTT+AGG | + | chr1.3:58949310-58949329 | None:intergenic | 35.0% | |
| CCATTCTCAATTTCCTTGTA+GGG | + | chr1.3:58949502-58949521 | None:intergenic | 35.0% | |
| CCTAACCTAATACTTGATTG+TGG | - | chr1.3:58949307-58949326 | MS.gene44134:CDS | 35.0% | |
| GGTTAGGGTAATCATGTTTA+AGG | + | chr1.3:58949294-58949313 | None:intergenic | 35.0% | |
| GTGATGTGATTATTTGCAGT+GGG | - | chr1.3:58949650-58949669 | MS.gene44134:intron | 35.0% | |
| TCCATTCTCAATTTCCTTGT+AGG | + | chr1.3:58949503-58949522 | None:intergenic | 35.0% | |
| TGTGATGTGATTATTTGCAG+TGG | - | chr1.3:58949649-58949668 | MS.gene44134:intron | 35.0% | |
| TTATACCTGTAAGAAGATCC+TGG | + | chr1.3:58948824-58948843 | None:intergenic | 35.0% | |
| ! | AGTTTTCTGTTTGTGTTCTG+TGG | - | chr1.3:58949114-58949133 | MS.gene44134:intron | 35.0% |
| ! | CTTTGGCGATGAATTTTTCT+AGG | - | chr1.3:58949451-58949470 | MS.gene44134:CDS | 35.0% |
| !! | TTGAACAACTCTTGCTTTTC+TGG | + | chr1.3:58949879-58949898 | None:intergenic | 35.0% |
| !!! | AGTTGTTGTTTTTGTGACAG+GGG | - | chr1.3:58949218-58949237 | MS.gene44134:intron | 35.0% |
| CCCTACAAGGAAATTGAGAA+TGG | - | chr1.3:58949499-58949518 | MS.gene44134:CDS | 40.0% | |
| CCTTGTAGTAAGCAAACACA+AGG | + | chr1.3:58950310-58950329 | None:intergenic | 40.0% | |
| CCTTGTGTTTGCTTACTACA+AGG | - | chr1.3:58950307-58950326 | MS.gene44134:intron | 40.0% | |
| CTACTTTGCTTATGGCTTGA+AGG | - | chr1.3:58950355-58950374 | MS.gene44134:intron | 40.0% | |
| CTATTTGCCACAATTCAAGG+AGG | - | chr1.3:58950102-58950121 | MS.gene44134:intron | 40.0% | |
| GCACTATTTGCCACAATTCA+AGG | - | chr1.3:58950099-58950118 | MS.gene44134:intron | 40.0% | |
| GTAGAGAAAAGTTGGATCAG+TGG | + | chr1.3:58950339-58950358 | None:intergenic | 40.0% | |
| GTGTTTGCTTACTACAAGGA+TGG | - | chr1.3:58950311-58950330 | MS.gene44134:intron | 40.0% | |
| GTTTACCAGGATCTTCTTAC+AGG | - | chr1.3:58948816-58948835 | MS.gene44134:CDS | 40.0% | |
| TGTGGCTGAAAAATAGGAAG+TGG | - | chr1.3:58950125-58950144 | MS.gene44134:intron | 40.0% | |
| !! | TATTTGCAGTGGGTTGTTCA+AGG | - | chr1.3:58949660-58949679 | MS.gene44134:CDS | 40.0% |
| CGATGATCAAGCTGTCAAAG+TGG | - | chr1.3:58949746-58949765 | MS.gene44134:intron | 45.0% | |
| GGAGCAGTGGATGTGAATAT+TGG | - | chr1.3:58949681-58949700 | MS.gene44134:CDS | 45.0% | |
| TGTTGACACTTTCAGGCTTC+AGG | - | chr1.3:58949776-58949795 | MS.gene44134:intron | 45.0% | |
| ! | AGGAGGTGTGGCTGAAAAAT+AGG | - | chr1.3:58950119-58950138 | MS.gene44134:intron | 45.0% |
| ! | GGTCTTTGAGTTTAGGGAGA+AGG | + | chr1.3:58949929-58949948 | None:intergenic | 45.0% |
| !! | GAATGGAATGCTTTGGGAAG+TGG | - | chr1.3:58949516-58949535 | MS.gene44134:intron | 45.0% |
| AGCCACACCTCCTTGAATTG+TGG | + | chr1.3:58950112-58950131 | None:intergenic | 50.0% | |
| CTCTGACTCATTCCCCTACA+AGG | - | chr1.3:58949486-58949505 | MS.gene44134:CDS | 50.0% | |
| GGGAAGTGGAAGGAAAGGTT+TGG | - | chr1.3:58949530-58949549 | MS.gene44134:intron | 50.0% | |
| GGTGCTAATCCTTCTCCTGA+GGG | - | chr1.3:58949702-58949721 | MS.gene44134:CDS | 50.0% | |
| TGCCACAATTCAAGGAGGTG+TGG | - | chr1.3:58950107-58950126 | MS.gene44134:intron | 50.0% | |
| ! | TGGTGCTAATCCTTCTCCTG+AGG | - | chr1.3:58949701-58949720 | MS.gene44134:CDS | 50.0% |
| !! | GCTTTGGGAAGTGGAAGGAA+AGG | - | chr1.3:58949525-58949544 | MS.gene44134:intron | 50.0% |
| !! | GGAATGCTTTGGGAAGTGGA+AGG | - | chr1.3:58949520-58949539 | MS.gene44134:intron | 50.0% |
| GCTAATCCTTCTCCTGAGGG+TGG | - | chr1.3:58949705-58949724 | MS.gene44134:CDS | 55.0% | |
| ! | GGGGAGAGCATGCATGATGA+TGG | - | chr1.3:58950281-58950300 | MS.gene44134:intron | 55.0% |
| ! | GTGGGTTGTTCAAGGAGCAG+TGG | - | chr1.3:58949668-58949687 | MS.gene44134:CDS | 55.0% |
| GAGGGTGGAGACGAGGATGA+TGG | - | chr1.3:58949720-58949739 | MS.gene44134:intron | 60.0% | |
| TCATCCTCGTCTCCACCCTC+AGG | + | chr1.3:58949720-58949739 | None:intergenic | 60.0% | |
| TCGTCTCCACCCTCAGGAGA+AGG | + | chr1.3:58949714-58949733 | None:intergenic | 60.0% | |
| TTCTCCTGAGGGTGGAGACG+AGG | - | chr1.3:58949713-58949732 | MS.gene44134:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 58948810 | 58950391 | 58948810 | ID=MS.gene44134 |
| chr1.3 | mRNA | 58948810 | 58950391 | 58948810 | ID=MS.gene44134.t1;Parent=MS.gene44134 |
| chr1.3 | exon | 58950364 | 58950391 | 58950364 | ID=MS.gene44134.t1.exon1;Parent=MS.gene44134.t1 |
| chr1.3 | CDS | 58950364 | 58950391 | 58950364 | ID=cds.MS.gene44134.t1;Parent=MS.gene44134.t1 |
| chr1.3 | exon | 58949655 | 58949728 | 58949655 | ID=MS.gene44134.t1.exon2;Parent=MS.gene44134.t1 |
| chr1.3 | CDS | 58949655 | 58949728 | 58949655 | ID=cds.MS.gene44134.t1;Parent=MS.gene44134.t1 |
| chr1.3 | exon | 58949246 | 58949532 | 58949246 | ID=MS.gene44134.t1.exon3;Parent=MS.gene44134.t1 |
| chr1.3 | CDS | 58949246 | 58949532 | 58949246 | ID=cds.MS.gene44134.t1;Parent=MS.gene44134.t1 |
| chr1.3 | exon | 58948810 | 58948927 | 58948810 | ID=MS.gene44134.t1.exon4;Parent=MS.gene44134.t1 |
| chr1.3 | CDS | 58948810 | 58948927 | 58948810 | ID=cds.MS.gene44134.t1;Parent=MS.gene44134.t1 |
| Gene Sequence |
| Protein sequence |
