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.gene54553.t1 | GAU22899.1 | 88.4 | 95 | 11 | 0 | 1 | 95 | 1 | 95 | 3.20E-37 | 164.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54553.t1 | A0A2Z6MVA7 | 88.4 | 95 | 11 | 0 | 1 | 95 | 1 | 95 | 2.3e-37 | 164.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050277 | MS.gene54553 | 0.809692 | 1.67E-50 | -1.69E-46 |
| MS.gene059165 | MS.gene54553 | 0.993329 | 5.51E-199 | -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.gene54553.t1 | MTR_1g007870 | 90.526 | 95 | 7 | 1 | 1 | 95 | 1 | 93 | 6.64e-58 | 173 |
| MS.gene54553.t1 | MTR_3g091850 | 88.421 | 95 | 11 | 0 | 1 | 95 | 1 | 95 | 1.38e-57 | 172 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54553.t1 | AT5G53045 | 70.787 | 89 | 26 | 0 | 3 | 91 | 7 | 95 | 2.92e-42 | 133 |
Find 23 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCAAAACAATTGAAGAATT+TGG | 0.196365 | 1.3:+11970480 | MS.gene54553:CDS |
| ACCAAATTCTTCAATTGTTT+TGG | 0.227496 | 1.3:-11970481 | None:intergenic |
| AGTGACTTGGAAGTGGATTT+TGG | 0.302231 | 1.3:+11969635 | MS.gene54553:intron |
| CGACTCATGACGGTGTCTAA+TGG | 0.332701 | 1.3:+11969821 | MS.gene54553:CDS |
| ATGAGTCGTTTAACTTTGTC+AGG | 0.393714 | 1.3:-11969806 | None:intergenic |
| GAATGATGCTCGAAGAAATC+TGG | 0.394790 | 1.3:-11970427 | None:intergenic |
| CTTTATATTTAGGCACTTTG+AGG | 0.444146 | 1.3:+11970395 | MS.gene54553:intron |
| TGCTGCCTTAGCTGTGGATG+AGG | 0.502660 | 1.3:+11969685 | MS.gene54553:CDS |
| TGAAGAATTTGGTCAAGGAA+TGG | 0.505507 | 1.3:+11970491 | MS.gene54553:CDS |
| AAACCTGGTAAAATCCCATT+GGG | 0.510542 | 1.3:-11969277 | None:intergenic |
| TGGTAAAATCCCATTGGGAT+TGG | 0.519873 | 1.3:-11969272 | None:intergenic |
| ACCACACAACCAATCCCAAT+GGG | 0.522672 | 1.3:+11969263 | MS.gene54553:CDS |
| GAATGACAATTGCAGTGACT+TGG | 0.538867 | 1.3:+11969622 | MS.gene54553:intron |
| GAAACCTGGTAAAATCCCAT+TGG | 0.539649 | 1.3:-11969278 | None:intergenic |
| CAATTGCAGTGACTTGGAAG+TGG | 0.541986 | 1.3:+11969628 | MS.gene54553:intron |
| CACCTCCTCATCCACAGCTA+AGG | 0.544761 | 1.3:-11969690 | None:intergenic |
| TTGGGATTGGTTGTGTGGTG+TGG | 0.553170 | 1.3:-11969259 | None:intergenic |
| TCCCATTGGGATTGGTTGTG+TGG | 0.555381 | 1.3:-11969264 | None:intergenic |
| ACAATTGAAGAATTTGGTCA+AGG | 0.561595 | 1.3:+11970486 | MS.gene54553:CDS |
| CACCACACAACCAATCCCAA+TGG | 0.580515 | 1.3:+11969262 | MS.gene54553:CDS |
| TGTATATGCTGCCTTAGCTG+TGG | 0.587580 | 1.3:+11969679 | MS.gene54553:CDS |
| CAAAGTTAAACGACTCATGA+CGG | 0.619519 | 1.3:+11969811 | MS.gene54553:CDS |
| TGCCTTAGCTGTGGATGAGG+AGG | 0.626509 | 1.3:+11969688 | MS.gene54553:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTGTTATTTTTAATAAAGA+TGG | + | chr1.3:11969600-11969619 | MS.gene54553:intron | 10.0% |
| !!! | TAATTATTTTAAAGAATTGT+GGG | + | chr1.3:11969533-11969552 | MS.gene54553:intron | 10.0% |
| !!! | TTAATTATTTTAAAGAATTG+TGG | + | chr1.3:11969532-11969551 | MS.gene54553:intron | 10.0% |
| !! | AGATTAAATTAATTAATCAC+TGG | - | chr1.3:11969373-11969392 | None:intergenic | 15.0% |
| !!! | ATTAGTTAATTTAGCTTTAA+TGG | + | chr1.3:11970311-11970330 | MS.gene54553:intron | 15.0% |
| !! | AGCTTATTTACATAATTTCT+AGG | - | chr1.3:11969435-11969454 | None:intergenic | 20.0% |
| !! | GCTTATTTACATAATTTCTA+GGG | - | chr1.3:11969434-11969453 | None:intergenic | 20.0% |
| ! | AAAAAGCAAGAAAACTTGAT+AGG | - | chr1.3:11969331-11969350 | None:intergenic | 25.0% |
| ! | ACCAAAACAATTGAAGAATT+TGG | + | chr1.3:11970480-11970499 | MS.gene54553:CDS | 25.0% |
| ! | CATTGGAATCCTTTATATTT+AGG | + | chr1.3:11970385-11970404 | MS.gene54553:intron | 25.0% |
| !! | ACCAAATTCTTCAATTGTTT+TGG | - | chr1.3:11970484-11970503 | None:intergenic | 25.0% |
| !! | GATTTCTTTTGTCTTATGAA+CGG | - | chr1.3:11969506-11969525 | None:intergenic | 25.0% |
| !!! | ACTGCAATGATTTTTTTTGT+TGG | + | chr1.3:11970238-11970257 | MS.gene54553:intron | 25.0% |
| AACCAATTATCAACACGAAA+AGG | - | chr1.3:11969868-11969887 | None:intergenic | 30.0% | |
| ACAATTGAAGAATTTGGTCA+AGG | + | chr1.3:11970486-11970505 | MS.gene54553:CDS | 30.0% | |
| CAGTTAGTGACAAATTGTTT+AGG | - | chr1.3:11970161-11970180 | None:intergenic | 30.0% | |
| CTTTATATTTAGGCACTTTG+AGG | + | chr1.3:11970395-11970414 | MS.gene54553:intron | 30.0% | |
| TTCCAATGAGATGAAAAACT+AGG | - | chr1.3:11970373-11970392 | None:intergenic | 30.0% | |
| ! | CTCAAAGTGCCTAAATATAA+AGG | - | chr1.3:11970397-11970416 | None:intergenic | 30.0% |
| !!! | GTTCAATGATTGTTTTAGTC+AGG | + | chr1.3:11970118-11970137 | MS.gene54553:intron | 30.0% |
| !!! | TTCCTTTTCGTGTTGATAAT+TGG | + | chr1.3:11969863-11969882 | MS.gene54553:intron | 30.0% |
| AAACCTGGTAAAATCCCATT+GGG | - | chr1.3:11969280-11969299 | None:intergenic | 35.0% | |
| CAAAGTTAAACGACTCATGA+CGG | + | chr1.3:11969811-11969830 | MS.gene54553:CDS | 35.0% | |
| TCATTGTACTGCATCATGTT+TGG | + | chr1.3:11970211-11970230 | MS.gene54553:intron | 35.0% | |
| TCTTTCTCACGAGAATAAGA+GGG | - | chr1.3:11970064-11970083 | None:intergenic | 35.0% | |
| TGAAGAATTTGGTCAAGGAA+TGG | + | chr1.3:11970491-11970510 | MS.gene54553:CDS | 35.0% | |
| TTCTTTCTCACGAGAATAAG+AGG | - | chr1.3:11970065-11970084 | None:intergenic | 35.0% | |
| TTTAGTCAGGATTTGAACTC+AGG | + | chr1.3:11970131-11970150 | MS.gene54553:intron | 35.0% | |
| ! | ATGAGTCGTTTAACTTTGTC+AGG | - | chr1.3:11969809-11969828 | None:intergenic | 35.0% |
| ! | TGTAATCAATTTTGTGTGCG+AGG | + | chr1.3:11969974-11969993 | MS.gene54553:intron | 35.0% |
| ! | TTTTGTAGATGTCCTTACTC+TGG | + | chr1.3:11970455-11970474 | MS.gene54553:CDS | 35.0% |
| !! | TGCCTAGTTTTTCATCTCAT+TGG | + | chr1.3:11970368-11970387 | MS.gene54553:intron | 35.0% |
| AGAAAGAAGCCCTAGTAATC+CGG | + | chr1.3:11970077-11970096 | MS.gene54553:intron | 40.0% | |
| AGAGTAAAGAGAGAGAAACC+TGG | - | chr1.3:11969295-11969314 | None:intergenic | 40.0% | |
| ATGAAGTGGTTGGACTCAAA+TGG | - | chr1.3:11970195-11970214 | None:intergenic | 40.0% | |
| ATGCAGTACAATGAAGTGGT+TGG | - | chr1.3:11970205-11970224 | None:intergenic | 40.0% | |
| CAGACTTTACTTAACACCAC+CGG | - | chr1.3:11970099-11970118 | None:intergenic | 40.0% | |
| CATGATGCAGTACAATGAAG+TGG | - | chr1.3:11970209-11970228 | None:intergenic | 40.0% | |
| GAAACCTGGTAAAATCCCAT+TGG | - | chr1.3:11969281-11969300 | None:intergenic | 40.0% | |
| GAATGACAATTGCAGTGACT+TGG | + | chr1.3:11969622-11969641 | MS.gene54553:intron | 40.0% | |
| GAATGATGCTCGAAGAAATC+TGG | - | chr1.3:11970430-11970449 | None:intergenic | 40.0% | |
| TGGTAAAATCCCATTGGGAT+TGG | - | chr1.3:11969275-11969294 | None:intergenic | 40.0% | |
| TTAACACCACCGGATTACTA+GGG | - | chr1.3:11970089-11970108 | None:intergenic | 40.0% | |
| ! | AATCCCAATGGGATTTTACC+AGG | + | chr1.3:11969274-11969293 | MS.gene54553:CDS | 40.0% |
| !! | AGTGACTTGGAAGTGGATTT+TGG | + | chr1.3:11969635-11969654 | MS.gene54553:intron | 40.0% |
| !!! | TTGTTTTGGTTGCCAGAGTA+AGG | - | chr1.3:11970470-11970489 | None:intergenic | 40.0% |
| ACCACACAACCAATCCCAAT+GGG | + | chr1.3:11969263-11969282 | MS.gene54553:CDS | 45.0% | |
| CTTAACACCACCGGATTACT+AGG | - | chr1.3:11970090-11970109 | None:intergenic | 45.0% | |
| TGTATATGCTGCCTTAGCTG+TGG | + | chr1.3:11969679-11969698 | MS.gene54553:CDS | 45.0% | |
| ! | CAATTGCAGTGACTTGGAAG+TGG | + | chr1.3:11969628-11969647 | MS.gene54553:intron | 45.0% |
| !! | TAAATTGAATTATTAATTAA+TGG | - | chr1.3:11969471-11969490 | None:intergenic | 5.0% |
| AAGAAGCCCTAGTAATCCGG+TGG | + | chr1.3:11970080-11970099 | MS.gene54553:intron | 50.0% | |
| CACCACACAACCAATCCCAA+TGG | + | chr1.3:11969262-11969281 | MS.gene54553:CDS | 50.0% | |
| CGACTCATGACGGTGTCTAA+TGG | + | chr1.3:11969821-11969840 | MS.gene54553:CDS | 50.0% | |
| !! | TCCCATTGGGATTGGTTGTG+TGG | - | chr1.3:11969267-11969286 | None:intergenic | 50.0% |
| !! | TTGGGATTGGTTGTGTGGTG+TGG | - | chr1.3:11969262-11969281 | None:intergenic | 50.0% |
| CACCTCCTCATCCACAGCTA+AGG | - | chr1.3:11969693-11969712 | None:intergenic | 55.0% | |
| TGCCTTAGCTGTGGATGAGG+AGG | + | chr1.3:11969688-11969707 | MS.gene54553:CDS | 55.0% | |
| TGCTGCCTTAGCTGTGGATG+AGG | + | chr1.3:11969685-11969704 | MS.gene54553:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 11969252 | 11970521 | 11969252 | ID=MS.gene54553 |
| chr1.3 | mRNA | 11969252 | 11970521 | 11969252 | ID=MS.gene54553.t1;Parent=MS.gene54553 |
| chr1.3 | exon | 11969252 | 11969295 | 11969252 | ID=MS.gene54553.t1.exon1;Parent=MS.gene54553.t1 |
| chr1.3 | CDS | 11969252 | 11969295 | 11969252 | ID=cds.MS.gene54553.t1;Parent=MS.gene54553.t1 |
| chr1.3 | exon | 11969637 | 11969709 | 11969637 | ID=MS.gene54553.t1.exon2;Parent=MS.gene54553.t1 |
| chr1.3 | CDS | 11969637 | 11969709 | 11969637 | ID=cds.MS.gene54553.t1;Parent=MS.gene54553.t1 |
| chr1.3 | exon | 11969800 | 11969855 | 11969800 | ID=MS.gene54553.t1.exon3;Parent=MS.gene54553.t1 |
| chr1.3 | CDS | 11969800 | 11969855 | 11969800 | ID=cds.MS.gene54553.t1;Parent=MS.gene54553.t1 |
| chr1.3 | exon | 11970407 | 11970521 | 11970407 | ID=MS.gene54553.t1.exon4;Parent=MS.gene54553.t1 |
| chr1.3 | CDS | 11970407 | 11970521 | 11970407 | ID=cds.MS.gene54553.t1;Parent=MS.gene54553.t1 |
| Gene Sequence |
| Protein sequence |
