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.gene46839.t1 | XP_024642437.1 | 87.2 | 187 | 15 | 1 | 1 | 178 | 60 | 246 | 1.80E-84 | 322 |
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.gene46839.t1 | A0A396GUA8 | 86.6 | 187 | 16 | 1 | 1 | 178 | 1 | 187 | 3.7e-84 | 320.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene055058 | MS.gene46839 | 0.806451 | 8.17E-50 | -1.69E-46 |
| MS.gene058515 | MS.gene46839 | 0.804675 | 1.93E-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.gene46839.t1 | MTR_3g463980 | 50.318 | 157 | 42 | 2 | 22 | 178 | 14 | 134 | 4.21e-38 | 129 |
| MS.gene46839.t1 | MTR_4g029740 | 87.692 | 65 | 8 | 0 | 1 | 65 | 138 | 202 | 1.00e-36 | 128 |
| MS.gene46839.t1 | MTR_2g026970 | 82.353 | 68 | 12 | 0 | 111 | 178 | 3 | 70 | 2.43e-33 | 116 |
| MS.gene46839.t1 | MTR_3g005890 | 92.000 | 50 | 4 | 0 | 129 | 178 | 18 | 67 | 1.56e-21 | 85.5 |
| MS.gene46839.t1 | MTR_1g077860 | 65.517 | 58 | 19 | 1 | 108 | 165 | 56 | 112 | 6.35e-16 | 71.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 47 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCAGACAACTTCATCTTCT+TGG | 0.215709 | 3.3:+19732318 | MS.gene46839:CDS |
| TGAAAGGTGATCCATCAAAT+TGG | 0.249601 | 3.3:+19731766 | MS.gene46839:CDS |
| AAAATTGGGAAGATAGTAAA+TGG | 0.294207 | 3.3:+19731502 | MS.gene46839:CDS |
| TACCGCAACCATTTGAGATT+TGG | 0.307015 | 3.3:-19731796 | None:intergenic |
| TTGGAGGATACCCAATTTGA+TGG | 0.364331 | 3.3:-19731777 | None:intergenic |
| GAAAGGACACATATATGGTT+TGG | 0.371434 | 3.3:+19732363 | MS.gene46839:CDS |
| AAAGGACACATATATGGTTT+GGG | 0.378346 | 3.3:+19732364 | MS.gene46839:CDS |
| GACAAGAAAGGACACATATA+TGG | 0.391600 | 3.3:+19732358 | MS.gene46839:CDS |
| TTCATCTTCTTGGACGTAGT+TGG | 0.429547 | 3.3:+19732328 | MS.gene46839:CDS |
| CGCAACCATTTGAGATTTGG+AGG | 0.436656 | 3.3:-19731793 | None:intergenic |
| ATGGTCCATTGCACACTTGT+GGG | 0.458304 | 3.3:+19731568 | MS.gene46839:CDS |
| GAAAGGTGATCCATCAAATT+GGG | 0.459104 | 3.3:+19731767 | MS.gene46839:CDS |
| CATCTGAATATGAGCATATG+AGG | 0.460761 | 3.3:+19732443 | MS.gene46839:CDS |
| TATGGTTTGGGGACAGAGGC+AGG | 0.462107 | 3.3:+19732376 | MS.gene46839:CDS |
| GATGGTCCATTGCACACTTG+TGG | 0.470798 | 3.3:+19731567 | MS.gene46839:CDS |
| ATCTTCTTGGACGTAGTTGG+AGG | 0.475318 | 3.3:+19732331 | MS.gene46839:CDS |
| TCTTCATCCAGATCATTTGA+CGG | 0.487821 | 3.3:+19732412 | MS.gene46839:CDS |
| GGTATCCTCCAAATCTCAAA+TGG | 0.499564 | 3.3:+19731788 | MS.gene46839:CDS |
| TGAAATGCCGTCAAATGATC+TGG | 0.505157 | 3.3:-19732419 | None:intergenic |
| GGTACCAAAATACAATGTAT+CGG | 0.506345 | 3.3:+19731418 | None:intergenic |
| CTCCAAATCTCAAATGGTTG+CGG | 0.518555 | 3.3:+19731794 | MS.gene46839:CDS |
| GTACCAAAATACAATGTATC+GGG | 0.520464 | 3.3:+19731419 | None:intergenic |
| ACAATGTATCGGGTACGAAA+AGG | 0.523365 | 3.3:+19731429 | None:intergenic |
| GTGTAGGATGAATATGAAAG+AGG | 0.541573 | 3.3:+19732238 | MS.gene46839:intron |
| GTTGGAGGAGTCGACAAGAA+AGG | 0.560231 | 3.3:+19732346 | MS.gene46839:CDS |
| TGTAGGATGAATATGAAAGA+GGG | 0.565349 | 3.3:+19732239 | MS.gene46839:intron |
| TAAAATGTCAGCTGAAAACA+TGG | 0.565653 | 3.3:+19732477 | MS.gene46839:CDS |
| ATGAAAGAGGGATCTTTGAA+AGG | 0.571397 | 3.3:+19732251 | MS.gene46839:CDS |
| CTGAAAACATGGAACTCTCA+AGG | 0.572053 | 3.3:+19732488 | MS.gene46839:CDS |
| CTCATATGCTCATATTCAGA+TGG | 0.573783 | 3.3:-19732442 | None:intergenic |
| TTGGGAAGATAGTAAATGGA+AGG | 0.581599 | 3.3:+19731506 | MS.gene46839:CDS |
| AAGGAATAGACAAAGGCGAA+TGG | 0.591694 | 3.3:+19731448 | MS.gene46839:CDS |
| ATAAAGACACACAAAATGAA+AGG | 0.601464 | 3.3:+19731750 | MS.gene46839:CDS |
| AGTGTGCAATGGACCATCAG+AGG | 0.611168 | 3.3:-19731562 | None:intergenic |
| CAAAATAGAAGATCCTCTGA+TGG | 0.614529 | 3.3:+19731549 | MS.gene46839:CDS |
| AGGAACTCACAACAAACAGA+GGG | 0.614725 | 3.3:+19732271 | MS.gene46839:CDS |
| CATATATGGTTTGGGGACAG+AGG | 0.629154 | 3.3:+19732372 | MS.gene46839:CDS |
| ATAGACCCACAAGTGTGCAA+TGG | 0.640134 | 3.3:-19731573 | None:intergenic |
| AAGGACACATATATGGTTTG+GGG | 0.644659 | 3.3:+19732365 | MS.gene46839:CDS |
| AGATGAAGTTGTCTGACTGA+TGG | 0.649405 | 3.3:-19732312 | None:intergenic |
| AACATGGAACTCTCAAGGAG+CGG | 0.660939 | 3.3:+19732493 | MS.gene46839:CDS |
| GTACGAAAAGGAATAGACAA+AGG | 0.669707 | 3.3:+19731441 | MS.gene46839:CDS |
| AAGGAACTCACAACAAACAG+AGG | 0.682264 | 3.3:+19732270 | MS.gene46839:CDS |
| AGATAGTAAATGGAAGGACA+AGG | 0.688548 | 3.3:+19731512 | MS.gene46839:CDS |
| ACATGATTCCAAGCTACTGG+AGG | 0.691848 | 3.3:+19731722 | MS.gene46839:intron |
| GAACTCACAACAAACAGAGG+GGG | 0.692900 | 3.3:+19732273 | MS.gene46839:CDS |
| GGAACTCACAACAAACAGAG+GGG | 0.755288 | 3.3:+19732272 | MS.gene46839:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAAATAGATTAGTATTA+TGG | - | chr3.3:19731675-19731694 | None:intergenic | 10.0% |
| !! | ATGCATAACATTAAAAACTA+TGG | - | chr3.3:19732092-19732111 | None:intergenic | 20.0% |
| !! | TGAAAAATTGGAACAAAATT+GGG | + | chr3.3:19731488-19731507 | MS.gene46839:CDS | 20.0% |
| !!! | TTTTATGTTTATTTGACAGA+AGG | - | chr3.3:19731853-19731872 | None:intergenic | 20.0% |
| ! | AAAACAATTATAGCACATGA+TGG | - | chr3.3:19732024-19732043 | None:intergenic | 25.0% |
| ! | AAAATTGGGAAGATAGTAAA+TGG | + | chr3.3:19731502-19731521 | MS.gene46839:CDS | 25.0% |
| ! | ATAAAGACACACAAAATGAA+AGG | + | chr3.3:19731750-19731769 | MS.gene46839:CDS | 25.0% |
| ! | CTAGAATTAGTTATATCCTT+TGG | + | chr3.3:19731891-19731910 | MS.gene46839:intron | 25.0% |
| ! | GTGAAAAATTGGAACAAAAT+TGG | + | chr3.3:19731487-19731506 | MS.gene46839:CDS | 25.0% |
| !! | TCATGTGCTATAATTGTTTT+TGG | + | chr3.3:19732024-19732043 | MS.gene46839:intron | 25.0% |
| AAAGGACACATATATGGTTT+GGG | + | chr3.3:19732364-19732383 | MS.gene46839:CDS | 30.0% | |
| GAATTAGTTATATCCTTTGG+TGG | + | chr3.3:19731894-19731913 | MS.gene46839:intron | 30.0% | |
| TAAAATGTCAGCTGAAAACA+TGG | + | chr3.3:19732477-19732496 | MS.gene46839:CDS | 30.0% | |
| TGATCTTATGTTTCTTCACT+TGG | + | chr3.3:19732151-19732170 | MS.gene46839:intron | 30.0% | |
| TGTAGGATGAATATGAAAGA+GGG | + | chr3.3:19732239-19732258 | MS.gene46839:intron | 30.0% | |
| TGTTCAATTGCGTGAAAAAT+TGG | + | chr3.3:19731476-19731495 | MS.gene46839:CDS | 30.0% | |
| ! | AATTTTTCACGCAATTGAAC+AGG | - | chr3.3:19731477-19731496 | None:intergenic | 30.0% |
| ! | ATTTTTCACGCAATTGAACA+GGG | - | chr3.3:19731476-19731495 | None:intergenic | 30.0% |
| !!! | CTTTTAAAATGCTCGATTGT+TGG | - | chr3.3:19731600-19731619 | None:intergenic | 30.0% |
| AAAAACTATGGCACAAAAGC+AGG | - | chr3.3:19732080-19732099 | None:intergenic | 35.0% | |
| AAGACGAACTCTAATTGTGT+AGG | + | chr3.3:19732222-19732241 | MS.gene46839:intron | 35.0% | |
| AAGGACACATATATGGTTTG+GGG | + | chr3.3:19732365-19732384 | MS.gene46839:CDS | 35.0% | |
| AGATAGTAAATGGAAGGACA+AGG | + | chr3.3:19731512-19731531 | MS.gene46839:CDS | 35.0% | |
| ATGAAAGAGGGATCTTTGAA+AGG | + | chr3.3:19732251-19732270 | MS.gene46839:CDS | 35.0% | |
| ATGTTTATTTGACAGAAGGC+TGG | - | chr3.3:19731849-19731868 | None:intergenic | 35.0% | |
| CAAAATAGAAGATCCTCTGA+TGG | + | chr3.3:19731549-19731568 | MS.gene46839:CDS | 35.0% | |
| CATCTGAATATGAGCATATG+AGG | + | chr3.3:19732443-19732462 | MS.gene46839:CDS | 35.0% | |
| CTCATATGCTCATATTCAGA+TGG | - | chr3.3:19732445-19732464 | None:intergenic | 35.0% | |
| GAAAGGACACATATATGGTT+TGG | + | chr3.3:19732363-19732382 | MS.gene46839:CDS | 35.0% | |
| GAAAGGTGATCCATCAAATT+GGG | + | chr3.3:19731767-19731786 | MS.gene46839:CDS | 35.0% | |
| GACAAGAAAGGACACATATA+TGG | + | chr3.3:19732358-19732377 | MS.gene46839:CDS | 35.0% | |
| GTACGAAAAGGAATAGACAA+AGG | + | chr3.3:19731441-19731460 | MS.gene46839:CDS | 35.0% | |
| GTGTAGGATGAATATGAAAG+AGG | + | chr3.3:19732238-19732257 | MS.gene46839:intron | 35.0% | |
| TCTTCATCCAGATCATTTGA+CGG | + | chr3.3:19732412-19732431 | MS.gene46839:CDS | 35.0% | |
| TGAAAGGTGATCCATCAAAT+TGG | + | chr3.3:19731766-19731785 | MS.gene46839:CDS | 35.0% | |
| TTGGGAAGATAGTAAATGGA+AGG | + | chr3.3:19731506-19731525 | MS.gene46839:CDS | 35.0% | |
| AAGGAACTCACAACAAACAG+AGG | + | chr3.3:19732270-19732289 | MS.gene46839:CDS | 40.0% | |
| AAGGAATAGACAAAGGCGAA+TGG | + | chr3.3:19731448-19731467 | MS.gene46839:CDS | 40.0% | |
| AGATGAAGTTGTCTGACTGA+TGG | - | chr3.3:19732315-19732334 | None:intergenic | 40.0% | |
| AGCATGCATCAATACACATG+AGG | - | chr3.3:19731984-19732003 | None:intergenic | 40.0% | |
| AGGAACTCACAACAAACAGA+GGG | + | chr3.3:19732271-19732290 | MS.gene46839:CDS | 40.0% | |
| CAAACATGATTCCAAGCTAC+TGG | + | chr3.3:19731719-19731738 | MS.gene46839:intron | 40.0% | |
| CTCCAAATCTCAAATGGTTG+CGG | + | chr3.3:19731794-19731813 | MS.gene46839:CDS | 40.0% | |
| CTGAAAACATGGAACTCTCA+AGG | + | chr3.3:19732488-19732507 | MS.gene46839:CDS | 40.0% | |
| GGTATCCTCCAAATCTCAAA+TGG | + | chr3.3:19731788-19731807 | MS.gene46839:CDS | 40.0% | |
| GTCAGACAACTTCATCTTCT+TGG | + | chr3.3:19732318-19732337 | MS.gene46839:CDS | 40.0% | |
| TATATACACCTCCAGTAGCT+TGG | - | chr3.3:19731733-19731752 | None:intergenic | 40.0% | |
| TGAAATGCCGTCAAATGATC+TGG | - | chr3.3:19732422-19732441 | None:intergenic | 40.0% | |
| TGGTGGAAAGTCAAGGTAAT+TGG | + | chr3.3:19731928-19731947 | MS.gene46839:intron | 40.0% | |
| TTCATCTTCTTGGACGTAGT+TGG | + | chr3.3:19732328-19732347 | MS.gene46839:CDS | 40.0% | |
| TTGGAGGATACCCAATTTGA+TGG | - | chr3.3:19731780-19731799 | None:intergenic | 40.0% | |
| ! | TACCGCAACCATTTGAGATT+TGG | - | chr3.3:19731799-19731818 | None:intergenic | 40.0% |
| !! | GTTATATCCTTTGGTGGACT+TGG | + | chr3.3:19731900-19731919 | MS.gene46839:intron | 40.0% |
| AACATGGAACTCTCAAGGAG+CGG | + | chr3.3:19732493-19732512 | MS.gene46839:CDS | 45.0% | |
| ACATGATTCCAAGCTACTGG+AGG | + | chr3.3:19731722-19731741 | MS.gene46839:intron | 45.0% | |
| ATAGACCCACAAGTGTGCAA+TGG | - | chr3.3:19731576-19731595 | None:intergenic | 45.0% | |
| ATCTTCTTGGACGTAGTTGG+AGG | + | chr3.3:19732331-19732350 | MS.gene46839:CDS | 45.0% | |
| ATGGTCCATTGCACACTTGT+GGG | + | chr3.3:19731568-19731587 | MS.gene46839:CDS | 45.0% | |
| GAACTCACAACAAACAGAGG+GGG | + | chr3.3:19732273-19732292 | MS.gene46839:CDS | 45.0% | |
| GGAACTCACAACAAACAGAG+GGG | + | chr3.3:19732272-19732291 | MS.gene46839:CDS | 45.0% | |
| ! | CATATATGGTTTGGGGACAG+AGG | + | chr3.3:19732372-19732391 | MS.gene46839:CDS | 45.0% |
| ! | CGCAACCATTTGAGATTTGG+AGG | - | chr3.3:19731796-19731815 | None:intergenic | 45.0% |
| AGTGTGCAATGGACCATCAG+AGG | - | chr3.3:19731565-19731584 | None:intergenic | 50.0% | |
| CAGCATACCAAGTCCACCAA+AGG | - | chr3.3:19731910-19731929 | None:intergenic | 50.0% | |
| GATGGTCCATTGCACACTTG+TGG | + | chr3.3:19731567-19731586 | MS.gene46839:CDS | 50.0% | |
| GGTATGCTGGTGGAAAGTCA+AGG | + | chr3.3:19731921-19731940 | MS.gene46839:intron | 50.0% | |
| GTTGGAGGAGTCGACAAGAA+AGG | + | chr3.3:19732346-19732365 | MS.gene46839:CDS | 50.0% | |
| !! | CTTTGGTGGACTTGGTATGC+TGG | + | chr3.3:19731908-19731927 | MS.gene46839:intron | 50.0% |
| ! | TATGGTTTGGGGACAGAGGC+AGG | + | chr3.3:19732376-19732395 | MS.gene46839:CDS | 55.0% |
| !! | TGGTGGACTTGGTATGCTGG+TGG | + | chr3.3:19731911-19731930 | MS.gene46839:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 19731432 | 19732519 | 19731432 | ID=MS.gene46839 |
| chr3.3 | mRNA | 19731432 | 19732519 | 19731432 | ID=MS.gene46839.t1;Parent=MS.gene46839 |
| chr3.3 | exon | 19731432 | 19731623 | 19731432 | ID=MS.gene46839.t1.exon1;Parent=MS.gene46839.t1 |
| chr3.3 | CDS | 19731432 | 19731623 | 19731432 | ID=cds.MS.gene46839.t1;Parent=MS.gene46839.t1 |
| chr3.3 | exon | 19731735 | 19731815 | 19731735 | ID=MS.gene46839.t1.exon2;Parent=MS.gene46839.t1 |
| chr3.3 | CDS | 19731735 | 19731815 | 19731735 | ID=cds.MS.gene46839.t1;Parent=MS.gene46839.t1 |
| chr3.3 | exon | 19732244 | 19732519 | 19732244 | ID=MS.gene46839.t1.exon3;Parent=MS.gene46839.t1 |
| chr3.3 | CDS | 19732244 | 19732519 | 19732244 | ID=cds.MS.gene46839.t1;Parent=MS.gene46839.t1 |
| Gene Sequence |
| Protein sequence |
