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.gene072923.t1 | AES73687.2 | 73.2 | 198 | 22 | 1 | 1 | 167 | 1 | 198 | 5.90E-66 | 260.4 |
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.gene072923.t1 | G7JBM1 | 73.2 | 198 | 22 | 1 | 1 | 167 | 1 | 198 | 4.3e-66 | 260.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene054479 | MS.gene072923 | 0.803367 | 3.61E-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.gene072923.t1 | MTR_3g107700 | 76.768 | 198 | 15 | 2 | 1 | 167 | 1 | 198 | 5.19e-101 | 290 |
| MS.gene072923.t1 | MTR_3g107680 | 41.753 | 194 | 51 | 9 | 10 | 148 | 186 | 372 | 1.17e-26 | 104 |
| MS.gene072923.t1 | MTR_3g107680 | 43.373 | 166 | 39 | 8 | 10 | 127 | 186 | 344 | 3.38e-23 | 94.4 |
| MS.gene072923.t1 | MTR_8g040600 | 86.486 | 37 | 5 | 0 | 88 | 124 | 34 | 70 | 4.90e-16 | 69.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTACCCACATAATAATAATA+TGG | 0.288418 | 3.4:+93523574 | MS.gene072923:CDS |
| CTTGCATGCCTTGCTTTCAA+TGG | 0.380184 | 3.4:+93524559 | MS.gene072923:CDS |
| ATGAAAAGAGTGTCGCTTCA+TGG | 0.385697 | 3.4:+93523479 | MS.gene072923:CDS |
| TGTTCTCTCTGCAAATTGAT+TGG | 0.387681 | 3.4:+93524608 | MS.gene072923:CDS |
| CAAAGGGAATCGTCATCTTC+AGG | 0.392089 | 3.4:-93523800 | None:intergenic |
| AGAATAACCTGGTTCTTCAA+TGG | 0.427182 | 3.4:-93523696 | None:intergenic |
| AAAGAGGGCTGTTGCGATGA+TGG | 0.442861 | 3.4:+93523532 | MS.gene072923:CDS |
| GGCATGCAAGCCTCCTACAC+TGG | 0.443600 | 3.4:-93524546 | None:intergenic |
| ATTCAAAGTGATATGTTTGC+TGG | 0.444493 | 3.4:+93523857 | MS.gene072923:CDS |
| TCACCCATATTATTATTATG+TGG | 0.471117 | 3.4:-93523578 | None:intergenic |
| CACCCATATTATTATTATGT+GGG | 0.475434 | 3.4:-93523577 | None:intergenic |
| TACCCACATAATAATAATAT+GGG | 0.479849 | 3.4:+93523575 | MS.gene072923:CDS |
| CAATGGCTAAATATGATGCT+AGG | 0.486282 | 3.4:+93524576 | MS.gene072923:CDS |
| CTGTAGCAGAAAGAATTCAT+AGG | 0.503643 | 3.4:+93523954 | MS.gene072923:CDS |
| ATATTCTGCATCACTGCAAA+GGG | 0.509431 | 3.4:-93523816 | None:intergenic |
| CTGCTACAGCCTCTTTAGAG+AGG | 0.526768 | 3.4:-93523940 | None:intergenic |
| GGCTGTTGCGATGATGGAAA+AGG | 0.532098 | 3.4:+93523538 | MS.gene072923:CDS |
| AAAGGGTATCGTCATCACTT+TGG | 0.535499 | 3.4:-93523886 | None:intergenic |
| TGTTGAAGACCTCTCTAAAG+AGG | 0.537522 | 3.4:+93523931 | MS.gene072923:CDS |
| CATATTCTGCATCACTGCAA+AGG | 0.540770 | 3.4:-93523817 | None:intergenic |
| TGATTCTGCAACAATGCAAA+GGG | 0.552234 | 3.4:-93523903 | None:intergenic |
| ATATTTAGCCATTGAAAGCA+AGG | 0.559075 | 3.4:-93524567 | None:intergenic |
| TTGATTTGTACAATTAGTGA+CGG | 0.572612 | 3.4:-93523618 | None:intergenic |
| GTGATTCTGCAACAATGCAA+AGG | 0.580315 | 3.4:-93523904 | None:intergenic |
| CAATTTGCAGAGAGAACAAG+AGG | 0.580440 | 3.4:-93524603 | None:intergenic |
| CAAATCAATTGTATGAATCG+AGG | 0.615083 | 3.4:+93523633 | MS.gene072923:CDS |
| TCAATTGTATGAATCGAGGA+AGG | 0.623179 | 3.4:+93523637 | MS.gene072923:CDS |
| GCTGAAACCATTGAAGAACC+AGG | 0.623678 | 3.4:+93523689 | MS.gene072923:CDS |
| GTATCGTCATCACTTTGGCA+AGG | 0.657213 | 3.4:-93523881 | None:intergenic |
| CTCGTTTCGACGAATATCCG+AGG | 0.660078 | 3.4:+93523507 | MS.gene072923:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAATAAAAATTAATAATCAA+TGG | - | chr3.4:93524500-93524519 | None:intergenic | 10.0% |
| !!! | AATTTTTAGAATGTTTACAT+AGG | + | chr3.4:93524136-93524155 | MS.gene072923:intron | 15.0% |
| !!! | ATTTTTAGAATGTTTACATA+GGG | + | chr3.4:93524137-93524156 | MS.gene072923:intron | 15.0% |
| !! | TACCCACATAATAATAATAT+GGG | + | chr3.4:93523575-93523594 | MS.gene072923:CDS | 20.0% |
| !! | TTACCCACATAATAATAATA+TGG | + | chr3.4:93523574-93523593 | MS.gene072923:CDS | 20.0% |
| !! | TTCAAAAATGGAAAATTGAA+TGG | - | chr3.4:93524170-93524189 | None:intergenic | 20.0% |
| !!! | ATAAAGAATTTGGTTTTTTC+TGG | + | chr3.4:93524109-93524128 | MS.gene072923:intron | 20.0% |
| !!! | TTTTTAGAATGTTTACATAG+GGG | + | chr3.4:93524138-93524157 | MS.gene072923:intron | 20.0% |
| ! | AGATTACTATAAGAATAACC+TGG | - | chr3.4:93523710-93523729 | None:intergenic | 25.0% |
| ! | CACCCATATTATTATTATGT+GGG | - | chr3.4:93523580-93523599 | None:intergenic | 25.0% |
| ! | TCACCCATATTATTATTATG+TGG | - | chr3.4:93523581-93523600 | None:intergenic | 25.0% |
| !! | AGAATCAAAATCATTTTCCA+GGG | + | chr3.4:93524523-93524542 | MS.gene072923:intron | 25.0% |
| !! | TCTTTTAATAATACGTTAGC+AGG | + | chr3.4:93523776-93523795 | MS.gene072923:intron | 25.0% |
| !!! | TTGATTTGTACAATTAGTGA+CGG | - | chr3.4:93523621-93523640 | None:intergenic | 25.0% |
| AATCTCTCATATCTCTTTGA+AGG | - | chr3.4:93524330-93524349 | None:intergenic | 30.0% | |
| ATATTTAGCCATTGAAAGCA+AGG | - | chr3.4:93524570-93524589 | None:intergenic | 30.0% | |
| ATTCAAAGTGATATGTTTGC+TGG | + | chr3.4:93523857-93523876 | MS.gene072923:CDS | 30.0% | |
| CAAATCAATTGTATGAATCG+AGG | + | chr3.4:93523633-93523652 | MS.gene072923:CDS | 30.0% | |
| CTAATAATGCTACTGTACAT+GGG | - | chr3.4:93524195-93524214 | None:intergenic | 30.0% | |
| GGAAGCTCATCTTATATATT+GGG | - | chr3.4:93524304-93524323 | None:intergenic | 30.0% | |
| TATAGTAATCTGAGTTCAGT+TGG | + | chr3.4:93523719-93523738 | MS.gene072923:intron | 30.0% | |
| TCAAACGATGAACATTTGAT+GGG | + | chr3.4:93524085-93524104 | MS.gene072923:intron | 30.0% | |
| TGGAAGCTCATCTTATATAT+TGG | - | chr3.4:93524305-93524324 | None:intergenic | 30.0% | |
| TTTGATGGGGATAAAGAATT+TGG | + | chr3.4:93524099-93524118 | MS.gene072923:intron | 30.0% | |
| ! | GAGAATCAAAATCATTTTCC+AGG | + | chr3.4:93524522-93524541 | MS.gene072923:intron | 30.0% |
| ! | TGTACATGGGTTTTCAAAAA+TGG | - | chr3.4:93524182-93524201 | None:intergenic | 30.0% |
| !! | TTAGGTTCTGAACAAGATTA+AGG | + | chr3.4:93524211-93524230 | MS.gene072923:intron | 30.0% |
| ATATTCTGCATCACTGCAAA+GGG | - | chr3.4:93523819-93523838 | None:intergenic | 35.0% | |
| CAAACGATGAACATTTGATG+GGG | + | chr3.4:93524086-93524105 | MS.gene072923:intron | 35.0% | |
| CAATGGCTAAATATGATGCT+AGG | + | chr3.4:93524576-93524595 | MS.gene072923:CDS | 35.0% | |
| CCATGTACAGTAGCATTATT+AGG | + | chr3.4:93524193-93524212 | MS.gene072923:intron | 35.0% | |
| CCTAATAATGCTACTGTACA+TGG | - | chr3.4:93524196-93524215 | None:intergenic | 35.0% | |
| CTCAAACGATGAACATTTGA+TGG | + | chr3.4:93524084-93524103 | MS.gene072923:intron | 35.0% | |
| CTGTAGCAGAAAGAATTCAT+AGG | + | chr3.4:93523954-93523973 | MS.gene072923:CDS | 35.0% | |
| TCAATTGTATGAATCGAGGA+AGG | + | chr3.4:93523637-93523656 | MS.gene072923:CDS | 35.0% | |
| TGAAGTTGTTCATCACAACT+TGG | - | chr3.4:93524403-93524422 | None:intergenic | 35.0% | |
| TGATATGCTCATATTGAGTG+CGG | - | chr3.4:93524271-93524290 | None:intergenic | 35.0% | |
| TGATTCTGCAACAATGCAAA+GGG | - | chr3.4:93523906-93523925 | None:intergenic | 35.0% | |
| TGTTCTCTCTGCAAATTGAT+TGG | + | chr3.4:93524608-93524627 | MS.gene072923:CDS | 35.0% | |
| TTAGAATGTTTACATAGGGG+AGG | + | chr3.4:93524141-93524160 | MS.gene072923:intron | 35.0% | |
| ! | AGAATAACCTGGTTCTTCAA+TGG | - | chr3.4:93523699-93523718 | None:intergenic | 35.0% |
| ! | CTCATATCTCTTTGAAGGTA+TGG | - | chr3.4:93524325-93524344 | None:intergenic | 35.0% |
| ! | TCCTCTTTTTCCCAACTTAA+AGG | - | chr3.4:93524031-93524050 | None:intergenic | 35.0% |
| ! | TTTTTCCCAACTTAAAGGAC+CGG | - | chr3.4:93524026-93524045 | None:intergenic | 35.0% |
| !! | TCCTTTAAGTTGGGAAAAAG+AGG | + | chr3.4:93524027-93524046 | MS.gene072923:intron | 35.0% |
| ACGAATATCCGAGGAAAAAG+AGG | + | chr3.4:93523516-93523535 | MS.gene072923:CDS | 40.0% | |
| CAATTTGCAGAGAGAACAAG+AGG | - | chr3.4:93524606-93524625 | None:intergenic | 40.0% | |
| CATATTCTGCATCACTGCAA+AGG | - | chr3.4:93523820-93523839 | None:intergenic | 40.0% | |
| CGAATATCCGAGGAAAAAGA+GGG | + | chr3.4:93523517-93523536 | MS.gene072923:CDS | 40.0% | |
| GCACTCAATATGAGCATATC+AGG | + | chr3.4:93524270-93524289 | MS.gene072923:intron | 40.0% | |
| GTGATTCTGCAACAATGCAA+AGG | - | chr3.4:93523907-93523926 | None:intergenic | 40.0% | |
| TGCTTATCTCTGTACCTTAG+CGG | + | chr3.4:93523988-93524007 | MS.gene072923:intron | 40.0% | |
| ! | TGTTGAAGACCTCTCTAAAG+AGG | + | chr3.4:93523931-93523950 | MS.gene072923:CDS | 40.0% |
| !! | AAAGGGTATCGTCATCACTT+TGG | - | chr3.4:93523889-93523908 | None:intergenic | 40.0% |
| !! | ATGAAAAGAGTGTCGCTTCA+TGG | + | chr3.4:93523479-93523498 | MS.gene072923:CDS | 40.0% |
| ATGCTTCCGGTCCTTTAAGT+TGG | + | chr3.4:93524017-93524036 | MS.gene072923:intron | 45.0% | |
| CAAAGGGAATCGTCATCTTC+AGG | - | chr3.4:93523803-93523822 | None:intergenic | 45.0% | |
| CTTGCATGCCTTGCTTTCAA+TGG | + | chr3.4:93524559-93524578 | MS.gene072923:CDS | 45.0% | |
| GCTGAAACCATTGAAGAACC+AGG | + | chr3.4:93523689-93523708 | MS.gene072923:CDS | 45.0% | |
| GTATCGTCATCACTTTGGCA+AGG | - | chr3.4:93523884-93523903 | None:intergenic | 45.0% | |
| GTTGGCAGCTGTAGTGTTAT+AGG | + | chr3.4:93523737-93523756 | MS.gene072923:intron | 45.0% | |
| TTAGCGGTGATGTATGCTTC+CGG | + | chr3.4:93524004-93524023 | MS.gene072923:intron | 45.0% | |
| ! | TGCTTCCGGTCCTTTAAGTT+GGG | + | chr3.4:93524018-93524037 | MS.gene072923:intron | 45.0% |
| AAAGAGGGCTGTTGCGATGA+TGG | + | chr3.4:93523532-93523551 | MS.gene072923:CDS | 50.0% | |
| CTCGTTTCGACGAATATCCG+AGG | + | chr3.4:93523507-93523526 | MS.gene072923:CDS | 50.0% | |
| ! | CTGCTACAGCCTCTTTAGAG+AGG | - | chr3.4:93523943-93523962 | None:intergenic | 50.0% |
| ! | GCAACAGCCCTCTTTTTCCT+CGG | - | chr3.4:93523527-93523546 | None:intergenic | 50.0% |
| ! | GGAAGCATACATCACCGCTA+AGG | - | chr3.4:93524005-93524024 | None:intergenic | 50.0% |
| ! | TCATTTTCCAGGGCCAGTGT+AGG | + | chr3.4:93524533-93524552 | MS.gene072923:intron | 50.0% |
| !! | GGCTGTTGCGATGATGGAAA+AGG | + | chr3.4:93523538-93523557 | MS.gene072923:CDS | 50.0% |
| ! | TTTTCCAGGGCCAGTGTAGG+AGG | + | chr3.4:93524536-93524555 | MS.gene072923:intron | 55.0% |
| GGCATGCAAGCCTCCTACAC+TGG | - | chr3.4:93524549-93524568 | None:intergenic | 60.0% | |
| CAAGCCTCCTACACTGGCCC+TGG | - | chr3.4:93524543-93524562 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 93523476 | 93524646 | 93523476 | ID=MS.gene072923 |
| chr3.4 | mRNA | 93523476 | 93524646 | 93523476 | ID=MS.gene072923.t1;Parent=MS.gene072923 |
| chr3.4 | exon | 93523476 | 93523710 | 93523476 | ID=MS.gene072923.t1.exon1;Parent=MS.gene072923.t1 |
| chr3.4 | CDS | 93523476 | 93523710 | 93523476 | ID=cds.MS.gene072923.t1;Parent=MS.gene072923.t1 |
| chr3.4 | exon | 93523798 | 93523975 | 93523798 | ID=MS.gene072923.t1.exon2;Parent=MS.gene072923.t1 |
| chr3.4 | CDS | 93523798 | 93523975 | 93523798 | ID=cds.MS.gene072923.t1;Parent=MS.gene072923.t1 |
| chr3.4 | exon | 93524544 | 93524646 | 93524544 | ID=MS.gene072923.t1.exon3;Parent=MS.gene072923.t1 |
| chr3.4 | CDS | 93524544 | 93524646 | 93524544 | ID=cds.MS.gene072923.t1;Parent=MS.gene072923.t1 |
| Gene Sequence |
| Protein sequence |
