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.gene023201.t1 | XP_013457381.1 | 98.6 | 218 | 3 | 0 | 1 | 218 | 1 | 218 | 1.40E-123 | 452.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023201.t1 | Q6E2Z6 | 98.2 | 218 | 4 | 0 | 1 | 218 | 1 | 218 | 9.5e-126 | 450.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023201.t1 | A0A072UP31 | 98.6 | 218 | 3 | 0 | 1 | 218 | 1 | 218 | 9.8e-124 | 452.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene012180 | MS.gene023201 | PPI |
| MS.gene030247 | MS.gene023201 | PPI |
| MS.gene26698 | MS.gene023201 | PPI |
| MS.gene24767 | MS.gene023201 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023201.t1 | MTR_4g094720 | 98.624 | 218 | 3 | 0 | 1 | 218 | 1 | 218 | 1.85e-163 | 449 |
| MS.gene023201.t1 | MTR_7g105830 | 31.111 | 180 | 114 | 3 | 6 | 180 | 74 | 248 | 5.35e-23 | 94.0 |
| MS.gene023201.t1 | MTR_1g105090 | 30.000 | 180 | 116 | 3 | 6 | 180 | 76 | 250 | 4.76e-22 | 91.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023201.t1 | AT1G48130 | 72.273 | 220 | 54 | 2 | 1 | 218 | 1 | 215 | 3.08e-116 | 330 |
| MS.gene023201.t1 | AT5G06290 | 31.667 | 180 | 113 | 3 | 6 | 180 | 82 | 256 | 2.45e-24 | 97.4 |
| MS.gene023201.t1 | AT3G11630 | 32.222 | 180 | 112 | 3 | 6 | 180 | 75 | 249 | 1.69e-23 | 95.1 |
| MS.gene023201.t1 | AT5G06290 | 29.448 | 163 | 106 | 2 | 6 | 164 | 82 | 239 | 6.20e-20 | 85.1 |
Find 62 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGCTTAATGATTTCTCTTT+TGG | 0.116285 | 4.3:-18384202 | None:intergenic |
| GATATTTGTACCTTCTTATC+TGG | 0.262678 | 4.3:-18384297 | None:intergenic |
| TCCCCTGGCTTCCAGTTAGC+AGG | 0.316622 | 4.3:-18384496 | None:intergenic |
| ATGTTCCTCCCAGTTGTTGC+AGG | 0.342538 | 4.3:-18384412 | None:intergenic |
| CCATTGGAATCTTTCTCATC+AGG | 0.347454 | 4.3:-18384240 | None:intergenic |
| CCAAGCTCAGTGGTACAAAC+TGG | 0.350619 | 4.3:-18383896 | None:intergenic |
| TTTCTGTACCCTGCAACAAC+TGG | 0.357498 | 4.3:+18384403 | MS.gene023201:CDS |
| CATATCCTTAGCTTGTTCAT+TGG | 0.360719 | 4.3:-18384545 | None:intergenic |
| AAATTGCAACCCCTGCTAAC+TGG | 0.361486 | 4.3:+18384485 | MS.gene023201:CDS |
| TGCAGATCTTCCATCCAAAA+AGG | 0.376713 | 4.3:+18384588 | MS.gene023201:CDS |
| CTTGTGTAGTATCAACTTCA+AGG | 0.408006 | 4.3:-18383802 | None:intergenic |
| GCTTGTTCATTGGTAACATC+AGG | 0.425824 | 4.3:-18384535 | None:intergenic |
| ACAATATGAAGAGCCCTTGA+TGG | 0.428726 | 4.3:-18384270 | None:intergenic |
| ACCCCTGCTAACTGGAAGCC+AGG | 0.430708 | 4.3:+18384493 | MS.gene023201:CDS |
| TACCACTGAGCTTGGTAAGA+TGG | 0.430872 | 4.3:+18383904 | MS.gene023201:CDS |
| CCCCTGGCTTCCAGTTAGCA+GGG | 0.440132 | 4.3:-18384495 | None:intergenic |
| AAACGAGGAGTTATGCTGTT+AGG | 0.461288 | 4.3:+18383950 | MS.gene023201:CDS |
| CAATGGAAATTTACCATCAA+GGG | 0.465608 | 4.3:+18384257 | MS.gene023201:CDS |
| GGATAGTTCACCTTTGCACC+TGG | 0.476765 | 4.3:-18384165 | None:intergenic |
| AATATGCCAGGCCTTACTAT+AGG | 0.481380 | 4.3:+18383764 | None:intergenic |
| CCAATGGAAATTTACCATCA+AGG | 0.485151 | 4.3:+18384256 | MS.gene023201:CDS |
| CCTTGATGGTAAATTTCCAT+TGG | 0.485846 | 4.3:-18384256 | None:intergenic |
| ACCATTCTCTTCTCTCATCC+AGG | 0.497155 | 4.3:+18383863 | MS.gene023201:CDS |
| ATCACTTCTGTTCTGATACA+TGG | 0.498086 | 4.3:+18383840 | MS.gene023201:CDS |
| GTAGTATCAACTTCAAGGTC+AGG | 0.507580 | 4.3:-18383797 | None:intergenic |
| ATCAAGGGCTCTTCATATTG+TGG | 0.511782 | 4.3:+18384272 | MS.gene023201:CDS |
| CTGCAGTCTTAAAACCTTGA+GGG | 0.516211 | 4.3:-18384570 | None:intergenic |
| ACATCAGGAGAAATGACAAC+AGG | 0.519996 | 4.3:-18384520 | None:intergenic |
| CAAGCTCAGTGGTACAAACT+GGG | 0.522401 | 4.3:-18383895 | None:intergenic |
| TCAAGGGCTCTTCATATTGT+GGG | 0.523725 | 4.3:+18384273 | MS.gene023201:CDS |
| TGTTCCTCCCAGTTGTTGCA+GGG | 0.527210 | 4.3:-18384411 | None:intergenic |
| TTCTGTACCCTGCAACAACT+GGG | 0.528210 | 4.3:+18384404 | MS.gene023201:CDS |
| GAATTGTGTCACCTATAGTA+AGG | 0.528944 | 4.3:-18383775 | None:intergenic |
| CCAGTTTGTACCACTGAGCT+TGG | 0.529958 | 4.3:+18383896 | MS.gene023201:CDS |
| TCAAAACTAGAAAATATGCC+AGG | 0.532876 | 4.3:+18383752 | None:intergenic |
| CAAACTGGGGTGAAATCACC+TGG | 0.538828 | 4.3:-18383881 | None:intergenic |
| ATCTAGAATCTCACAAGGAG+TGG | 0.546589 | 4.3:+18383987 | MS.gene023201:CDS |
| CCCCTGCTAACTGGAAGCCA+GGG | 0.547614 | 4.3:+18384494 | MS.gene023201:CDS |
| GTGTCACCTATAGTAAGGCC+TGG | 0.556059 | 4.3:-18383770 | None:intergenic |
| CCCTGGCTTCCAGTTAGCAG+GGG | 0.564511 | 4.3:-18384494 | None:intergenic |
| ATGTATCAGAACAGAAGTGA+TGG | 0.570051 | 4.3:-18383838 | None:intergenic |
| TGTTACCAATGAACAAGCTA+AGG | 0.572171 | 4.3:+18384540 | MS.gene023201:CDS |
| TATTGTGGGACCAGATAAGA+AGG | 0.572882 | 4.3:+18384287 | MS.gene023201:CDS |
| GAAATGACAACAGGTTCCCC+TGG | 0.579339 | 4.3:-18384511 | None:intergenic |
| GTAAATGCAGCCAGGTGCAA+AGG | 0.582844 | 4.3:+18384155 | MS.gene023201:intron |
| TGCAACAACTGGGAGGAACA+TGG | 0.585961 | 4.3:+18384414 | MS.gene023201:CDS |
| CCTGATGAGAAAGATTCCAA+TGG | 0.589101 | 4.3:+18384240 | MS.gene023201:CDS |
| TCTGCAGTCTTAAAACCTTG+AGG | 0.590174 | 4.3:-18384571 | None:intergenic |
| GCTAAGGATATGTTCCCTCA+AGG | 0.596047 | 4.3:+18384556 | MS.gene023201:CDS |
| ACCTGGATGAGAGAAGAGAA+TGG | 0.604374 | 4.3:-18383864 | None:intergenic |
| GCAGGCACATTATCAAACAT+TGG | 0.624118 | 4.3:-18384626 | None:intergenic |
| GAACATGGATGAAGTGCTGA+GGG | 0.626828 | 4.3:+18384429 | MS.gene023201:CDS |
| AATCATTAAGCAACTCAACA+TGG | 0.634966 | 4.3:+18384212 | MS.gene023201:CDS |
| GGAACATGGATGAAGTGCTG+AGG | 0.641851 | 4.3:+18384428 | MS.gene023201:CDS |
| CTTGAAGTTGATACTACACA+AGG | 0.656492 | 4.3:+18383803 | MS.gene023201:CDS |
| GCTTCTGAGTTTAACAAACG+AGG | 0.664933 | 4.3:+18383935 | MS.gene023201:CDS |
| AGCCATCTTACCAAGCTCAG+TGG | 0.696126 | 4.3:-18383906 | None:intergenic |
| CCCTGCTAACTGGAAGCCAG+GGG | 0.697213 | 4.3:+18384495 | MS.gene023201:CDS |
| CATGGATGAAGTGCTGAGGG+TGG | 0.707751 | 4.3:+18384432 | MS.gene023201:CDS |
| TGATGATCTAGAATCTCACA+AGG | 0.709676 | 4.3:+18383982 | MS.gene023201:CDS |
| AAGCTCAGTGGTACAAACTG+GGG | 0.712192 | 4.3:-18383894 | None:intergenic |
| TGTACCCTGCAACAACTGGG+AGG | 0.722121 | 4.3:+18384407 | MS.gene023201:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAGAAAATAGGAAAACTTA+CGG | - | chr4.3:18384035-18384054 | None:intergenic | 20.0% |
| !! | ACAAATTAAACCATCATTTA+TGG | - | chr4.3:18384366-18384385 | None:intergenic | 20.0% |
| !! | GAAACATGCATAGAAAATTT+TGG | - | chr4.3:18384074-18384093 | None:intergenic | 25.0% |
| !! | TAAGAAGGTACAAATATCTA+TGG | + | chr4.3:18384302-18384321 | MS.gene023201:intron | 25.0% |
| !! | TGCTTAATGATTTCTCTTTT+GGG | - | chr4.3:18384204-18384223 | None:intergenic | 25.0% |
| !! | TTGCTTAATGATTTCTCTTT+TGG | - | chr4.3:18384205-18384224 | None:intergenic | 25.0% |
| !!! | CTTTTTTCTTCCATAAATGA+TGG | + | chr4.3:18384353-18384372 | MS.gene023201:intron | 25.0% |
| AATCATTAAGCAACTCAACA+TGG | + | chr4.3:18384212-18384231 | MS.gene023201:CDS | 30.0% | |
| ATGCATGTGGAAAAGAAAAT+AGG | - | chr4.3:18384046-18384065 | None:intergenic | 30.0% | |
| CAATGGAAATTTACCATCAA+GGG | + | chr4.3:18384257-18384276 | MS.gene023201:CDS | 30.0% | |
| GATATTTGTACCTTCTTATC+TGG | - | chr4.3:18384300-18384319 | None:intergenic | 30.0% | |
| !!! | CTTTTGGGATCACTAATTAT+TGG | - | chr4.3:18384189-18384208 | None:intergenic | 30.0% |
| !!! | TTTTTTATGTAAATGCAGCC+AGG | + | chr4.3:18384147-18384166 | MS.gene023201:intron | 30.0% |
| ATCACTTCTGTTCTGATACA+TGG | + | chr4.3:18383840-18383859 | MS.gene023201:CDS | 35.0% | |
| ATGTATCAGAACAGAAGTGA+TGG | - | chr4.3:18383841-18383860 | None:intergenic | 35.0% | |
| CCAATGGAAATTTACCATCA+AGG | + | chr4.3:18384256-18384275 | MS.gene023201:CDS | 35.0% | |
| CTTGTGTAGTATCAACTTCA+AGG | - | chr4.3:18383805-18383824 | None:intergenic | 35.0% | |
| GAATTGTGTCACCTATAGTA+AGG | - | chr4.3:18383778-18383797 | None:intergenic | 35.0% | |
| TGTTACCAATGAACAAGCTA+AGG | + | chr4.3:18384540-18384559 | MS.gene023201:CDS | 35.0% | |
| ! | CCTTGATGGTAAATTTCCAT+TGG | - | chr4.3:18384259-18384278 | None:intergenic | 35.0% |
| ! | CTAAGATACTCCTTTTTGGA+TGG | - | chr4.3:18384601-18384620 | None:intergenic | 35.0% |
| ! | GAACCTAAGATACTCCTTTT+TGG | - | chr4.3:18384605-18384624 | None:intergenic | 35.0% |
| ! | TGATGATCTAGAATCTCACA+AGG | + | chr4.3:18383982-18384001 | MS.gene023201:CDS | 35.0% |
| !! | AATTTTGGTATGCATGCATG+TGG | - | chr4.3:18384059-18384078 | None:intergenic | 35.0% |
| !! | CATATCCTTAGCTTGTTCAT+TGG | - | chr4.3:18384548-18384567 | None:intergenic | 35.0% |
| !! | CATCCAAAAAGGAGTATCTT+AGG | + | chr4.3:18384599-18384618 | MS.gene023201:CDS | 35.0% |
| !! | CTTGAAGTTGATACTACACA+AGG | + | chr4.3:18383803-18383822 | MS.gene023201:CDS | 35.0% |
| AAACGAGGAGTTATGCTGTT+AGG | + | chr4.3:18383950-18383969 | MS.gene023201:CDS | 40.0% | |
| ACAATATGAAGAGCCCTTGA+TGG | - | chr4.3:18384273-18384292 | None:intergenic | 40.0% | |
| ACATCAGGAGAAATGACAAC+AGG | - | chr4.3:18384523-18384542 | None:intergenic | 40.0% | |
| ATCAAGGGCTCTTCATATTG+TGG | + | chr4.3:18384272-18384291 | MS.gene023201:CDS | 40.0% | |
| CCATTGGAATCTTTCTCATC+AGG | - | chr4.3:18384243-18384262 | None:intergenic | 40.0% | |
| CCTGATGAGAAAGATTCCAA+TGG | + | chr4.3:18384240-18384259 | MS.gene023201:CDS | 40.0% | |
| CTGCAGTCTTAAAACCTTGA+GGG | - | chr4.3:18384573-18384592 | None:intergenic | 40.0% | |
| GCTTCTGAGTTTAACAAACG+AGG | + | chr4.3:18383935-18383954 | MS.gene023201:CDS | 40.0% | |
| GTAGTATCAACTTCAAGGTC+AGG | - | chr4.3:18383800-18383819 | None:intergenic | 40.0% | |
| TATTGTGGGACCAGATAAGA+AGG | + | chr4.3:18384287-18384306 | MS.gene023201:CDS | 40.0% | |
| TCAAGGGCTCTTCATATTGT+GGG | + | chr4.3:18384273-18384292 | MS.gene023201:CDS | 40.0% | |
| TCTGCAGTCTTAAAACCTTG+AGG | - | chr4.3:18384574-18384593 | None:intergenic | 40.0% | |
| TGCAGATCTTCCATCCAAAA+AGG | + | chr4.3:18384588-18384607 | MS.gene023201:CDS | 40.0% | |
| ! | ATCTAGAATCTCACAAGGAG+TGG | + | chr4.3:18383987-18384006 | MS.gene023201:CDS | 40.0% |
| ! | GCTTGTTCATTGGTAACATC+AGG | - | chr4.3:18384538-18384557 | None:intergenic | 40.0% |
| AAATTGCAACCCCTGCTAAC+TGG | + | chr4.3:18384485-18384504 | MS.gene023201:CDS | 45.0% | |
| AAGCTCAGTGGTACAAACTG+GGG | - | chr4.3:18383897-18383916 | None:intergenic | 45.0% | |
| ACCATTCTCTTCTCTCATCC+AGG | + | chr4.3:18383863-18383882 | MS.gene023201:CDS | 45.0% | |
| ACCTGGATGAGAGAAGAGAA+TGG | - | chr4.3:18383867-18383886 | None:intergenic | 45.0% | |
| CAAGCTCAGTGGTACAAACT+GGG | - | chr4.3:18383898-18383917 | None:intergenic | 45.0% | |
| GCTAAGGATATGTTCCCTCA+AGG | + | chr4.3:18384556-18384575 | MS.gene023201:CDS | 45.0% | |
| TACCACTGAGCTTGGTAAGA+TGG | + | chr4.3:18383904-18383923 | MS.gene023201:CDS | 45.0% | |
| TTCTGTACCCTGCAACAACT+GGG | + | chr4.3:18384404-18384423 | MS.gene023201:CDS | 45.0% | |
| TTTCTGTACCCTGCAACAAC+TGG | + | chr4.3:18384403-18384422 | MS.gene023201:CDS | 45.0% | |
| !! | GAACATGGATGAAGTGCTGA+GGG | + | chr4.3:18384429-18384448 | MS.gene023201:CDS | 45.0% |
| !!! | ATTGATAATATTAATTAATT+AGG | + | chr4.3:18384117-18384136 | MS.gene023201:intron | 5.0% |
| AGCCATCTTACCAAGCTCAG+TGG | - | chr4.3:18383909-18383928 | None:intergenic | 50.0% | |
| ATGTTCCTCCCAGTTGTTGC+AGG | - | chr4.3:18384415-18384434 | None:intergenic | 50.0% | |
| CAAACTGGGGTGAAATCACC+TGG | - | chr4.3:18383884-18383903 | None:intergenic | 50.0% | |
| CCAAGCTCAGTGGTACAAAC+TGG | - | chr4.3:18383899-18383918 | None:intergenic | 50.0% | |
| CCAGTTTGTACCACTGAGCT+TGG | + | chr4.3:18383896-18383915 | MS.gene023201:CDS | 50.0% | |
| GAAATGACAACAGGTTCCCC+TGG | - | chr4.3:18384514-18384533 | None:intergenic | 50.0% | |
| GGATAGTTCACCTTTGCACC+TGG | - | chr4.3:18384168-18384187 | None:intergenic | 50.0% | |
| GTAAATGCAGCCAGGTGCAA+AGG | + | chr4.3:18384155-18384174 | MS.gene023201:intron | 50.0% | |
| GTGTCACCTATAGTAAGGCC+TGG | - | chr4.3:18383773-18383792 | None:intergenic | 50.0% | |
| TGCAACAACTGGGAGGAACA+TGG | + | chr4.3:18384414-18384433 | MS.gene023201:CDS | 50.0% | |
| TGTTCCTCCCAGTTGTTGCA+GGG | - | chr4.3:18384414-18384433 | None:intergenic | 50.0% | |
| !! | GGAACATGGATGAAGTGCTG+AGG | + | chr4.3:18384428-18384447 | MS.gene023201:CDS | 50.0% |
| TGTACCCTGCAACAACTGGG+AGG | + | chr4.3:18384407-18384426 | MS.gene023201:CDS | 55.0% | |
| !! | CATGGATGAAGTGCTGAGGG+TGG | + | chr4.3:18384432-18384451 | MS.gene023201:CDS | 55.0% |
| ACCCCTGCTAACTGGAAGCC+AGG | + | chr4.3:18384493-18384512 | MS.gene023201:CDS | 60.0% | |
| CCCCTGCTAACTGGAAGCCA+GGG | + | chr4.3:18384494-18384513 | MS.gene023201:CDS | 60.0% | |
| CCCCTGGCTTCCAGTTAGCA+GGG | - | chr4.3:18384498-18384517 | None:intergenic | 60.0% | |
| CCCTGCTAACTGGAAGCCAG+GGG | + | chr4.3:18384495-18384514 | MS.gene023201:CDS | 60.0% | |
| CCCTGGCTTCCAGTTAGCAG+GGG | - | chr4.3:18384497-18384516 | None:intergenic | 60.0% | |
| TCCCCTGGCTTCCAGTTAGC+AGG | - | chr4.3:18384499-18384518 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 18383767 | 18384636 | 18383767 | ID=MS.gene023201 |
| chr4.3 | mRNA | 18383767 | 18384636 | 18383767 | ID=MS.gene023201.t1;Parent=MS.gene023201 |
| chr4.3 | exon | 18383767 | 18384033 | 18383767 | ID=MS.gene023201.t1.exon1;Parent=MS.gene023201.t1 |
| chr4.3 | CDS | 18383767 | 18384033 | 18383767 | ID=cds.MS.gene023201.t1;Parent=MS.gene023201.t1 |
| chr4.3 | exon | 18384165 | 18384308 | 18384165 | ID=MS.gene023201.t1.exon2;Parent=MS.gene023201.t1 |
| chr4.3 | CDS | 18384165 | 18384308 | 18384165 | ID=cds.MS.gene023201.t1;Parent=MS.gene023201.t1 |
| chr4.3 | exon | 18384391 | 18384636 | 18384391 | ID=MS.gene023201.t1.exon3;Parent=MS.gene023201.t1 |
| chr4.3 | CDS | 18384391 | 18384636 | 18384391 | ID=cds.MS.gene023201.t1;Parent=MS.gene023201.t1 |
| Gene Sequence |
| Protein sequence |
