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.gene85079.t1 | XP_013461666.1 | 87.1 | 85 | 11 | 0 | 1 | 85 | 1 | 85 | 6.50E-33 | 149.8 |
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.gene85079.t1 | A0A072V1Y3 | 87.1 | 85 | 11 | 0 | 1 | 85 | 1 | 85 | 4.7e-33 | 149.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049853 | MS.gene85079 | 0.813809 | 2.12E-51 | -1.69E-46 |
| MS.gene050430 | MS.gene85079 | 0.81448 | 1.51E-51 | -1.69E-46 |
| MS.gene052447 | MS.gene85079 | 0.824199 | 9.19E-54 | -1.69E-46 |
| MS.gene054174 | MS.gene85079 | 0.844881 | 5.74E-59 | -1.69E-46 |
| MS.gene054175 | MS.gene85079 | 0.832903 | 7.25E-56 | -1.69E-46 |
| MS.gene055058 | MS.gene85079 | 0.847552 | 1.08E-59 | -1.69E-46 |
| MS.gene058515 | MS.gene85079 | 0.838234 | 3.25E-57 | -1.69E-46 |
| MS.gene059276 | MS.gene85079 | 0.807954 | 3.93E-50 | -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.gene85079.t1 | MTR_3g498865 | 96.471 | 85 | 3 | 0 | 1 | 85 | 1 | 85 | 6.27e-54 | 167 |
| MS.gene85079.t1 | MTR_8g099820 | 56.383 | 94 | 30 | 3 | 1 | 85 | 1 | 92 | 9.21e-25 | 94.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 38 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGTTGCTCCGCCGTTTATT+TGG | 0.233205 | 4.2:+66998713 | None:intergenic |
| AACACCGACGGTGTAATTAT+TGG | 0.331686 | 4.2:-66998468 | MS.gene85079:CDS |
| AAATCATGGCGATTCGGCTT+CGG | 0.384660 | 4.2:-66998574 | MS.gene85079:CDS |
| GGTCTCCGATGTCGCCTAAT+CGG | 0.413080 | 4.2:+66998629 | None:intergenic |
| TCTACGTCTTCCATCGAAAT+CGG | 0.426961 | 4.2:+66998495 | None:intergenic |
| CCGCCGTTTATTTGGACCTC+CGG | 0.440203 | 4.2:+66998721 | None:intergenic |
| TTCGGCTTCGGCAACGTCTC+AGG | 0.441191 | 4.2:-66998562 | MS.gene85079:CDS |
| CCACCGGAGGTCCAAATAAA+CGG | 0.460030 | 4.2:-66998724 | MS.gene85079:CDS |
| TTCGATCCGTGAGGTTCTGA+AGG | 0.475990 | 4.2:+66998673 | None:intergenic |
| AGTTCAAAATCATGGCGATT+CGG | 0.480998 | 4.2:-66998580 | MS.gene85079:CDS |
| TCCTTTGACTAATTTGACTT+CGG | 0.489059 | 4.2:-66998521 | MS.gene85079:CDS |
| CGCCTAATCGGACGCTGGGT+CGG | 0.497118 | 4.2:+66998641 | None:intergenic |
| GCGGCGAGGGTGGGAATCAG+AGG | 0.498456 | 4.2:+66998603 | None:intergenic |
| CTCGCCGCAGTTCAAAATCA+TGG | 0.500043 | 4.2:-66998588 | MS.gene85079:CDS |
| AATAATTACACCGTCGGTGT+TGG | 0.505458 | 4.2:+66998470 | None:intergenic |
| TTTATTTGGACCTCCGGTGG+CGG | 0.518429 | 4.2:+66998727 | None:intergenic |
| GATGTCGCCTAATCGGACGC+TGG | 0.529379 | 4.2:+66998636 | None:intergenic |
| ATGTCGCCTAATCGGACGCT+GGG | 0.537206 | 4.2:+66998637 | None:intergenic |
| AATGGAAGAGGTTCCGCCAC+CGG | 0.544579 | 4.2:-66998740 | MS.gene85079:CDS |
| ACTTCGGTTTCCGATTTCGA+TGG | 0.557292 | 4.2:-66998505 | MS.gene85079:CDS |
| TCGATCCGTGAGGTTCTGAA+GGG | 0.559702 | 4.2:+66998674 | None:intergenic |
| CACCGACCCAGCGTCCGATT+AGG | 0.565703 | 4.2:-66998643 | MS.gene85079:CDS |
| GTCAAAGGACGAGTCTTCGA+GGG | 0.574010 | 4.2:+66998535 | None:intergenic |
| CCGTTTATTTGGACCTCCGG+TGG | 0.575464 | 4.2:+66998724 | None:intergenic |
| ACCGAAGTCAAATTAGTCAA+AGG | 0.587213 | 4.2:+66998520 | None:intergenic |
| CGGCGAGGGTGGGAATCAGA+GGG | 0.591797 | 4.2:+66998604 | None:intergenic |
| GAGGGTGGGAATCAGAGGGT+TGG | 0.602586 | 4.2:+66998608 | None:intergenic |
| GAAACGGAAGAAAATGGAAG+AGG | 0.606203 | 4.2:-66998752 | None:intergenic |
| AGTCAAAGGACGAGTCTTCG+AGG | 0.613303 | 4.2:+66998534 | None:intergenic |
| GGAAGAGGTTCCGCCACCGG+AGG | 0.617458 | 4.2:-66998737 | MS.gene85079:CDS |
| CGATCCGTGAGGTTCTGAAG+GGG | 0.626502 | 4.2:+66998675 | None:intergenic |
| AGCGTCCGATTAGGCGACAT+CGG | 0.639876 | 4.2:-66998634 | MS.gene85079:CDS |
| GATCCGTGAGGTTCTGAAGG+GGG | 0.654909 | 4.2:+66998676 | None:intergenic |
| GCTACCAATAATTACACCGT+CGG | 0.667969 | 4.2:+66998464 | None:intergenic |
| GACGTAGAAACCAACACCGA+CGG | 0.675808 | 4.2:-66998480 | MS.gene85079:CDS |
| CAGAACCTCACGGATCGAAG+CGG | 0.686667 | 4.2:-66998669 | MS.gene85079:CDS |
| TGTTGCCGCTTCGATCCGTG+AGG | 0.714492 | 4.2:+66998664 | None:intergenic |
| CCGGAGGTCCAAATAAACGG+CGG | 0.738172 | 4.2:-66998721 | MS.gene85079:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TCCTTTGACTAATTTGACTT+CGG | - | chr4.2:66998683-66998702 | MS.gene85079:CDS | 30.0% |
| ACCGAAGTCAAATTAGTCAA+AGG | + | chr4.2:66998687-66998706 | None:intergenic | 35.0% | |
| AGTTCAAAATCATGGCGATT+CGG | - | chr4.2:66998624-66998643 | MS.gene85079:CDS | 35.0% | |
| AACACCGACGGTGTAATTAT+TGG | - | chr4.2:66998736-66998755 | MS.gene85079:CDS | 40.0% | |
| AATAATTACACCGTCGGTGT+TGG | + | chr4.2:66998737-66998756 | None:intergenic | 40.0% | |
| TCTACGTCTTCCATCGAAAT+CGG | + | chr4.2:66998712-66998731 | None:intergenic | 40.0% | |
| ! | ATCGCCATGATTTTGAACTG+CGG | + | chr4.2:66998623-66998642 | None:intergenic | 40.0% |
| ACTTCGGTTTCCGATTTCGA+TGG | - | chr4.2:66998699-66998718 | MS.gene85079:CDS | 45.0% | |
| ! | AAATCATGGCGATTCGGCTT+CGG | - | chr4.2:66998630-66998649 | MS.gene85079:CDS | 45.0% |
| ! | ATGATTTTGAACTGCGGCGA+GGG | + | chr4.2:66998617-66998636 | None:intergenic | 45.0% |
| AGTCAAAGGACGAGTCTTCG+AGG | + | chr4.2:66998673-66998692 | None:intergenic | 50.0% | |
| CCACCGGAGGTCCAAATAAA+CGG | - | chr4.2:66998480-66998499 | MS.gene85079:CDS | 50.0% | |
| CTCGCCGCAGTTCAAAATCA+TGG | - | chr4.2:66998616-66998635 | MS.gene85079:CDS | 50.0% | |
| GACGTAGAAACCAACACCGA+CGG | - | chr4.2:66998724-66998743 | MS.gene85079:CDS | 50.0% | |
| GTCAAAGGACGAGTCTTCGA+GGG | + | chr4.2:66998672-66998691 | None:intergenic | 50.0% | |
| TCGTTGCTCCGCCGTTTATT+TGG | + | chr4.2:66998494-66998513 | None:intergenic | 50.0% | |
| TTTATTTGGACCTCCGGTGG+CGG | + | chr4.2:66998480-66998499 | None:intergenic | 50.0% | |
| ! | CATGATTTTGAACTGCGGCG+AGG | + | chr4.2:66998618-66998637 | None:intergenic | 50.0% |
| ! | TTCGATCCGTGAGGTTCTGA+AGG | + | chr4.2:66998534-66998553 | None:intergenic | 50.0% |
| !! | TCGATCCGTGAGGTTCTGAA+GGG | + | chr4.2:66998533-66998552 | None:intergenic | 50.0% |
| AGCGTCCGATTAGGCGACAT+CGG | - | chr4.2:66998570-66998589 | MS.gene85079:CDS | 55.0% | |
| ATGTCGCCTAATCGGACGCT+GGG | + | chr4.2:66998570-66998589 | None:intergenic | 55.0% | |
| CAGAACCTCACGGATCGAAG+CGG | - | chr4.2:66998535-66998554 | MS.gene85079:CDS | 55.0% | |
| CCGCCGTTTATTTGGACCTC+CGG | + | chr4.2:66998486-66998505 | None:intergenic | 55.0% | |
| CCGGAGGTCCAAATAAACGG+CGG | - | chr4.2:66998483-66998502 | MS.gene85079:CDS | 55.0% | |
| CCGTTTATTTGGACCTCCGG+TGG | + | chr4.2:66998483-66998502 | None:intergenic | 55.0% | |
| CTACCCCCTTCAGAACCTCA+CGG | - | chr4.2:66998525-66998544 | MS.gene85079:CDS | 55.0% | |
| GGTCTCCGATGTCGCCTAAT+CGG | + | chr4.2:66998578-66998597 | None:intergenic | 55.0% | |
| ! | ATTTTGAACTGCGGCGAGGG+TGG | + | chr4.2:66998614-66998633 | None:intergenic | 55.0% |
| ! | TTTTGAACTGCGGCGAGGGT+GGG | + | chr4.2:66998613-66998632 | None:intergenic | 55.0% |
| !! | CGATCCGTGAGGTTCTGAAG+GGG | + | chr4.2:66998532-66998551 | None:intergenic | 55.0% |
| !! | GATCCGTGAGGTTCTGAAGG+GGG | + | chr4.2:66998531-66998550 | None:intergenic | 55.0% |
| GAGGGTGGGAATCAGAGGGT+TGG | + | chr4.2:66998599-66998618 | None:intergenic | 60.0% | |
| GATGTCGCCTAATCGGACGC+TGG | + | chr4.2:66998571-66998590 | None:intergenic | 60.0% | |
| TTCGGCTTCGGCAACGTCTC+AGG | - | chr4.2:66998642-66998661 | MS.gene85079:CDS | 60.0% | |
| ! | TGTTGCCGCTTCGATCCGTG+AGG | + | chr4.2:66998543-66998562 | None:intergenic | 60.0% |
| CACCGACCCAGCGTCCGATT+AGG | - | chr4.2:66998561-66998580 | MS.gene85079:CDS | 65.0% | |
| CGCCTAATCGGACGCTGGGT+CGG | + | chr4.2:66998566-66998585 | None:intergenic | 65.0% | |
| CGGCGAGGGTGGGAATCAGA+GGG | + | chr4.2:66998603-66998622 | None:intergenic | 65.0% | |
| GCGGCGAGGGTGGGAATCAG+AGG | + | chr4.2:66998604-66998623 | None:intergenic | 70.0% | |
| GGAAGAGGTTCCGCCACCGG+AGG | - | chr4.2:66998467-66998486 | MS.gene85079:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 66998465 | 66998761 | 66998465 | ID=MS.gene85079 |
| chr4.2 | mRNA | 66998465 | 66998761 | 66998465 | ID=MS.gene85079.t1;Parent=MS.gene85079 |
| chr4.2 | exon | 66998465 | 66998761 | 66998465 | ID=MS.gene85079.t1.exon1;Parent=MS.gene85079.t1 |
| chr4.2 | CDS | 66998465 | 66998761 | 66998465 | ID=cds.MS.gene85079.t1;Parent=MS.gene85079.t1 |
| Gene Sequence |
| Protein sequence |
