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.gene059501.t1 | XP_003607897.1 | 98.3 | 120 | 2 | 0 | 1 | 120 | 1 | 120 | 5.80E-60 | 240 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene059501.t1 | Q8GY89 | 76.7 | 120 | 28 | 0 | 1 | 120 | 1 | 120 | 7.5e-48 | 191.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene059501.t1 | Q2MGR0 | 98.3 | 120 | 2 | 0 | 1 | 120 | 1 | 120 | 4.2e-60 | 240.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene059498 | MS.gene059501 | 0.989072 | 1.42E-176 | -1.69E-46 |
| MS.gene059499 | MS.gene059501 | 0.80601 | 1.01E-49 | -1.69E-46 |
| MS.gene059501 | MS.gene059502 | 0.80688 | 6.63E-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.gene059501.t1 | MTR_4g084180 | 98.333 | 120 | 2 | 0 | 1 | 120 | 1 | 120 | 4.67e-85 | 243 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene059501.t1 | AT1G31170 | 76.667 | 120 | 28 | 0 | 1 | 120 | 1 | 120 | 1.24e-54 | 167 |
| MS.gene059501.t1 | AT1G31170 | 76.667 | 120 | 28 | 0 | 1 | 120 | 1 | 120 | 1.95e-54 | 166 |
| MS.gene059501.t1 | AT1G31170 | 76.667 | 120 | 28 | 0 | 1 | 120 | 1 | 120 | 1.95e-54 | 166 |
| MS.gene059501.t1 | AT1G31170 | 76.667 | 120 | 28 | 0 | 1 | 120 | 1 | 120 | 1.20e-53 | 167 |
| MS.gene059501.t1 | AT1G31170 | 75.000 | 120 | 28 | 1 | 1 | 120 | 1 | 118 | 9.44e-51 | 157 |
Find 32 sgRNAs with CRISPR-Local
Find 103 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAAAATTTAGGGGCTCTTTC+TGG | 0.208234 | 4.3:+27682630 | MS.gene059501:intron |
| GTGAAACTCCTCAAAGTATT+TGG | 0.243580 | 4.3:-27682484 | None:intergenic |
| GGGGCTCTTTCTGGTGGTTC+TGG | 0.256526 | 4.3:+27682639 | MS.gene059501:intron |
| ATGGATAGTATTAGTGAAAT+TGG | 0.282662 | 4.3:+27682765 | MS.gene059501:CDS |
| AAACAAAGTTCAAGAACTTA+TGG | 0.307753 | 4.3:+27682746 | MS.gene059501:CDS |
| CTTGTGGTCGTAGGTTTCTC+TGG | 0.347484 | 4.3:+27684047 | MS.gene059501:intron |
| CTTTCTGGTGGTTCTGGAAG+TGG | 0.365172 | 4.3:+27682645 | MS.gene059501:CDS |
| TGGTGTGGGTCCAGTGATAC+TGG | 0.431666 | 4.3:+27682668 | MS.gene059501:CDS |
| GTGGCACAAAAGAGACTCTA+AGG | 0.431947 | 4.3:+27684132 | MS.gene059501:CDS |
| AAATGAGTGATGCACCATTA+GGG | 0.432228 | 4.3:-27682525 | None:intergenic |
| ATTGATGTGCTCGAGGTTGA+TGG | 0.440259 | 4.3:+27683815 | MS.gene059501:CDS |
| GAGGTTGATGGAAACTATTA+TGG | 0.443314 | 4.3:+27683827 | MS.gene059501:CDS |
| GGTTCTGGAAGTGGTGGTGT+GGG | 0.445849 | 4.3:+27682654 | MS.gene059501:CDS |
| CCACCATACGCTGCAAAATA+CGG | 0.452823 | 4.3:+27684108 | MS.gene059501:CDS |
| TGCAGGTTCCAAATACTTTG+AGG | 0.453361 | 4.3:+27682476 | MS.gene059501:CDS |
| TGGTTCTGGAAGTGGTGGTG+TGG | 0.464993 | 4.3:+27682653 | MS.gene059501:CDS |
| TTTGATCTAGTCCTCATCAT+AGG | 0.468493 | 4.3:-27682717 | None:intergenic |
| TCTGCTTCATCCAACCCTAA+TGG | 0.481086 | 4.3:+27682511 | MS.gene059501:CDS |
| TTCCTCTTGATAAGATAAGA+AGG | 0.501249 | 4.3:+27682694 | MS.gene059501:CDS |
| AGAGGAAGTTCCAGTATCAC+TGG | 0.512026 | 4.3:-27682678 | None:intergenic |
| TAGGTTTCTCTGGCTGTCAC+CGG | 0.529110 | 4.3:+27684057 | MS.gene059501:intron |
| TACGAGGCTCACCAGCGACT+TGG | 0.534931 | 4.3:+27684080 | MS.gene059501:CDS |
| AATTTAGGGGCTCTTTCTGG+TGG | 0.550422 | 4.3:+27682633 | MS.gene059501:intron |
| GGCCTTCTTATCTTATCAAG+AGG | 0.554502 | 4.3:-27682696 | None:intergenic |
| GTCGCTGGTGAGCCTCGTAC+CGG | 0.559622 | 4.3:-27684076 | None:intergenic |
| TCTGGTGGTTCTGGAAGTGG+TGG | 0.571088 | 4.3:+27682648 | MS.gene059501:CDS |
| CTCTGGCTGTCACCGGTACG+AGG | 0.572203 | 4.3:+27684064 | MS.gene059501:CDS |
| TGGTGGGGAGTCCAAGTCGC+TGG | 0.572299 | 4.3:-27684091 | None:intergenic |
| AGATAAGAAGGCCTATGATG+AGG | 0.627844 | 4.3:+27682706 | MS.gene059501:CDS |
| GAGTGATGCACCATTAGGGT+TGG | 0.637639 | 4.3:-27682521 | None:intergenic |
| ATACGCTGCAAAATACGGCG+TGG | 0.718853 | 4.3:+27684113 | MS.gene059501:CDS |
| GATGCAGATTGATGTGCTCG+AGG | 0.724443 | 4.3:+27683808 | MS.gene059501:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATAATTATTTTTAAAATTT+AGG | + | chr4.3:27682618-27682637 | MS.gene059501:intron | 0.0% |
| !!! | ATAATTATTTTTAAAATTTA+GGG | + | chr4.3:27682619-27682638 | MS.gene059501:intron | 0.0% |
| !!! | TGATTTCTTATTCTTTTTTT+TGG | - | chr4.3:27683387-27683406 | None:intergenic | 15.0% |
| !!! | TTACTTTTCTAAATTTTGTA+TGG | + | chr4.3:27683853-27683872 | MS.gene059501:intron | 15.0% |
| !!! | TTATTTTAACAAAAAAGAGT+AGG | - | chr4.3:27683732-27683751 | None:intergenic | 15.0% |
| !!! | TTTTGATCTAAATATTTCAT+TGG | - | chr4.3:27683211-27683230 | None:intergenic | 15.0% |
| !! | AAATGAATATTAGAACCTTA+AGG | - | chr4.3:27682918-27682937 | None:intergenic | 20.0% |
| !! | AATGAATATTAGAACCTTAA+GGG | - | chr4.3:27682917-27682936 | None:intergenic | 20.0% |
| !! | AGAAATATATAAACTCCAAA+AGG | - | chr4.3:27682854-27682873 | None:intergenic | 20.0% |
| !! | CTATATAATTATTCTGTGAT+GGG | + | chr4.3:27683551-27683570 | MS.gene059501:intron | 20.0% |
| !! | TCTATATAATTATTCTGTGA+TGG | + | chr4.3:27683550-27683569 | MS.gene059501:intron | 20.0% |
| !! | TTAATATCAAAGAAAATGAC+AGG | - | chr4.3:27683156-27683175 | None:intergenic | 20.0% |
| !!! | CAAAATCTATTTATACCTTT+TGG | + | chr4.3:27682836-27682855 | MS.gene059501:intron | 20.0% |
| !!! | CTTTGTTAGACTTTTTTTTT+AGG | + | chr4.3:27682947-27682966 | MS.gene059501:intron | 20.0% |
| ! | AAACAAAGTTCAAGAACTTA+TGG | + | chr4.3:27682746-27682765 | MS.gene059501:CDS | 25.0% |
| ! | AGTCATATACAATACAGTTA+TGG | + | chr4.3:27683003-27683022 | MS.gene059501:intron | 25.0% |
| ! | ATATTAATCTTTGTAGCTGA+GGG | + | chr4.3:27683169-27683188 | MS.gene059501:intron | 25.0% |
| ! | ATGAATATTAGAACCTTAAG+GGG | - | chr4.3:27682916-27682935 | None:intergenic | 25.0% |
| ! | ATGGATAGTATTAGTGAAAT+TGG | + | chr4.3:27682765-27682784 | MS.gene059501:CDS | 25.0% |
| ! | ATTGTTTATAGTGATAAGCA+CGG | - | chr4.3:27683920-27683939 | None:intergenic | 25.0% |
| ! | TAATTACATGTGTGAGTATT+AGG | + | chr4.3:27683064-27683083 | MS.gene059501:intron | 25.0% |
| ! | TACAATACAGTTATGGAAAA+TGG | + | chr4.3:27683010-27683029 | MS.gene059501:intron | 25.0% |
| ! | TTCATCAAAATTATCTTGCT+CGG | + | chr4.3:27683760-27683779 | MS.gene059501:intron | 25.0% |
| !! | ATGTCGATTATATTATCTTG+TGG | + | chr4.3:27684031-27684050 | MS.gene059501:intron | 25.0% |
| !!! | AGTTCTATTGTTTTGAAAGT+GGG | + | chr4.3:27683424-27683443 | MS.gene059501:intron | 25.0% |
| !!! | TAGTTCTATTGTTTTGAAAG+TGG | + | chr4.3:27683423-27683442 | MS.gene059501:intron | 25.0% |
| AGACCTAGAGAAAATGATAA+AGG | - | chr4.3:27683236-27683255 | None:intergenic | 30.0% | |
| ATAGAAATTGTTGACACACA+GGG | - | chr4.3:27683271-27683290 | None:intergenic | 30.0% | |
| ATCTCAATAGTATTCAACAG+TGG | - | chr4.3:27683591-27683610 | None:intergenic | 30.0% | |
| ATTTAAAGAGAATCCCCTTA+AGG | + | chr4.3:27682900-27682919 | MS.gene059501:intron | 30.0% | |
| GATATTAATCTTTGTAGCTG+AGG | + | chr4.3:27683168-27683187 | MS.gene059501:intron | 30.0% | |
| TACAGTGAAAATAGCTATAG+TGG | - | chr4.3:27683520-27683539 | None:intergenic | 30.0% | |
| TCTCAATAGTATTCAACAGT+GGG | - | chr4.3:27683590-27683609 | None:intergenic | 30.0% | |
| TGTGTCAACAATTTCTATGT+TGG | + | chr4.3:27683273-27683292 | MS.gene059501:intron | 30.0% | |
| TTATATTATCTTGTGGTCGT+AGG | + | chr4.3:27684038-27684057 | MS.gene059501:intron | 30.0% | |
| TTCCTCTTGATAAGATAAGA+AGG | + | chr4.3:27682694-27682713 | MS.gene059501:CDS | 30.0% | |
| ! | AGACCTTTATCATTTTCTCT+AGG | + | chr4.3:27683230-27683249 | MS.gene059501:intron | 30.0% |
| ! | TATCATTTTCTCTAGGTCTT+AGG | + | chr4.3:27683237-27683256 | MS.gene059501:intron | 30.0% |
| !!! | GTTCTATTGTTTTGAAAGTG+GGG | + | chr4.3:27683425-27683444 | MS.gene059501:intron | 30.0% |
| AAAATGAGTGATGCACCATT+AGG | - | chr4.3:27682529-27682548 | None:intergenic | 35.0% | |
| AAATGAGTGATGCACCATTA+GGG | - | chr4.3:27682528-27682547 | None:intergenic | 35.0% | |
| AAGAGAGAGTAAGTGATTAC+AGG | - | chr4.3:27682801-27682820 | None:intergenic | 35.0% | |
| AATTGGTCAGTAGTTAGAGA+TGG | + | chr4.3:27683472-27683491 | MS.gene059501:intron | 35.0% | |
| ACAGTATCCCTTAACAAACA+GGG | - | chr4.3:27683634-27683653 | None:intergenic | 35.0% | |
| CATAGAAATTGTTGACACAC+AGG | - | chr4.3:27683272-27683291 | None:intergenic | 35.0% | |
| GGGGATTCTCTTTAAATTCA+TGG | - | chr4.3:27682897-27682916 | None:intergenic | 35.0% | |
| TAAAATTTAGGGGCTCTTTC+TGG | + | chr4.3:27682630-27682649 | MS.gene059501:intron | 35.0% | |
| TGTGTGCATGCAATCAAAAT+TGG | + | chr4.3:27683455-27683474 | MS.gene059501:intron | 35.0% | |
| TTAGACACACCTTTAATCTC+AGG | + | chr4.3:27683093-27683112 | MS.gene059501:intron | 35.0% | |
| TTTGATCTAGTCCTCATCAT+AGG | - | chr4.3:27682720-27682739 | None:intergenic | 35.0% | |
| ! | ACTTATGACCCTGTTTGTTA+AGG | + | chr4.3:27683623-27683642 | MS.gene059501:intron | 35.0% |
| ! | CTTATGACCCTGTTTGTTAA+GGG | + | chr4.3:27683624-27683643 | MS.gene059501:intron | 35.0% |
| ! | GTGAAACTCCTCAAAGTATT+TGG | - | chr4.3:27682487-27682506 | None:intergenic | 35.0% |
| !! | GAGGTTGATGGAAACTATTA+TGG | + | chr4.3:27683827-27683846 | MS.gene059501:CDS | 35.0% |
| AGATAAGAAGGCCTATGATG+AGG | + | chr4.3:27682706-27682725 | MS.gene059501:CDS | 40.0% | |
| AGTGGTAGTTTAATCAGCAG+AGG | - | chr4.3:27683502-27683521 | None:intergenic | 40.0% | |
| ATCGACATAGTGAGATTCCA+CGG | - | chr4.3:27684019-27684038 | None:intergenic | 40.0% | |
| CACAGTATCCCTTAACAAAC+AGG | - | chr4.3:27683635-27683654 | None:intergenic | 40.0% | |
| GCTGAATTGAAGCTAGAGTA+TGG | - | chr4.3:27683304-27683323 | None:intergenic | 40.0% | |
| GGCCTTCTTATCTTATCAAG+AGG | - | chr4.3:27682699-27682718 | None:intergenic | 40.0% | |
| GTGTATCCAACTATGTAGCA+CGG | - | chr4.3:27683122-27683141 | None:intergenic | 40.0% | |
| TAATCTTTGTAGCTGAGGGT+TGG | + | chr4.3:27683173-27683192 | MS.gene059501:intron | 40.0% | |
| TGCAGGTTCCAAATACTTTG+AGG | + | chr4.3:27682476-27682495 | MS.gene059501:CDS | 40.0% | |
| TTTCAAGATTCTGCTAACCG+TGG | + | chr4.3:27683999-27684018 | MS.gene059501:intron | 40.0% | |
| AATTTAGGGGCTCTTTCTGG+TGG | + | chr4.3:27682633-27682652 | MS.gene059501:intron | 45.0% | |
| AGAGGAAGTTCCAGTATCAC+TGG | - | chr4.3:27682681-27682700 | None:intergenic | 45.0% | |
| ATTGATGTGCTCGAGGTTGA+TGG | + | chr4.3:27683815-27683834 | MS.gene059501:CDS | 45.0% | |
| CCACCATACGCTGCAAAATA+CGG | + | chr4.3:27684108-27684127 | MS.gene059501:CDS | 45.0% | |
| TCTGCTTCATCCAACCCTAA+TGG | + | chr4.3:27682511-27682530 | MS.gene059501:CDS | 45.0% | |
| ! | ATTCAAAGACCGACTAGTCC+AGG | - | chr4.3:27683355-27683374 | None:intergenic | 45.0% |
| ! | CGTATTTTGCAGCGTATGGT+GGG | - | chr4.3:27684110-27684129 | None:intergenic | 45.0% |
| ! | GTATTTTGCAGCGTATGGTG+GGG | - | chr4.3:27684109-27684128 | None:intergenic | 45.0% |
| ! | TTCAAAGACCGACTAGTCCA+GGG | - | chr4.3:27683354-27683373 | None:intergenic | 45.0% |
| !!! | TAATTATTTTTAAAATTTAG+GGG | + | chr4.3:27682620-27682639 | MS.gene059501:intron | 5.0% |
| ACCAATCCACCGTGCACTAA+CGG | - | chr4.3:27683330-27683349 | None:intergenic | 50.0% | |
| AGGTGTCCGTGCTACATAGT+TGG | + | chr4.3:27683113-27683132 | MS.gene059501:intron | 50.0% | |
| ATACGCTGCAAAATACGGCG+TGG | + | chr4.3:27684113-27684132 | MS.gene059501:CDS | 50.0% | |
| CTTGTGGTCGTAGGTTTCTC+TGG | + | chr4.3:27684047-27684066 | MS.gene059501:intron | 50.0% | |
| GAGTGATGCACCATTAGGGT+TGG | - | chr4.3:27682524-27682543 | None:intergenic | 50.0% | |
| GATGCAGATTGATGTGCTCG+AGG | + | chr4.3:27683808-27683827 | MS.gene059501:intron | 50.0% | |
| GCACGGACACCTGAGATTAA+AGG | - | chr4.3:27683105-27683124 | None:intergenic | 50.0% | |
| TAGGTTTCTCTGGCTGTCAC+CGG | + | chr4.3:27684057-27684076 | MS.gene059501:intron | 50.0% | |
| ! | ACGCCGTATTTTGCAGCGTA+TGG | - | chr4.3:27684114-27684133 | None:intergenic | 50.0% |
| ! | CCGTATTTTGCAGCGTATGG+TGG | - | chr4.3:27684111-27684130 | None:intergenic | 50.0% |
| !! | CTTTCTGGTGGTTCTGGAAG+TGG | + | chr4.3:27682645-27682664 | MS.gene059501:CDS | 50.0% |
| !! | GATTGGTACCCTGGACTAGT+CGG | + | chr4.3:27683343-27683362 | MS.gene059501:intron | 50.0% |
| AATCCACCGTGCACTAACGG+GGG | - | chr4.3:27683327-27683346 | None:intergenic | 55.0% | |
| CAATCCACCGTGCACTAACG+GGG | - | chr4.3:27683328-27683347 | None:intergenic | 55.0% | |
| CCAATCCACCGTGCACTAAC+GGG | - | chr4.3:27683329-27683348 | None:intergenic | 55.0% | |
| TGGTGTGGGTCCAGTGATAC+TGG | + | chr4.3:27682668-27682687 | MS.gene059501:CDS | 55.0% | |
| !! | GGTTCTGGAAGTGGTGGTGT+GGG | + | chr4.3:27682654-27682673 | MS.gene059501:CDS | 55.0% |
| !! | TCTGGTGGTTCTGGAAGTGG+TGG | + | chr4.3:27682648-27682667 | MS.gene059501:CDS | 55.0% |
| !! | TGGTTCTGGAAGTGGTGGTG+TGG | + | chr4.3:27682653-27682672 | MS.gene059501:CDS | 55.0% |
| ATCCACCGTGCACTAACGGG+GGG | - | chr4.3:27683326-27683345 | None:intergenic | 60.0% | |
| CCCGTTAGTGCACGGTGGAT+TGG | + | chr4.3:27683326-27683345 | MS.gene059501:intron | 60.0% | |
| TACGAGGCTCACCAGCGACT+TGG | + | chr4.3:27684080-27684099 | MS.gene059501:CDS | 60.0% | |
| TTCAGCCCCCCGTTAGTGCA+CGG | + | chr4.3:27683318-27683337 | MS.gene059501:intron | 60.0% | |
| ! | GGGGCTCTTTCTGGTGGTTC+TGG | + | chr4.3:27682639-27682658 | MS.gene059501:intron | 60.0% |
| !! | TGCACGGTGGATTGGTACCC+TGG | + | chr4.3:27683334-27683353 | MS.gene059501:intron | 60.0% |
| CTCTGGCTGTCACCGGTACG+AGG | + | chr4.3:27684064-27684083 | MS.gene059501:CDS | 65.0% | |
| GTCGCTGGTGAGCCTCGTAC+CGG | - | chr4.3:27684079-27684098 | None:intergenic | 65.0% | |
| TGGTGGGGAGTCCAAGTCGC+TGG | - | chr4.3:27684094-27684113 | None:intergenic | 65.0% | |
| AGCCCCCCGTTAGTGCACGG+TGG | + | chr4.3:27683321-27683340 | MS.gene059501:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 27682460 | 27684153 | 27682460 | ID=MS.gene059501 |
| chr4.3 | mRNA | 27682460 | 27684153 | 27682460 | ID=MS.gene059501.t1;Parent=MS.gene059501 |
| chr4.3 | exon | 27682460 | 27682532 | 27682460 | ID=MS.gene059501.t1.exon1;Parent=MS.gene059501.t1 |
| chr4.3 | CDS | 27682460 | 27682532 | 27682460 | ID=cds.MS.gene059501.t1;Parent=MS.gene059501.t1 |
| chr4.3 | exon | 27682640 | 27682800 | 27682640 | ID=MS.gene059501.t1.exon2;Parent=MS.gene059501.t1 |
| chr4.3 | CDS | 27682640 | 27682800 | 27682640 | ID=cds.MS.gene059501.t1;Parent=MS.gene059501.t1 |
| chr4.3 | exon | 27683815 | 27683848 | 27683815 | ID=MS.gene059501.t1.exon3;Parent=MS.gene059501.t1 |
| chr4.3 | CDS | 27683815 | 27683848 | 27683815 | ID=cds.MS.gene059501.t1;Parent=MS.gene059501.t1 |
| chr4.3 | exon | 27684060 | 27684153 | 27684060 | ID=MS.gene059501.t1.exon4;Parent=MS.gene059501.t1 |
| chr4.3 | CDS | 27684060 | 27684153 | 27684060 | ID=cds.MS.gene059501.t1;Parent=MS.gene059501.t1 |
| Gene Sequence |
| Protein sequence |
