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.gene43173.t1 | XP_003621633.1 | 98.2 | 112 | 2 | 0 | 1 | 112 | 1 | 112 | 1.30E-56 | 228.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43173.t1 | O49884 | 98.2 | 112 | 2 | 0 | 1 | 112 | 1 | 112 | 5.1e-59 | 228.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43173.t1 | G7KSW7 | 98.2 | 112 | 2 | 0 | 1 | 112 | 1 | 112 | 9.0e-57 | 228.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050290 | MS.gene43173 | 0.849147 | 3.90E-60 | -1.69E-46 |
| MS.gene060856 | MS.gene43173 | 0.813681 | 2.26E-51 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene074262 | MS.gene43173 | PPI |
| MS.gene23883 | MS.gene43173 | PPI |
| MS.gene97300 | MS.gene43173 | PPI |
| MS.gene022106 | MS.gene43173 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43173.t1 | MTR_7g021030 | 98.214 | 112 | 2 | 0 | 1 | 112 | 1 | 112 | 9.37e-79 | 227 |
| MS.gene43173.t1 | MTR_0024s0220 | 96.429 | 112 | 4 | 0 | 1 | 112 | 1 | 112 | 1.82e-77 | 224 |
| MS.gene43173.t1 | MTR_5g088740 | 91.964 | 112 | 9 | 0 | 1 | 112 | 1 | 112 | 3.35e-74 | 215 |
| MS.gene43173.t1 | MTR_0024s0220 | 96.040 | 101 | 4 | 0 | 1 | 101 | 1 | 101 | 2.35e-68 | 201 |
| MS.gene43173.t1 | MTR_7g021030 | 96.203 | 79 | 3 | 0 | 1 | 79 | 1 | 79 | 3.58e-50 | 154 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43173.t1 | AT1G36240 | 87.500 | 112 | 14 | 0 | 1 | 112 | 1 | 112 | 4.45e-71 | 207 |
| MS.gene43173.t1 | AT3G18740 | 86.607 | 112 | 15 | 0 | 1 | 112 | 1 | 112 | 3.39e-70 | 205 |
| MS.gene43173.t1 | AT1G77940 | 85.714 | 112 | 16 | 0 | 1 | 112 | 1 | 112 | 3.78e-70 | 205 |
Find 26 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAACAACTGTCCTCCTTTG+AGG | 0.365472 | 7.2:-78336244 | MS.gene43173:CDS |
| GACATCATCAAGACAGTTCC+TGG | 0.394800 | 7.2:-78335007 | MS.gene43173:CDS |
| ACAACTTACTTCCATTGTAA+TGG | 0.429111 | 7.2:+78336174 | None:intergenic |
| CTTTGAGTTTACTGATCTCC+AGG | 0.439455 | 7.2:+78334989 | None:intergenic |
| GAAGATTACGGTCTTCTTTG+CGG | 0.449576 | 7.2:+78336762 | None:intergenic |
| TGCCTCAGCATTCTTGATCC+TGG | 0.454752 | 7.2:-78335124 | MS.gene43173:intron |
| CTCATGAGAGCATCAACAAC+AGG | 0.462326 | 7.2:-78336641 | MS.gene43173:CDS |
| AATTACCTTTGGAACTCCTA+AGG | 0.463721 | 7.2:+78336559 | None:intergenic |
| ATTACCTTTGGAACTCCTAA+GGG | 0.478678 | 7.2:+78336560 | None:intergenic |
| AAGAGTGGAAAATATACCCT+TGG | 0.505811 | 7.2:-78336603 | MS.gene43173:CDS |
| GTTGACCTTGGCACTGCTTG+TGG | 0.506943 | 7.2:-78335166 | MS.gene43173:CDS |
| AAACCGTTCTCAAATCCCTT+AGG | 0.509696 | 7.2:-78336575 | MS.gene43173:CDS |
| TATGCTATGTTGGCTAAGGT+TGG | 0.529938 | 7.2:-78336203 | MS.gene43173:CDS |
| ATCATAGACAATGTTGACCT+TGG | 0.543023 | 7.2:-78335178 | MS.gene43173:intron |
| CTCGCTCTTGTCATGAAGAG+TGG | 0.545906 | 7.2:-78336618 | MS.gene43173:CDS |
| AATTGAGTACTATGCTATGT+TGG | 0.552970 | 7.2:-78336213 | MS.gene43173:CDS |
| AGAGTGGAAAATATACCCTT+GGG | 0.553555 | 7.2:-78336602 | MS.gene43173:CDS |
| GTACTATGCTATGTTGGCTA+AGG | 0.556485 | 7.2:-78336207 | MS.gene43173:CDS |
| ATTTCAGACTTCCTCAAAGG+AGG | 0.587118 | 7.2:+78336233 | None:intergenic |
| ACTCCTAAGGGATTTGAGAA+CGG | 0.591174 | 7.2:+78336572 | None:intergenic |
| TCAATTTCAGACTTCCTCAA+AGG | 0.597003 | 7.2:+78336230 | None:intergenic |
| AGGAACTGTCTTGATGATGT+CGG | 0.599851 | 7.2:+78335009 | None:intergenic |
| GTTGGAGTTCACCATTACAA+TGG | 0.600433 | 7.2:-78336185 | MS.gene43173:CDS |
| AAATCCCTTAGGAGTTCCAA+AGG | 0.605938 | 7.2:-78336564 | MS.gene43173:intron |
| ACTTTCCACAAGCAGTGCCA+AGG | 0.620377 | 7.2:+78335161 | None:intergenic |
| TACCAGGATCAAGAATGCTG+AGG | 0.680906 | 7.2:+78335122 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAAAAAAAAAATTACCTT+TGG | + | chr7.2:78335221-78335240 | None:intergenic | 10.0% |
| !! | AATAACAAATAAAATTAGAG+AGG | + | chr7.2:78336719-78336738 | None:intergenic | 15.0% |
| !! | TACTGAAAAAATATTATACA+TGG | - | chr7.2:78336030-78336049 | MS.gene43173:intron | 15.0% |
| !!! | AACTTTATTTTATAAGATTC+TGG | - | chr7.2:78336105-78336124 | MS.gene43173:intron | 15.0% |
| !!! | CTCTAATTTTATTTGTTATT+TGG | - | chr7.2:78336719-78336738 | MS.gene43173:intron | 15.0% |
| !! | ATACTTAATACACAACAAAA+TGG | + | chr7.2:78335244-78335263 | None:intergenic | 20.0% |
| !! | ATGTTTGGATTAATGATATA+GGG | + | chr7.2:78335872-78335891 | None:intergenic | 20.0% |
| !! | ATTGAAAAATTAATGACACA+GGG | + | chr7.2:78335637-78335656 | None:intergenic | 20.0% |
| !! | TATAATTATCTATCAGTAGT+TGG | - | chr7.2:78336210-78336229 | MS.gene43173:CDS | 20.0% |
| !! | TATGTTTGGATTAATGATAT+AGG | + | chr7.2:78335873-78335892 | None:intergenic | 20.0% |
| !! | TGTTGAAAGAATATTATACA+TGG | - | chr7.2:78335976-78335995 | MS.gene43173:intron | 20.0% |
| !! | TTAATCCAAACATAATGTTA+TGG | - | chr7.2:78335879-78335898 | MS.gene43173:intron | 20.0% |
| !!! | AATATTTTTTCAGTATGACA+GGG | + | chr7.2:78336025-78336044 | None:intergenic | 20.0% |
| !!! | AGCTAGTTATACTTTAAAAA+TGG | - | chr7.2:78335815-78335834 | MS.gene43173:intron | 20.0% |
| !!! | TAATATTTTTTCAGTATGAC+AGG | + | chr7.2:78336026-78336045 | None:intergenic | 20.0% |
| !!! | TTATTTGATGATTATGCATA+TGG | - | chr7.2:78336337-78336356 | MS.gene43173:intron | 20.0% |
| !!! | TTGATTGAATTAAGTGATTT+TGG | - | chr7.2:78335423-78335442 | MS.gene43173:intron | 20.0% |
| !!! | TTTGATTTGATTATTCTGTA+GGG | - | chr7.2:78335483-78335502 | MS.gene43173:intron | 20.0% |
| !!! | TTTGTTGTGTATTAAGTATT+GGG | - | chr7.2:78335245-78335264 | MS.gene43173:intron | 20.0% |
| !!! | TTTTGATTTGATTATTCTGT+AGG | - | chr7.2:78335482-78335501 | MS.gene43173:intron | 20.0% |
| !!! | TTTTGTTGTGTATTAAGTAT+TGG | - | chr7.2:78335244-78335263 | MS.gene43173:intron | 20.0% |
| ! | ATGATTTCGTTTCAGATTTA+GGG | - | chr7.2:78335056-78335075 | MS.gene43173:intron | 25.0% |
| ! | CATTGAAAAATTAATGACAC+AGG | + | chr7.2:78335638-78335657 | None:intergenic | 25.0% |
| ! | TAGAATGAAATGAAATGTAG+TGG | - | chr7.2:78335775-78335794 | MS.gene43173:intron | 25.0% |
| ! | TATGATTTCGTTTCAGATTT+AGG | - | chr7.2:78335055-78335074 | MS.gene43173:intron | 25.0% |
| !! | TACATTAACAGAAGCATATT+TGG | + | chr7.2:78336268-78336287 | None:intergenic | 25.0% |
| !! | TAGTTTGATGATTATGCATA+TGG | - | chr7.2:78336362-78336381 | MS.gene43173:intron | 25.0% |
| !!! | ATTTGTTATTTGGTGTTTTC+AGG | - | chr7.2:78336729-78336748 | MS.gene43173:intron | 25.0% |
| !!! | TGAAATGTAGTGGATTAAAA+TGG | - | chr7.2:78335785-78335804 | MS.gene43173:intron | 25.0% |
| AAATAAGTGATTAGTGGAAG+TGG | - | chr7.2:78335377-78335396 | MS.gene43173:intron | 30.0% | |
| AATTATTGCATGTGACCATA+AGG | + | chr7.2:78335932-78335951 | None:intergenic | 30.0% | |
| AATTGAGTACTATGCTATGT+TGG | - | chr7.2:78335553-78335572 | MS.gene43173:intron | 30.0% | |
| ACAACTTACTTCCATTGTAA+TGG | + | chr7.2:78335595-78335614 | None:intergenic | 30.0% | |
| ATTATTGCATGTGACCATAA+GGG | + | chr7.2:78335931-78335950 | None:intergenic | 30.0% | |
| ATTGTGTATGTATACCCTTA+TGG | - | chr7.2:78335914-78335933 | MS.gene43173:intron | 30.0% | |
| TAAAGAAAGCAACATATACC+AGG | + | chr7.2:78336663-78336682 | None:intergenic | 30.0% | |
| TAGTGGAAATAAGTGATTAG+TGG | - | chr7.2:78335371-78335390 | MS.gene43173:intron | 30.0% | |
| TCAATGTTGATATGCATTCA+GGG | - | chr7.2:78335652-78335671 | MS.gene43173:intron | 30.0% | |
| TGCTGAATGATAGAAGATTA+CGG | + | chr7.2:78335019-78335038 | None:intergenic | 30.0% | |
| TGTGACCATAACATTATGTT+TGG | + | chr7.2:78335887-78335906 | None:intergenic | 30.0% | |
| TTCAATGTTGATATGCATTC+AGG | - | chr7.2:78335651-78335670 | MS.gene43173:intron | 30.0% | |
| TTTGGATTAATGATATAGGG+TGG | + | chr7.2:78335869-78335888 | None:intergenic | 30.0% | |
| !! | GTTGTAGATTGATTTTGTAG+TGG | - | chr7.2:78335354-78335373 | MS.gene43173:intron | 30.0% |
| !! | TATGAGTTGATTAGATTGCA+AGG | - | chr7.2:78335290-78335309 | MS.gene43173:intron | 30.0% |
| !! | TTTGAATGTTGATTTGGTAG+TGG | - | chr7.2:78335449-78335468 | MS.gene43173:intron | 30.0% |
| !!! | TGGAGTTTTGAATGTTGATT+TGG | - | chr7.2:78335443-78335462 | MS.gene43173:intron | 30.0% |
| AAATGACACTACTGTACAAC+AGG | + | chr7.2:78336080-78336099 | None:intergenic | 35.0% | |
| AAGAGTGGAAAATATACCCT+TGG | - | chr7.2:78335163-78335182 | MS.gene43173:CDS | 35.0% | |
| AATGACACTACTGTACAACA+GGG | + | chr7.2:78336079-78336098 | None:intergenic | 35.0% | |
| AGAGTGGAAAATATACCCTT+GGG | - | chr7.2:78335164-78335183 | MS.gene43173:CDS | 35.0% | |
| ATCATAGACAATGTTGACCT+TGG | - | chr7.2:78336588-78336607 | MS.gene43173:CDS | 35.0% | |
| TAAGAAGAATCCCAACGATT+TGG | + | chr7.2:78336462-78336481 | None:intergenic | 35.0% | |
| TATCTATCAGTAGTTGGATG+TGG | - | chr7.2:78336216-78336235 | MS.gene43173:CDS | 35.0% | |
| TCAATTTCAGACTTCCTCAA+AGG | + | chr7.2:78335539-78335558 | None:intergenic | 35.0% | |
| TTAATGACACAGGGAAGTAA+AGG | + | chr7.2:78335628-78335647 | None:intergenic | 35.0% | |
| ! | CAGAAGCATATTTGGAAACA+AGG | + | chr7.2:78336260-78336279 | None:intergenic | 35.0% |
| ! | TCTGTTATCAGTTGACTCTA+AGG | - | chr7.2:78336509-78336528 | MS.gene43173:intron | 35.0% |
| !! | AATTACCTTTGGAACTCCTA+AGG | + | chr7.2:78335210-78335229 | None:intergenic | 35.0% |
| !! | ATAGTAACAAGTGCTGATCA+AGG | + | chr7.2:78336418-78336437 | None:intergenic | 35.0% |
| !! | ATTACCTTTGGAACTCCTAA+GGG | + | chr7.2:78335209-78335228 | None:intergenic | 35.0% |
| !! | TGTTGTTTCTCCAAATCGTT+GGG | - | chr7.2:78336449-78336468 | MS.gene43173:intron | 35.0% |
| !! | TTGTTGTTTCTCCAAATCGT+TGG | - | chr7.2:78336448-78336467 | MS.gene43173:intron | 35.0% |
| AAACCGTTCTCAAATCCCTT+AGG | - | chr7.2:78335191-78335210 | MS.gene43173:intron | 40.0% | |
| AAATCCCTTAGGAGTTCCAA+AGG | - | chr7.2:78335202-78335221 | MS.gene43173:intron | 40.0% | |
| ACTCCTAAGGGATTTGAGAA+CGG | + | chr7.2:78335197-78335216 | None:intergenic | 40.0% | |
| ATTTCAGACTTCCTCAAAGG+AGG | + | chr7.2:78335536-78335555 | None:intergenic | 40.0% | |
| ATTTGATCTTACGCTGCTGT+TGG | - | chr7.2:78336144-78336163 | MS.gene43173:intron | 40.0% | |
| GAAGATTACGGTCTTCTTTG+CGG | + | chr7.2:78335007-78335026 | None:intergenic | 40.0% | |
| GTTGGAGTTCACCATTACAA+TGG | - | chr7.2:78335581-78335600 | MS.gene43173:intron | 40.0% | |
| TCAGCTAGCTAGAATCAATC+AGG | + | chr7.2:78335733-78335752 | None:intergenic | 40.0% | |
| TTTGATCTTACGCTGCTGTT+GGG | - | chr7.2:78336145-78336164 | MS.gene43173:intron | 40.0% | |
| ! | GTACTATGCTATGTTGGCTA+AGG | - | chr7.2:78335559-78335578 | MS.gene43173:intron | 40.0% |
| ! | TATGCTATGTTGGCTAAGGT+TGG | - | chr7.2:78335563-78335582 | MS.gene43173:intron | 40.0% |
| ! | TGAGCTTTAGTGTGTATCAG+TGG | - | chr7.2:78335750-78335769 | MS.gene43173:intron | 40.0% |
| !! | AGGAACTGTCTTGATGATGT+CGG | + | chr7.2:78336760-78336779 | None:intergenic | 40.0% |
| !! | GAGAACGGTTTTATACCCAA+GGG | + | chr7.2:78335182-78335201 | None:intergenic | 40.0% |
| !! | TATGCATTCAGGGAGTGTTT+AGG | - | chr7.2:78335662-78335681 | MS.gene43173:intron | 40.0% |
| !! | TGAGAACGGTTTTATACCCA+AGG | + | chr7.2:78335183-78335202 | None:intergenic | 40.0% |
| CTAACAACTGTCCTCCTTTG+AGG | - | chr7.2:78335522-78335541 | MS.gene43173:intron | 45.0% | |
| GACATCATCAAGACAGTTCC+TGG | - | chr7.2:78336759-78336778 | MS.gene43173:intron | 45.0% | |
| TACCAGGATCAAGAATGCTG+AGG | + | chr7.2:78336647-78336666 | None:intergenic | 45.0% | |
| !! | CTCATGAGAGCATCAACAAC+AGG | - | chr7.2:78335125-78335144 | MS.gene43173:CDS | 45.0% |
| ACTTTCCACAAGCAGTGCCA+AGG | + | chr7.2:78336608-78336627 | None:intergenic | 50.0% | |
| CTCGCTCTTGTCATGAAGAG+TGG | - | chr7.2:78335148-78335167 | MS.gene43173:CDS | 50.0% | |
| TGCCTCAGCATTCTTGATCC+TGG | - | chr7.2:78336642-78336661 | MS.gene43173:CDS | 50.0% | |
| GTTGACCTTGGCACTGCTTG+TGG | - | chr7.2:78336600-78336619 | MS.gene43173:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.2 | gene | 78334997 | 78336791 | 78334997 | ID=MS.gene43173 |
| chr7.2 | mRNA | 78334997 | 78336791 | 78334997 | ID=MS.gene43173.t1;Parent=MS.gene43173 |
| chr7.2 | exon | 78336771 | 78336791 | 78336771 | ID=MS.gene43173.t1.exon1;Parent=MS.gene43173.t1 |
| chr7.2 | CDS | 78336771 | 78336791 | 78336771 | ID=cds.MS.gene43173.t1;Parent=MS.gene43173.t1 |
| chr7.2 | exon | 78336565 | 78336670 | 78336565 | ID=MS.gene43173.t1.exon2;Parent=MS.gene43173.t1 |
| chr7.2 | CDS | 78336565 | 78336670 | 78336565 | ID=cds.MS.gene43173.t1;Parent=MS.gene43173.t1 |
| chr7.2 | exon | 78336183 | 78336284 | 78336183 | ID=MS.gene43173.t1.exon3;Parent=MS.gene43173.t1 |
| chr7.2 | CDS | 78336183 | 78336284 | 78336183 | ID=cds.MS.gene43173.t1;Parent=MS.gene43173.t1 |
| chr7.2 | exon | 78335125 | 78335193 | 78335125 | ID=MS.gene43173.t1.exon4;Parent=MS.gene43173.t1 |
| chr7.2 | CDS | 78335125 | 78335193 | 78335125 | ID=cds.MS.gene43173.t1;Parent=MS.gene43173.t1 |
| chr7.2 | exon | 78334997 | 78335037 | 78334997 | ID=MS.gene43173.t1.exon5;Parent=MS.gene43173.t1 |
| chr7.2 | CDS | 78334997 | 78335037 | 78334997 | ID=cds.MS.gene43173.t1;Parent=MS.gene43173.t1 |
| Gene Sequence |
| Protein sequence |
