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.gene41030.t1 | RHN81411.1 | 48.4 | 399 | 67 | 2 | 1 | 260 | 358 | 756 | 9.60E-92 | 346.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41030.t1 | Q9SY66 | 33.0 | 200 | 67 | 2 | 2 | 135 | 355 | 553 | 1.0e-25 | 118.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41030.t1 | A0A2K3N8Z5 | 54.1 | 333 | 47 | 3 | 1 | 260 | 366 | 665 | 4.8e-85 | 323.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052447 | MS.gene41030 | 0.828558 | 8.41E-55 | -1.69E-46 |
| MS.gene05415 | MS.gene41030 | 0.811414 | 7.08E-51 | -1.69E-46 |
| MS.gene05435 | MS.gene41030 | 0.809058 | 2.28E-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.gene41030.t1 | MTR_4g071400 | 97.468 | 79 | 2 | 0 | 137 | 215 | 43 | 121 | 3.41e-48 | 155 |
| MS.gene41030.t1 | MTR_3g095940 | 74.074 | 54 | 14 | 0 | 77 | 130 | 90 | 143 | 1.94e-21 | 87.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41030.t1 | AT1G10240 | 45.679 | 81 | 43 | 1 | 55 | 135 | 474 | 553 | 1.89e-17 | 82.0 |
| MS.gene41030.t1 | AT1G10240 | 53.704 | 54 | 25 | 0 | 2 | 55 | 355 | 408 | 3.53e-15 | 75.5 |
| MS.gene41030.t1 | AT1G10240 | 45.679 | 81 | 43 | 1 | 55 | 135 | 474 | 553 | 1.89e-17 | 82.0 |
| MS.gene41030.t1 | AT1G10240 | 53.704 | 54 | 25 | 0 | 2 | 55 | 355 | 408 | 3.53e-15 | 75.5 |
| MS.gene41030.t1 | AT5G28530 | 41.333 | 75 | 44 | 0 | 59 | 133 | 491 | 565 | 1.08e-13 | 70.9 |
| MS.gene41030.t1 | AT5G28530 | 41.333 | 75 | 44 | 0 | 59 | 133 | 428 | 502 | 1.09e-13 | 70.9 |
| MS.gene41030.t1 | AT5G28530 | 41.096 | 73 | 43 | 0 | 61 | 133 | 426 | 498 | 7.62e-13 | 68.6 |
| MS.gene41030.t1 | AT5G28530 | 41.096 | 73 | 43 | 0 | 61 | 133 | 489 | 561 | 7.89e-13 | 68.6 |
| MS.gene41030.t1 | AT5G28530 | 41.096 | 73 | 43 | 0 | 61 | 133 | 489 | 561 | 7.89e-13 | 68.6 |
Find 36 sgRNAs with CRISPR-Local
Find 78 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAATTAAAACTTACTTATT+AGG | 0.177601 | 1.3:-41622335 | None:intergenic |
| AACGTCACAGTCATCATTAT+TGG | 0.232373 | 1.3:-41622135 | None:intergenic |
| CTCATGTTGAAGCAACTTAA+AGG | 0.248230 | 1.3:-41621658 | None:intergenic |
| AATATCATCATAAAGATAAA+AGG | 0.310779 | 1.3:+41622065 | MS.gene41030:CDS |
| TCAAGAACATGTGATTGATT+TGG | 0.314506 | 1.3:+41622100 | MS.gene41030:CDS |
| GCAGCTTCAACCCCTCCTTT+TGG | 0.339248 | 1.3:-41622206 | None:intergenic |
| ATGACAACGACGAGGCTTCT+TGG | 0.366012 | 1.3:-41622228 | None:intergenic |
| TCAGTCTCTAATTCGATGTT+TGG | 0.372448 | 1.3:+41621986 | MS.gene41030:intron |
| TATACGACCACCATCAACTT+TGG | 0.437731 | 1.3:-41621748 | None:intergenic |
| CTTTAAACATGAGTTTCATA+AGG | 0.439926 | 1.3:+41621186 | MS.gene41030:CDS |
| GACGAGGCATGTTCTTCAAT+AGG | 0.443666 | 1.3:-41621618 | None:intergenic |
| TGATTAGTTCCACCACAATC+TGG | 0.446933 | 1.3:-41622254 | None:intergenic |
| AAAGACAAGTGAACGAGAAC+AGG | 0.453486 | 1.3:+41622022 | MS.gene41030:CDS |
| AAAACAAAAGGTCGGCCAAA+AGG | 0.495104 | 1.3:+41622176 | MS.gene41030:CDS |
| TTGATAGGATCATGAAGGGT+TGG | 0.498564 | 1.3:+41622422 | MS.gene41030:intron |
| TGAAGCAACTTAAAGGCATA+AGG | 0.499495 | 1.3:-41621651 | None:intergenic |
| CGTTGTCATGTTCCAGATTG+TGG | 0.504732 | 1.3:+41622242 | MS.gene41030:CDS |
| CCAAAAGGATCAAGACCAAA+AGG | 0.514192 | 1.3:+41622191 | MS.gene41030:CDS |
| GTCAAAATTAGAAATCAAGC+TGG | 0.517568 | 1.3:+41621540 | MS.gene41030:CDS |
| CAACATCATACCAAAGTTGA+TGG | 0.538288 | 1.3:+41621738 | MS.gene41030:CDS |
| GTGCTTTGATAGGATCATGA+AGG | 0.556862 | 1.3:+41622417 | MS.gene41030:intron |
| GGAAAATGTGTTGTAATCTG+AGG | 0.568974 | 1.3:-41621597 | None:intergenic |
| TAGAAATCAAGCTGGAGAAG+AGG | 0.577533 | 1.3:+41621548 | MS.gene41030:CDS |
| TTGTCGCAAAGCTGTCAAGT+TGG | 0.589381 | 1.3:+41621131 | MS.gene41030:CDS |
| TCATCATATCTCGAACCTAG+TGG | 0.597376 | 1.3:-41621163 | None:intergenic |
| ACATGTGATTGATTTGGAAG+CGG | 0.601602 | 1.3:+41622106 | MS.gene41030:CDS |
| AAGGATCAAGACCAAAAGGA+GGG | 0.611165 | 1.3:+41622195 | MS.gene41030:CDS |
| TACTTATTAGGAGATTGAGA+AGG | 0.635742 | 1.3:-41622323 | None:intergenic |
| TGTCATGTTCCAGATTGTGG+TGG | 0.637809 | 1.3:+41622245 | MS.gene41030:CDS |
| AAAGGATCAAGACCAAAAGG+AGG | 0.655085 | 1.3:+41622194 | MS.gene41030:CDS |
| GCAGCAATTGAAGCTGACAA+TGG | 0.657455 | 1.3:+41621702 | MS.gene41030:CDS |
| TGCTTTGATAGGATCATGAA+GGG | 0.676443 | 1.3:+41622418 | MS.gene41030:intron |
| CATCATACCAAAGTTGATGG+TGG | 0.683172 | 1.3:+41621741 | MS.gene41030:CDS |
| AGGATCAAGACCAAAAGGAG+GGG | 0.696841 | 1.3:+41622196 | MS.gene41030:CDS |
| ATAAGGTGTGAGTATAGACG+AGG | 0.720548 | 1.3:-41621634 | None:intergenic |
| TCTGGAACATGACAACGACG+AGG | 0.797744 | 1.3:-41622236 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATATCATCATAAAGATAAA+AGG | + | chr1.3:41622065-41622084 | MS.gene41030:CDS | 15.0% |
| !!! | TAATATTAACTGTGTTTTTA+TGG | + | chr1.3:41622395-41622414 | MS.gene41030:intron | 15.0% |
| !! | CCAATTAAAACTTACTTATT+AGG | - | chr1.3:41622338-41622357 | None:intergenic | 20.0% |
| !!! | CCTAATAAGTAAGTTTTAAT+TGG | + | chr1.3:41622335-41622354 | MS.gene41030:intron | 20.0% |
| !!! | TTATTACATGACTAGATTTT+GGG | - | chr1.3:41621938-41621957 | None:intergenic | 20.0% |
| !!! | TTTATTACATGACTAGATTT+TGG | - | chr1.3:41621939-41621958 | None:intergenic | 20.0% |
| ! | CTTTAAACATGAGTTTCATA+AGG | + | chr1.3:41621186-41621205 | MS.gene41030:CDS | 25.0% |
| ! | TCCAAACAAAAAGAGAAAAA+TGG | + | chr1.3:41622292-41622311 | MS.gene41030:CDS | 25.0% |
| ! | TTGTTTCAAAAACAAAAGGT+CGG | + | chr1.3:41622168-41622187 | MS.gene41030:CDS | 25.0% |
| !! | CTTTACCCATCATAAATTTT+GGG | + | chr1.3:41621303-41621322 | MS.gene41030:intron | 25.0% |
| !! | TCTTTACCCATCATAAATTT+TGG | + | chr1.3:41621302-41621321 | MS.gene41030:intron | 25.0% |
| !! | TGATTGTTATCTTTTTGTGT+AGG | + | chr1.3:41621506-41621525 | MS.gene41030:intron | 25.0% |
| !! | TGTAAAGAGTTTCAATTTTC+AGG | + | chr1.3:41621810-41621829 | MS.gene41030:intron | 25.0% |
| !!! | AAAATCTGTCAAACTTGTTT+TGG | - | chr1.3:41621423-41621442 | None:intergenic | 25.0% |
| !!! | TCCATTTTTCTCTTTTTGTT+TGG | - | chr1.3:41622296-41622315 | None:intergenic | 25.0% |
| AAAGTCCTTCAAATAAGCTA+AGG | - | chr1.3:41621329-41621348 | None:intergenic | 30.0% | |
| CATGTAATAAACTGCAATGA+TGG | + | chr1.3:41621948-41621967 | MS.gene41030:intron | 30.0% | |
| CGAATTAGAGACTGAAATTT+GGG | - | chr1.3:41621981-41622000 | None:intergenic | 30.0% | |
| GTCAAAATTAGAAATCAAGC+TGG | + | chr1.3:41621540-41621559 | MS.gene41030:CDS | 30.0% | |
| TAAGGCCCAAAATTTATGAT+GGG | - | chr1.3:41621311-41621330 | None:intergenic | 30.0% | |
| TACTTATTAGGAGATTGAGA+AGG | - | chr1.3:41622326-41622345 | None:intergenic | 30.0% | |
| TCAAGAACATGTGATTGATT+TGG | + | chr1.3:41622100-41622119 | MS.gene41030:CDS | 30.0% | |
| TCGAATTAGAGACTGAAATT+TGG | - | chr1.3:41621982-41622001 | None:intergenic | 30.0% | |
| ! | ATCACATGTTCTTGAGTTTT+AGG | - | chr1.3:41622095-41622114 | None:intergenic | 30.0% |
| ! | CAAAACATGCATTTTGCATA+TGG | + | chr1.3:41621104-41621123 | MS.gene41030:CDS | 30.0% |
| ! | CAAAATATCTTCCTTTTCGA+TGG | + | chr1.3:41621892-41621911 | MS.gene41030:intron | 30.0% |
| ! | CAAAATGCATGTTTTGTGTT+TGG | - | chr1.3:41621100-41621119 | None:intergenic | 30.0% |
| ! | GATATTTTCTAACTCTCTTG+TGG | - | chr1.3:41622051-41622070 | None:intergenic | 30.0% |
| ! | TGTTATCTTTTTGTGTAGGT+TGG | + | chr1.3:41621510-41621529 | MS.gene41030:intron | 30.0% |
| !! | CCTGTTGTTTCAAAAACAAA+AGG | + | chr1.3:41622164-41622183 | MS.gene41030:CDS | 30.0% |
| !! | CGAAAAGGAAGATATTTTGA+TGG | - | chr1.3:41621891-41621910 | None:intergenic | 30.0% |
| !! | TGTTTTTATGGTGCTTTGAT+AGG | + | chr1.3:41622407-41622426 | MS.gene41030:intron | 30.0% |
| !!! | CCTTTTGTTTTTGAAACAAC+AGG | - | chr1.3:41622167-41622186 | None:intergenic | 30.0% |
| !!! | TGAAGGACTTTTTTTTTTGC+TGG | + | chr1.3:41621338-41621357 | MS.gene41030:intron | 30.0% |
| AAAGTAATGGTCTCACAGTT+TGG | + | chr1.3:41621250-41621269 | MS.gene41030:intron | 35.0% | |
| AACGTCACAGTCATCATTAT+TGG | - | chr1.3:41622138-41622157 | None:intergenic | 35.0% | |
| CAACATCATACCAAAGTTGA+TGG | + | chr1.3:41621738-41621757 | MS.gene41030:CDS | 35.0% | |
| CTAAGGCCCAAAATTTATGA+TGG | - | chr1.3:41621312-41621331 | None:intergenic | 35.0% | |
| CTCATGTTGAAGCAACTTAA+AGG | - | chr1.3:41621661-41621680 | None:intergenic | 35.0% | |
| GGAAAATGTGTTGTAATCTG+AGG | - | chr1.3:41621600-41621619 | None:intergenic | 35.0% | |
| TCAGTCTCTAATTCGATGTT+TGG | + | chr1.3:41621986-41622005 | MS.gene41030:intron | 35.0% | |
| TGAACGAGAATGGAAAGTAA+TGG | + | chr1.3:41621237-41621256 | MS.gene41030:intron | 35.0% | |
| TGCTTTGATAGGATCATGAA+GGG | + | chr1.3:41622418-41622437 | MS.gene41030:intron | 35.0% | |
| ! | CAGATGATTTTGAACGAGAA+TGG | + | chr1.3:41621227-41621246 | MS.gene41030:CDS | 35.0% |
| ! | TGAAGCAACTTAAAGGCATA+AGG | - | chr1.3:41621654-41621673 | None:intergenic | 35.0% |
| !! | ACATGTGATTGATTTGGAAG+CGG | + | chr1.3:41622106-41622125 | MS.gene41030:CDS | 35.0% |
| !!! | AGTTGGTTTTCTTTTCCACT+AGG | + | chr1.3:41621148-41621167 | MS.gene41030:CDS | 35.0% |
| AAAACAAAAGGTCGGCCAAA+AGG | + | chr1.3:41622176-41622195 | MS.gene41030:CDS | 40.0% | |
| AAAGACAAGTGAACGAGAAC+AGG | + | chr1.3:41622022-41622041 | MS.gene41030:CDS | 40.0% | |
| AAAGGATCAAGACCAAAAGG+AGG | + | chr1.3:41622194-41622213 | MS.gene41030:CDS | 40.0% | |
| AAGGATCAAGACCAAAAGGA+GGG | + | chr1.3:41622195-41622214 | MS.gene41030:CDS | 40.0% | |
| AATGGTCTCACAGTTTGGTT+TGG | + | chr1.3:41621255-41621274 | MS.gene41030:intron | 40.0% | |
| ATAAGGTGTGAGTATAGACG+AGG | - | chr1.3:41621637-41621656 | None:intergenic | 40.0% | |
| CCAAAAGGATCAAGACCAAA+AGG | + | chr1.3:41622191-41622210 | MS.gene41030:CDS | 40.0% | |
| GTGCTTTGATAGGATCATGA+AGG | + | chr1.3:41622417-41622436 | MS.gene41030:intron | 40.0% | |
| TAGAAATCAAGCTGGAGAAG+AGG | + | chr1.3:41621548-41621567 | MS.gene41030:CDS | 40.0% | |
| TAGAGACTGAAATTTGGGAG+AGG | - | chr1.3:41621976-41621995 | None:intergenic | 40.0% | |
| TATACGACCACCATCAACTT+TGG | - | chr1.3:41621751-41621770 | None:intergenic | 40.0% | |
| TCATCATATCTCGAACCTAG+TGG | - | chr1.3:41621166-41621185 | None:intergenic | 40.0% | |
| TGGTGGTCGTATAGTAAGTT+TGG | + | chr1.3:41621758-41621777 | MS.gene41030:intron | 40.0% | |
| TTGATAGGATCATGAAGGGT+TGG | + | chr1.3:41622422-41622441 | MS.gene41030:intron | 40.0% | |
| TTGGGCCTTAGCTTATTTGA+AGG | + | chr1.3:41621321-41621340 | MS.gene41030:intron | 40.0% | |
| TTTGCTGGAATGACAACAAC+AGG | + | chr1.3:41621353-41621372 | MS.gene41030:intron | 40.0% | |
| ! | ATGGTCTCACAGTTTGGTTT+GGG | + | chr1.3:41621256-41621275 | MS.gene41030:intron | 40.0% |
| ! | TGATTAGTTCCACCACAATC+TGG | - | chr1.3:41622257-41622276 | None:intergenic | 40.0% |
| !! | CATCATACCAAAGTTGATGG+TGG | + | chr1.3:41621741-41621760 | MS.gene41030:CDS | 40.0% |
| !!! | CCTTTTGGTCTTGATCCTTT+TGG | - | chr1.3:41622194-41622213 | None:intergenic | 40.0% |
| AGGATCAAGACCAAAAGGAG+GGG | + | chr1.3:41622196-41622215 | MS.gene41030:CDS | 45.0% | |
| CGTTGTCATGTTCCAGATTG+TGG | + | chr1.3:41622242-41622261 | MS.gene41030:CDS | 45.0% | |
| CTTTCTCGTCTCCATCGAAA+AGG | - | chr1.3:41621906-41621925 | None:intergenic | 45.0% | |
| GACGAGGCATGTTCTTCAAT+AGG | - | chr1.3:41621621-41621640 | None:intergenic | 45.0% | |
| GCAGCAATTGAAGCTGACAA+TGG | + | chr1.3:41621702-41621721 | MS.gene41030:CDS | 45.0% | |
| TGTCATGTTCCAGATTGTGG+TGG | + | chr1.3:41622245-41622264 | MS.gene41030:CDS | 45.0% | |
| TTGTCGCAAAGCTGTCAAGT+TGG | + | chr1.3:41621131-41621150 | MS.gene41030:CDS | 45.0% | |
| ATGACAACGACGAGGCTTCT+TGG | - | chr1.3:41622231-41622250 | None:intergenic | 50.0% | |
| ! | TCTGGAACATGACAACGACG+AGG | - | chr1.3:41622239-41622258 | None:intergenic | 50.0% |
| !! | CTCACAGTTTGGTTTGGGTG+TGG | + | chr1.3:41621261-41621280 | MS.gene41030:intron | 50.0% |
| ! | GCAGCTTCAACCCCTCCTTT+TGG | - | chr1.3:41622209-41622228 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 41621088 | 41622450 | 41621088 | ID=MS.gene41030 |
| chr1.3 | mRNA | 41621088 | 41622450 | 41621088 | ID=MS.gene41030.t1;Parent=MS.gene41030 |
| chr1.3 | exon | 41621088 | 41621252 | 41621088 | ID=MS.gene41030.t1.exon1;Parent=MS.gene41030.t1 |
| chr1.3 | CDS | 41621088 | 41621252 | 41621088 | ID=cds.MS.gene41030.t1;Parent=MS.gene41030.t1 |
| chr1.3 | exon | 41621528 | 41621770 | 41621528 | ID=MS.gene41030.t1.exon2;Parent=MS.gene41030.t1 |
| chr1.3 | CDS | 41621528 | 41621770 | 41621528 | ID=cds.MS.gene41030.t1;Parent=MS.gene41030.t1 |
| chr1.3 | exon | 41621990 | 41622342 | 41621990 | ID=MS.gene41030.t1.exon3;Parent=MS.gene41030.t1 |
| chr1.3 | CDS | 41621990 | 41622342 | 41621990 | ID=cds.MS.gene41030.t1;Parent=MS.gene41030.t1 |
| chr1.3 | exon | 41622429 | 41622450 | 41622429 | ID=MS.gene41030.t1.exon4;Parent=MS.gene41030.t1 |
| chr1.3 | CDS | 41622429 | 41622450 | 41622429 | ID=cds.MS.gene41030.t1;Parent=MS.gene41030.t1 |
| Gene Sequence |
| Protein sequence |
