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.gene41263.t1 | XP_024631418.1 | 85.4 | 246 | 36 | 0 | 1 | 246 | 1 | 246 | 5.50E-113 | 417.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41263.t1 | Q9M1K1 | 41.0 | 251 | 133 | 5 | 1 | 240 | 1 | 247 | 9.0e-40 | 165.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41263.t1 | A0A072VIS7 | 87.3 | 244 | 31 | 0 | 1 | 244 | 1 | 244 | 5.2e-113 | 416.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41263.t1 | TF | bHLH |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene41263.t1 | MTR_1g048720 | 87.295 | 244 | 31 | 0 | 1 | 244 | 1 | 244 | 1.49e-157 | 437 |
| MS.gene41263.t1 | MTR_1g048720 | 86.885 | 244 | 31 | 1 | 1 | 244 | 1 | 243 | 4.50e-155 | 431 |
| MS.gene41263.t1 | MTR_1g048720 | 88.128 | 219 | 26 | 0 | 1 | 219 | 1 | 219 | 6.95e-144 | 401 |
| MS.gene41263.t1 | MTR_1g048720 | 87.671 | 219 | 26 | 1 | 1 | 219 | 1 | 218 | 2.03e-141 | 395 |
| MS.gene41263.t1 | MTR_1g048710 | 82.114 | 246 | 35 | 2 | 1 | 246 | 1 | 237 | 1.67e-138 | 389 |
| MS.gene41263.t1 | MTR_1g048750 | 87.156 | 218 | 20 | 1 | 1 | 218 | 1 | 210 | 8.63e-136 | 383 |
| MS.gene41263.t1 | MTR_7g090410 | 57.371 | 251 | 88 | 7 | 1 | 241 | 1 | 242 | 7.63e-64 | 200 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41263.t1 | AT3G56970 | 41.434 | 251 | 132 | 6 | 1 | 240 | 1 | 247 | 5.18e-54 | 174 |
| MS.gene41263.t1 | AT3G56980 | 40.293 | 273 | 113 | 6 | 1 | 242 | 1 | 254 | 5.81e-46 | 154 |
| MS.gene41263.t1 | AT2G41240 | 37.247 | 247 | 141 | 4 | 1 | 242 | 1 | 238 | 7.77e-42 | 143 |
| MS.gene41263.t1 | AT2G41240 | 36.842 | 247 | 141 | 5 | 1 | 242 | 1 | 237 | 2.35e-39 | 137 |
| MS.gene41263.t1 | AT5G04150 | 46.626 | 163 | 82 | 2 | 60 | 219 | 78 | 238 | 2.17e-37 | 131 |
| MS.gene41263.t1 | AT5G04150 | 44.324 | 185 | 95 | 4 | 60 | 239 | 78 | 259 | 4.21e-37 | 131 |
Find 39 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCACATGTTTCTGTATTTC+TGG | 0.048296 | 1.4:+34838058 | None:intergenic |
| TGATGCTGGTTATGGCTTAT+TGG | 0.196697 | 1.4:+34838560 | None:intergenic |
| AGTACCATTTGATCAGAAAT+AGG | 0.267145 | 1.4:+34838341 | None:intergenic |
| CGAGAAGTTGTTATCAATAA+TGG | 0.272808 | 1.4:-34837616 | MS.gene41263:CDS |
| GTTTCTTCATCTAAAACCTT+TGG | 0.331359 | 1.4:-34837797 | MS.gene41263:CDS |
| ATGGATTCTGATGCTGGTTA+TGG | 0.357369 | 1.4:+34838552 | None:intergenic |
| CATAGCAAAATCTCAGATAA+TGG | 0.357726 | 1.4:+34837851 | None:intergenic |
| AGGACTCTTGAAATTGTTGC+TGG | 0.367920 | 1.4:+34838091 | None:intergenic |
| TCAATAGTGTCTTTGTAGAA+TGG | 0.399191 | 1.4:+34838533 | None:intergenic |
| TCTTCCTATTTCTGATCAAA+TGG | 0.404052 | 1.4:-34838345 | MS.gene41263:intron |
| ATGGCTTATTGGCTCTTCAA+AGG | 0.435523 | 1.4:+34838571 | None:intergenic |
| TGTAGAATGGATTCTGATGC+TGG | 0.456368 | 1.4:+34838546 | None:intergenic |
| GTTGTTATCAATAATGGAAA+AGG | 0.460271 | 1.4:-34837610 | MS.gene41263:CDS |
| TTGCTATGTTTAGAAAATGA+TGG | 0.461428 | 1.4:-34837836 | MS.gene41263:CDS |
| AAGAAACATTTAGCAACAAA+AGG | 0.474589 | 1.4:+34837813 | None:intergenic |
| CATGCCAAGGTCACTGCTTG+TGG | 0.478915 | 1.4:+34838448 | None:intergenic |
| TGGCTTATTGGCTCTTCAAA+GGG | 0.488560 | 1.4:+34838572 | None:intergenic |
| TCTTCATCTAAAACCTTTGG+AGG | 0.490311 | 1.4:-34837794 | MS.gene41263:CDS |
| ATCTAAAACCTTTGGAGGGA+GGG | 0.491238 | 1.4:-34837789 | MS.gene41263:CDS |
| ATAATAACTTCATTTACTTG+TGG | 0.512712 | 1.4:+34837992 | None:intergenic |
| AAGAAACATAATTACAACTC+TGG | 0.515926 | 1.4:-34837950 | MS.gene41263:CDS |
| ACAAATTATTCATCTTCTTG+CGG | 0.523820 | 1.4:+34838387 | None:intergenic |
| CAATAATGGAAAAGGAAGGA+GGG | 0.549179 | 1.4:-34837602 | MS.gene41263:CDS |
| TCAATAATGGAAAAGGAAGG+AGG | 0.551798 | 1.4:-34837603 | MS.gene41263:CDS |
| CATCCAATTGTTGAAAACAT+AGG | 0.558093 | 1.4:+34838596 | None:intergenic |
| CAATCCACAAGCAGTGACCT+TGG | 0.569748 | 1.4:-34838452 | MS.gene41263:CDS |
| CATCTAAAACCTTTGGAGGG+AGG | 0.572578 | 1.4:-34837790 | MS.gene41263:CDS |
| GTAGAAGACCCTCCCTCCAA+AGG | 0.574235 | 1.4:+34837781 | None:intergenic |
| CCAATTGTTGAAAACATAGG+AGG | 0.582074 | 1.4:+34838599 | None:intergenic |
| CTTCATCTAAAACCTTTGGA+GGG | 0.584234 | 1.4:-34837793 | MS.gene41263:CDS |
| GTCACTGCTTGTGGATTGTG+AGG | 0.591686 | 1.4:+34838457 | None:intergenic |
| CAAGCTTCTTTACCATGCCA+AGG | 0.600629 | 1.4:+34838435 | None:intergenic |
| CACAAGCAGTGACCTTGGCA+TGG | 0.602895 | 1.4:-34838447 | MS.gene41263:CDS |
| TTATCAATAATGGAAAAGGA+AGG | 0.604075 | 1.4:-34837606 | MS.gene41263:CDS |
| CAGAAATAGGAAGAAGTGAA+CGG | 0.605298 | 1.4:+34838354 | None:intergenic |
| GAAATACAGAAACATGTGGA+AGG | 0.627895 | 1.4:-34838055 | MS.gene41263:CDS |
| TCTCAGATAATGGAATCATG+TGG | 0.643600 | 1.4:+34837861 | None:intergenic |
| ACCAGAAATACAGAAACATG+TGG | 0.649518 | 1.4:-34838059 | MS.gene41263:CDS |
| TCACTGCTTGTGGATTGTGA+GGG | 0.698792 | 1.4:+34838458 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTAAAGTAATATCGAAAAA+CGG | + | chr1.4:34838011-34838030 | None:intergenic | 15.0% |
| !! | ATAATAACTTCATTTACTTG+TGG | + | chr1.4:34838212-34838231 | None:intergenic | 20.0% |
| !! | TTCGATATTACTTTAAATTG+TGG | - | chr1.4:34838014-34838033 | MS.gene41263:CDS | 20.0% |
| ! | AAGAAACATAATTACAACTC+TGG | - | chr1.4:34838251-34838270 | MS.gene41263:intron | 25.0% |
| ! | AAGAAACATTTAGCAACAAA+AGG | + | chr1.4:34838391-34838410 | None:intergenic | 25.0% |
| ! | ACAAATTATTCATCTTCTTG+CGG | + | chr1.4:34837817-34837836 | None:intergenic | 25.0% |
| ! | ACAATTAGAAACAGAAAGAA+GGG | + | chr1.4:34837894-34837913 | None:intergenic | 25.0% |
| ! | ATTTAACTAAAAGCTCCATT+TGG | - | chr1.4:34838513-34838532 | MS.gene41263:CDS | 25.0% |
| ! | CAACTTCTCGTTTAAAAAAT+CGG | + | chr1.4:34838575-34838594 | None:intergenic | 25.0% |
| ! | TTGCTATGTTTAGAAAATGA+TGG | - | chr1.4:34838365-34838384 | MS.gene41263:CDS | 25.0% |
| ! | TTTAACTAAAAGCTCCATTT+GGG | - | chr1.4:34838514-34838533 | MS.gene41263:CDS | 25.0% |
| !! | GTTGTTATCAATAATGGAAA+AGG | - | chr1.4:34838591-34838610 | MS.gene41263:CDS | 25.0% |
| !! | TTATCAATAATGGAAAAGGA+AGG | - | chr1.4:34838595-34838614 | MS.gene41263:CDS | 25.0% |
| !! | TTTTCACAATGTGTAAATTC+AGG | - | chr1.4:34838486-34838505 | MS.gene41263:CDS | 25.0% |
| !!! | GTATTTCTGGTATGTATTTT+AGG | + | chr1.4:34838133-34838152 | None:intergenic | 25.0% |
| !!! | GTTTTATTGTTTCAACAAGT+AGG | - | chr1.4:34838273-34838292 | MS.gene41263:intron | 25.0% |
| !!! | TTTGTTTTGACTTTTGAGTA+TGG | - | chr1.4:34837963-34837982 | MS.gene41263:CDS | 25.0% |
| AGTACCATTTGATCAGAAAT+AGG | + | chr1.4:34837863-34837882 | None:intergenic | 30.0% | |
| ATGGTTGCAATTTCCTAATT+GGG | - | chr1.4:34837982-34838001 | MS.gene41263:CDS | 30.0% | |
| CATAGCAAAATCTCAGATAA+TGG | + | chr1.4:34838353-34838372 | None:intergenic | 30.0% | |
| CATCCAATTGTTGAAAACAT+AGG | + | chr1.4:34837608-34837627 | None:intergenic | 30.0% | |
| CGAGAAGTTGTTATCAATAA+TGG | - | chr1.4:34838585-34838604 | MS.gene41263:CDS | 30.0% | |
| GACAATTAGAAACAGAAAGA+AGG | + | chr1.4:34837895-34837914 | None:intergenic | 30.0% | |
| TATGGTTGCAATTTCCTAAT+TGG | - | chr1.4:34837981-34838000 | MS.gene41263:CDS | 30.0% | |
| TCAATAGTGTCTTTGTAGAA+TGG | + | chr1.4:34837671-34837690 | None:intergenic | 30.0% | |
| ! | CTATGTTTTCAACAATTGGA+TGG | - | chr1.4:34837606-34837625 | MS.gene41263:CDS | 30.0% |
| ! | CTTCTACAATTTGCATTTTC+AGG | - | chr1.4:34838436-34838455 | MS.gene41263:CDS | 30.0% |
| ! | GTTTCTTCATCTAAAACCTT+TGG | - | chr1.4:34838404-34838423 | MS.gene41263:CDS | 30.0% |
| !! | TCATTTTGATGATCAAGTAG+AGG | - | chr1.4:34837700-34837719 | MS.gene41263:intron | 30.0% |
| !! | TCTTCCTATTTCTGATCAAA+TGG | - | chr1.4:34837856-34837875 | MS.gene41263:CDS | 30.0% |
| ACCAGAAATACAGAAACATG+TGG | - | chr1.4:34838142-34838161 | MS.gene41263:intron | 35.0% | |
| CAGAAATAGGAAGAAGTGAA+CGG | + | chr1.4:34837850-34837869 | None:intergenic | 35.0% | |
| CCAATTGTTGAAAACATAGG+AGG | + | chr1.4:34837605-34837624 | None:intergenic | 35.0% | |
| GAAATACAGAAACATGTGGA+AGG | - | chr1.4:34838146-34838165 | MS.gene41263:intron | 35.0% | |
| ! | CAATAATGGAAAAGGAAGGA+GGG | - | chr1.4:34838599-34838618 | MS.gene41263:CDS | 35.0% |
| ! | CCTCCTATGTTTTCAACAAT+TGG | - | chr1.4:34837602-34837621 | MS.gene41263:CDS | 35.0% |
| ! | CTTCATCTAAAACCTTTGGA+GGG | - | chr1.4:34838408-34838427 | MS.gene41263:CDS | 35.0% |
| ! | TCAATAATGGAAAAGGAAGG+AGG | - | chr1.4:34838598-34838617 | MS.gene41263:CDS | 35.0% |
| ! | TCCACATGTTTCTGTATTTC+TGG | + | chr1.4:34838146-34838165 | None:intergenic | 35.0% |
| ! | TCTTCATCTAAAACCTTTGG+AGG | - | chr1.4:34838407-34838426 | MS.gene41263:CDS | 35.0% |
| !! | TCTCAGATAATGGAATCATG+TGG | + | chr1.4:34838343-34838362 | None:intergenic | 35.0% |
| AGGACTCTTGAAATTGTTGC+TGG | + | chr1.4:34838113-34838132 | None:intergenic | 40.0% | |
| ! | ATCTAAAACCTTTGGAGGGA+GGG | - | chr1.4:34838412-34838431 | MS.gene41263:CDS | 40.0% |
| ! | ATGGATTCTGATGCTGGTTA+TGG | + | chr1.4:34837652-34837671 | None:intergenic | 40.0% |
| ! | TGATGCTGGTTATGGCTTAT+TGG | + | chr1.4:34837644-34837663 | None:intergenic | 40.0% |
| ! | TGTAGAATGGATTCTGATGC+TGG | + | chr1.4:34837658-34837677 | None:intergenic | 40.0% |
| !! | ATGGCTTATTGGCTCTTCAA+AGG | + | chr1.4:34837633-34837652 | None:intergenic | 40.0% |
| !! | TGGCTTATTGGCTCTTCAAA+GGG | + | chr1.4:34837632-34837651 | None:intergenic | 40.0% |
| CAAGCTTCTTTACCATGCCA+AGG | + | chr1.4:34837769-34837788 | None:intergenic | 45.0% | |
| CGAAAAACGGCATCCCAATT+AGG | + | chr1.4:34837998-34838017 | None:intergenic | 45.0% | |
| ! | CATCTAAAACCTTTGGAGGG+AGG | - | chr1.4:34838411-34838430 | MS.gene41263:CDS | 45.0% |
| ! | TCACTGCTTGTGGATTGTGA+GGG | + | chr1.4:34837746-34837765 | None:intergenic | 45.0% |
| CAATCCACAAGCAGTGACCT+TGG | - | chr1.4:34837749-34837768 | MS.gene41263:intron | 50.0% | |
| CCACCTGCAGAAAACCCAAA+TGG | + | chr1.4:34838531-34838550 | None:intergenic | 50.0% | |
| ! | GTCACTGCTTGTGGATTGTG+AGG | + | chr1.4:34837747-34837766 | None:intergenic | 50.0% |
| !! | CCATTTGGGTTTTCTGCAGG+TGG | - | chr1.4:34838528-34838547 | MS.gene41263:CDS | 50.0% |
| !! | GCTCCATTTGGGTTTTCTGC+AGG | - | chr1.4:34838525-34838544 | MS.gene41263:CDS | 50.0% |
| CACAAGCAGTGACCTTGGCA+TGG | - | chr1.4:34837754-34837773 | MS.gene41263:intron | 55.0% | |
| CATGCCAAGGTCACTGCTTG+TGG | + | chr1.4:34837756-34837775 | None:intergenic | 55.0% | |
| GTAGAAGACCCTCCCTCCAA+AGG | + | chr1.4:34838423-34838442 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 34837587 | 34838636 | 34837587 | ID=MS.gene41263 |
| chr1.4 | mRNA | 34837587 | 34838636 | 34837587 | ID=MS.gene41263.t1;Parent=MS.gene41263 |
| chr1.4 | exon | 34838346 | 34838636 | 34838346 | ID=MS.gene41263.t1.exon1;Parent=MS.gene41263.t1 |
| chr1.4 | CDS | 34838346 | 34838636 | 34838346 | ID=cds.MS.gene41263.t1;Parent=MS.gene41263.t1 |
| chr1.4 | exon | 34837766 | 34838128 | 34837766 | ID=MS.gene41263.t1.exon2;Parent=MS.gene41263.t1 |
| chr1.4 | CDS | 34837766 | 34838128 | 34837766 | ID=cds.MS.gene41263.t1;Parent=MS.gene41263.t1 |
| chr1.4 | exon | 34837587 | 34837676 | 34837587 | ID=MS.gene41263.t1.exon3;Parent=MS.gene41263.t1 |
| chr1.4 | CDS | 34837587 | 34837676 | 34837587 | ID=cds.MS.gene41263.t1;Parent=MS.gene41263.t1 |
| Gene Sequence |
| Protein sequence |
