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.gene72234.t1 | XP_003620577.2 | 84.8 | 178 | 26 | 1 | 1 | 177 | 180 | 357 | 3.40E-71 | 278.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene72234.t1 | Q9SL78 | 39.8 | 211 | 84 | 7 | 5 | 191 | 196 | 387 | 3.0e-23 | 110.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene72234.t1 | G7KNZ9 | 84.8 | 178 | 26 | 1 | 1 | 177 | 180 | 357 | 2.5e-71 | 278.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051699 | MS.gene72234 | 0.801714 | 7.90E-49 | -1.69E-46 |
| MS.gene055150 | MS.gene72234 | 0.816092 | 6.61E-52 | -1.69E-46 |
| MS.gene05985 | MS.gene72234 | -0.81868 | 1.73E-52 | -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.gene72234.t1 | MTR_6g087150 | 92.697 | 178 | 12 | 1 | 1 | 177 | 180 | 357 | 5.43e-115 | 333 |
| MS.gene72234.t1 | MTR_3g110190 | 35.450 | 189 | 82 | 6 | 3 | 176 | 160 | 323 | 1.01e-19 | 85.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene72234.t1 | AT2G20030 | 44.041 | 193 | 73 | 6 | 5 | 177 | 196 | 373 | 1.36e-34 | 127 |
| MS.gene72234.t1 | AT4G28890 | 40.865 | 208 | 59 | 7 | 23 | 176 | 217 | 414 | 1.56e-30 | 116 |
Find 27 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAAGCAGCTTTAGAAAATT+TGG | 0.134283 | 6.3:+81624431 | MS.gene72234:CDS |
| TGGAAAAGGTTCTATATTAA+AGG | 0.208479 | 6.3:+81624451 | MS.gene72234:CDS |
| AGGAAAGAAGGAGGAAGCTT+TGG | 0.319725 | 6.3:+81624816 | MS.gene72234:CDS |
| TCAGCTGTTCTTCTTGCAAT+TGG | 0.337125 | 6.3:-81624842 | None:intergenic |
| ATATTAAAGGAAGAAGAAAA+AGG | 0.397269 | 6.3:+81624464 | MS.gene72234:CDS |
| ATGTTGTGTTTAAGCATAGA+TGG | 0.422818 | 6.3:+81624579 | MS.gene72234:CDS |
| GATTATCCTCGAGGTTCAGC+AGG | 0.433165 | 6.3:+81624969 | MS.gene72234:CDS |
| ACTCCACGCGGTGGGAGCCT+TGG | 0.440403 | 6.3:+81625178 | MS.gene72234:CDS |
| TTAATGCTTCATCAAGCAAC+AGG | 0.458332 | 6.3:+81624648 | MS.gene72234:CDS |
| TCTTGAAAATAATCTTAAAG+AGG | 0.469161 | 6.3:+81624796 | MS.gene72234:CDS |
| AGCTTTAGAAAATTTGGAAA+AGG | 0.480613 | 6.3:+81624437 | MS.gene72234:CDS |
| ATAATCTTAAAGAGGAAAGA+AGG | 0.482860 | 6.3:+81624804 | MS.gene72234:CDS |
| GGTTCATCAAGGTTTAGTAT+TGG | 0.498757 | 6.3:+81624410 | MS.gene72234:CDS |
| TTGCAAGAAGAACAGCTGAA+TGG | 0.523336 | 6.3:+81624846 | MS.gene72234:CDS |
| ATGATCAACATGGTTCATCA+AGG | 0.541647 | 6.3:+81624399 | MS.gene72234:CDS |
| AGATCAGTGTCAGAAATCAC+TGG | 0.561549 | 6.3:+81624716 | MS.gene72234:CDS |
| AAGCAACAGGTTCAACAACA+TGG | 0.575440 | 6.3:+81624661 | MS.gene72234:CDS |
| AAACTGTGCTCGAGTGTCCA+AGG | 0.585029 | 6.3:-81625195 | None:intergenic |
| CTCCTCAGACTCCACGCGGT+GGG | 0.586815 | 6.3:+81625170 | MS.gene72234:intron |
| CCTCCTCAGACTCCACGCGG+TGG | 0.601133 | 6.3:+81625169 | MS.gene72234:intron |
| ATCTTAAAGAGGAAAGAAGG+AGG | 0.605571 | 6.3:+81624807 | MS.gene72234:CDS |
| TGTCCAAGGCTCCCACCGCG+TGG | 0.644858 | 6.3:-81625181 | None:intergenic |
| ATTATCCTCGAGGTTCAGCA+GGG | 0.647182 | 6.3:+81624970 | MS.gene72234:CDS |
| TCTGACCCTGCTGAACCTCG+AGG | 0.684689 | 6.3:-81624975 | None:intergenic |
| AACTCATAGAATGCTTACAG+AGG | 0.693639 | 6.3:+81625009 | MS.gene72234:CDS |
| GAAGAAGATAATGATCAACA+TGG | 0.702462 | 6.3:+81624389 | MS.gene72234:CDS |
| TATCCTCCTCAGACTCCACG+CGG | 0.752468 | 6.3:+81625166 | MS.gene72234:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAGTGATTCTAACAATA+AGG | + | chr6.3:81624520-81624539 | MS.gene72234:CDS | 20.0% |
| !! | ATATTAAAGGAAGAAGAAAA+AGG | + | chr6.3:81624464-81624483 | MS.gene72234:CDS | 20.0% |
| !! | TCAAAAATTCAAGATTATGA+TGG | + | chr6.3:81624686-81624705 | MS.gene72234:CDS | 20.0% |
| !! | TCATATCTAGAAATTAAAGT+TGG | - | chr6.3:81625128-81625147 | None:intergenic | 20.0% |
| !! | TCTTGAAAATAATCTTAAAG+AGG | + | chr6.3:81624796-81624815 | MS.gene72234:CDS | 20.0% |
| ! | ATAATCTTAAAGAGGAAAGA+AGG | + | chr6.3:81624804-81624823 | MS.gene72234:CDS | 25.0% |
| ! | TGGAAAAGGTTCTATATTAA+AGG | + | chr6.3:81624451-81624470 | MS.gene72234:CDS | 25.0% |
| !!! | AGAAAAAGGTGTTATTTCAA+AGG | + | chr6.3:81624478-81624497 | MS.gene72234:CDS | 25.0% |
| !!! | AGATTTTGACATGAAGAAAA+GGG | + | chr6.3:81624754-81624773 | MS.gene72234:CDS | 25.0% |
| !!! | AGCTTTAGAAAATTTGGAAA+AGG | + | chr6.3:81624437-81624456 | MS.gene72234:CDS | 25.0% |
| !!! | TTCTTTAGGTACTTACTTTT+AGG | + | chr6.3:81624947-81624966 | MS.gene72234:intron | 25.0% |
| ATGTTGTGTTTAAGCATAGA+TGG | + | chr6.3:81624579-81624598 | MS.gene72234:CDS | 30.0% | |
| CTAGATATGAGATAAGATTG+CGG | + | chr6.3:81625138-81625157 | MS.gene72234:intron | 30.0% | |
| GAAGAAGATAATGATCAACA+TGG | + | chr6.3:81624389-81624408 | MS.gene72234:CDS | 30.0% | |
| GGTTTGTCAATAGAGAAAAA+AGG | + | chr6.3:81624867-81624886 | MS.gene72234:intron | 30.0% | |
| GTACCTAAAGAAAGTGAAAA+TGG | - | chr6.3:81624939-81624958 | None:intergenic | 30.0% | |
| ! | AATACATGATTTGTACAACG+AGG | + | chr6.3:81625034-81625053 | MS.gene72234:intron | 30.0% |
| ! | AGTCCATTTTCACTTTCTTT+AGG | + | chr6.3:81624933-81624952 | MS.gene72234:intron | 30.0% |
| ! | GTAAGCATTCTATGAGTTTT+AGG | - | chr6.3:81625007-81625026 | None:intergenic | 30.0% |
| !! | GAGATTTTGACATGAAGAAA+AGG | + | chr6.3:81624753-81624772 | MS.gene72234:CDS | 30.0% |
| AACTCATAGAATGCTTACAG+AGG | + | chr6.3:81625009-81625028 | MS.gene72234:CDS | 35.0% | |
| ATCTTAAAGAGGAAAGAAGG+AGG | + | chr6.3:81624807-81624826 | MS.gene72234:CDS | 35.0% | |
| ATGATCAACATGGTTCATCA+AGG | + | chr6.3:81624399-81624418 | MS.gene72234:CDS | 35.0% | |
| GGTTCATCAAGGTTTAGTAT+TGG | + | chr6.3:81624410-81624429 | MS.gene72234:CDS | 35.0% | |
| TTAATGCTTCATCAAGCAAC+AGG | + | chr6.3:81624648-81624667 | MS.gene72234:CDS | 35.0% | |
| !! | GGAAGCAGCTTTAGAAAATT+TGG | + | chr6.3:81624431-81624450 | MS.gene72234:CDS | 35.0% |
| !!! | TACTTTTAGGATTATCCTCG+AGG | + | chr6.3:81624960-81624979 | MS.gene72234:CDS | 35.0% |
| AAGCAACAGGTTCAACAACA+TGG | + | chr6.3:81624661-81624680 | MS.gene72234:CDS | 40.0% | |
| AGATCAGTGTCAGAAATCAC+TGG | + | chr6.3:81624716-81624735 | MS.gene72234:CDS | 40.0% | |
| TCAGCTGTTCTTCTTGCAAT+TGG | - | chr6.3:81624845-81624864 | None:intergenic | 40.0% | |
| TGAGCTGAATTCTTATCGAC+TGG | + | chr6.3:81625101-81625120 | MS.gene72234:intron | 40.0% | |
| TTGCAAGAAGAACAGCTGAA+TGG | + | chr6.3:81624846-81624865 | MS.gene72234:CDS | 40.0% | |
| AGGAAAGAAGGAGGAAGCTT+TGG | + | chr6.3:81624816-81624835 | MS.gene72234:CDS | 45.0% | |
| ATTATCCTCGAGGTTCAGCA+GGG | + | chr6.3:81624970-81624989 | MS.gene72234:CDS | 45.0% | |
| AAACTGTGCTCGAGTGTCCA+AGG | - | chr6.3:81625198-81625217 | None:intergenic | 50.0% | |
| GATTATCCTCGAGGTTCAGC+AGG | + | chr6.3:81624969-81624988 | MS.gene72234:CDS | 50.0% | |
| TATCCTCCTCAGACTCCACG+CGG | + | chr6.3:81625166-81625185 | MS.gene72234:intron | 55.0% | |
| TCTGACCCTGCTGAACCTCG+AGG | - | chr6.3:81624978-81624997 | None:intergenic | 60.0% | |
| CTCCTCAGACTCCACGCGGT+GGG | + | chr6.3:81625170-81625189 | MS.gene72234:intron | 65.0% | |
| ACTCCACGCGGTGGGAGCCT+TGG | + | chr6.3:81625178-81625197 | MS.gene72234:CDS | 70.0% | |
| CCACCGCGTGGAGTCTGAGG+AGG | - | chr6.3:81625172-81625191 | None:intergenic | 70.0% | |
| CCTCCTCAGACTCCACGCGG+TGG | + | chr6.3:81625169-81625188 | MS.gene72234:intron | 70.0% | |
| CTCCCACCGCGTGGAGTCTG+AGG | - | chr6.3:81625175-81625194 | None:intergenic | 70.0% | |
| TGTCCAAGGCTCCCACCGCG+TGG | - | chr6.3:81625184-81625203 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.3 | gene | 81624344 | 81625219 | 81624344 | ID=MS.gene72234 |
| chr6.3 | mRNA | 81624344 | 81625219 | 81624344 | ID=MS.gene72234.t1;Parent=MS.gene72234 |
| chr6.3 | exon | 81624344 | 81624867 | 81624344 | ID=MS.gene72234.t1.exon1;Parent=MS.gene72234.t1 |
| chr6.3 | CDS | 81624344 | 81624867 | 81624344 | ID=cds.MS.gene72234.t1;Parent=MS.gene72234.t1 |
| chr6.3 | exon | 81624955 | 81625030 | 81624955 | ID=MS.gene72234.t1.exon2;Parent=MS.gene72234.t1 |
| chr6.3 | CDS | 81624955 | 81625030 | 81624955 | ID=cds.MS.gene72234.t1;Parent=MS.gene72234.t1 |
| chr6.3 | exon | 81625178 | 81625219 | 81625178 | ID=MS.gene72234.t1.exon3;Parent=MS.gene72234.t1 |
| chr6.3 | CDS | 81625178 | 81625219 | 81625178 | ID=cds.MS.gene72234.t1;Parent=MS.gene72234.t1 |
| Gene Sequence |
| Protein sequence |
