Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1170490 | RHN65700.1 | 90.541 | 74 | 7 | 0 | 1 | 74 | 1 | 74 | 1.27e-40 | 137 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1170490 | A0A396IKD3 | 90.541 | 74 | 7 | 0 | 1 | 74 | 1 | 74 | 6.07e-41 | 137 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0396240 | Msa1170490 | 0.816769 | 4.661096e-52 | -8.615850e-47 |
| Msa0462260 | Msa1170490 | 0.810416 | 1.165314e-50 | -8.615850e-47 |
| Msa0349280 | Msa1170490 | 0.937814 | 1.876966e-98 | -8.615850e-47 |
| Msa0349340 | Msa1170490 | 0.810185 | 1.307220e-50 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1170490 | MtrunA17_Chr3g0082801 | 90.541 | 74 | 7 | 0 | 1 | 74 | 1 | 74 | 1.17e-44 | 137 |
| Msa1170490 | MtrunA17_Chr3g0082851 | 66.667 | 63 | 17 | 3 | 4 | 66 | 1 | 59 | 4.78e-19 | 73.2 |
| Msa1170490 | MtrunA17_Chr3g0082821 | 56.452 | 62 | 22 | 3 | 4 | 64 | 1 | 58 | 2.81e-14 | 61.2 |
| Msa1170490 | MtrunA17_Chr3g0082831 | 52.459 | 61 | 23 | 3 | 4 | 64 | 1 | 55 | 2.53e-11 | 53.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTGCCATTCTTATGATTC+TGG | 0.176754 | 7_4:-63696956 | None:intergenic |
| CTTAGTACTAAGTTAATTCT+AGG | 0.225492 | 7_4:+63697115 | Msa1170490:three_prime_UTR |
| TTTCTCCAATATGAGATATA+TGG | 0.266388 | 7_4:+63696575 | Msa1170490:exon |
| CAACGGCAAGGGTACCGTTA+TGG | 0.409172 | 7_4:+63696667 | Msa1170490:CDS |
| AGAAGCCATATATCTCATAT+TGG | 0.420251 | 7_4:-63696580 | None:intergenic |
| CATTCTGTTGGTGTTAATGA+TGG | 0.424860 | 7_4:+63696869 | Msa1170490:CDS |
| GTACTAAGTTAATTCTAGGT+TGG | 0.428778 | 7_4:+63697119 | Msa1170490:three_prime_UTR |
| GAGGAGGCACAGCATAGTTA+TGG | 0.458701 | 7_4:-63696901 | None:intergenic |
| CTGATTGGTGCAGGAGGAGG+AGG | 0.483631 | 7_4:-63696917 | None:intergenic |
| CATGCTTCTTTGTGATGATG+AGG | 0.488670 | 7_4:-63696699 | None:intergenic |
| CAACTGATTGGTGCAGGAGG+AGG | 0.506888 | 7_4:-63696920 | None:intergenic |
| GGTTCAATAATAATCTTTCG+TGG | 0.515123 | 7_4:+63696497 | Msa1170490:five_prime_UTR |
| AAGAATCAACTGATTGGTGC+AGG | 0.527694 | 7_4:-63696926 | None:intergenic |
| TAGTACTAAGTCATAGTACT+TGG | 0.544103 | 7_4:-63697102 | None:intergenic |
| TAAGAGTGTTATGTTAAACC+TGG | 0.557492 | 7_4:+63696605 | Msa1170490:CDS |
| AGAATGGCAAACAAGTATGT+TGG | 0.557736 | 7_4:+63696967 | Msa1170490:three_prime_UTR |
| GAGCACCAGAATCATAAGAA+TGG | 0.560588 | 7_4:+63696951 | Msa1170490:three_prime_UTR |
| GTCAATGAAAGTAGAAGCAA+CGG | 0.562863 | 7_4:+63696650 | Msa1170490:CDS |
| ATGTTTAGTACAAAATATAA+CGG | 0.563114 | 7_4:-63697147 | None:intergenic |
| GGACGCCTACTTCATTCTGT+TGG | 0.568175 | 7_4:+63696857 | Msa1170490:CDS |
| GCTCTGAAGAATCAACTGAT+TGG | 0.569246 | 7_4:-63696932 | None:intergenic |
| TAACACCAACAGAATGAAGT+AGG | 0.577968 | 7_4:-63696862 | None:intergenic |
| GAATCATAAACAGAAAAGCC+AGG | 0.588758 | 7_4:-63696623 | None:intergenic |
| TGAAAGTAGAAGCAACGGCA+AGG | 0.589324 | 7_4:+63696655 | Msa1170490:CDS |
| ATGTTGGCAAAGAATAAACA+TGG | 0.605178 | 7_4:+63696983 | Msa1170490:three_prime_UTR |
| GAAAGTAGAAGCAACGGCAA+GGG | 0.621106 | 7_4:+63696656 | Msa1170490:CDS |
| AATCAACTGATTGGTGCAGG+AGG | 0.632665 | 7_4:-63696923 | None:intergenic |
| TTGGAAAAGGAAAAGGGAGA+CGG | 0.660028 | 7_4:+63696457 | None:intergenic |
| ACAGCATAGTTATGGAAGCG+TGG | 0.675066 | 7_4:-63696893 | None:intergenic |
| TGTTGGCAAAGAATAAACAT+GGG | 0.690833 | 7_4:+63696984 | Msa1170490:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATATATATATAGTGGT+TGG | - | chr7_4:63697061-63697080 | None:intergenic | 15.0% |
| !! | ATGTTTAGTACAAAATATAA+CGG | - | chr7_4:63697150-63697169 | None:intergenic | 15.0% |
| !!! | ATTATTAAACAAGTTTTGCT+AGG | - | chr7_4:63697024-63697043 | None:intergenic | 20.0% |
| ! | ATTGAACCTTAAAAAGTAGT+AGG | - | chr7_4:63696485-63696504 | None:intergenic | 25.0% |
| ! | TTTCTCCAATATGAGATATA+TGG | + | chr7_4:63696575-63696594 | Msa1170490:exon | 25.0% |
| !!! | GCATGTAAGTAATTTTTTGT+AGG | + | chr7_4:63696717-63696736 | Msa1170490:intron | 25.0% |
| !! | TTTTCCATTAAAATTGTGCA+TGG | + | chr7_4:63696778-63696797 | Msa1170490:intron | 25.0% |
| !! | TAAACCATGCACAATTTTAA+TGG | - | chr7_4:63696785-63696804 | None:intergenic | 25.0% |
| ! | CTTAGTACTAAGTTAATTCT+AGG | + | chr7_4:63697115-63697134 | Msa1170490:three_prime_UTR | 25.0% |
| GGTTCAATAATAATCTTTCG+TGG | + | chr7_4:63696497-63696516 | Msa1170490:five_prime_UTR | 30.0% | |
| AGAAGCCATATATCTCATAT+TGG | - | chr7_4:63696583-63696602 | None:intergenic | 30.0% | |
| !! | TAAGAGTGTTATGTTAAACC+TGG | + | chr7_4:63696605-63696624 | Msa1170490:CDS | 30.0% |
| ! | TGAGGCTTAATTTTCCATAA+CGG | - | chr7_4:63696684-63696703 | None:intergenic | 30.0% |
| ATGTTGGCAAAGAATAAACA+TGG | + | chr7_4:63696983-63697002 | Msa1170490:three_prime_UTR | 30.0% | |
| TGTTGGCAAAGAATAAACAT+GGG | + | chr7_4:63696984-63697003 | Msa1170490:three_prime_UTR | 30.0% | |
| TAGTACTAAGTCATAGTACT+TGG | - | chr7_4:63697105-63697124 | None:intergenic | 30.0% | |
| GTACTAAGTTAATTCTAGGT+TGG | + | chr7_4:63697119-63697138 | Msa1170490:three_prime_UTR | 30.0% | |
| GAATCATAAACAGAAAAGCC+AGG | - | chr7_4:63696626-63696645 | None:intergenic | 35.0% | |
| GTCAATGAAAGTAGAAGCAA+CGG | + | chr7_4:63696650-63696669 | Msa1170490:CDS | 35.0% | |
| AAACATGGCAACAACATGAA+GGG | - | chr7_4:63696818-63696837 | None:intergenic | 35.0% | |
| ATGTTGTTGCCATGTTTGTT+TGG | + | chr7_4:63696821-63696840 | Msa1170490:intron | 35.0% | |
| TGTTGTTGCCATGTTTGTTT+GGG | + | chr7_4:63696822-63696841 | Msa1170490:intron | 35.0% | |
| TTGAGATTCCCAAACAAACA+TGG | - | chr7_4:63696833-63696852 | None:intergenic | 35.0% | |
| TTGTTTGGGAATCTCAAAGA+TGG | + | chr7_4:63696836-63696855 | Msa1170490:intron | 35.0% | |
| TAACACCAACAGAATGAAGT+AGG | - | chr7_4:63696865-63696884 | None:intergenic | 35.0% | |
| !! | CATTCTGTTGGTGTTAATGA+TGG | + | chr7_4:63696869-63696888 | Msa1170490:CDS | 35.0% |
| GTTTGCCATTCTTATGATTC+TGG | - | chr7_4:63696959-63696978 | None:intergenic | 35.0% | |
| AGAATGGCAAACAAGTATGT+TGG | + | chr7_4:63696967-63696986 | Msa1170490:three_prime_UTR | 35.0% | |
| !!! | ACGGTGCCTACTACTTTTTA+AGG | + | chr7_4:63696476-63696495 | Msa1170490:five_prime_UTR | 40.0% |
| ! | CATGCTTCTTTGTGATGATG+AGG | - | chr7_4:63696702-63696721 | None:intergenic | 40.0% |
| CAAACATGGCAACAACATGA+AGG | - | chr7_4:63696819-63696838 | None:intergenic | 40.0% | |
| AAGAATCAACTGATTGGTGC+AGG | - | chr7_4:63696929-63696948 | None:intergenic | 40.0% | |
| !! | GCTCTGAAGAATCAACTGAT+TGG | - | chr7_4:63696935-63696954 | None:intergenic | 40.0% |
| GAGCACCAGAATCATAAGAA+TGG | + | chr7_4:63696951-63696970 | Msa1170490:three_prime_UTR | 40.0% | |
| TGAAAGTAGAAGCAACGGCA+AGG | + | chr7_4:63696655-63696674 | Msa1170490:CDS | 45.0% | |
| GAAAGTAGAAGCAACGGCAA+GGG | + | chr7_4:63696656-63696675 | Msa1170490:CDS | 45.0% | |
| ACAGCATAGTTATGGAAGCG+TGG | - | chr7_4:63696896-63696915 | None:intergenic | 45.0% | |
| AATCAACTGATTGGTGCAGG+AGG | - | chr7_4:63696926-63696945 | None:intergenic | 45.0% | |
| !! | AAATAAAAATATATATATAG+TGG | - | chr7_4:63697065-63697084 | None:intergenic | 5.0% |
| GGACGCCTACTTCATTCTGT+TGG | + | chr7_4:63696857-63696876 | Msa1170490:CDS | 50.0% | |
| ! | GAGGAGGCACAGCATAGTTA+TGG | - | chr7_4:63696904-63696923 | None:intergenic | 50.0% |
| !! | CAACGGCAAGGGTACCGTTA+TGG | + | chr7_4:63696667-63696686 | Msa1170490:CDS | 55.0% |
| CAACTGATTGGTGCAGGAGG+AGG | - | chr7_4:63696923-63696942 | None:intergenic | 55.0% | |
| CTGATTGGTGCAGGAGGAGG+AGG | - | chr7_4:63696920-63696939 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 63696469 | 63697196 | 63696469 | ID=Msa1170490;Name=Msa1170490 |
| chr7_4 | mRNA | 63696469 | 63697196 | 63696469 | ID=Msa1170490-mRNA-1;Parent=Msa1170490;Name=Msa1170490-mRNA-1;_AED=0.38;_eAED=0.38;_QI=116|1|1|1|1|1|2|253|74 |
| chr7_4 | exon | 63696469 | 63696720 | 63696469 | ID=Msa1170490-mRNA-1:exon:20466;Parent=Msa1170490-mRNA-1 |
| chr7_4 | exon | 63696855 | 63697196 | 63696855 | ID=Msa1170490-mRNA-1:exon:20467;Parent=Msa1170490-mRNA-1 |
| chr7_4 | five_prime_UTR | 63696469 | 63696584 | 63696469 | ID=Msa1170490-mRNA-1:five_prime_utr;Parent=Msa1170490-mRNA-1 |
| chr7_4 | CDS | 63696585 | 63696720 | 63696585 | ID=Msa1170490-mRNA-1:cds;Parent=Msa1170490-mRNA-1 |
| chr7_4 | CDS | 63696855 | 63696943 | 63696855 | ID=Msa1170490-mRNA-1:cds;Parent=Msa1170490-mRNA-1 |
| chr7_4 | three_prime_UTR | 63696944 | 63697196 | 63696944 | ID=Msa1170490-mRNA-1:three_prime_utr;Parent=Msa1170490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
