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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205930 | RHN73970.1 | 42.759 | 145 | 35 | 2 | 1 | 101 | 7 | 147 | 5.35e-14 | 73.9 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205930 | A0A396J7B1 | 42.759 | 145 | 35 | 2 | 1 | 101 | 7 | 147 | 2.56e-14 | 73.9 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0205930 | Msa0360900 | 0.800247 | 1.575910e-48 | -8.615850e-47 |
| Msa0205930 | Msa0902020 | 0.800654 | 1.302392e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0205930 | MtrunA17_Chr2g0304451 | 42.759 | 145 | 35 | 2 | 1 | 101 | 7 | 147 | 4.92e-18 | 73.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 34 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGCTGACTATGTGGTATTCC+TGG | 0.225470 | 2_1:-33881098 | None:intergenic |
| CGCAATTACAGTCCACCAAC+TGG | 0.382264 | 2_1:+33880710 | Msa0205930:CDS |
| GGTTTACAGATAAGAGGTTT+CGG | 0.387418 | 2_1:-33880752 | None:intergenic |
| GCAGGAGGTTTACAGATAAG+AGG | 0.401742 | 2_1:-33880758 | None:intergenic |
| TACCACATAGTCAGCCTTGA+TGG | 0.422159 | 2_1:+33881105 | Msa0205930:CDS |
| GGAATCATACGAGGAGGAAC+AGG | 0.458742 | 2_1:-33881044 | None:intergenic |
| CGCGTGTATTTGATGCTTGG+TGG | 0.465621 | 2_1:-33880958 | None:intergenic |
| TTGCGCGTGTATTTGATGCT+TGG | 0.495878 | 2_1:-33880961 | None:intergenic |
| CAAATACACGCGCAACTCAA+TGG | 0.508627 | 2_1:+33880969 | Msa0205930:CDS |
| ATATGTGGTCTTCCAGTTGG+TGG | 0.515212 | 2_1:-33880722 | None:intergenic |
| GATCATCAATTGTCGGTGGC+TGG | 0.515925 | 2_1:-33881007 | None:intergenic |
| TATATGACAGGATGACTTGT+TGG | 0.521332 | 2_1:-33881071 | None:intergenic |
| CAACCACGGAGTGCTTCAGC+AGG | 0.540097 | 2_1:-33880776 | None:intergenic |
| GCTGACTATGTGGTATTCCT+GGG | 0.550073 | 2_1:-33881097 | None:intergenic |
| CATCCTGTCATATACAGCCC+AGG | 0.566184 | 2_1:+33881080 | Msa0205930:CDS |
| GGCCATCAAGGCTGACTATG+TGG | 0.576761 | 2_1:-33881107 | None:intergenic |
| CCACGGAGTGCTTCAGCAGG+AGG | 0.578482 | 2_1:-33880773 | None:intergenic |
| GCAGTTATCTCTCTTACCAA+TGG | 0.580466 | 2_1:+33880686 | Msa0205930:CDS |
| TGCCAGAAACAAAACTAGCA+TGG | 0.586006 | 2_1:-33880666 | None:intergenic |
| GGTTTCGGAGGGTGTATATG+TGG | 0.589122 | 2_1:-33880737 | None:intergenic |
| TGGACTGTAATTGCGACCAT+TGG | 0.590742 | 2_1:-33880702 | None:intergenic |
| ATTCCTGGGCTGTATATGAC+AGG | 0.597539 | 2_1:-33881083 | None:intergenic |
| TGTATATGTGGTCTTCCAGT+TGG | 0.603871 | 2_1:-33880725 | None:intergenic |
| AGGTTGAGATCATCAATTGT+CGG | 0.612499 | 2_1:-33881014 | None:intergenic |
| ATGACAGGATGACTTGTTGG+TGG | 0.616573 | 2_1:-33881068 | None:intergenic |
| TACAGATAAGAGGTTTCGGA+GGG | 0.625641 | 2_1:-33880748 | None:intergenic |
| TTACAGATAAGAGGTTTCGG+AGG | 0.626051 | 2_1:-33880749 | None:intergenic |
| ATACACGCGCAACTCAATGG+TGG | 0.647695 | 2_1:+33880972 | Msa0205930:CDS |
| ACAGGATGACTTGTTGGTGG+AGG | 0.654135 | 2_1:-33881065 | None:intergenic |
| TTGAGATCATCAATTGTCGG+TGG | 0.672194 | 2_1:-33881011 | None:intergenic |
| CCTCCTGCTGAAGCACTCCG+TGG | 0.689669 | 2_1:+33880773 | Msa0205930:CDS |
| GGTGGAGGAATCATACGAGG+AGG | 0.717555 | 2_1:-33881050 | None:intergenic |
| GAGGAGGAACAGGAAGACTG+AGG | 0.735400 | 2_1:-33881034 | None:intergenic |
| GTTGGTGGAGGAATCATACG+AGG | 0.757613 | 2_1:-33881053 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATTATTTGTCATATACAC+CGG | + | chr2_1:33880851-33880870 | Msa0205930:intron | 20.0% |
| !!! | AGCTAGTACTTTTTTTTTCT+GGG | - | chr2_1:33880809-33880828 | None:intergenic | 25.0% |
| ! | TGTAAGAAACAAAACTAACA+TGG | - | chr2_1:33880919-33880938 | None:intergenic | 25.0% |
| !!! | GAGCTAGTACTTTTTTTTTC+TGG | - | chr2_1:33880810-33880829 | None:intergenic | 30.0% |
| GGTTTACAGATAAGAGGTTT+CGG | - | chr2_1:33880755-33880774 | None:intergenic | 35.0% | |
| AGGTTGAGATCATCAATTGT+CGG | - | chr2_1:33881017-33881036 | None:intergenic | 35.0% | |
| ! | TATATGACAGGATGACTTGT+TGG | - | chr2_1:33881074-33881093 | None:intergenic | 35.0% |
| GCAGTTATCTCTCTTACCAA+TGG | + | chr2_1:33880686-33880705 | Msa0205930:CDS | 40.0% | |
| TGTATATGTGGTCTTCCAGT+TGG | - | chr2_1:33880728-33880747 | None:intergenic | 40.0% | |
| TACAGATAAGAGGTTTCGGA+GGG | - | chr2_1:33880751-33880770 | None:intergenic | 40.0% | |
| TTACAGATAAGAGGTTTCGG+AGG | - | chr2_1:33880752-33880771 | None:intergenic | 40.0% | |
| TATACACCGGTGATCATCAT+TGG | + | chr2_1:33880864-33880883 | Msa0205930:intron | 40.0% | |
| ATACACCGGTGATCATCATT+GGG | + | chr2_1:33880865-33880884 | Msa0205930:intron | 40.0% | |
| TTGAGATCATCAATTGTCGG+TGG | - | chr2_1:33881014-33881033 | None:intergenic | 40.0% | |
| TGGACTGTAATTGCGACCAT+TGG | - | chr2_1:33880705-33880724 | None:intergenic | 45.0% | |
| ATATGTGGTCTTCCAGTTGG+TGG | - | chr2_1:33880725-33880744 | None:intergenic | 45.0% | |
| GCAGGAGGTTTACAGATAAG+AGG | - | chr2_1:33880761-33880780 | None:intergenic | 45.0% | |
| TTCTGGGTATAGCACAACCA+CGG | - | chr2_1:33880793-33880812 | None:intergenic | 45.0% | |
| TTGCGCGTGTATTTGATGCT+TGG | - | chr2_1:33880964-33880983 | None:intergenic | 45.0% | |
| CAAATACACGCGCAACTCAA+TGG | + | chr2_1:33880969-33880988 | Msa0205930:CDS | 45.0% | |
| !! | ATGACAGGATGACTTGTTGG+TGG | - | chr2_1:33881071-33881090 | None:intergenic | 45.0% |
| ATTCCTGGGCTGTATATGAC+AGG | - | chr2_1:33881086-33881105 | None:intergenic | 45.0% | |
| GCTGACTATGTGGTATTCCT+GGG | - | chr2_1:33881100-33881119 | None:intergenic | 45.0% | |
| CGCAATTACAGTCCACCAAC+TGG | + | chr2_1:33880710-33880729 | Msa0205930:CDS | 50.0% | |
| ! | GGTTTCGGAGGGTGTATATG+TGG | - | chr2_1:33880740-33880759 | None:intergenic | 50.0% |
| ACCGGTGATCATCATTGGGA+AGG | + | chr2_1:33880869-33880888 | Msa0205930:intron | 50.0% | |
| CCCTTCCCAATGATGATCAC+CGG | - | chr2_1:33880873-33880892 | None:intergenic | 50.0% | |
| CCGGTGATCATCATTGGGAA+GGG | + | chr2_1:33880870-33880889 | Msa0205930:intron | 50.0% | |
| GTGATCATCATTGGGAAGGG+TGG | + | chr2_1:33880873-33880892 | Msa0205930:intron | 50.0% | |
| CGCGTGTATTTGATGCTTGG+TGG | - | chr2_1:33880961-33880980 | None:intergenic | 50.0% | |
| ATACACGCGCAACTCAATGG+TGG | + | chr2_1:33880972-33880991 | Msa0205930:CDS | 50.0% | |
| GATCATCAATTGTCGGTGGC+TGG | - | chr2_1:33881010-33881029 | None:intergenic | 50.0% | |
| GGAATCATACGAGGAGGAAC+AGG | - | chr2_1:33881047-33881066 | None:intergenic | 50.0% | |
| ! | GTTGGTGGAGGAATCATACG+AGG | - | chr2_1:33881056-33881075 | None:intergenic | 50.0% |
| !! | ACAGGATGACTTGTTGGTGG+AGG | - | chr2_1:33881068-33881087 | None:intergenic | 50.0% |
| CATCCTGTCATATACAGCCC+AGG | + | chr2_1:33881080-33881099 | Msa0205930:CDS | 50.0% | |
| GGCTGACTATGTGGTATTCC+TGG | - | chr2_1:33881101-33881120 | None:intergenic | 50.0% | |
| GAGGAGGAACAGGAAGACTG+AGG | - | chr2_1:33881037-33881056 | None:intergenic | 55.0% | |
| GGTGGAGGAATCATACGAGG+AGG | - | chr2_1:33881053-33881072 | None:intergenic | 55.0% | |
| ! | CAACCACGGAGTGCTTCAGC+AGG | - | chr2_1:33880779-33880798 | None:intergenic | 60.0% |
| ! | CCACGGAGTGCTTCAGCAGG+AGG | - | chr2_1:33880776-33880795 | None:intergenic | 65.0% |
| ! | CCTCCTGCTGAAGCACTCCG+TGG | + | chr2_1:33880773-33880792 | Msa0205930:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 33880668 | 33881124 | 33880668 | ID=Msa0205930;Name=Msa0205930 |
| chr2_1 | mRNA | 33880668 | 33881124 | 33880668 | ID=Msa0205930-mRNA-1;Parent=Msa0205930;Name=Msa0205930-mRNA-1;_AED=0.53;_eAED=0.60;_QI=0|0|0|1|1|1|2|0|101 |
| chr2_1 | exon | 33880668 | 33880794 | 33880668 | ID=Msa0205930-mRNA-1:exon:11500;Parent=Msa0205930-mRNA-1 |
| chr2_1 | exon | 33880946 | 33881124 | 33880946 | ID=Msa0205930-mRNA-1:exon:11501;Parent=Msa0205930-mRNA-1 |
| chr2_1 | CDS | 33880668 | 33880794 | 33880668 | ID=Msa0205930-mRNA-1:cds;Parent=Msa0205930-mRNA-1 |
| chr2_1 | CDS | 33880946 | 33881124 | 33880946 | ID=Msa0205930-mRNA-1:cds;Parent=Msa0205930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
