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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531060 | KEH28745.1 | 92.500 | 40 | 3 | 0 | 14 | 53 | 19 | 58 | 5.43e-18 | 84.3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531060 | A0A072US92 | 92.500 | 40 | 3 | 0 | 14 | 53 | 19 | 58 | 2.59e-18 | 84.3 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0531060 | Msa0548240 | 0.802678 | 5.005458e-49 | -8.615850e-47 |
| Msa0531060 | Msa0587910 | 0.841197 | 5.498358e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0531060 | MtrunA17_Chr2g0279841 | 31.469 | 143 | 60 | 2 | 26 | 130 | 141 | 283 | 7.14e-14 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGATGCTGCTTGCTTTAC+AGG | 0.073277 | 4_1:+5178809 | Msa0531060:CDS |
| AATTTACAGTCTTGAATAAT+AGG | 0.257127 | 4_1:-5179066 | None:intergenic |
| TGCTTTACAGGTGGTATAAC+TGG | 0.286866 | 4_1:+5178821 | Msa0531060:CDS |
| TTATGAAATATGATGTTAAT+AGG | 0.310176 | 4_1:+5178723 | Msa0531060:CDS |
| ACATCACCAACATGACTCTT+AGG | 0.326215 | 4_1:-5179090 | None:intergenic |
| GAACATAATGATTTATTTGT+TGG | 0.330173 | 4_1:-5178766 | None:intergenic |
| GCTGCTTTGTCTAAGTCTCT+TGG | 0.384112 | 4_1:+5179162 | Msa0531060:CDS |
| AAATATGATGTTAATAGGTA+TGG | 0.419315 | 4_1:+5178728 | Msa0531060:CDS |
| TAGTGTTCCTAGCCTTTGCT+TGG | 0.457263 | 4_1:+5179203 | Msa0531060:CDS |
| AGTCTTGAATAATAGGATCA+AGG | 0.481721 | 4_1:-5179059 | None:intergenic |
| AAAATTGCACCACACCAGAT+TGG | 0.488889 | 4_1:-5178865 | None:intergenic |
| ATGGTTGCTTATAACCAATC+TGG | 0.492558 | 4_1:+5178851 | Msa0531060:CDS |
| GTCTTGAATAATAGGATCAA+GGG | 0.494174 | 4_1:-5179058 | None:intergenic |
| TACAGGTGGTATAACTGGAT+GGG | 0.534122 | 4_1:+5178826 | Msa0531060:CDS |
| TGGTATAACTGGATGGGGAA+TGG | 0.534928 | 4_1:+5178832 | Msa0531060:CDS |
| ATAATGATTTATTTGTTGGT+CGG | 0.535582 | 4_1:-5178762 | None:intergenic |
| ATTAACCACAGTTTCAGCAT+TGG | 0.543232 | 4_1:-5179007 | None:intergenic |
| TTACAGGTGGTATAACTGGA+TGG | 0.557506 | 4_1:+5178825 | Msa0531060:CDS |
| AAATTACCTAAGAGTCATGT+TGG | 0.570288 | 4_1:+5179084 | Msa0531060:CDS |
| ACAGGTGGTATAACTGGATG+GGG | 0.576765 | 4_1:+5178827 | Msa0531060:CDS |
| CTAGAGGCCAAGCAAAGGCT+AGG | 0.583449 | 4_1:-5179210 | None:intergenic |
| TGCTTCCAATGCTGAAACTG+TGG | 0.590669 | 4_1:+5179002 | Msa0531060:CDS |
| GATGCTGCTTGCTTTACAGG+TGG | 0.593786 | 4_1:+5178812 | Msa0531060:CDS |
| TGAACTAGAAATACAACTAG+AGG | 0.605216 | 4_1:-5179226 | None:intergenic |
| TACAACTAGAGGCCAAGCAA+AGG | 0.628951 | 4_1:-5179215 | None:intergenic |
| TAATACAGAATTGAGTGTGG+TGG | 0.651721 | 4_1:+5179035 | Msa0531060:CDS |
| CATTAATACAGAATTGAGTG+TGG | 0.727175 | 4_1:+5179032 | Msa0531060:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATGAAATATGATGTTAAT+AGG | + | chr4_1:5178723-5178742 | Msa0531060:CDS | 15.0% |
| !! | AAATATGATGTTAATAGGTA+TGG | + | chr4_1:5178728-5178747 | Msa0531060:CDS | 20.0% |
| !!! | ATAATGATTTATTTGTTGGT+CGG | - | chr4_1:5178765-5178784 | None:intergenic | 20.0% |
| !! | GAACATAATGATTTATTTGT+TGG | - | chr4_1:5178769-5178788 | None:intergenic | 20.0% |
| !! | AATTTACAGTCTTGAATAAT+AGG | - | chr4_1:5179069-5179088 | None:intergenic | 20.0% |
| ! | ACAAAAAACAGTTCAGTAAT+TGG | - | chr4_1:5178791-5178810 | None:intergenic | 25.0% |
| CATTAATACAGAATTGAGTG+TGG | + | chr4_1:5179032-5179051 | Msa0531060:CDS | 30.0% | |
| GTCTTGAATAATAGGATCAA+GGG | - | chr4_1:5179061-5179080 | None:intergenic | 30.0% | |
| AGTCTTGAATAATAGGATCA+AGG | - | chr4_1:5179062-5179081 | None:intergenic | 30.0% | |
| AAATTACCTAAGAGTCATGT+TGG | + | chr4_1:5179084-5179103 | Msa0531060:CDS | 30.0% | |
| AGTCTCTTGGTTTAAAAACA+TGG | + | chr4_1:5179175-5179194 | Msa0531060:CDS | 30.0% | |
| TGAACTAGAAATACAACTAG+AGG | - | chr4_1:5179229-5179248 | None:intergenic | 30.0% | |
| ATGGTTGCTTATAACCAATC+TGG | + | chr4_1:5178851-5178870 | Msa0531060:CDS | 35.0% | |
| CATTGAAATTGATCCAGTGT+CGG | + | chr4_1:5178907-5178926 | Msa0531060:intron | 35.0% | |
| ATAGCAATACATGACTCTAC+AGG | - | chr4_1:5178982-5179001 | None:intergenic | 35.0% | |
| ATTAACCACAGTTTCAGCAT+TGG | - | chr4_1:5179010-5179029 | None:intergenic | 35.0% | |
| TAATACAGAATTGAGTGTGG+TGG | + | chr4_1:5179035-5179054 | Msa0531060:CDS | 35.0% | |
| TGCTTTACAGGTGGTATAAC+TGG | + | chr4_1:5178821-5178840 | Msa0531060:CDS | 40.0% | |
| TTACAGGTGGTATAACTGGA+TGG | + | chr4_1:5178825-5178844 | Msa0531060:CDS | 40.0% | |
| TACAGGTGGTATAACTGGAT+GGG | + | chr4_1:5178826-5178845 | Msa0531060:CDS | 40.0% | |
| TGCTTATAACCAATCTGGTG+TGG | + | chr4_1:5178856-5178875 | Msa0531060:intron | 40.0% | |
| AAAATTGCACCACACCAGAT+TGG | - | chr4_1:5178868-5178887 | None:intergenic | 40.0% | |
| CGACACTGGATCAATTTCAA+TGG | - | chr4_1:5178909-5178928 | None:intergenic | 40.0% | |
| ACATCACCAACATGACTCTT+AGG | - | chr4_1:5179093-5179112 | None:intergenic | 40.0% | |
| ! | GTTGATGCTGCTTGCTTTAC+AGG | + | chr4_1:5178809-5178828 | Msa0531060:CDS | 45.0% |
| ACAGGTGGTATAACTGGATG+GGG | + | chr4_1:5178827-5178846 | Msa0531060:CDS | 45.0% | |
| TGGTATAACTGGATGGGGAA+TGG | + | chr4_1:5178832-5178851 | Msa0531060:CDS | 45.0% | |
| ! | TGAAATTGATCCAGTGTCGG+CGG | + | chr4_1:5178910-5178929 | Msa0531060:intron | 45.0% |
| TGCTTCCAATGCTGAAACTG+TGG | + | chr4_1:5179002-5179021 | Msa0531060:CDS | 45.0% | |
| ! | GCTGCTTTGTCTAAGTCTCT+TGG | + | chr4_1:5179162-5179181 | Msa0531060:CDS | 45.0% |
| ! | TAGTGTTCCTAGCCTTTGCT+TGG | + | chr4_1:5179203-5179222 | Msa0531060:CDS | 45.0% |
| TACAACTAGAGGCCAAGCAA+AGG | - | chr4_1:5179218-5179237 | None:intergenic | 45.0% | |
| ! | GATGCTGCTTGCTTTACAGG+TGG | + | chr4_1:5178812-5178831 | Msa0531060:CDS | 50.0% |
| !! | CGGAAGCACTTGGGGTTAGA+TGG | + | chr4_1:5178930-5178949 | Msa0531060:intron | 55.0% |
| CTAGAGGCCAAGCAAAGGCT+AGG | - | chr4_1:5179213-5179232 | None:intergenic | 55.0% | |
| !! | CAGTGTCGGCGGAAGCACTT+GGG | + | chr4_1:5178921-5178940 | Msa0531060:intron | 60.0% |
| !! | AGTGTCGGCGGAAGCACTTG+GGG | + | chr4_1:5178922-5178941 | Msa0531060:intron | 60.0% |
| CCAAGTGCTTCCGCCGACAC+TGG | - | chr4_1:5178923-5178942 | None:intergenic | 65.0% | |
| !! | CCAGTGTCGGCGGAAGCACT+TGG | + | chr4_1:5178920-5178939 | Msa0531060:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 5178713 | 5179281 | 5178713 | ID=Msa0531060;Name=Msa0531060 |
| chr4_1 | mRNA | 5178713 | 5179281 | 5178713 | ID=Msa0531060-mRNA-1;Parent=Msa0531060;Name=Msa0531060-mRNA-1;_AED=0.58;_eAED=0.58;_QI=0|0|0|0.5|1|1|2|0|151 |
| chr4_1 | exon | 5178713 | 5178872 | 5178713 | ID=Msa0531060-mRNA-1:exon:1591;Parent=Msa0531060-mRNA-1 |
| chr4_1 | exon | 5178986 | 5179281 | 5178986 | ID=Msa0531060-mRNA-1:exon:1592;Parent=Msa0531060-mRNA-1 |
| chr4_1 | CDS | 5178713 | 5178872 | 5178713 | ID=Msa0531060-mRNA-1:cds;Parent=Msa0531060-mRNA-1 |
| chr4_1 | CDS | 5178986 | 5179281 | 5178986 | ID=Msa0531060-mRNA-1:cds;Parent=Msa0531060-mRNA-1 |
| Gene Sequence |
| Protein sequence |
