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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1411740 | G7I4G2 | 79.104 | 134 | 7 | 1 | 2 | 114 | 26 | 159 | 2.46e-65 | 207 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1411740 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1411740 | MtrunA17_Chr2g0289081 | 62.745 | 102 | 16 | 2 | 2 | 81 | 19 | 120 | 9.18e-34 | 114 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 118 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTCCAAAACCTTCTTTCT+TGG | 0.206214 | tig0023826:-85485 | None:intergenic |
| TATTTGTCCTATTGTTGATT+TGG | 0.256460 | tig0023826:+85417 | Msa1411740:CDS |
| AAGCAGGGAAGAGAAGTAAA+TGG | 0.304863 | tig0023826:+85649 | Msa1411740:CDS |
| TCAAATTCCAAATCAACAAT+AGG | 0.420244 | tig0023826:-85424 | None:intergenic |
| GAAGGTACACATATAGTAAA+GGG | 0.439216 | tig0023826:+85555 | Msa1411740:intron |
| TCACTTACTGTTTCAAAAGC+AGG | 0.452498 | tig0023826:+85633 | Msa1411740:CDS |
| ACATCGTTTGCCAAGAAAGA+AGG | 0.462978 | tig0023826:+85475 | Msa1411740:CDS |
| ATAGGACAAATATTAGCTTC+AGG | 0.470032 | tig0023826:-85406 | None:intergenic |
| AGCAGGGAAGAGAAGTAAAT+GGG | 0.489503 | tig0023826:+85650 | Msa1411740:CDS |
| TGAAGGTACACATATAGTAA+AGG | 0.494494 | tig0023826:+85554 | Msa1411740:intron |
| AATATTAGCTTCAGGCGACT+TGG | 0.496239 | tig0023826:-85398 | None:intergenic |
| GTAAAGGGTGAAAATGAAGA+AGG | 0.507431 | tig0023826:+85570 | Msa1411740:CDS |
| TGCTTTACAATCAGTTCTTG+AGG | 0.537334 | tig0023826:-85610 | None:intergenic |
| CACTTACTGTTTCAAAAGCA+GGG | 0.542698 | tig0023826:+85634 | Msa1411740:CDS |
| TAAAGGGTGAAAATGAAGAA+GGG | 0.554329 | tig0023826:+85571 | Msa1411740:CDS |
| ACACATCATCAACTATCTCA+TGG | 0.582009 | tig0023826:-85345 | None:intergenic |
| GTACATGCATAATGAGTGTG+TGG | 0.676324 | tig0023826:+85294 | Msa1411740:CDS |
| GTCTTCTAAACACTCAACAG+TGG | 0.678815 | tig0023826:-85323 | None:intergenic |
| TTTGGAATTTGACTCCATTG+CGG | 0.690541 | tig0023826:+85435 | Msa1411740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAACAGAAAATAATA+TGG | - | tig0023826:85190-85209 | None:intergenic | 10.0% |
| !! | AAAAAAAACAGAAAATAATA+TGG | - | tig0023826:85190-85209 | None:intergenic | 10.0% |
| !!! | CAATGAAAGTATTTAATTAT+GGG | - | tig0023826:85143-85162 | None:intergenic | 15.0% |
| !!! | ACAATGAAAGTATTTAATTA+TGG | - | tig0023826:85144-85163 | None:intergenic | 15.0% |
| !!! | TTGATTTTTTTATATCCTAT+AGG | + | tig0023826:85272-85291 | Msa1411740:intron | 15.0% |
| !!! | CAATGAAAGTATTTAATTAT+GGG | - | tig0023826:85143-85162 | None:intergenic | 15.0% |
| !!! | ACAATGAAAGTATTTAATTA+TGG | - | tig0023826:85144-85163 | None:intergenic | 15.0% |
| !!! | TTGATTTTTTTATATCCTAT+AGG | + | tig0023826:85272-85291 | Msa1411740:intron | 15.0% |
| !!! | CACAATGTTTAATTCTAAAA+AGG | + | tig0023826:84790-84809 | Msa1411740:intron | 20.0% |
| !!! | TAATTCTAAAAAGGAAACTT+AGG | + | tig0023826:84799-84818 | Msa1411740:intron | 20.0% |
| !! | CATTGTCAATAAAATCTTAA+GGG | - | tig0023826:84975-84994 | None:intergenic | 20.0% |
| !! | TCATTGTCAATAAAATCTTA+AGG | - | tig0023826:84976-84995 | None:intergenic | 20.0% |
| !! | TAAAGACAAATAAAAGAACA+TGG | - | tig0023826:85096-85115 | None:intergenic | 20.0% |
| !!! | CACAATGTTTAATTCTAAAA+AGG | + | tig0023826:84790-84809 | Msa1411740:intron | 20.0% |
| !!! | TAATTCTAAAAAGGAAACTT+AGG | + | tig0023826:84799-84818 | Msa1411740:intron | 20.0% |
| !! | CATTGTCAATAAAATCTTAA+GGG | - | tig0023826:84975-84994 | None:intergenic | 20.0% |
| !! | TCATTGTCAATAAAATCTTA+AGG | - | tig0023826:84976-84995 | None:intergenic | 20.0% |
| !! | TAAAGACAAATAAAAGAACA+TGG | - | tig0023826:85096-85115 | None:intergenic | 20.0% |
| ! | ATTTAATTATGGGAGAAACA+TGG | - | tig0023826:85133-85152 | None:intergenic | 25.0% |
| ! | AATACTTTCATTGTTCATTG+AGG | + | tig0023826:85150-85169 | Msa1411740:intron | 25.0% |
| ! | TCATGAATACTCATTATTCA+TGG | + | tig0023826:85244-85263 | Msa1411740:intron | 25.0% |
| !! | TATTTGTCCTATTGTTGATT+TGG | + | tig0023826:85417-85436 | Msa1411740:CDS | 25.0% |
| ! | TCAAATTCCAAATCAACAAT+AGG | - | tig0023826:85427-85446 | None:intergenic | 25.0% |
| ! | ATTTAATTATGGGAGAAACA+TGG | - | tig0023826:85133-85152 | None:intergenic | 25.0% |
| ! | AATACTTTCATTGTTCATTG+AGG | + | tig0023826:85150-85169 | Msa1411740:intron | 25.0% |
| ! | TCATGAATACTCATTATTCA+TGG | + | tig0023826:85244-85263 | Msa1411740:intron | 25.0% |
| !! | TATTTGTCCTATTGTTGATT+TGG | + | tig0023826:85417-85436 | Msa1411740:CDS | 25.0% |
| ! | TCAAATTCCAAATCAACAAT+AGG | - | tig0023826:85427-85446 | None:intergenic | 25.0% |
| GTGTACTAAATTGATCTTAG+GGG | - | tig0023826:85011-85030 | None:intergenic | 30.0% | |
| GGTGTACTAAATTGATCTTA+GGG | - | tig0023826:85012-85031 | None:intergenic | 30.0% | |
| TTGTCTTTCACGTGTTAATA+GGG | + | tig0023826:85060-85079 | Msa1411740:intron | 30.0% | |
| AGACAAATAAAAGAACATGG+TGG | - | tig0023826:85093-85112 | None:intergenic | 30.0% | |
| AAACAGAAAATAATATGGCG+TGG | - | tig0023826:85185-85204 | None:intergenic | 30.0% | |
| ! | GACTTGGAATTTTCTGAATT+TGG | - | tig0023826:85385-85404 | None:intergenic | 30.0% |
| ! | ATAGGACAAATATTAGCTTC+AGG | - | tig0023826:85409-85428 | None:intergenic | 30.0% |
| ! | TGAAGGTACACATATAGTAA+AGG | + | tig0023826:85554-85573 | Msa1411740:intron | 30.0% |
| ! | GAAGGTACACATATAGTAAA+GGG | + | tig0023826:85555-85574 | Msa1411740:intron | 30.0% |
| TAAAGGGTGAAAATGAAGAA+GGG | + | tig0023826:85571-85590 | Msa1411740:CDS | 30.0% | |
| GTGTACTAAATTGATCTTAG+GGG | - | tig0023826:85011-85030 | None:intergenic | 30.0% | |
| GGTGTACTAAATTGATCTTA+GGG | - | tig0023826:85012-85031 | None:intergenic | 30.0% | |
| TTGTCTTTCACGTGTTAATA+GGG | + | tig0023826:85060-85079 | Msa1411740:intron | 30.0% | |
| AGACAAATAAAAGAACATGG+TGG | - | tig0023826:85093-85112 | None:intergenic | 30.0% | |
| AAACAGAAAATAATATGGCG+TGG | - | tig0023826:85185-85204 | None:intergenic | 30.0% | |
| ! | GACTTGGAATTTTCTGAATT+TGG | - | tig0023826:85385-85404 | None:intergenic | 30.0% |
| ! | ATAGGACAAATATTAGCTTC+AGG | - | tig0023826:85409-85428 | None:intergenic | 30.0% |
| ! | TGAAGGTACACATATAGTAA+AGG | + | tig0023826:85554-85573 | Msa1411740:intron | 30.0% |
| ! | GAAGGTACACATATAGTAAA+GGG | + | tig0023826:85555-85574 | Msa1411740:intron | 30.0% |
| TAAAGGGTGAAAATGAAGAA+GGG | + | tig0023826:85571-85590 | Msa1411740:CDS | 30.0% | |
| TGTGTTACAGAAAACTCACA+CGG | - | tig0023826:84943-84962 | None:intergenic | 35.0% | |
| CTAAATTGATCTTAGGGGAA+AGG | - | tig0023826:85006-85025 | None:intergenic | 35.0% | |
| CGGTGTACTAAATTGATCTT+AGG | - | tig0023826:85013-85032 | None:intergenic | 35.0% | |
| AGTACACCGTCAAAAACAAT+TGG | + | tig0023826:85024-85043 | Msa1411740:intron | 35.0% | |
| CTTGTCTTTCACGTGTTAAT+AGG | + | tig0023826:85059-85078 | Msa1411740:intron | 35.0% | |
| TTTCACGTGTTAATAGGGAT+TGG | + | tig0023826:85065-85084 | Msa1411740:intron | 35.0% | |
| CTCATTATGCATGTACCTAT+AGG | - | tig0023826:85290-85309 | None:intergenic | 35.0% | |
| ACACATCATCAACTATCTCA+TGG | - | tig0023826:85348-85367 | None:intergenic | 35.0% | |
| ! | TTTGGAATTTGACTCCATTG+CGG | + | tig0023826:85435-85454 | Msa1411740:CDS | 35.0% |
| ! | GAATTCTTTTACATCCGCAA+TGG | - | tig0023826:85452-85471 | None:intergenic | 35.0% |
| ! | TTTGCCAAGAAAGAAGGTTT+TGG | + | tig0023826:85481-85500 | Msa1411740:intron | 35.0% |
| AACTCCAAAACCTTCTTTCT+TGG | - | tig0023826:85488-85507 | None:intergenic | 35.0% | |
| !!! | AAGGTTTTGGAGTTCTTGTT+CGG | + | tig0023826:85494-85513 | Msa1411740:intron | 35.0% |
| GTAAAGGGTGAAAATGAAGA+AGG | + | tig0023826:85570-85589 | Msa1411740:CDS | 35.0% | |
| TGCTTTACAATCAGTTCTTG+AGG | - | tig0023826:85613-85632 | None:intergenic | 35.0% | |
| TCACTTACTGTTTCAAAAGC+AGG | + | tig0023826:85633-85652 | Msa1411740:CDS | 35.0% | |
| CACTTACTGTTTCAAAAGCA+GGG | + | tig0023826:85634-85653 | Msa1411740:CDS | 35.0% | |
| TGTGTTACAGAAAACTCACA+CGG | - | tig0023826:84943-84962 | None:intergenic | 35.0% | |
| CTAAATTGATCTTAGGGGAA+AGG | - | tig0023826:85006-85025 | None:intergenic | 35.0% | |
| CGGTGTACTAAATTGATCTT+AGG | - | tig0023826:85013-85032 | None:intergenic | 35.0% | |
| AGTACACCGTCAAAAACAAT+TGG | + | tig0023826:85024-85043 | Msa1411740:intron | 35.0% | |
| CTTGTCTTTCACGTGTTAAT+AGG | + | tig0023826:85059-85078 | Msa1411740:intron | 35.0% | |
| TTTCACGTGTTAATAGGGAT+TGG | + | tig0023826:85065-85084 | Msa1411740:intron | 35.0% | |
| CTCATTATGCATGTACCTAT+AGG | - | tig0023826:85290-85309 | None:intergenic | 35.0% | |
| ACACATCATCAACTATCTCA+TGG | - | tig0023826:85348-85367 | None:intergenic | 35.0% | |
| ! | TTTGGAATTTGACTCCATTG+CGG | + | tig0023826:85435-85454 | Msa1411740:CDS | 35.0% |
| ! | GAATTCTTTTACATCCGCAA+TGG | - | tig0023826:85452-85471 | None:intergenic | 35.0% |
| ! | TTTGCCAAGAAAGAAGGTTT+TGG | + | tig0023826:85481-85500 | Msa1411740:intron | 35.0% |
| AACTCCAAAACCTTCTTTCT+TGG | - | tig0023826:85488-85507 | None:intergenic | 35.0% | |
| !!! | AAGGTTTTGGAGTTCTTGTT+CGG | + | tig0023826:85494-85513 | Msa1411740:intron | 35.0% |
| GTAAAGGGTGAAAATGAAGA+AGG | + | tig0023826:85570-85589 | Msa1411740:CDS | 35.0% | |
| TGCTTTACAATCAGTTCTTG+AGG | - | tig0023826:85613-85632 | None:intergenic | 35.0% | |
| TCACTTACTGTTTCAAAAGC+AGG | + | tig0023826:85633-85652 | Msa1411740:CDS | 35.0% | |
| CACTTACTGTTTCAAAAGCA+GGG | + | tig0023826:85634-85653 | Msa1411740:CDS | 35.0% | |
| ACACGTGAAAGACAAGCATA+TGG | - | tig0023826:85055-85074 | None:intergenic | 40.0% | |
| GTACATGCATAATGAGTGTG+TGG | + | tig0023826:85294-85313 | Msa1411740:CDS | 40.0% | |
| GTCTTCTAAACACTCAACAG+TGG | - | tig0023826:85326-85345 | None:intergenic | 40.0% | |
| ! | AATATTAGCTTCAGGCGACT+TGG | - | tig0023826:85401-85420 | None:intergenic | 40.0% |
| ACATCGTTTGCCAAGAAAGA+AGG | + | tig0023826:85475-85494 | Msa1411740:CDS | 40.0% | |
| ATGTTTGTACGCGCTAATGA+AGG | + | tig0023826:85537-85556 | Msa1411740:intron | 40.0% | |
| AAGCAGGGAAGAGAAGTAAA+TGG | + | tig0023826:85649-85668 | Msa1411740:CDS | 40.0% | |
| AGCAGGGAAGAGAAGTAAAT+GGG | + | tig0023826:85650-85669 | Msa1411740:CDS | 40.0% | |
| ACACGTGAAAGACAAGCATA+TGG | - | tig0023826:85055-85074 | None:intergenic | 40.0% | |
| GTACATGCATAATGAGTGTG+TGG | + | tig0023826:85294-85313 | Msa1411740:CDS | 40.0% | |
| GTCTTCTAAACACTCAACAG+TGG | - | tig0023826:85326-85345 | None:intergenic | 40.0% | |
| ! | AATATTAGCTTCAGGCGACT+TGG | - | tig0023826:85401-85420 | None:intergenic | 40.0% |
| ACATCGTTTGCCAAGAAAGA+AGG | + | tig0023826:85475-85494 | Msa1411740:CDS | 40.0% | |
| ATGTTTGTACGCGCTAATGA+AGG | + | tig0023826:85537-85556 | Msa1411740:intron | 40.0% | |
| AAGCAGGGAAGAGAAGTAAA+TGG | + | tig0023826:85649-85668 | Msa1411740:CDS | 40.0% | |
| AGCAGGGAAGAGAAGTAAAT+GGG | + | tig0023826:85650-85669 | Msa1411740:CDS | 40.0% | |
| ATCAAAACCTCGTGACAACG+AGG | - | tig0023826:84866-84885 | None:intergenic | 45.0% | |
| GAAAACTCACACGGTAACGA+AGG | - | tig0023826:84934-84953 | None:intergenic | 45.0% | |
| !!! | GCGGTGCCAATTGTTTTTGA+CGG | - | tig0023826:85033-85052 | None:intergenic | 45.0% |
| CGTGAAAGACAAGCATATGG+CGG | - | tig0023826:85052-85071 | None:intergenic | 45.0% | |
| ATCAAAACCTCGTGACAACG+AGG | - | tig0023826:84866-84885 | None:intergenic | 45.0% | |
| GAAAACTCACACGGTAACGA+AGG | - | tig0023826:84934-84953 | None:intergenic | 45.0% | |
| !!! | GCGGTGCCAATTGTTTTTGA+CGG | - | tig0023826:85033-85052 | None:intergenic | 45.0% |
| CGTGAAAGACAAGCATATGG+CGG | - | tig0023826:85052-85071 | None:intergenic | 45.0% | |
| ! | CTTTTCTCCTCGTTGTCACG+AGG | + | tig0023826:84856-84875 | Msa1411740:intron | 50.0% |
| AACTTTCTCCTCAGCGGCAA+CGG | - | tig0023826:84906-84925 | None:intergenic | 50.0% | |
| GTGCAGAACTTTCTCCTCAG+CGG | - | tig0023826:84912-84931 | None:intergenic | 50.0% | |
| ! | CTTTTCTCCTCGTTGTCACG+AGG | + | tig0023826:84856-84875 | Msa1411740:intron | 50.0% |
| AACTTTCTCCTCAGCGGCAA+CGG | - | tig0023826:84906-84925 | None:intergenic | 50.0% | |
| GTGCAGAACTTTCTCCTCAG+CGG | - | tig0023826:84912-84931 | None:intergenic | 50.0% | |
| ACTTTCTCCTCAGCGGCAAC+GGG | - | tig0023826:84905-84924 | None:intergenic | 55.0% | |
| ACTTTCTCCTCAGCGGCAAC+GGG | - | tig0023826:84905-84924 | None:intergenic | 55.0% | |
| CTTTCTCCTCAGCGGCAACG+GGG | - | tig0023826:84904-84923 | None:intergenic | 60.0% | |
| CTTTCTCCTCAGCGGCAACG+GGG | - | tig0023826:84904-84923 | None:intergenic | 60.0% | |
| AGCAAGCCCCGTTGCCGCTG+AGG | + | tig0023826:84895-84914 | Msa1411740:intron | 70.0% | |
| AGCAAGCCCCGTTGCCGCTG+AGG | + | tig0023826:84895-84914 | Msa1411740:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023826 | gene | 84782 | 85716 | 84782 | ID=Msa1411740;Name=Msa1411740 |
| tig0023826 | mRNA | 84782 | 85716 | 84782 | ID=Msa1411740-mRNA-1;Parent=Msa1411740;Name=Msa1411740-mRNA-1;_AED=0.13;_eAED=0.13;_QI=0|0|0|0.66|1|1|3|0|121 |
| tig0023826 | exon | 84782 | 84786 | 84782 | ID=Msa1411740-mRNA-1:exon:20258;Parent=Msa1411740-mRNA-1 |
| tig0023826 | exon | 85294 | 85496 | 85294 | ID=Msa1411740-mRNA-1:exon:20259;Parent=Msa1411740-mRNA-1 |
| tig0023826 | exon | 85559 | 85716 | 85559 | ID=Msa1411740-mRNA-1:exon:20260;Parent=Msa1411740-mRNA-1 |
| tig0023826 | CDS | 84782 | 84786 | 84782 | ID=Msa1411740-mRNA-1:cds;Parent=Msa1411740-mRNA-1 |
| tig0023826 | CDS | 85294 | 85496 | 85294 | ID=Msa1411740-mRNA-1:cds;Parent=Msa1411740-mRNA-1 |
| tig0023826 | CDS | 85559 | 85716 | 85559 | ID=Msa1411740-mRNA-1:cds;Parent=Msa1411740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
