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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0667450 | XP_027189323.1 | 55.696 | 237 | 61 | 7 | 1 | 202 | 57 | 284 | 3.33e-67 | 218 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0667450 | A0A3Q7XPU2 | 55.696 | 237 | 61 | 7 | 1 | 202 | 57 | 284 | 1.59e-67 | 218 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0667450 | TR | ARID |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0667450 | MtrunA17_Chr1g0192841 | 54.375 | 160 | 34 | 3 | 81 | 202 | 74 | 232 | 2.81e-49 | 160 |
| Msa0667450 | MtrunA17_Chr5g0445971 | 68.182 | 88 | 26 | 1 | 1 | 86 | 51 | 138 | 1.18e-33 | 118 |
| Msa0667450 | MtrunA17_Chr5g0435401 | 66.667 | 75 | 25 | 0 | 1 | 75 | 63 | 137 | 6.51e-26 | 103 |
| Msa0667450 | MtrunA17_Chr5g0435401 | 47.445 | 137 | 56 | 6 | 76 | 202 | 271 | 401 | 1.80e-23 | 96.3 |
| Msa0667450 | MtrunA17_Chr5g0435401 | 58.025 | 81 | 30 | 1 | 76 | 152 | 195 | 275 | 6.67e-22 | 92.0 |
| 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 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTAAAGCAGATACAAGTCTA+AGG | 0.365662 | 4_4:+7745072 | None:intergenic |
| ATTCAAGAATCCCTTCTTCC+CGG | 0.381260 | 4_4:-7744127 | Msa0667450:CDS |
| ACAAAAGAGTAATTTGTTAG+AGG | 0.388722 | 4_4:+7744195 | None:intergenic |
| TTTGAGAAATTGTACTTCTC+TGG | 0.396109 | 4_4:-7744759 | Msa0667450:CDS |
| AGGTTGCTCTACAAAACAAA+TGG | 0.410065 | 4_4:-7744872 | Msa0667450:CDS |
| GATGTCTGTCGACGATAAAC+AGG | 0.428050 | 4_4:-7744432 | Msa0667450:intron |
| CAGTAAGTATCGAAATCAAC+CGG | 0.431018 | 4_4:+7744108 | None:intergenic |
| AAACGGCGAGGTGGTCCAAC+TGG | 0.434685 | 4_4:-7744566 | Msa0667450:CDS |
| CTGGTGAAAACCTCCTCTTC+TGG | 0.440306 | 4_4:+7745039 | None:intergenic |
| GTCTCTGCACTGAAACTAGA+AGG | 0.443281 | 4_4:-7744840 | Msa0667450:CDS |
| CAGAAGAAGCCTCGTCTGTC+CGG | 0.457474 | 4_4:-7744243 | Msa0667450:CDS |
| AGACTTGTATCTGCTTTACT+TGG | 0.470775 | 4_4:-7745068 | Msa0667450:CDS |
| ATCGAAATCAACCGGGAAGA+AGG | 0.475802 | 4_4:+7744116 | None:intergenic |
| TCGATTAAAAGCTCATGTTC+CGG | 0.480755 | 4_4:-7744504 | Msa0667450:CDS |
| TACTTCTCTGGCAGCTCCAA+AGG | 0.496952 | 4_4:-7744747 | Msa0667450:intron |
| TACGCATGGCTATTGATGCT+TGG | 0.507330 | 4_4:-7744460 | Msa0667450:CDS |
| TGTATAGAAGTATTGCATAG+AGG | 0.512721 | 4_4:+7744784 | None:intergenic |
| CATTTCAAAAGCCACGTTCG+CGG | 0.533360 | 4_4:+7744161 | None:intergenic |
| ACAAGTCTAAGGAAGTTTCT+CGG | 0.546217 | 4_4:+7745083 | None:intergenic |
| GCTCATGTTCCGGACATAGT+TGG | 0.547344 | 4_4:-7744494 | Msa0667450:CDS |
| TACTTGGAAGTCACCAGAAG+AGG | 0.547711 | 4_4:-7745052 | Msa0667450:CDS |
| TCGAAATCAACCGGGAAGAA+GGG | 0.551396 | 4_4:+7744117 | None:intergenic |
| GGTTGCTCTACAAAACAAAT+GGG | 0.552001 | 4_4:-7744871 | Msa0667450:CDS |
| ATGGCAAAGAAAAGAAGAAA+CGG | 0.560257 | 4_4:-7744583 | Msa0667450:CDS |
| ATATCAAATATTTCTCAAGC+AGG | 0.571118 | 4_4:-7744534 | Msa0667450:CDS |
| AGTTACACAGTTAGAGTCAC+CGG | 0.586551 | 4_4:+7744224 | None:intergenic |
| TTGGAAGTCACCAGAAGAGG+AGG | 0.590853 | 4_4:-7745049 | Msa0667450:CDS |
| CAACAACGCAGCCGCGAACG+TGG | 0.625266 | 4_4:-7744172 | Msa0667450:CDS |
| AAGCATCAATAGCCATGCGT+AGG | 0.630888 | 4_4:+7744462 | None:intergenic |
| GAAAAGAAGAAACGGCGAGG+TGG | 0.658094 | 4_4:-7744575 | Msa0667450:CDS |
| TTAGAGTCACCGGACAGACG+AGG | 0.678770 | 4_4:+7744234 | None:intergenic |
| AGTAAGTATCGAAATCAACC+GGG | 0.679811 | 4_4:+7744109 | None:intergenic |
| AAAGATGAATGAAACAAACA+AGG | 0.685822 | 4_4:-7744292 | Msa0667450:CDS |
| AAAGAAAAGAAGAAACGGCG+AGG | 0.733773 | 4_4:-7744578 | Msa0667450:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATACACAAGATAACTAAAAT+CGG | + | chr4_4:7744196-7744215 | None:intergenic | 20.0% |
| !! | AAAGTCTTTCTTGATTAAAT+TGG | + | chr4_4:7744240-7744259 | None:intergenic | 20.0% |
| !! | GCATATAAATAATCACAAAT+TGG | + | chr4_4:7744491-7744510 | None:intergenic | 20.0% |
| !! | AAAAAGTAATTAGAAATGCA+TGG | + | chr4_4:7744862-7744881 | None:intergenic | 20.0% |
| !! | ATACACAAGATAACTAAAAT+CGG | + | chr4_4:7744196-7744215 | None:intergenic | 20.0% |
| !! | AAAGTCTTTCTTGATTAAAT+TGG | + | chr4_4:7744240-7744259 | None:intergenic | 20.0% |
| !! | GCATATAAATAATCACAAAT+TGG | + | chr4_4:7744491-7744510 | None:intergenic | 20.0% |
| !! | AAAAAGTAATTAGAAATGCA+TGG | + | chr4_4:7744862-7744881 | None:intergenic | 20.0% |
| ! | TTAATTTACAACTCATGATC+CGG | - | chr4_4:7744589-7744608 | Msa0667450:intron | 25.0% |
| ! | ATATCAAATATTTCTCAAGC+AGG | - | chr4_4:7744667-7744686 | Msa0667450:intron | 25.0% |
| ! | AAAGATGAATGAAACAAACA+AGG | - | chr4_4:7744909-7744928 | Msa0667450:intron | 25.0% |
| !!! | ACAAAAGAGTAATTTGTTAG+AGG | + | chr4_4:7745009-7745028 | None:intergenic | 25.0% |
| ! | TTAATTTACAACTCATGATC+CGG | - | chr4_4:7744589-7744608 | Msa0667450:intron | 25.0% |
| ! | ATATCAAATATTTCTCAAGC+AGG | - | chr4_4:7744667-7744686 | Msa0667450:intron | 25.0% |
| ! | AAAGATGAATGAAACAAACA+AGG | - | chr4_4:7744909-7744928 | Msa0667450:intron | 25.0% |
| !!! | ACAAAAGAGTAATTTGTTAG+AGG | + | chr4_4:7745009-7745028 | None:intergenic | 25.0% |
| CAATTCTCTTGAATGTTTCA+AGG | - | chr4_4:7744309-7744328 | Msa0667450:intron | 30.0% | |
| !! | TGTATAGAAGTATTGCATAG+AGG | + | chr4_4:7744420-7744439 | None:intergenic | 30.0% |
| TTTGAGAAATTGTACTTCTC+TGG | - | chr4_4:7744442-7744461 | Msa0667450:CDS | 30.0% | |
| ATGCTTGATATGTAGATGTT+TGG | - | chr4_4:7744545-7744564 | Msa0667450:CDS | 30.0% | |
| ATGGCAAAGAAAAGAAGAAA+CGG | - | chr4_4:7744618-7744637 | Msa0667450:intron | 30.0% | |
| ! | ACATTTTTACCAACTATGTC+CGG | + | chr4_4:7744719-7744738 | None:intergenic | 30.0% |
| AGTAATTAGAAATGCATGGA+AGG | + | chr4_4:7744858-7744877 | None:intergenic | 30.0% | |
| CAATTCTCTTGAATGTTTCA+AGG | - | chr4_4:7744309-7744328 | Msa0667450:intron | 30.0% | |
| !! | TGTATAGAAGTATTGCATAG+AGG | + | chr4_4:7744420-7744439 | None:intergenic | 30.0% |
| TTTGAGAAATTGTACTTCTC+TGG | - | chr4_4:7744442-7744461 | Msa0667450:CDS | 30.0% | |
| ATGCTTGATATGTAGATGTT+TGG | - | chr4_4:7744545-7744564 | Msa0667450:CDS | 30.0% | |
| ATGGCAAAGAAAAGAAGAAA+CGG | - | chr4_4:7744618-7744637 | Msa0667450:intron | 30.0% | |
| ! | ACATTTTTACCAACTATGTC+CGG | + | chr4_4:7744719-7744738 | None:intergenic | 30.0% |
| AGTAATTAGAAATGCATGGA+AGG | + | chr4_4:7744858-7744877 | None:intergenic | 30.0% | |
| ACAAGTCTAAGGAAGTTTCT+CGG | + | chr4_4:7744121-7744140 | None:intergenic | 35.0% | |
| GTAAAGCAGATACAAGTCTA+AGG | + | chr4_4:7744132-7744151 | None:intergenic | 35.0% | |
| AGACTTGTATCTGCTTTACT+TGG | - | chr4_4:7744133-7744152 | Msa0667450:CDS | 35.0% | |
| ACTAAAATCGGACAAATACC+TGG | + | chr4_4:7744184-7744203 | None:intergenic | 35.0% | |
| AGGTTGCTCTACAAAACAAA+TGG | - | chr4_4:7744329-7744348 | Msa0667450:intron | 35.0% | |
| GGTTGCTCTACAAAACAAAT+GGG | - | chr4_4:7744330-7744349 | Msa0667450:intron | 35.0% | |
| ! | ATTGGTCTCTTAGATACCTT+TGG | + | chr4_4:7744473-7744492 | None:intergenic | 35.0% |
| ! | TTTTCTTTGCCATCTATGTC+CGG | + | chr4_4:7744611-7744630 | None:intergenic | 35.0% |
| !!! | TGATATCCACTTTTTCCAGT+TGG | + | chr4_4:7744653-7744672 | None:intergenic | 35.0% |
| TCGATTAAAAGCTCATGTTC+CGG | - | chr4_4:7744697-7744716 | Msa0667450:intron | 35.0% | |
| !! | CTTTTTCATGTAGCCATAAG+TGG | - | chr4_4:7744876-7744895 | Msa0667450:intron | 35.0% |
| ! | TTTTTGCTTTCCTCCACTTA+TGG | + | chr4_4:7744892-7744911 | None:intergenic | 35.0% |
| ACAAGTCTAAGGAAGTTTCT+CGG | + | chr4_4:7744121-7744140 | None:intergenic | 35.0% | |
| GTAAAGCAGATACAAGTCTA+AGG | + | chr4_4:7744132-7744151 | None:intergenic | 35.0% | |
| AGACTTGTATCTGCTTTACT+TGG | - | chr4_4:7744133-7744152 | Msa0667450:CDS | 35.0% | |
| ACTAAAATCGGACAAATACC+TGG | + | chr4_4:7744184-7744203 | None:intergenic | 35.0% | |
| AGGTTGCTCTACAAAACAAA+TGG | - | chr4_4:7744329-7744348 | Msa0667450:intron | 35.0% | |
| GGTTGCTCTACAAAACAAAT+GGG | - | chr4_4:7744330-7744349 | Msa0667450:intron | 35.0% | |
| ! | ATTGGTCTCTTAGATACCTT+TGG | + | chr4_4:7744473-7744492 | None:intergenic | 35.0% |
| ! | TTTTCTTTGCCATCTATGTC+CGG | + | chr4_4:7744611-7744630 | None:intergenic | 35.0% |
| !!! | TGATATCCACTTTTTCCAGT+TGG | + | chr4_4:7744653-7744672 | None:intergenic | 35.0% |
| TCGATTAAAAGCTCATGTTC+CGG | - | chr4_4:7744697-7744716 | Msa0667450:intron | 35.0% | |
| !! | CTTTTTCATGTAGCCATAAG+TGG | - | chr4_4:7744876-7744895 | Msa0667450:intron | 35.0% |
| ! | TTTTTGCTTTCCTCCACTTA+TGG | + | chr4_4:7744892-7744911 | None:intergenic | 35.0% |
| AAAGAAAAGAAGAAACGGCG+AGG | - | chr4_4:7744623-7744642 | Msa0667450:intron | 40.0% | |
| TGGTAAAAATGTCCTACGCA+TGG | - | chr4_4:7744727-7744746 | Msa0667450:intron | 40.0% | |
| TTTCATGTAGCCATAAGTGG+AGG | - | chr4_4:7744879-7744898 | Msa0667450:intron | 40.0% | |
| AGTTACACAGTTAGAGTCAC+CGG | + | chr4_4:7744980-7744999 | None:intergenic | 40.0% | |
| ATTCAAGAATCCCTTCTTCC+CGG | - | chr4_4:7745074-7745093 | Msa0667450:CDS | 40.0% | |
| AAAGAAAAGAAGAAACGGCG+AGG | - | chr4_4:7744623-7744642 | Msa0667450:intron | 40.0% | |
| TGGTAAAAATGTCCTACGCA+TGG | - | chr4_4:7744727-7744746 | Msa0667450:intron | 40.0% | |
| TTTCATGTAGCCATAAGTGG+AGG | - | chr4_4:7744879-7744898 | Msa0667450:intron | 40.0% | |
| AGTTACACAGTTAGAGTCAC+CGG | + | chr4_4:7744980-7744999 | None:intergenic | 40.0% | |
| ATTCAAGAATCCCTTCTTCC+CGG | - | chr4_4:7745074-7745093 | Msa0667450:CDS | 40.0% | |
| TACTTGGAAGTCACCAGAAG+AGG | - | chr4_4:7744149-7744168 | Msa0667450:CDS | 45.0% | |
| GTCTCTGCACTGAAACTAGA+AGG | - | chr4_4:7744361-7744380 | Msa0667450:intron | 45.0% | |
| ACTCATGATCCGGACATAGA+TGG | - | chr4_4:7744599-7744618 | Msa0667450:intron | 45.0% | |
| AAGCATCAATAGCCATGCGT+AGG | + | chr4_4:7744742-7744761 | None:intergenic | 45.0% | |
| TACGCATGGCTATTGATGCT+TGG | - | chr4_4:7744741-7744760 | Msa0667450:intron | 45.0% | |
| GATGTCTGTCGACGATAAAC+AGG | - | chr4_4:7744769-7744788 | Msa0667450:CDS | 45.0% | |
| CATTTCAAAAGCCACGTTCG+CGG | + | chr4_4:7745043-7745062 | None:intergenic | 45.0% | |
| TCGAAATCAACCGGGAAGAA+GGG | + | chr4_4:7745087-7745106 | None:intergenic | 45.0% | |
| ATCGAAATCAACCGGGAAGA+AGG | + | chr4_4:7745088-7745107 | None:intergenic | 45.0% | |
| TACTTGGAAGTCACCAGAAG+AGG | - | chr4_4:7744149-7744168 | Msa0667450:CDS | 45.0% | |
| GTCTCTGCACTGAAACTAGA+AGG | - | chr4_4:7744361-7744380 | Msa0667450:intron | 45.0% | |
| ACTCATGATCCGGACATAGA+TGG | - | chr4_4:7744599-7744618 | Msa0667450:intron | 45.0% | |
| AAGCATCAATAGCCATGCGT+AGG | + | chr4_4:7744742-7744761 | None:intergenic | 45.0% | |
| TACGCATGGCTATTGATGCT+TGG | - | chr4_4:7744741-7744760 | Msa0667450:intron | 45.0% | |
| GATGTCTGTCGACGATAAAC+AGG | - | chr4_4:7744769-7744788 | Msa0667450:CDS | 45.0% | |
| CATTTCAAAAGCCACGTTCG+CGG | + | chr4_4:7745043-7745062 | None:intergenic | 45.0% | |
| TCGAAATCAACCGGGAAGAA+GGG | + | chr4_4:7745087-7745106 | None:intergenic | 45.0% | |
| ATCGAAATCAACCGGGAAGA+AGG | + | chr4_4:7745088-7745107 | None:intergenic | 45.0% | |
| TTGGAAGTCACCAGAAGAGG+AGG | - | chr4_4:7744152-7744171 | Msa0667450:CDS | 50.0% | |
| CTGGTGAAAACCTCCTCTTC+TGG | + | chr4_4:7744165-7744184 | None:intergenic | 50.0% | |
| ! | CAGAAGAGGAGGTTTTCACC+AGG | - | chr4_4:7744163-7744182 | Msa0667450:CDS | 50.0% |
| TACTTCTCTGGCAGCTCCAA+AGG | - | chr4_4:7744454-7744473 | Msa0667450:CDS | 50.0% | |
| GAAAAGAAGAAACGGCGAGG+TGG | - | chr4_4:7744626-7744645 | Msa0667450:intron | 50.0% | |
| GGTGGTCCAACTGGAAAAAG+TGG | - | chr4_4:7744644-7744663 | Msa0667450:intron | 50.0% | |
| GCTCATGTTCCGGACATAGT+TGG | - | chr4_4:7744707-7744726 | Msa0667450:intron | 50.0% | |
| TTGGAAGTCACCAGAAGAGG+AGG | - | chr4_4:7744152-7744171 | Msa0667450:CDS | 50.0% | |
| CTGGTGAAAACCTCCTCTTC+TGG | + | chr4_4:7744165-7744184 | None:intergenic | 50.0% | |
| ! | CAGAAGAGGAGGTTTTCACC+AGG | - | chr4_4:7744163-7744182 | Msa0667450:CDS | 50.0% |
| TACTTCTCTGGCAGCTCCAA+AGG | - | chr4_4:7744454-7744473 | Msa0667450:CDS | 50.0% | |
| GAAAAGAAGAAACGGCGAGG+TGG | - | chr4_4:7744626-7744645 | Msa0667450:intron | 50.0% | |
| GGTGGTCCAACTGGAAAAAG+TGG | - | chr4_4:7744644-7744663 | Msa0667450:intron | 50.0% | |
| GCTCATGTTCCGGACATAGT+TGG | - | chr4_4:7744707-7744726 | Msa0667450:intron | 50.0% | |
| CAGAAGAAGCCTCGTCTGTC+CGG | - | chr4_4:7744958-7744977 | Msa0667450:intron | 55.0% | |
| TTAGAGTCACCGGACAGACG+AGG | + | chr4_4:7744970-7744989 | None:intergenic | 55.0% | |
| CAGAAGAAGCCTCGTCTGTC+CGG | - | chr4_4:7744958-7744977 | Msa0667450:intron | 55.0% | |
| TTAGAGTCACCGGACAGACG+AGG | + | chr4_4:7744970-7744989 | None:intergenic | 55.0% | |
| AAACGGCGAGGTGGTCCAAC+TGG | - | chr4_4:7744635-7744654 | Msa0667450:intron | 60.0% | |
| AAACGGCGAGGTGGTCCAAC+TGG | - | chr4_4:7744635-7744654 | Msa0667450:intron | 60.0% | |
| CAACAACGCAGCCGCGAACG+TGG | - | chr4_4:7745029-7745048 | Msa0667450:intron | 65.0% | |
| CAACAACGCAGCCGCGAACG+TGG | - | chr4_4:7745029-7745048 | Msa0667450:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 7744110 | 7745113 | 7744110 | ID=Msa0667450;Name=Msa0667450 |
| chr4_4 | mRNA | 7744110 | 7745113 | 7744110 | ID=Msa0667450-mRNA-1;Parent=Msa0667450;Name=Msa0667450-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|0.33|0.25|4|0|202 |
| chr4_4 | exon | 7745039 | 7745113 | 7745039 | ID=Msa0667450-mRNA-1:exon:2555;Parent=Msa0667450-mRNA-1 |
| chr4_4 | exon | 7744748 | 7744892 | 7744748 | ID=Msa0667450-mRNA-1:exon:2554;Parent=Msa0667450-mRNA-1 |
| chr4_4 | exon | 7744433 | 7744605 | 7744433 | ID=Msa0667450-mRNA-1:exon:2553;Parent=Msa0667450-mRNA-1 |
| chr4_4 | exon | 7744110 | 7744322 | 7744110 | ID=Msa0667450-mRNA-1:exon:2552;Parent=Msa0667450-mRNA-1 |
| chr4_4 | CDS | 7745039 | 7745113 | 7745039 | ID=Msa0667450-mRNA-1:cds;Parent=Msa0667450-mRNA-1 |
| chr4_4 | CDS | 7744748 | 7744892 | 7744748 | ID=Msa0667450-mRNA-1:cds;Parent=Msa0667450-mRNA-1 |
| chr4_4 | CDS | 7744433 | 7744605 | 7744433 | ID=Msa0667450-mRNA-1:cds;Parent=Msa0667450-mRNA-1 |
| chr4_4 | CDS | 7744110 | 7744322 | 7744110 | ID=Msa0667450-mRNA-1:cds;Parent=Msa0667450-mRNA-1 |
| Gene Sequence |
| Protein sequence |
