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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1052500 | XP_024635139.1 | 77.358 | 53 | 12 | 0 | 12 | 64 | 62 | 114 | 1.85e-17 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1052500 | A0A072VKB0 | 77.358 | 53 | 12 | 0 | 12 | 64 | 62 | 114 | 9.28e-18 | 84.3 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0102070 | Msa1052500 | 0.816769 | 4.662059e-52 | -8.615850e-47 |
| Msa0717140 | Msa1052500 | 0.808191 | 3.496804e-50 | -8.615850e-47 |
| Msa0743810 | Msa1052500 | 0.806273 | 8.910675e-50 | -8.615850e-47 |
| Msa0783160 | Msa1052500 | 0.805596 | 1.236945e-49 | -8.615850e-47 |
| Msa0153910 | Msa1052500 | 0.814904 | 1.214738e-51 | -8.615850e-47 |
| Msa1052500 | Msa1187950 | 0.801121 | 1.045573e-48 | -8.615850e-47 |
| Msa1052500 | Msa1285930 | 0.812963 | 3.254371e-51 | -8.615850e-47 |
| Msa0264450 | Msa1052500 | 0.892594 | 1.375184e-74 | -8.615850e-47 |
| Msa0270520 | Msa1052500 | 0.800556 | 1.363443e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1052500 | MtrunA17_Chr1g0183031 | 77.358 | 53 | 12 | 0 | 12 | 64 | 113 | 165 | 2.27e-21 | 84.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 117 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGCATCCTAACATCAAAAT+AGG | 0.360561 | 7_2:+21173295 | None:intergenic |
| TCAATAATAATGTAGCTAAA+TGG | 0.361983 | 7_2:+21173830 | None:intergenic |
| CTTATATATTCAAGGCTTTG+AGG | 0.368161 | 7_2:-21175547 | Msa1052500:intron |
| TTTGCACGCAAAAGATCTTC+CGG | 0.409758 | 7_2:+21173350 | None:intergenic |
| AGATCTTCCGGTACCATTGT+AGG | 0.426104 | 7_2:+21173362 | None:intergenic |
| GCAATGACAAGAGCAGTTGC+AGG | 0.440063 | 7_2:+21173275 | None:intergenic |
| TGCTCTTGTCATTGCTAAAG+AGG | 0.464049 | 7_2:-21173267 | None:intergenic |
| AAATTGTTATCTGCATTGAA+TGG | 0.495412 | 7_2:-21173329 | Msa1052500:CDS |
| TGTTTCCAGGTCTCAAAGGA+AGG | 0.519022 | 7_2:-21173860 | Msa1052500:intron |
| AGGATCTCCTACAATGGTAC+CGG | 0.559044 | 7_2:-21173369 | Msa1052500:CDS |
| CATTTGTTTCCAGGTCTCAA+AGG | 0.559636 | 7_2:-21173864 | Msa1052500:intron |
| TGCATTGAATGGAGCTAGAG+TGG | 0.563511 | 7_2:-21173318 | Msa1052500:CDS |
| GTTTCCAGGTCTCAAAGGAA+GGG | 0.571955 | 7_2:-21173859 | Msa1052500:intron |
| CACAGAAGGATCTCCTACAA+TGG | 0.585278 | 7_2:-21173375 | Msa1052500:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTACATTTATTCAATT+TGG | - | chr7_2:21174601-21174620 | Msa1052500:intron | 10.0% |
| !!! | TTTTTACATTTATTCAATTT+GGG | - | chr7_2:21174602-21174621 | Msa1052500:intron | 10.0% |
| !! | ATTTAAGAATTTGTAAAAAT+AGG | + | chr7_2:21174727-21174746 | None:intergenic | 10.0% |
| !! | GCTATATAGAATAATTAATA+TGG | - | chr7_2:21173819-21173838 | Msa1052500:intron | 15.0% |
| !! | TAAATTAGTATTAGTTAGAA+TGG | - | chr7_2:21174742-21174761 | Msa1052500:intron | 15.0% |
| !!! | TTTAACTTGATCATAATTTT+TGG | + | chr7_2:21175466-21175485 | None:intergenic | 15.0% |
| !! | TTTGTAAACATTGTAATGTT+TGG | - | chr7_2:21173491-21173510 | Msa1052500:intron | 20.0% |
| !! | CTTACTTACTTATATATTCA+AGG | - | chr7_2:21173569-21173588 | Msa1052500:intron | 20.0% |
| !!! | CACTTATAAATTTGTTTCAA+TGG | + | chr7_2:21173692-21173711 | None:intergenic | 20.0% |
| !! | TTATGAGCATCATATAATAA+AGG | - | chr7_2:21173895-21173914 | Msa1052500:intron | 20.0% |
| !! | ATATCTTAATGTGTAAAACT+AGG | + | chr7_2:21174482-21174501 | None:intergenic | 20.0% |
| !! | ATCATTATACTTTAAGTCAT+TGG | - | chr7_2:21174686-21174705 | Msa1052500:intron | 20.0% |
| !!! | TGAATTTGGATTCATTATTT+TGG | + | chr7_2:21174831-21174850 | None:intergenic | 20.0% |
| !! | AGTTCTTTAATTCTCTTTAA+AGG | - | chr7_2:21174876-21174895 | Msa1052500:intron | 20.0% |
| !! | TCAATAATAATGTAGCTAAA+TGG | + | chr7_2:21175297-21175316 | None:intergenic | 20.0% |
| !! | ATGTAAAATCATTTAAGCAA+TGG | + | chr7_2:21175336-21175355 | None:intergenic | 20.0% |
| !! | TACAAGTATATGAAAGTTAT+TGG | - | chr7_2:21175429-21175448 | Msa1052500:intron | 20.0% |
| !!! | TCCTTGCTTTTTTTCTAATT+TGG | - | chr7_2:21173658-21173677 | Msa1052500:intron | 25.0% |
| !!! | CCTTGCTTTTTTTCTAATTT+GGG | - | chr7_2:21173659-21173678 | Msa1052500:intron | 25.0% |
| ! | CTATAATTCATATACTAGCA+AGG | + | chr7_2:21173774-21173793 | None:intergenic | 25.0% |
| !!! | TTTTTCTATGCTTTGTTTAC+AGG | - | chr7_2:21173871-21173890 | Msa1052500:intron | 25.0% |
| !!! | TTTTCTATGCTTTGTTTACA+GGG | - | chr7_2:21173872-21173891 | Msa1052500:intron | 25.0% |
| !!! | AGCCTCTTTTTAAAGATAAT+GGG | - | chr7_2:21173933-21173952 | Msa1052500:intron | 25.0% |
| !! | TTCCCATTATCTTTAAAAAG+AGG | + | chr7_2:21173938-21173957 | None:intergenic | 25.0% |
| !!! | TCTTGTTTATGATTTGCTTA+TGG | - | chr7_2:21174348-21174367 | Msa1052500:intron | 25.0% |
| ! | TGCTTATGGCTATAAAATAT+TGG | - | chr7_2:21174362-21174381 | Msa1052500:intron | 25.0% |
| ! | AAGTATAATGATATCATGAG+TGG | + | chr7_2:21174678-21174697 | None:intergenic | 25.0% |
| !!! | TTTTGGTAGTTCTACTAAAT+TGG | + | chr7_2:21174814-21174833 | None:intergenic | 25.0% |
| ! | ACATCAAAAGGATTTGAATT+TGG | + | chr7_2:21174845-21174864 | None:intergenic | 25.0% |
| !!! | TCTTTAAAGGTACTTTATTC+TGG | - | chr7_2:21174889-21174908 | Msa1052500:intron | 25.0% |
| ! | TTTCATAATGTACATGTGAT+TGG | - | chr7_2:21174930-21174949 | Msa1052500:intron | 25.0% |
| ! | AAATAGCAAGTTTATGATGT+TGG | + | chr7_2:21175134-21175153 | None:intergenic | 25.0% |
| ! | TCAAGTTAAATTTAAGCACT+AGG | - | chr7_2:21175476-21175495 | Msa1052500:intron | 25.0% |
| ! | AAATTGTTATCTGCATTGAA+TGG | - | chr7_2:21175795-21175814 | Msa1052500:intron | 25.0% |
| TAGAAAACAACTAGTACACA+TGG | + | chr7_2:21173464-21173483 | None:intergenic | 30.0% | |
| CTTATATATTCAAGGCTTTG+AGG | - | chr7_2:21173577-21173596 | Msa1052500:intron | 30.0% | |
| CCCAAATTAGAAAAAAAGCA+AGG | + | chr7_2:21173662-21173681 | None:intergenic | 30.0% | |
| !!! | GCTTTTTTTCTAATTTGGGT+CGG | - | chr7_2:21173663-21173682 | Msa1052500:intron | 30.0% |
| ATAGCATCACATCTTATTAG+AGG | + | chr7_2:21173804-21173823 | None:intergenic | 30.0% | |
| !! | GAGCCTCTTTTTAAAGATAA+TGG | - | chr7_2:21173932-21173951 | Msa1052500:intron | 30.0% |
| ! | ATGACATTTTCTCATATGAG+AGG | + | chr7_2:21174119-21174138 | None:intergenic | 30.0% |
| TAGTCTTTCTATTGTAGACT+TGG | - | chr7_2:21174195-21174214 | Msa1052500:intron | 30.0% | |
| ! | AAGTATAGCAACTTTTGTGT+TGG | + | chr7_2:21174236-21174255 | None:intergenic | 30.0% |
| ACACAAAAGTTGCTATACTT+TGG | - | chr7_2:21174236-21174255 | Msa1052500:intron | 30.0% | |
| !! | ATACACTTCCCTTTTTCATA+GGG | - | chr7_2:21174275-21174294 | Msa1052500:intron | 30.0% |
| TTGGTGAAGTTAAATACAAC+TGG | - | chr7_2:21174381-21174400 | Msa1052500:intron | 30.0% | |
| TGGTGAAGTTAAATACAACT+GGG | - | chr7_2:21174382-21174401 | Msa1052500:intron | 30.0% | |
| GAATCACTAATCCAATTAGA+AGG | - | chr7_2:21174422-21174441 | Msa1052500:intron | 30.0% | |
| TCCAATTAGAAGGCTTATAT+AGG | - | chr7_2:21174432-21174451 | Msa1052500:intron | 30.0% | |
| ACCTATATAAGCCTTCTAAT+TGG | + | chr7_2:21174436-21174455 | None:intergenic | 30.0% | |
| TCACTCATGATATTTCTTGA+TGG | - | chr7_2:21174536-21174555 | Msa1052500:intron | 30.0% | |
| ! | TCTATGACTCTTGAAACTTT+TGG | - | chr7_2:21174571-21174590 | Msa1052500:intron | 30.0% |
| TATGAAGTAGCATCTATCTA+AGG | + | chr7_2:21174632-21174651 | None:intergenic | 30.0% | |
| ! | TAGATAGATGCTACTTCATA+AGG | - | chr7_2:21174632-21174651 | Msa1052500:intron | 30.0% |
| GATTTGCATTGAAAGAGATA+TGG | - | chr7_2:21174776-21174795 | Msa1052500:intron | 30.0% | |
| !! | AAGCACTAGGAGTATTAAAA+AGG | - | chr7_2:21175489-21175508 | Msa1052500:intron | 30.0% |
| AGACATGCTTGATAGATAAT+TGG | - | chr7_2:21175545-21175564 | Msa1052500:intron | 30.0% | |
| AATTGGATTTCTTAAGCATG+TGG | - | chr7_2:21175562-21175581 | Msa1052500:intron | 30.0% | |
| ! | TAAGCATGTGGTTTGATAAT+CGG | - | chr7_2:21175574-21175593 | Msa1052500:intron | 30.0% |
| TCCTATAATGTTGAACATTC+AGG | - | chr7_2:21175706-21175725 | Msa1052500:intron | 30.0% | |
| TCCTGAATGTTCAACATTAT+AGG | + | chr7_2:21175710-21175729 | None:intergenic | 30.0% | |
| TGAACTTGTATATTCACAGA+AGG | - | chr7_2:21175735-21175754 | Msa1052500:intron | 30.0% | |
| ATTTGACAACACTGCTTTGT+TGG | - | chr7_2:21173406-21173425 | Msa1052500:intron | 35.0% | |
| !! | TAAAGCTAACTTGCTACTAC+TGG | + | chr7_2:21173978-21173997 | None:intergenic | 35.0% |
| !! | GATACACTTCCCTTTTTCAT+AGG | - | chr7_2:21174274-21174293 | Msa1052500:intron | 35.0% |
| CTCTACTTCCCTATGAAAAA+GGG | + | chr7_2:21174286-21174305 | None:intergenic | 35.0% | |
| TACTTCATAAGGCAATAGCA+TGG | - | chr7_2:21174643-21174662 | Msa1052500:intron | 35.0% | |
| AATGATATCATGAGTGGTGT+TGG | + | chr7_2:21174672-21174691 | None:intergenic | 35.0% | |
| TGCATGTTAGTGACATCAAA+AGG | + | chr7_2:21174857-21174876 | None:intergenic | 35.0% | |
| TATTCTGGTGTATACCAAGA+AGG | - | chr7_2:21174904-21174923 | Msa1052500:intron | 35.0% | |
| ATAATGTACATGTGATTGGC+AGG | - | chr7_2:21174934-21174953 | Msa1052500:intron | 35.0% | |
| TAATGTACATGTGATTGGCA+GGG | - | chr7_2:21174935-21174954 | Msa1052500:intron | 35.0% | |
| GGACCTTACATATTCACTTT+AGG | - | chr7_2:21174967-21174986 | Msa1052500:intron | 35.0% | |
| GTGCCTAAAGTGAATATGTA+AGG | + | chr7_2:21174973-21174992 | None:intergenic | 35.0% | |
| TTCCTTTCTCATTTGTTTCC+AGG | - | chr7_2:21175251-21175270 | Msa1052500:intron | 35.0% | |
| CAAGTGAAAAATTAGGAGGA+AGG | + | chr7_2:21175378-21175397 | None:intergenic | 35.0% | |
| ! | TCCTCCTAATTTTTCACTTG+TGG | - | chr7_2:21175378-21175397 | Msa1052500:intron | 35.0% |
| ! | CCTCCTAATTTTTCACTTGT+GGG | - | chr7_2:21175379-21175398 | Msa1052500:intron | 35.0% |
| ! | CTCCTAATTTTTCACTTGTG+GGG | - | chr7_2:21175380-21175399 | Msa1052500:intron | 35.0% |
| GACAGTAGACACTATGTTAT+TGG | + | chr7_2:21175520-21175539 | None:intergenic | 35.0% | |
| !! | CAACTGCTAATTTTGACACA+TGG | - | chr7_2:21175642-21175661 | Msa1052500:intron | 35.0% |
| AGGCATCCTAACATCAAAAT+AGG | + | chr7_2:21175832-21175851 | None:intergenic | 35.0% | |
| GTGTCGAGTAGAATTGTTTG+TGG | - | chr7_2:21173338-21173357 | Msa1052500:CDS | 40.0% | |
| CACATGGAGATAGCATATGT+AGG | + | chr7_2:21173448-21173467 | None:intergenic | 40.0% | |
| AAAACATTGCACCTTGAGCA+TGG | + | chr7_2:21173727-21173746 | None:intergenic | 40.0% | |
| GACTCTACAAGTGCATAGTT+TGG | + | chr7_2:21174015-21174034 | None:intergenic | 40.0% | |
| TGCACTTGTAGAGTCAAGAT+AGG | - | chr7_2:21174020-21174039 | Msa1052500:intron | 40.0% | |
| !! | AGAAAGTATCACATGCTGAG+AGG | + | chr7_2:21174076-21174095 | None:intergenic | 40.0% |
| ATATGAGAGGCTGCATTCAA+AGG | + | chr7_2:21174106-21174125 | None:intergenic | 40.0% | |
| CCTCTACTTCCCTATGAAAA+AGG | + | chr7_2:21174287-21174306 | None:intergenic | 40.0% | |
| !! | CCTTTTTCATAGGGAAGTAG+AGG | - | chr7_2:21174284-21174303 | Msa1052500:intron | 40.0% |
| ! | TTTTCATAGGGAAGTAGAGG+AGG | - | chr7_2:21174287-21174306 | Msa1052500:intron | 40.0% |
| CACGCACTAGATAGATAGTT+AGG | + | chr7_2:21174506-21174525 | None:intergenic | 40.0% | |
| TGCATTGAAAGAGATATGGC+AGG | - | chr7_2:21174780-21174799 | Msa1052500:intron | 40.0% | |
| GCATTGAAAGAGATATGGCA+GGG | - | chr7_2:21174781-21174800 | Msa1052500:intron | 40.0% | |
| ACATTATGAAACCGCCTTCT+TGG | + | chr7_2:21174921-21174940 | None:intergenic | 40.0% | |
| ! | TGATTGGCAGGGTATCATAA+TGG | - | chr7_2:21174946-21174965 | Msa1052500:intron | 40.0% |
| GACCTGGAAACAAATGAGAA+AGG | + | chr7_2:21175256-21175275 | None:intergenic | 40.0% | |
| CATTTGTTTCCAGGTCTCAA+AGG | - | chr7_2:21175260-21175279 | Msa1052500:intron | 40.0% | |
| TAAGCAATGGTACATACGTG+TGG | + | chr7_2:21175323-21175342 | None:intergenic | 40.0% | |
| CCCACAAGTGAAAAATTAGG+AGG | + | chr7_2:21175382-21175401 | None:intergenic | 40.0% | |
| AGCCCCACAAGTGAAAAATT+AGG | + | chr7_2:21175385-21175404 | None:intergenic | 40.0% | |
| TTTGCACGCAAAAGATCTTC+CGG | + | chr7_2:21175777-21175796 | None:intergenic | 40.0% | |
| !!! | GAGTGGCCTATTTTGATGTT+AGG | - | chr7_2:21175823-21175842 | Msa1052500:intron | 40.0% |
| GTTGACTAGTACCATGCTCA+AGG | - | chr7_2:21173713-21173732 | Msa1052500:intron | 45.0% | |
| TCTATCTAGTGCGTGTGTCT+TGG | - | chr7_2:21174511-21174530 | Msa1052500:intron | 45.0% | |
| TCTGGTGTATACCAAGAAGG+CGG | - | chr7_2:21174907-21174926 | Msa1052500:intron | 45.0% | |
| TGTTTCCAGGTCTCAAAGGA+AGG | - | chr7_2:21175264-21175283 | Msa1052500:intron | 45.0% | |
| GTTTCCAGGTCTCAAAGGAA+GGG | - | chr7_2:21175265-21175284 | Msa1052500:intron | 45.0% | |
| CACAGAAGGATCTCCTACAA+TGG | - | chr7_2:21175749-21175768 | Msa1052500:intron | 45.0% | |
| AGGATCTCCTACAATGGTAC+CGG | - | chr7_2:21175755-21175774 | Msa1052500:intron | 45.0% | |
| AGATCTTCCGGTACCATTGT+AGG | + | chr7_2:21175765-21175784 | None:intergenic | 45.0% | |
| TGCATTGAATGGAGCTAGAG+TGG | - | chr7_2:21175806-21175825 | Msa1052500:intron | 45.0% | |
| TCATAGGGAAGTAGAGGAGG+AGG | - | chr7_2:21174290-21174309 | Msa1052500:intron | 50.0% | |
| CATAGGGAAGTAGAGGAGGA+GGG | - | chr7_2:21174291-21174310 | Msa1052500:intron | 50.0% | |
| !! | TAGTCCCTTCCTTTGAGACC+TGG | + | chr7_2:21175272-21175291 | None:intergenic | 50.0% |
| GCAATGACAAGAGCAGTTGC+AGG | + | chr7_2:21175852-21175871 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 21173268 | 21175878 | 21173268 | ID=Msa1052500;Name=Msa1052500 |
| chr7_2 | mRNA | 21173268 | 21175878 | 21173268 | ID=Msa1052500-mRNA-1;Parent=Msa1052500;Name=Msa1052500-mRNA-1;_AED=0.47;_eAED=0.85;_QI=0|0|0.25|1|0|0|4|0|64 |
| chr7_2 | exon | 21175873 | 21175878 | 21175873 | ID=Msa1052500-mRNA-1:exon:4706;Parent=Msa1052500-mRNA-1 |
| chr7_2 | exon | 21175548 | 21175555 | 21175548 | ID=Msa1052500-mRNA-1:exon:4705;Parent=Msa1052500-mRNA-1 |
| chr7_2 | exon | 21173821 | 21173873 | 21173821 | ID=Msa1052500-mRNA-1:exon:4704;Parent=Msa1052500-mRNA-1 |
| chr7_2 | exon | 21173268 | 21173392 | 21173268 | ID=Msa1052500-mRNA-1:exon:4703;Parent=Msa1052500-mRNA-1 |
| chr7_2 | CDS | 21175873 | 21175878 | 21175873 | ID=Msa1052500-mRNA-1:cds;Parent=Msa1052500-mRNA-1 |
| chr7_2 | CDS | 21175548 | 21175555 | 21175548 | ID=Msa1052500-mRNA-1:cds;Parent=Msa1052500-mRNA-1 |
| chr7_2 | CDS | 21173821 | 21173873 | 21173821 | ID=Msa1052500-mRNA-1:cds;Parent=Msa1052500-mRNA-1 |
| chr7_2 | CDS | 21173268 | 21173392 | 21173268 | ID=Msa1052500-mRNA-1:cds;Parent=Msa1052500-mRNA-1 |
| Gene Sequence |
| Protein sequence |
