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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840300 | XP_003612580.1 | 86.207 | 87 | 0 | 1 | 1 | 75 | 244 | 330 | 3.61e-43 | 152 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840300 | sp|Q07185|AOX1_SOYBN | 81.609 | 87 | 4 | 1 | 1 | 75 | 235 | 321 | 3.95e-42 | 142 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840300 | G7K6R8 | 86.207 | 87 | 0 | 1 | 1 | 75 | 244 | 330 | 1.73e-43 | 152 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0840300 | Msa1121700 | 0.822629 | 2.138952e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840300 | MtrunA17_Chr5g0409121 | 86.207 | 87 | 0 | 1 | 1 | 75 | 244 | 330 | 3.32e-47 | 152 |
| Msa0840300 | MtrunA17_Chr4g0050421 | 63.218 | 87 | 20 | 1 | 1 | 75 | 259 | 345 | 5.83e-34 | 118 |
| Msa0840300 | MtrunA17_Chr5g0430011 | 59.770 | 87 | 23 | 1 | 1 | 75 | 238 | 324 | 2.14e-31 | 111 |
| Msa0840300 | MtrunA17_Chr5g0430001 | 59.770 | 87 | 23 | 1 | 1 | 75 | 237 | 323 | 4.27e-31 | 110 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840300 | AT3G22370.1 | 79.310 | 87 | 6 | 1 | 1 | 75 | 268 | 354 | 3.64e-42 | 140 |
| Msa0840300 | AT3G22360.1 | 75.862 | 87 | 9 | 1 | 1 | 75 | 239 | 325 | 8.02e-40 | 133 |
| Msa0840300 | AT3G27620.1 | 74.713 | 87 | 10 | 1 | 1 | 75 | 243 | 329 | 1.47e-38 | 130 |
| Msa0840300 | AT5G64210.1 | 70.115 | 87 | 14 | 1 | 1 | 75 | 267 | 353 | 1.57e-37 | 128 |
| Msa0840300 | AT1G32350.1 | 60.920 | 87 | 22 | 1 | 1 | 75 | 232 | 318 | 1.47e-32 | 114 |
| Msa0840300 | AT1G32350.2 | 58.824 | 68 | 16 | 1 | 1 | 56 | 232 | 299 | 8.17e-22 | 85.9 |
Find 27 sgRNAs with CRISPR-Local
Find 100 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCATACGGTGTGCAAATT+TGG | 0.112313 | 5_4:+15971850 | None:intergenic |
| AAATGCTGAAGTTAATATTT+TGG | 0.153651 | 5_4:-15971042 | None:intergenic |
| ACCAATCTGTTGGCCTATTT+TGG | 0.165728 | 5_4:-15971089 | Msa0840300:three_prime_UTR |
| TTCCCCAAAACTCTACTTTA+AGG | 0.165997 | 5_4:-15971715 | Msa0840300:CDS |
| CATCCCTTAAAGTAGAGTTT+TGG | 0.284733 | 5_4:+15971711 | None:intergenic |
| CAGTTCACCACCACCAAAAT+AGG | 0.288261 | 5_4:+15971076 | None:intergenic |
| TTTCTCAAGGAACTTGATAA+AGG | 0.335708 | 5_4:-15971788 | Msa0840300:CDS |
| ACCATACGGTGTGCAAATTT+GGG | 0.381391 | 5_4:+15971851 | None:intergenic |
| TCCCCAAAACTCTACTTTAA+GGG | 0.386600 | 5_4:-15971714 | Msa0840300:CDS |
| AGGGAGGCTGCTGCTCCAAT+TGG | 0.436968 | 5_4:-15971124 | Msa0840300:CDS |
| ATTACCAAGGACGAGAGTTA+AGG | 0.452922 | 5_4:-15971144 | Msa0840300:CDS |
| TTACCAAGGACGAGAGTTAA+GGG | 0.457110 | 5_4:-15971143 | Msa0840300:CDS |
| GGTCTCTAGTGATAACCAAT+TGG | 0.490464 | 5_4:+15971109 | None:intergenic |
| TACTTTAAGGGATGTTGTAG+AGG | 0.505163 | 5_4:-15971702 | Msa0840300:CDS |
| ACCCAAATTTGCACACCGTA+TGG | 0.511597 | 5_4:-15971852 | Msa0840300:exon |
| ACCAAAATAGGCCAACAGAT+TGG | 0.521985 | 5_4:+15971088 | None:intergenic |
| CCTCCCTTAACTCTCGTCCT+TGG | 0.532033 | 5_4:+15971140 | None:intergenic |
| AAATTTGCACACCGTATGGT+TGG | 0.563076 | 5_4:-15971848 | Msa0840300:exon |
| CTCATACACTGAGTTTCTCA+AGG | 0.566793 | 5_4:-15971801 | Msa0840300:CDS |
| ATCACTAGAGACCAATCTGT+TGG | 0.583142 | 5_4:-15971099 | Msa0840300:exon |
| AGTGAATAGCTTCTTCCTCA+AGG | 0.587319 | 5_4:+15971822 | None:intergenic |
| CGATGTTAACCACTTTGCAT+CGG | 0.619490 | 5_4:-15971651 | Msa0840300:intron |
| CCTCAAGGTAACCAACCATA+CGG | 0.624191 | 5_4:+15971837 | None:intergenic |
| GACAACATACCGATGCAAAG+TGG | 0.644093 | 5_4:+15971642 | None:intergenic |
| CCGTATGGTTGGTTACCTTG+AGG | 0.649479 | 5_4:-15971837 | Msa0840300:exon |
| TTGCAGGATATACATTACCA+AGG | 0.701646 | 5_4:-15971157 | Msa0840300:intron |
| CCAAGGACGAGAGTTAAGGG+AGG | 0.747025 | 5_4:-15971140 | Msa0840300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATAAAAAGACAGATCA+TGG | + | chr5_4:15971509-15971528 | None:intergenic | 20.0% |
| !! | TAAATCAAGTACATTATGTT+TGG | + | chr5_4:15971532-15971551 | None:intergenic | 20.0% |
| !! | TCTTTATACATTCAAAATCA+TGG | - | chr5_4:15971610-15971629 | Msa0840300:intron | 20.0% |
| !! | AAAAATAAAAAGACAGATCA+TGG | + | chr5_4:15971509-15971528 | None:intergenic | 20.0% |
| !! | TAAATCAAGTACATTATGTT+TGG | + | chr5_4:15971532-15971551 | None:intergenic | 20.0% |
| !! | TCTTTATACATTCAAAATCA+TGG | - | chr5_4:15971610-15971629 | Msa0840300:intron | 20.0% |
| !!! | AGTTTTTCAACAGAAACTAA+TGG | - | chr5_4:15971385-15971404 | Msa0840300:intron | 25.0% |
| !!! | AGTTTTTCAACAGAAACTAA+TGG | - | chr5_4:15971385-15971404 | Msa0840300:intron | 25.0% |
| TTTCTCAAGGAACTTGATAA+AGG | - | chr5_4:15971121-15971140 | Msa0840300:CDS | 30.0% | |
| AATAGTCAATAGCAATAGCT+GGG | + | chr5_4:15971168-15971187 | None:intergenic | 30.0% | |
| TAATAGTCAATAGCAATAGC+TGG | + | chr5_4:15971169-15971188 | None:intergenic | 30.0% | |
| ! | ATCCCTTAAAGTAGAGTTTT+GGG | + | chr5_4:15971200-15971219 | None:intergenic | 30.0% |
| TGATCAAGTAAACTTGTGTA+AGG | - | chr5_4:15971352-15971371 | Msa0840300:intron | 30.0% | |
| GTTTCTGTTGAAAAACTGAT+AGG | + | chr5_4:15971382-15971401 | None:intergenic | 30.0% | |
| ! | TTTGTAGCTTTGCAAATTCA+CGG | + | chr5_4:15971462-15971481 | None:intergenic | 30.0% |
| TTTCATGTGAGTATGTTGAA+TGG | - | chr5_4:15971693-15971712 | Msa0840300:CDS | 30.0% | |
| TTCATGTGAGTATGTTGAAT+GGG | - | chr5_4:15971694-15971713 | Msa0840300:CDS | 30.0% | |
| !!! | GAGTACTGATTATATTTTGC+TGG | - | chr5_4:15971723-15971742 | Msa0840300:intron | 30.0% |
| TTTCTCAAGGAACTTGATAA+AGG | - | chr5_4:15971121-15971140 | Msa0840300:CDS | 30.0% | |
| AATAGTCAATAGCAATAGCT+GGG | + | chr5_4:15971168-15971187 | None:intergenic | 30.0% | |
| TAATAGTCAATAGCAATAGC+TGG | + | chr5_4:15971169-15971188 | None:intergenic | 30.0% | |
| ! | ATCCCTTAAAGTAGAGTTTT+GGG | + | chr5_4:15971200-15971219 | None:intergenic | 30.0% |
| TGATCAAGTAAACTTGTGTA+AGG | - | chr5_4:15971352-15971371 | Msa0840300:intron | 30.0% | |
| GTTTCTGTTGAAAAACTGAT+AGG | + | chr5_4:15971382-15971401 | None:intergenic | 30.0% | |
| ! | TTTGTAGCTTTGCAAATTCA+CGG | + | chr5_4:15971462-15971481 | None:intergenic | 30.0% |
| TTTCATGTGAGTATGTTGAA+TGG | - | chr5_4:15971693-15971712 | Msa0840300:CDS | 30.0% | |
| TTCATGTGAGTATGTTGAAT+GGG | - | chr5_4:15971694-15971713 | Msa0840300:CDS | 30.0% | |
| !!! | GAGTACTGATTATATTTTGC+TGG | - | chr5_4:15971723-15971742 | Msa0840300:intron | 30.0% |
| ATAGTCAATAGCAATAGCTG+GGG | + | chr5_4:15971167-15971186 | None:intergenic | 35.0% | |
| TTCCCCAAAACTCTACTTTA+AGG | - | chr5_4:15971194-15971213 | Msa0840300:intron | 35.0% | |
| TCCCCAAAACTCTACTTTAA+GGG | - | chr5_4:15971195-15971214 | Msa0840300:intron | 35.0% | |
| ! | TCCCTTAAAGTAGAGTTTTG+GGG | + | chr5_4:15971199-15971218 | None:intergenic | 35.0% |
| ! | CATCCCTTAAAGTAGAGTTT+TGG | + | chr5_4:15971201-15971220 | None:intergenic | 35.0% |
| ! | TACTTTAAGGGATGTTGTAG+AGG | - | chr5_4:15971207-15971226 | Msa0840300:intron | 35.0% |
| ACAGAAACTAATGGTGTGTT+TGG | - | chr5_4:15971394-15971413 | Msa0840300:intron | 35.0% | |
| TGCAAAGCTACAAATTCAAG+AGG | - | chr5_4:15971468-15971487 | Msa0840300:intron | 35.0% | |
| ! | ATTTTGCTGGAATGAATTGC+AGG | - | chr5_4:15971736-15971755 | Msa0840300:intron | 35.0% |
| TTGCAGGATATACATTACCA+AGG | - | chr5_4:15971752-15971771 | Msa0840300:intron | 35.0% | |
| ATAGTCAATAGCAATAGCTG+GGG | + | chr5_4:15971167-15971186 | None:intergenic | 35.0% | |
| TTCCCCAAAACTCTACTTTA+AGG | - | chr5_4:15971194-15971213 | Msa0840300:intron | 35.0% | |
| TCCCCAAAACTCTACTTTAA+GGG | - | chr5_4:15971195-15971214 | Msa0840300:intron | 35.0% | |
| ! | TCCCTTAAAGTAGAGTTTTG+GGG | + | chr5_4:15971199-15971218 | None:intergenic | 35.0% |
| ! | CATCCCTTAAAGTAGAGTTT+TGG | + | chr5_4:15971201-15971220 | None:intergenic | 35.0% |
| ! | TACTTTAAGGGATGTTGTAG+AGG | - | chr5_4:15971207-15971226 | Msa0840300:intron | 35.0% |
| ACAGAAACTAATGGTGTGTT+TGG | - | chr5_4:15971394-15971413 | Msa0840300:intron | 35.0% | |
| TGCAAAGCTACAAATTCAAG+AGG | - | chr5_4:15971468-15971487 | Msa0840300:intron | 35.0% | |
| ! | ATTTTGCTGGAATGAATTGC+AGG | - | chr5_4:15971736-15971755 | Msa0840300:intron | 35.0% |
| TTGCAGGATATACATTACCA+AGG | - | chr5_4:15971752-15971771 | Msa0840300:intron | 35.0% | |
| ACCATACGGTGTGCAAATTT+GGG | + | chr5_4:15971061-15971080 | None:intergenic | 40.0% | |
| AACCATACGGTGTGCAAATT+TGG | + | chr5_4:15971062-15971081 | None:intergenic | 40.0% | |
| AAATTTGCACACCGTATGGT+TGG | - | chr5_4:15971061-15971080 | Msa0840300:three_prime_UTR | 40.0% | |
| AGTGAATAGCTTCTTCCTCA+AGG | + | chr5_4:15971090-15971109 | None:intergenic | 40.0% | |
| CTCATACACTGAGTTTCTCA+AGG | - | chr5_4:15971108-15971127 | Msa0840300:exon | 40.0% | |
| CGATGTTAACCACTTTGCAT+CGG | - | chr5_4:15971258-15971277 | Msa0840300:intron | 40.0% | |
| ATTACCAAGGACGAGAGTTA+AGG | - | chr5_4:15971765-15971784 | Msa0840300:intron | 40.0% | |
| TTACCAAGGACGAGAGTTAA+GGG | - | chr5_4:15971766-15971785 | Msa0840300:intron | 40.0% | |
| GGTCTCTAGTGATAACCAAT+TGG | + | chr5_4:15971803-15971822 | None:intergenic | 40.0% | |
| ATCACTAGAGACCAATCTGT+TGG | - | chr5_4:15971810-15971829 | Msa0840300:CDS | 40.0% | |
| !! | ACCAATCTGTTGGCCTATTT+TGG | - | chr5_4:15971820-15971839 | Msa0840300:CDS | 40.0% |
| ACCAAAATAGGCCAACAGAT+TGG | + | chr5_4:15971824-15971843 | None:intergenic | 40.0% | |
| !! | AATCTGTTGGCCTATTTTGG+TGG | - | chr5_4:15971823-15971842 | Msa0840300:CDS | 40.0% |
| ACCATACGGTGTGCAAATTT+GGG | + | chr5_4:15971061-15971080 | None:intergenic | 40.0% | |
| AACCATACGGTGTGCAAATT+TGG | + | chr5_4:15971062-15971081 | None:intergenic | 40.0% | |
| AAATTTGCACACCGTATGGT+TGG | - | chr5_4:15971061-15971080 | Msa0840300:three_prime_UTR | 40.0% | |
| AGTGAATAGCTTCTTCCTCA+AGG | + | chr5_4:15971090-15971109 | None:intergenic | 40.0% | |
| CTCATACACTGAGTTTCTCA+AGG | - | chr5_4:15971108-15971127 | Msa0840300:exon | 40.0% | |
| CGATGTTAACCACTTTGCAT+CGG | - | chr5_4:15971258-15971277 | Msa0840300:intron | 40.0% | |
| ATTACCAAGGACGAGAGTTA+AGG | - | chr5_4:15971765-15971784 | Msa0840300:intron | 40.0% | |
| TTACCAAGGACGAGAGTTAA+GGG | - | chr5_4:15971766-15971785 | Msa0840300:intron | 40.0% | |
| GGTCTCTAGTGATAACCAAT+TGG | + | chr5_4:15971803-15971822 | None:intergenic | 40.0% | |
| ATCACTAGAGACCAATCTGT+TGG | - | chr5_4:15971810-15971829 | Msa0840300:CDS | 40.0% | |
| !! | ACCAATCTGTTGGCCTATTT+TGG | - | chr5_4:15971820-15971839 | Msa0840300:CDS | 40.0% |
| ACCAAAATAGGCCAACAGAT+TGG | + | chr5_4:15971824-15971843 | None:intergenic | 40.0% | |
| !! | AATCTGTTGGCCTATTTTGG+TGG | - | chr5_4:15971823-15971842 | Msa0840300:CDS | 40.0% |
| ACCCAAATTTGCACACCGTA+TGG | - | chr5_4:15971057-15971076 | Msa0840300:three_prime_UTR | 45.0% | |
| CCTCAAGGTAACCAACCATA+CGG | + | chr5_4:15971075-15971094 | None:intergenic | 45.0% | |
| GACAACATACCGATGCAAAG+TGG | + | chr5_4:15971270-15971289 | None:intergenic | 45.0% | |
| CTTAGCACACAAGATTGGCA+TGG | + | chr5_4:15971429-15971448 | None:intergenic | 45.0% | |
| CATGCCAATCTTGTGTGCTA+AGG | - | chr5_4:15971427-15971446 | Msa0840300:intron | 45.0% | |
| CTTGCCTTAGCACACAAGAT+TGG | + | chr5_4:15971434-15971453 | None:intergenic | 45.0% | |
| CAGTTCACCACCACCAAAAT+AGG | + | chr5_4:15971836-15971855 | None:intergenic | 45.0% | |
| ACCCAAATTTGCACACCGTA+TGG | - | chr5_4:15971057-15971076 | Msa0840300:three_prime_UTR | 45.0% | |
| CCTCAAGGTAACCAACCATA+CGG | + | chr5_4:15971075-15971094 | None:intergenic | 45.0% | |
| GACAACATACCGATGCAAAG+TGG | + | chr5_4:15971270-15971289 | None:intergenic | 45.0% | |
| CTTAGCACACAAGATTGGCA+TGG | + | chr5_4:15971429-15971448 | None:intergenic | 45.0% | |
| CATGCCAATCTTGTGTGCTA+AGG | - | chr5_4:15971427-15971446 | Msa0840300:intron | 45.0% | |
| CTTGCCTTAGCACACAAGAT+TGG | + | chr5_4:15971434-15971453 | None:intergenic | 45.0% | |
| CAGTTCACCACCACCAAAAT+AGG | + | chr5_4:15971836-15971855 | None:intergenic | 45.0% | |
| ! | CCGTATGGTTGGTTACCTTG+AGG | - | chr5_4:15971072-15971091 | Msa0840300:three_prime_UTR | 50.0% |
| TCAATAGCAATAGCTGGGGC+AGG | + | chr5_4:15971163-15971182 | None:intergenic | 50.0% | |
| !!! | CTGTTGGCCTATTTTGGTGG+TGG | - | chr5_4:15971826-15971845 | Msa0840300:CDS | 50.0% |
| ! | CCGTATGGTTGGTTACCTTG+AGG | - | chr5_4:15971072-15971091 | Msa0840300:three_prime_UTR | 50.0% |
| TCAATAGCAATAGCTGGGGC+AGG | + | chr5_4:15971163-15971182 | None:intergenic | 50.0% | |
| !!! | CTGTTGGCCTATTTTGGTGG+TGG | - | chr5_4:15971826-15971845 | Msa0840300:CDS | 50.0% |
| CCTCCCTTAACTCTCGTCCT+TGG | + | chr5_4:15971772-15971791 | None:intergenic | 55.0% | |
| CCAAGGACGAGAGTTAAGGG+AGG | - | chr5_4:15971769-15971788 | Msa0840300:intron | 55.0% | |
| CCTCCCTTAACTCTCGTCCT+TGG | + | chr5_4:15971772-15971791 | None:intergenic | 55.0% | |
| CCAAGGACGAGAGTTAAGGG+AGG | - | chr5_4:15971769-15971788 | Msa0840300:intron | 55.0% | |
| AGGGAGGCTGCTGCTCCAAT+TGG | - | chr5_4:15971785-15971804 | Msa0840300:CDS | 60.0% | |
| AGGGAGGCTGCTGCTCCAAT+TGG | - | chr5_4:15971785-15971804 | Msa0840300:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 15971044 | 15971887 | 15971044 | ID=Msa0840300;Name=Msa0840300 |
| chr5_4 | mRNA | 15971044 | 15971887 | 15971044 | ID=Msa0840300-mRNA-1;Parent=Msa0840300;Name=Msa0840300-mRNA-1;_AED=0.18;_eAED=0.18;_QI=32|0.5|0.33|1|0.5|0.66|3|70|75 |
| chr5_4 | exon | 15971044 | 15971173 | 15971044 | ID=Msa0840300-mRNA-1:exon:6835;Parent=Msa0840300-mRNA-1 |
| chr5_4 | exon | 15971652 | 15971738 | 15971652 | ID=Msa0840300-mRNA-1:exon:6834;Parent=Msa0840300-mRNA-1 |
| chr5_4 | exon | 15971775 | 15971887 | 15971775 | ID=Msa0840300-mRNA-1:exon:6833;Parent=Msa0840300-mRNA-1 |
| chr5_4 | five_prime_UTR | 15971856 | 15971887 | 15971856 | ID=Msa0840300-mRNA-1:five_prime_utr;Parent=Msa0840300-mRNA-1 |
| chr5_4 | CDS | 15971775 | 15971855 | 15971775 | ID=Msa0840300-mRNA-1:cds;Parent=Msa0840300-mRNA-1 |
| chr5_4 | CDS | 15971652 | 15971738 | 15971652 | ID=Msa0840300-mRNA-1:cds;Parent=Msa0840300-mRNA-1 |
| chr5_4 | CDS | 15971114 | 15971173 | 15971114 | ID=Msa0840300-mRNA-1:cds;Parent=Msa0840300-mRNA-1 |
| chr5_4 | three_prime_UTR | 15971044 | 15971113 | 15971044 | ID=Msa0840300-mRNA-1:three_prime_utr;Parent=Msa0840300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
