Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene86806.t1 | XP_024636901.1 | 95.3 | 192 | 6 | 1 | 58 | 249 | 176 | 364 | 6.90E-39 | 171 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene86806.t1 | A0A396JQ58 | 95.3 | 192 | 6 | 1 | 58 | 249 | 176 | 364 | 5.0e-39 | 171.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05415 | MS.gene86806 | 0.802157 | 6.41E-49 | -1.69E-46 |
| MS.gene061091 | MS.gene86806 | 0.803086 | 4.12E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene86806.t1 | MTR_1g076290 | 88.372 | 172 | 3 | 2 | 79 | 236 | 197 | 365 | 7.88e-85 | 258 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene86806.t1 | AT1G04230 | 62.727 | 110 | 35 | 2 | 58 | 166 | 184 | 288 | 3.58e-22 | 93.6 |
| MS.gene86806.t1 | AT1G04230 | 62.727 | 110 | 34 | 3 | 58 | 166 | 184 | 287 | 2.51e-20 | 88.6 |
| MS.gene86806.t1 | AT5G43720 | 64.035 | 114 | 33 | 4 | 58 | 168 | 183 | 291 | 7.66e-14 | 70.5 |
Find 51 sgRNAs with CRISPR-Local
Find 93 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTCTGTTTAGATGAATTT+TGG | 0.177579 | 3.2:+20870025 | None:intergenic |
| CAGTGAAGATGACGGTCTTC+TGG | 0.263388 | 3.2:-20870488 | MS.gene86806:CDS |
| GAGCAGGCTTCTAGTGCTTC+TGG | 0.304491 | 3.2:-20870280 | MS.gene86806:CDS |
| GAGCTGGTCCCTGCTCTTGA+AGG | 0.346116 | 3.2:+20869895 | None:intergenic |
| CAAACAAGTTGTCAAGGTTT+GGG | 0.346944 | 3.2:-20870056 | MS.gene86806:CDS |
| TCAAACAAGTTGTCAAGGTT+TGG | 0.348252 | 3.2:-20870057 | MS.gene86806:CDS |
| GTAAGGGAACCCTCAAGATC+AGG | 0.387740 | 3.2:-20869862 | MS.gene86806:CDS |
| AACCTTGACAACTTGTTTGA+AGG | 0.398124 | 3.2:+20870060 | None:intergenic |
| TTCTATTGGTTGCAGAGAGC+AGG | 0.398930 | 3.2:-20870296 | MS.gene86806:intron |
| TATCAGATTCGACGTTTCAA+TGG | 0.411557 | 3.2:-20871039 | MS.gene86806:CDS |
| GTAAGGGAATCCTCAAGATC+AGG | 0.416958 | 3.2:-20869946 | MS.gene86806:CDS |
| TTGTCAAGGTTTGGGTCTGC+AGG | 0.427670 | 3.2:-20870048 | MS.gene86806:CDS |
| GCTTCATCACTAGAACTTCC+AGG | 0.434881 | 3.2:+20870439 | None:intergenic |
| CCTTACTCTGAATTCTGAGC+TGG | 0.459431 | 3.2:+20869879 | None:intergenic |
| ACCTTGACAACTTGTTTGAA+GGG | 0.465270 | 3.2:+20870061 | None:intergenic |
| ATGACTGGTCCCTGATCTTG+AGG | 0.469121 | 3.2:+20869852 | None:intergenic |
| GTAAGGGAACCTTCAAGAGC+AGG | 0.475623 | 3.2:-20869904 | MS.gene86806:CDS |
| GCAGCTCAGACTTCAGAGTA+AGG | 0.479250 | 3.2:-20869963 | MS.gene86806:CDS |
| TGACTGGTCCCTGATCTTGA+GGG | 0.481277 | 3.2:+20869853 | None:intergenic |
| TTGAAACGTCGAATCTGATA+AGG | 0.484484 | 3.2:+20871042 | None:intergenic |
| TTGTTTGAAGGGCGAGGAGG+AGG | 0.487851 | 3.2:+20870072 | None:intergenic |
| TTTGCTGTTTGATGCGTAGC+GGG | 0.489522 | 3.2:+20869987 | None:intergenic |
| CCAGCTCAGAATTCAGAGTA+AGG | 0.492034 | 3.2:-20869879 | MS.gene86806:CDS |
| AGGAGGAGGCATCAAAGCTC+TGG | 0.493369 | 3.2:+20870086 | None:intergenic |
| CCTTACTCTGAAGTCTGAGC+TGG | 0.495940 | 3.2:+20869921 | None:intergenic |
| CCAGCTCAGACTTCAGAGTA+AGG | 0.500871 | 3.2:-20869921 | MS.gene86806:CDS |
| GCTTCTGGAAAAGCTGTGTC+TGG | 0.504121 | 3.2:-20870265 | MS.gene86806:CDS |
| TGAGCTGGTCCCTGATCTTG+AGG | 0.516141 | 3.2:+20869936 | None:intergenic |
| CACAAGCCTCGGACAGGTCA+TGG | 0.529184 | 3.2:-20869799 | MS.gene86806:CDS |
| GATGCTCACAAGCCTCGGAC+AGG | 0.531903 | 3.2:-20869805 | MS.gene86806:CDS |
| ACTCTGATGCTCACAAGCCT+CGG | 0.541640 | 3.2:-20869759 | MS.gene86806:CDS |
| ACTCTGATGCTCACAAGCCT+CGG | 0.546671 | 3.2:-20869810 | MS.gene86806:CDS |
| GCCCTTCAAACAAGTTGTCA+AGG | 0.549834 | 3.2:-20870062 | MS.gene86806:CDS |
| GACAACTTGTTTGAAGGGCG+AGG | 0.563882 | 3.2:+20870066 | None:intergenic |
| TCAAGATCAGGGACCAGTCA+TGG | 0.573974 | 3.2:-20869850 | MS.gene86806:CDS |
| GCTTAGACTACTGCCATGAC+TGG | 0.583235 | 3.2:+20869837 | None:intergenic |
| AGGCTTGTGAGCATCAGAGT+TGG | 0.585984 | 3.2:+20869762 | None:intergenic |
| AGGCTTGTGAGCATCAGAGT+TGG | 0.585984 | 3.2:+20869813 | None:intergenic |
| TAAGGGAACCCTCAAGATCA+GGG | 0.588906 | 3.2:-20869861 | MS.gene86806:CDS |
| CAGCTCAGACTTCAGAGTAA+GGG | 0.589029 | 3.2:-20869962 | MS.gene86806:CDS |
| TAAGGGAATCCTCAAGATCA+GGG | 0.602726 | 3.2:-20869945 | MS.gene86806:CDS |
| TGTCGTGGCTAGATCTGAGA+AGG | 0.607320 | 3.2:+20871011 | None:intergenic |
| TAAGGGAACCTTCAAGAGCA+GGG | 0.607477 | 3.2:-20869903 | MS.gene86806:CDS |
| AACTTGTTTGAAGGGCGAGG+AGG | 0.639014 | 3.2:+20870069 | None:intergenic |
| CAGCTCAGACTTCAGAGTAA+GGG | 0.639698 | 3.2:-20869920 | MS.gene86806:CDS |
| CAGCTCAGAATTCAGAGTAA+GGG | 0.645288 | 3.2:-20869878 | MS.gene86806:CDS |
| TTAGGTCTTCTCTTTCTCCG+AGG | 0.650734 | 3.2:+20869742 | None:intergenic |
| AATTGACAGACAAAAGTACC+AGG | 0.657399 | 3.2:-20870402 | MS.gene86806:intron |
| AGTTTGAGAACACATTGTCG+TGG | 0.664381 | 3.2:+20870996 | None:intergenic |
| GAGACTTACAGTGAAGATGA+CGG | 0.684767 | 3.2:-20870496 | MS.gene86806:CDS |
| CTACTGCCATGACCTGTCCG+AGG | 0.693261 | 3.2:+20869793 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTGGATAAATTTTTTCTAT+TGG | - | chr3.2:20870467-20870486 | MS.gene86806:CDS | 20.0% |
| !!! | AGTTATCTCAATAAGTTTTT+TGG | - | chr3.2:20870425-20870444 | MS.gene86806:CDS | 20.0% |
| !!! | TTTATCACTTTCTTTTATCT+TGG | - | chr3.2:20870032-20870051 | MS.gene86806:CDS | 20.0% |
| ! | AAAGATTATTGTAAGTGAGA+CGG | + | chr3.2:20869979-20869998 | None:intergenic | 25.0% |
| ! | AATAGAAACATTATATGCAG+GGG | + | chr3.2:20870093-20870112 | None:intergenic | 25.0% |
| ! | ATAATGTGTGACTATCTATT+CGG | + | chr3.2:20870622-20870641 | None:intergenic | 25.0% |
| ! | ATTACTAGTTATTACTCTTG+CGG | + | chr3.2:20870568-20870587 | None:intergenic | 25.0% |
| ! | ATTATATCGATGAAAAGTAG+TGG | - | chr3.2:20870449-20870468 | MS.gene86806:CDS | 25.0% |
| ! | CAATAGAAACATTATATGCA+GGG | + | chr3.2:20870094-20870113 | None:intergenic | 25.0% |
| ! | GTGATAAACACAGAATATTA+AGG | + | chr3.2:20870020-20870039 | None:intergenic | 25.0% |
| ! | TAAACACAGAATATTAAGGA+AGG | + | chr3.2:20870016-20870035 | None:intergenic | 25.0% |
| !! | ATCTCTGTTTAGATGAATTT+TGG | + | chr3.2:20870755-20870774 | None:intergenic | 25.0% |
| !! | TTGTTGACATTTTATCAAAC+AGG | + | chr3.2:20870241-20870260 | None:intergenic | 25.0% |
| AAAACCAAGCACTTGAAATA+AGG | + | chr3.2:20870125-20870144 | None:intergenic | 30.0% | |
| AAACCAAGCACTTGAAATAA+GGG | + | chr3.2:20870124-20870143 | None:intergenic | 30.0% | |
| AAATCTGCCTCTACAAAAAT+GGG | + | chr3.2:20870668-20870687 | None:intergenic | 30.0% | |
| CGAAAACAAAATCAAGCAAT+CGG | + | chr3.2:20869950-20869969 | None:intergenic | 30.0% | |
| GCAATAGAAACATTATATGC+AGG | + | chr3.2:20870095-20870114 | None:intergenic | 30.0% | |
| ! | CACTTTCTTTTATCTTGGTT+TGG | - | chr3.2:20870037-20870056 | MS.gene86806:CDS | 30.0% |
| ! | TGACATTTTATCAAACAGGA+AGG | + | chr3.2:20870237-20870256 | None:intergenic | 30.0% |
| !!! | AGCAAAGATGTTTTAGTACT+TGG | - | chr3.2:20870400-20870419 | MS.gene86806:intron | 30.0% |
| !!! | GATGATGATTTTTTTCTTCC+TGG | - | chr3.2:20870320-20870339 | MS.gene86806:intron | 30.0% |
| !!! | GCAAAGATGTTTTAGTACTT+GGG | - | chr3.2:20870401-20870420 | MS.gene86806:intron | 30.0% |
| CAAACAAGTTGTCAAGGTTT+GGG | - | chr3.2:20870721-20870740 | MS.gene86806:intron | 35.0% | |
| GAAATCTGCCTCTACAAAAA+TGG | + | chr3.2:20870669-20870688 | None:intergenic | 35.0% | |
| TATCAGATTCGACGTTTCAA+TGG | - | chr3.2:20869738-20869757 | MS.gene86806:CDS | 35.0% | |
| TCAAACAAGTTGTCAAGGTT+TGG | - | chr3.2:20870720-20870739 | MS.gene86806:intron | 35.0% | |
| TTGAAACGTCGAATCTGATA+AGG | + | chr3.2:20869738-20869757 | None:intergenic | 35.0% | |
| ! | AACCTTGACAACTTGTTTGA+AGG | + | chr3.2:20870720-20870739 | None:intergenic | 35.0% |
| ! | AACTCTGAGTTTTTCGTCAA+CGG | + | chr3.2:20869874-20869893 | None:intergenic | 35.0% |
| ! | ACCTTGACAACTTGTTTGAA+GGG | + | chr3.2:20870719-20870738 | None:intergenic | 35.0% |
| ! | AGCGAGTCACTTATTCTTTT+AGG | - | chr3.2:20869805-20869824 | MS.gene86806:CDS | 35.0% |
| ! | AGTTGAGCTCTGTTTGAAAT+TGG | - | chr3.2:20870155-20870174 | MS.gene86806:intron | 35.0% |
| ! | CATTTTATCAAACAGGAAGG+AGG | + | chr3.2:20870234-20870253 | None:intergenic | 35.0% |
| ! | TCTGTTTGAAATTGGTGACT+GGG | - | chr3.2:20870163-20870182 | MS.gene86806:intron | 35.0% |
| ! | TTACCCTTATTTCAAGTGCT+TGG | - | chr3.2:20870118-20870137 | MS.gene86806:intron | 35.0% |
| !! | AATTGACAGACAAAAGTACC+AGG | - | chr3.2:20870375-20870394 | MS.gene86806:intron | 35.0% |
| !! | ATCTTAGCCCATTTTTGTAG+AGG | - | chr3.2:20870658-20870677 | MS.gene86806:intron | 35.0% |
| !!! | AACCTGATTTTTTTCATCGC+TGG | + | chr3.2:20870543-20870562 | None:intergenic | 35.0% |
| !!! | TTCAAGTGCTTGGTTTTAGT+TGG | - | chr3.2:20870128-20870147 | MS.gene86806:intron | 35.0% |
| AGAAACATTATATGCAGGGG+CGG | + | chr3.2:20870090-20870109 | None:intergenic | 40.0% | |
| AGTTTGAGAACACATTGTCG+TGG | + | chr3.2:20869784-20869803 | None:intergenic | 40.0% | |
| CAGCTCAGAATTCAGAGTAA+GGG | - | chr3.2:20870899-20870918 | MS.gene86806:CDS | 40.0% | |
| CTAAAACATCTTTGCTCACC+TGG | + | chr3.2:20870396-20870415 | None:intergenic | 40.0% | |
| GAGACTTACAGTGAAGATGA+CGG | - | chr3.2:20870281-20870300 | MS.gene86806:CDS | 40.0% | |
| GTCCAGCGATGAAAAAAATC+AGG | - | chr3.2:20870538-20870557 | MS.gene86806:intron | 40.0% | |
| TAAGGGAATCCTCAAGATCA+GGG | - | chr3.2:20870832-20870851 | MS.gene86806:intron | 40.0% | |
| TTCGCGATGGTTAAAGCTTA+CGG | - | chr3.2:20869892-20869911 | MS.gene86806:CDS | 40.0% | |
| ! | CTCTGTTTGAAATTGGTGAC+TGG | - | chr3.2:20870162-20870181 | MS.gene86806:intron | 40.0% |
| ! | GGAAGGAGGCATAAATACAA+AGG | + | chr3.2:20870220-20870239 | None:intergenic | 40.0% |
| !!! | TTTTGCTGTTTGATGCGTAG+CGG | + | chr3.2:20870794-20870813 | None:intergenic | 40.0% |
| CAGCTCAGACTTCAGAGTAA+GGG | - | chr3.2:20870815-20870834 | MS.gene86806:intron | 45.0% | |
| CCAGCTCAGAATTCAGAGTA+AGG | - | chr3.2:20870898-20870917 | MS.gene86806:intron | 45.0% | |
| CCTTACTCTGAATTCTGAGC+TGG | + | chr3.2:20870901-20870920 | None:intergenic | 45.0% | |
| GAAAAACTCAGAGTTCGCGA+TGG | - | chr3.2:20869879-20869898 | MS.gene86806:CDS | 45.0% | |
| GCAATCGGAAACAAACCTCT+TGG | + | chr3.2:20869935-20869954 | None:intergenic | 45.0% | |
| GCCCTTCAAACAAGTTGTCA+AGG | - | chr3.2:20870715-20870734 | MS.gene86806:intron | 45.0% | |
| GCTTCATCACTAGAACTTCC+AGG | + | chr3.2:20870341-20870360 | None:intergenic | 45.0% | |
| GTAAGGGAATCCTCAAGATC+AGG | - | chr3.2:20870831-20870850 | MS.gene86806:intron | 45.0% | |
| TAAAGCTTACGGTGTTCGAC+AGG | - | chr3.2:20869903-20869922 | MS.gene86806:CDS | 45.0% | |
| TAAGGGAACCCTCAAGATCA+GGG | - | chr3.2:20870916-20870935 | MS.gene86806:CDS | 45.0% | |
| TAAGGGAACCTTCAAGAGCA+GGG | - | chr3.2:20870874-20870893 | MS.gene86806:intron | 45.0% | |
| TTAGGTCTTCTCTTTCTCCG+AGG | + | chr3.2:20871038-20871057 | None:intergenic | 45.0% | |
| TTCGACAGGTTCAATCCAAG+AGG | - | chr3.2:20869917-20869936 | MS.gene86806:CDS | 45.0% | |
| ! | TTCTATTGGTTGCAGAGAGC+AGG | - | chr3.2:20870481-20870500 | MS.gene86806:CDS | 45.0% |
| !! | TTTGCTGTTTGATGCGTAGC+GGG | + | chr3.2:20870793-20870812 | None:intergenic | 45.0% |
| ACATTATATGCAGGGGCGGA+TGG | + | chr3.2:20870086-20870105 | None:intergenic | 50.0% | |
| ACTCTGATGCTCACAAGCCT+CGG | - | chr3.2:20870967-20870986 | MS.gene86806:CDS | 50.0% | |
| AGGCTTGTGAGCATCAGAGT+TGG | + | chr3.2:20870967-20870986 | None:intergenic | 50.0% | |
| CCAGCTCAGACTTCAGAGTA+AGG | - | chr3.2:20870856-20870875 | MS.gene86806:intron | 50.0% | |
| GCAGCTCAGACTTCAGAGTA+AGG | - | chr3.2:20870814-20870833 | MS.gene86806:intron | 50.0% | |
| GCTTAGACTACTGCCATGAC+TGG | + | chr3.2:20870943-20870962 | None:intergenic | 50.0% | |
| GTAAGGGAACCCTCAAGATC+AGG | - | chr3.2:20870915-20870934 | MS.gene86806:CDS | 50.0% | |
| GTAAGGGAACCTTCAAGAGC+AGG | - | chr3.2:20870873-20870892 | MS.gene86806:intron | 50.0% | |
| TCAAGATCAGGGACCAGTCA+TGG | - | chr3.2:20870927-20870946 | MS.gene86806:CDS | 50.0% | |
| TGTCGTGGCTAGATCTGAGA+AGG | + | chr3.2:20869769-20869788 | None:intergenic | 50.0% | |
| TTGTCAAGGTTTGGGTCTGC+AGG | - | chr3.2:20870729-20870748 | MS.gene86806:intron | 50.0% | |
| ! | AACTTGTTTGAAGGGCGAGG+AGG | + | chr3.2:20870711-20870730 | None:intergenic | 50.0% |
| ! | ATGACTGGTCCCTGATCTTG+AGG | + | chr3.2:20870928-20870947 | None:intergenic | 50.0% |
| ! | CAGTGAAGATGACGGTCTTC+TGG | - | chr3.2:20870289-20870308 | MS.gene86806:intron | 50.0% |
| ! | GACAACTTGTTTGAAGGGCG+AGG | + | chr3.2:20870714-20870733 | None:intergenic | 50.0% |
| ! | GCTTCTGGAAAAGCTGTGTC+TGG | - | chr3.2:20870512-20870531 | MS.gene86806:intron | 50.0% |
| ! | TGACTGGTCCCTGATCTTGA+GGG | + | chr3.2:20870927-20870946 | None:intergenic | 50.0% |
| !! | CCTTACTCTGAAGTCTGAGC+TGG | + | chr3.2:20870817-20870836 | None:intergenic | 50.0% |
| !! | TTGGTTTGGTTGTGCGCTCT+TGG | - | chr3.2:20870051-20870070 | MS.gene86806:CDS | 50.0% |
| GAGCAGGCTTCTAGTGCTTC+TGG | - | chr3.2:20870497-20870516 | MS.gene86806:CDS | 55.0% | |
| TGAGCTGGTCCCTGATCTTG+AGG | + | chr3.2:20870844-20870863 | None:intergenic | 55.0% | |
| TTGTTTGAAGGGCGAGGAGG+AGG | + | chr3.2:20870708-20870727 | None:intergenic | 55.0% | |
| !! | AGGAGGAGGCATCAAAGCTC+TGG | + | chr3.2:20870694-20870713 | None:intergenic | 55.0% |
| CACAAGCCTCGGACAGGTCA+TGG | - | chr3.2:20870978-20870997 | MS.gene86806:CDS | 60.0% | |
| CTACTGCCATGACCTGTCCG+AGG | + | chr3.2:20870987-20871006 | None:intergenic | 60.0% | |
| GAGCTGGTCCCTGCTCTTGA+AGG | + | chr3.2:20870885-20870904 | None:intergenic | 60.0% | |
| GATGCTCACAAGCCTCGGAC+AGG | - | chr3.2:20870972-20870991 | MS.gene86806:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 20869726 | 20871073 | 20869726 | ID=MS.gene86806 |
| chr3.2 | mRNA | 20869726 | 20871073 | 20869726 | ID=MS.gene86806.t1;Parent=MS.gene86806 |
| chr3.2 | exon | 20870899 | 20871073 | 20870899 | ID=MS.gene86806.t1.exon1;Parent=MS.gene86806.t1 |
| chr3.2 | CDS | 20870899 | 20871073 | 20870899 | ID=cds.MS.gene86806.t1;Parent=MS.gene86806.t1 |
| chr3.2 | exon | 20870403 | 20870517 | 20870403 | ID=MS.gene86806.t1.exon2;Parent=MS.gene86806.t1 |
| chr3.2 | CDS | 20870403 | 20870517 | 20870403 | ID=cds.MS.gene86806.t1;Parent=MS.gene86806.t1 |
| chr3.2 | exon | 20870240 | 20870303 | 20870240 | ID=MS.gene86806.t1.exon3;Parent=MS.gene86806.t1 |
| chr3.2 | CDS | 20870240 | 20870303 | 20870240 | ID=cds.MS.gene86806.t1;Parent=MS.gene86806.t1 |
| chr3.2 | exon | 20869726 | 20870121 | 20869726 | ID=MS.gene86806.t1.exon4;Parent=MS.gene86806.t1 |
| chr3.2 | CDS | 20869726 | 20870121 | 20869726 | ID=cds.MS.gene86806.t1;Parent=MS.gene86806.t1 |
| Gene Sequence |
| Protein sequence |
