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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1349610 | XP_039690111.1 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 7.35e-56 | 177 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1349610 | G7KC08 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 3.51e-56 | 177 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1349600 | Msa1349610 | 0.800348 | 1.503385e-48 | -8.615850e-47 |
| Msa0752880 | Msa1349610 | 0.829533 | 4.881791e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1349610 | MtrunA17_Chr5g0397271 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 6.76e-60 | 177 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACCACTTCCTCCTGTTAT+AGG | 0.246729 | tig0010967:+55998 | Msa1349610:CDS |
| TTGCATTACTATAGGTATAT+TGG | 0.263249 | tig0010967:+55886 | Msa1349610:intron |
| TCCTCCTGTTATAGGATCAT+TGG | 0.342440 | tig0010967:+56006 | Msa1349610:CDS |
| CCCTCTCGTTGTTGGATACA+TGG | 0.370228 | tig0010967:+56032 | Msa1349610:CDS |
| GGCCGGCTATAGGCGACTAT+TGG | 0.377649 | tig0010967:-55974 | Msa1349600:three_prime_UTR |
| ATTGGTTGCCCTCTCGTTGT+TGG | 0.399335 | tig0010967:+56024 | Msa1349610:CDS |
| AAGTGGTGGAGGCCGGCTAT+AGG | 0.418164 | tig0010967:-55984 | Msa1349600:three_prime_UTR |
| AAAGATGAATCTGGCGAGAT+GGG | 0.432844 | tig0010967:+55926 | Msa1349610:CDS |
| GCAACCAATGATCCTATAAC+AGG | 0.441435 | tig0010967:-56010 | Msa1349600:three_prime_UTR |
| GCCGGCTATAGGCGACTATT+GGG | 0.460498 | tig0010967:-55973 | Msa1349600:three_prime_UTR |
| GATCCATTCACTTGGTAGAC+CGG | 0.491216 | tig0010967:-55676 | Msa1349600:three_prime_UTR |
| AAGCCGGTCTACCAAGTGAA+TGG | 0.508284 | tig0010967:+55673 | Msa1349610:CDS |
| AAAAGATGAATCTGGCGAGA+TGG | 0.530203 | tig0010967:+55925 | Msa1349610:CDS |
| GATCCTATAACAGGAGGAAG+TGG | 0.536218 | tig0010967:-56001 | Msa1349600:three_prime_UTR |
| CAGGAGGAAGTGGTGGAGGC+CGG | 0.536906 | tig0010967:-55991 | Msa1349600:three_prime_UTR |
| ACCCAATAGTCGCCTATAGC+CGG | 0.547078 | tig0010967:+55972 | Msa1349610:CDS |
| CTACCAAGTGAATGGATCAC+AGG | 0.559874 | tig0010967:+55681 | Msa1349610:CDS |
| TGCTGTCCTCATCAGTGCTG+CGG | 0.577568 | tig0010967:-56060 | Msa1349600:three_prime_UTR |
| ATAACAGGAGGAAGTGGTGG+AGG | 0.586799 | tig0010967:-55995 | Msa1349600:three_prime_UTR |
| CCTATAACAGGAGGAAGTGG+TGG | 0.596015 | tig0010967:-55998 | Msa1349600:three_prime_UTR |
| GTGGAACCGCAGCACTGATG+AGG | 0.597213 | tig0010967:+56054 | Msa1349610:CDS |
| TACCCTGTGATCCATTCACT+TGG | 0.621091 | tig0010967:-55684 | Msa1349600:three_prime_UTR |
| AAGATGAATCTGGCGAGATG+GGG | 0.637726 | tig0010967:+55927 | Msa1349610:CDS |
| ACCAATGATCCTATAACAGG+AGG | 0.648824 | tig0010967:-56007 | Msa1349600:three_prime_UTR |
| ACCATGTATCCAACAACGAG+AGG | 0.650347 | tig0010967:-56033 | Msa1349600:three_prime_UTR |
| CCATGTATCCAACAACGAGA+GGG | 0.655825 | tig0010967:-56032 | Msa1349600:three_prime_UTR |
| CTATAGATAAAGTTCATGCG+TGG | 0.662656 | tig0010967:+55610 | None:intergenic |
| TACCAAGTGAATGGATCACA+GGG | 0.666568 | tig0010967:+55682 | Msa1349610:CDS |
| TCTCGTTGTTGGATACATGG+TGG | 0.695822 | tig0010967:+56035 | Msa1349610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATATTTTGCATTACTAT+AGG | + | tig0010967:55878-55897 | Msa1349610:intron | 20.0% |
| ! | TTGCATTACTATAGGTATAT+TGG | + | tig0010967:55886-55905 | Msa1349610:intron | 25.0% |
| !!! | TCATCTTTTTCTTGTTTCTT+AGG | - | tig0010967:55914-55933 | Msa1349600:three_prime_UTR | 25.0% |
| ! | AAACAAGAAAAAGATGAATC+TGG | + | tig0010967:55917-55936 | Msa1349610:CDS | 25.0% |
| !! | TAGTTTGAGTGTTGAACAAT+GGG | + | tig0010967:55795-55814 | Msa1349610:intron | 30.0% |
| TGCGAAAAACAGATTTAAGC+CGG | + | tig0010967:55657-55676 | Msa1349610:CDS | 35.0% | |
| !! | CTAGTTTGAGTGTTGAACAA+TGG | + | tig0010967:55794-55813 | Msa1349610:intron | 35.0% |
| TACCAAGTGAATGGATCACA+GGG | + | tig0010967:55682-55701 | Msa1349610:CDS | 40.0% | |
| AAAAGATGAATCTGGCGAGA+TGG | + | tig0010967:55925-55944 | Msa1349610:CDS | 40.0% | |
| AAAGATGAATCTGGCGAGAT+GGG | + | tig0010967:55926-55945 | Msa1349610:CDS | 40.0% | |
| TCCTCCTGTTATAGGATCAT+TGG | + | tig0010967:56006-56025 | Msa1349610:CDS | 40.0% | |
| ACCAATGATCCTATAACAGG+AGG | - | tig0010967:56010-56029 | Msa1349600:three_prime_UTR | 40.0% | |
| GCAACCAATGATCCTATAAC+AGG | - | tig0010967:56013-56032 | Msa1349600:three_prime_UTR | 40.0% | |
| GATCCATTCACTTGGTAGAC+CGG | - | tig0010967:55679-55698 | Msa1349600:three_prime_UTR | 45.0% | |
| CTACCAAGTGAATGGATCAC+AGG | + | tig0010967:55681-55700 | Msa1349610:CDS | 45.0% | |
| TACCCTGTGATCCATTCACT+TGG | - | tig0010967:55687-55706 | Msa1349600:three_prime_UTR | 45.0% | |
| AAGATGAATCTGGCGAGATG+GGG | + | tig0010967:55927-55946 | Msa1349610:CDS | 45.0% | |
| GATCCTATAACAGGAGGAAG+TGG | - | tig0010967:56004-56023 | Msa1349600:three_prime_UTR | 45.0% | |
| CCATGTATCCAACAACGAGA+GGG | - | tig0010967:56035-56054 | Msa1349600:three_prime_UTR | 45.0% | |
| ACCATGTATCCAACAACGAG+AGG | - | tig0010967:56036-56055 | Msa1349600:three_prime_UTR | 45.0% | |
| TCTCGTTGTTGGATACATGG+TGG | + | tig0010967:56035-56054 | Msa1349610:CDS | 45.0% | |
| AAGCCGGTCTACCAAGTGAA+TGG | + | tig0010967:55673-55692 | Msa1349610:CDS | 50.0% | |
| ACCCAATAGTCGCCTATAGC+CGG | + | tig0010967:55972-55991 | Msa1349610:CDS | 50.0% | |
| ATAACAGGAGGAAGTGGTGG+AGG | - | tig0010967:55998-56017 | Msa1349600:three_prime_UTR | 50.0% | |
| CCTATAACAGGAGGAAGTGG+TGG | - | tig0010967:56001-56020 | Msa1349600:three_prime_UTR | 50.0% | |
| CCACCACTTCCTCCTGTTAT+AGG | + | tig0010967:55998-56017 | Msa1349610:CDS | 50.0% | |
| ATTGGTTGCCCTCTCGTTGT+TGG | + | tig0010967:56024-56043 | Msa1349610:CDS | 50.0% | |
| CCCTCTCGTTGTTGGATACA+TGG | + | tig0010967:56032-56051 | Msa1349610:CDS | 50.0% | |
| GCCGGCTATAGGCGACTATT+GGG | - | tig0010967:55976-55995 | Msa1349600:three_prime_UTR | 55.0% | |
| TGCTGTCCTCATCAGTGCTG+CGG | - | tig0010967:56063-56082 | Msa1349600:three_prime_UTR | 55.0% | |
| GGCCGGCTATAGGCGACTAT+TGG | - | tig0010967:55977-55996 | Msa1349600:three_prime_UTR | 60.0% | |
| ! | AAGTGGTGGAGGCCGGCTAT+AGG | - | tig0010967:55987-56006 | Msa1349600:three_prime_UTR | 60.0% |
| !! | GTGGAACCGCAGCACTGATG+AGG | + | tig0010967:56054-56073 | Msa1349610:CDS | 60.0% |
| ! | CAGGAGGAAGTGGTGGAGGC+CGG | - | tig0010967:55994-56013 | Msa1349600:three_prime_UTR | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0010967 | gene | 55625 | 56087 | 55625 | ID=Msa1349610;Name=Msa1349610 |
| tig0010967 | mRNA | 55625 | 56087 | 55625 | ID=Msa1349610-mRNA-1;Parent=Msa1349610;Name=Msa1349610-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|0|0|1|1|1|2|0|88 |
| tig0010967 | exon | 55625 | 55703 | 55625 | ID=Msa1349610-mRNA-1:exon:7024;Parent=Msa1349610-mRNA-1 |
| tig0010967 | exon | 55900 | 56087 | 55900 | ID=Msa1349610-mRNA-1:exon:7025;Parent=Msa1349610-mRNA-1 |
| tig0010967 | CDS | 55625 | 55703 | 55625 | ID=Msa1349610-mRNA-1:cds;Parent=Msa1349610-mRNA-1 |
| tig0010967 | CDS | 55900 | 56087 | 55900 | ID=Msa1349610-mRNA-1:cds;Parent=Msa1349610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
