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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047275.01.T01 | XP_003609905.1 | 98.701 | 77 | 1 | 0 | 1 | 77 | 1 | 77 | 7.98E-49 | 158 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047275.01.T01 | G7JR35 | 98.701 | 77 | 1 | 0 | 1 | 77 | 1 | 77 | 3.81e-49 | 158 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0880046124.01 | MsG0880047275.01 | 0.838496 | 2.778806e-57 | 3.728450e-54 |
| MsG0880042086.01 | MsG0880047275.01 | 0.816908 | 4.339487e-52 | 3.114656e-49 |
| MsG0880042415.01 | MsG0880047275.01 | 0.807619 | 4.627728e-50 | 2.589652e-47 |
| MsG0380012868.01 | MsG0880047275.01 | 0.803416 | 3.523354e-49 | 1.769552e-46 |
| MsG0480022239.01 | MsG0880047275.01 | 0.821617 | 3.670361e-53 | 3.000947e-50 |
| MsG0480022240.01 | MsG0880047275.01 | 0.834216 | 3.406630e-56 | 4.015662e-53 |
| MsG0480022245.01 | MsG0880047275.01 | 0.819899 | 9.115135e-53 | 7.105237e-50 |
| MsG0580024597.01 | MsG0880047275.01 | 0.800767 | 1.235022e-48 | 5.798602e-46 |
| MsG0580024598.01 | MsG0880047275.01 | 0.814387 | 1.581132e-51 | 1.059521e-48 |
| MsG0580024601.01 | MsG0880047275.01 | 0.804874 | 1.751749e-49 | 9.135253e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047275.01.T01 | MTR_4g124250 | 98.701 | 77 | 1 | 0 | 1 | 77 | 1 | 77 | 9.66e-53 | 158 |
| MsG0880047275.01.T01 | MTR_2g044940 | 77.922 | 77 | 13 | 3 | 1 | 76 | 1 | 74 | 4.17e-36 | 116 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880047275.01.T01 | AT1G48330 | 65.152 | 66 | 20 | 3 | 1 | 63 | 1 | 66 | 1.32e-23 | 85.1 |
| MsG0880047275.01.T01 | AT3G17580 | 60.274 | 73 | 17 | 4 | 1 | 63 | 1 | 71 | 3.41e-21 | 79.3 |
Find 53 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCAAGAAGCCATTTGATTT+TGG | 0.208995 | 8:-84058631 | None:intergenic |
| GTGCTTATGTCCAGTCCTTT+AGG | 0.254502 | 8:+84058371 | MsG0880047275.01.T01:five_prime_UTR |
| GATAAGAGAAGTCAATAAAA+AGG | 0.255616 | 8:+84058406 | MsG0880047275.01.T01:five_prime_UTR |
| ACACTCTGTGGCTGTGGATT+TGG | 0.258834 | 8:-84059109 | None:intergenic |
| TGCATCAAATATCTTGAATA+TGG | 0.276681 | 8:+84059237 | MsG0880047275.01.T01:three_prime_UTR |
| ACCAAAATCAAATGGCTTCT+TGG | 0.281660 | 8:+84058630 | MsG0880047275.01.T01:exon |
| AAACCTGTTTGAGACTTCTT+AGG | 0.295118 | 8:-84058722 | None:intergenic |
| TCTTTGATGAAGAAGAATTA+AGG | 0.328607 | 8:+84059315 | MsG0880047275.01.T01:three_prime_UTR |
| GTCAAAATGTTAGTACTTGT+TGG | 0.336762 | 8:+84059367 | MsG0880047275.01.T01:three_prime_UTR |
| TTCTTAGGATCCCTTGTTGT+TGG | 0.351825 | 8:-84058707 | None:intergenic |
| TTATATAATATATATTATAT+AGG | 0.357294 | 8:-84058530 | None:intergenic |
| TTATATGCTAATTAATGTTA+AGG | 0.373939 | 8:+84059204 | MsG0880047275.01.T01:three_prime_UTR |
| AGAACAAGAGAGGCGTATAA+TGG | 0.401789 | 8:+84059017 | MsG0880047275.01.T01:intron |
| TCAAAATGTTAGTACTTGTT+GGG | 0.424308 | 8:+84059368 | MsG0880047275.01.T01:three_prime_UTR |
| TACATTCATTTGCAAAGATA+AGG | 0.427064 | 8:+84058566 | MsG0880047275.01.T01:five_prime_UTR |
| ACATTCGCTAATTTATGCAC+TGG | 0.461046 | 8:-84059177 | None:intergenic |
| TGCAAATGAATGTATTCTCT+AGG | 0.462994 | 8:-84058557 | None:intergenic |
| TTATGCACTGGGACTTCAAA+GGG | 0.464235 | 8:-84059165 | None:intergenic |
| GTCAATCAACCAAAATCAAA+TGG | 0.476074 | 8:+84058622 | MsG0880047275.01.T01:exon |
| CATTCGCTAATTTATGCACT+GGG | 0.478527 | 8:-84059176 | None:intergenic |
| GCAAATGAATGTATTCTCTA+GGG | 0.489660 | 8:-84058556 | None:intergenic |
| TATGTTACACTCTGTGGCTG+TGG | 0.492905 | 8:-84059115 | None:intergenic |
| GATCCTAAGAAGTCTCAAAC+AGG | 0.499805 | 8:+84058719 | MsG0880047275.01.T01:CDS |
| ATGGTATGAATGTAATGTAA+TGG | 0.502131 | 8:+84059256 | MsG0880047275.01.T01:three_prime_UTR |
| TCAAGTTATGTGGTCAATGC+TGG | 0.502431 | 8:+84059080 | MsG0880047275.01.T01:CDS |
| ATCTCTCTCATCAAACCTAA+AGG | 0.510453 | 8:-84058386 | None:intergenic |
| TGATATTCTTTCACCAATCA+CGG | 0.527224 | 8:-84059396 | None:intergenic |
| TTGTTGGGAATCCCCGTGAT+TGG | 0.536042 | 8:+84059383 | MsG0880047275.01.T01:three_prime_UTR |
| GATATTCTTTCACCAATCAC+GGG | 0.538061 | 8:-84059395 | None:intergenic |
| ATGAAGATGTTCAAGTTATG+TGG | 0.553111 | 8:+84059070 | MsG0880047275.01.T01:CDS |
| TCTCATCAAACCTAAAGGAC+TGG | 0.554967 | 8:-84058381 | None:intergenic |
| CAAACACAAACACAGAGAGA+AGG | 0.559898 | 8:-84058484 | None:intergenic |
| GGATCTGCAAGGTGAAGTAA+TGG | 0.564236 | 8:+84059038 | MsG0880047275.01.T01:CDS |
| GATGAGGTTAAGATTGTGGA+AGG | 0.564443 | 8:-84058438 | None:intergenic |
| GTGAGATGAGGTTAAGATTG+TGG | 0.565747 | 8:-84058442 | None:intergenic |
| TTTATGCACTGGGACTTCAA+AGG | 0.569375 | 8:-84059166 | None:intergenic |
| TTATGTGGTCAATGCTGGAT+AGG | 0.570689 | 8:+84059085 | MsG0880047275.01.T01:CDS |
| ACACAGAGAGAAGGAAAGAG+AGG | 0.582028 | 8:-84058475 | None:intergenic |
| TACTTATTGAACCGTCAAAG+AGG | 0.594531 | 8:-84059461 | None:intergenic |
| ATGAAGAAGAATTAAGGTGG+CGG | 0.597770 | 8:+84059321 | MsG0880047275.01.T01:three_prime_UTR |
| GGAGCAAGATCCGTGAGATG+AGG | 0.611544 | 8:-84058454 | None:intergenic |
| TTGATGAAGAAGAATTAAGG+TGG | 0.614747 | 8:+84059318 | MsG0880047275.01.T01:three_prime_UTR |
| TATTGTTTACAGAACAAGAG+AGG | 0.616356 | 8:+84059007 | MsG0880047275.01.T01:intron |
| GTATAGAGAAGCATATTCAA+AGG | 0.628569 | 8:+84058588 | MsG0880047275.01.T01:five_prime_UTR |
| TTAAAGAACAACCAACAACA+AGG | 0.633465 | 8:+84058696 | MsG0880047275.01.T01:CDS |
| TGAAGTTATGTTACACTCTG+TGG | 0.635521 | 8:-84059121 | None:intergenic |
| ACAATCTTAACCTCATCTCA+CGG | 0.636961 | 8:+84058444 | MsG0880047275.01.T01:five_prime_UTR |
| CAAGGTGAAGTAATGGCATG+TGG | 0.637142 | 8:+84059045 | MsG0880047275.01.T01:CDS |
| TAAAGAACAACCAACAACAA+GGG | 0.675428 | 8:+84058697 | MsG0880047275.01.T01:CDS |
| AGGCGTATAATGGATCTGCA+AGG | 0.696517 | 8:+84059027 | MsG0880047275.01.T01:CDS |
| ATATTCTTTCACCAATCACG+GGG | 0.713644 | 8:-84059394 | None:intergenic |
| TGATTGGTGAAAGAATATCA+TGG | 0.714774 | 8:+84059399 | MsG0880047275.01.T01:three_prime_UTR |
| AAGGTGAAGTAATGGCATGT+GGG | 0.724189 | 8:+84059046 | MsG0880047275.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATATAATATATATTATAT+AGG | - | Chr8:84058533-84058552 | None:intergenic | 0.0% |
| !!! | AAGTACAATTTTAAATTATA+AGG | - | Chr8:84058902-84058921 | None:intergenic | 10.0% |
| !!! | GTACTTTTATTTATTTTTTA+CGG | + | Chr8:84058916-84058935 | MsG0880047275.01.T01:intron | 10.0% |
| !! | AAAAAATGAGTTAAATAATG+TGG | - | Chr8:84058987-84059006 | None:intergenic | 15.0% |
| !! | TTATATGCTAATTAATGTTA+AGG | + | Chr8:84059204-84059223 | MsG0880047275.01.T01:three_prime_UTR | 15.0% |
| !!! | TTATTCAAATAGTATTTTGT+CGG | + | Chr8:84058856-84058875 | MsG0880047275.01.T01:intron | 15.0% |
| !! | TCTTCATCAAAGAAAAAAAA+GGG | - | Chr8:84059308-84059327 | None:intergenic | 20.0% |
| !! | TTCTTCATCAAAGAAAAAAA+AGG | - | Chr8:84059309-84059328 | None:intergenic | 20.0% |
| !!! | AAATGAAGATTTAAGATTGT+GGG | - | Chr8:84058759-84058778 | None:intergenic | 20.0% |
| !!! | ATTGAAAGTACAATTTCTTT+TGG | - | Chr8:84058963-84058982 | None:intergenic | 20.0% |
| ! | ATGGTATGAATGTAATGTAA+TGG | + | Chr8:84059256-84059275 | MsG0880047275.01.T01:three_prime_UTR | 25.0% |
| ! | CTTCATCAAAGAAAAAAAAG+GGG | - | Chr8:84059307-84059326 | None:intergenic | 25.0% |
| ! | GATAAGAGAAGTCAATAAAA+AGG | + | Chr8:84058406-84058425 | MsG0880047275.01.T01:five_prime_UTR | 25.0% |
| ! | TACATTCATTTGCAAAGATA+AGG | + | Chr8:84058566-84058585 | MsG0880047275.01.T01:five_prime_UTR | 25.0% |
| ! | TCAAAATGTTAGTACTTGTT+GGG | + | Chr8:84059368-84059387 | MsG0880047275.01.T01:three_prime_UTR | 25.0% |
| ! | TCTTTGATGAAGAAGAATTA+AGG | + | Chr8:84059315-84059334 | MsG0880047275.01.T01:three_prime_UTR | 25.0% |
| ! | TGCATCAAATATCTTGAATA+TGG | + | Chr8:84059237-84059256 | MsG0880047275.01.T01:three_prime_UTR | 25.0% |
| !! | GAAATGAAGATTTAAGATTG+TGG | - | Chr8:84058760-84058779 | None:intergenic | 25.0% |
| !!! | AAAGTACAAGCTTTTTTGAA+TGG | - | Chr8:84058674-84058693 | None:intergenic | 25.0% |
| !!! | TGGTGAGATTTTTTAATGAA+AGG | + | Chr8:84059419-84059438 | MsG0880047275.01.T01:three_prime_UTR | 25.0% |
| GCAAATGAATGTATTCTCTA+GGG | - | Chr8:84058559-84058578 | None:intergenic | 30.0% | |
| GTCAAAATGTTAGTACTTGT+TGG | + | Chr8:84059367-84059386 | MsG0880047275.01.T01:three_prime_UTR | 30.0% | |
| GTCAATCAACCAAAATCAAA+TGG | + | Chr8:84058622-84058641 | MsG0880047275.01.T01:exon | 30.0% | |
| TAAAGAACAACCAACAACAA+GGG | + | Chr8:84058697-84058716 | MsG0880047275.01.T01:CDS | 30.0% | |
| TATTGTTTACAGAACAAGAG+AGG | + | Chr8:84059007-84059026 | MsG0880047275.01.T01:intron | 30.0% | |
| TGATATTCTTTCACCAATCA+CGG | - | Chr8:84059399-84059418 | None:intergenic | 30.0% | |
| TGATTGGTGAAAGAATATCA+TGG | + | Chr8:84059399-84059418 | MsG0880047275.01.T01:three_prime_UTR | 30.0% | |
| TGCAAATGAATGTATTCTCT+AGG | - | Chr8:84058560-84058579 | None:intergenic | 30.0% | |
| TTAAAGAACAACCAACAACA+AGG | + | Chr8:84058696-84058715 | MsG0880047275.01.T01:CDS | 30.0% | |
| TTGATGAAGAAGAATTAAGG+TGG | + | Chr8:84059318-84059337 | MsG0880047275.01.T01:three_prime_UTR | 30.0% | |
| ! | ACGTGAAGATCTTTTCAATT+GGG | - | Chr8:84058334-84058353 | None:intergenic | 30.0% |
| ! | ATGAAGATGTTCAAGTTATG+TGG | + | Chr8:84059070-84059089 | MsG0880047275.01.T01:CDS | 30.0% |
| ! | GTATAGAGAAGCATATTCAA+AGG | + | Chr8:84058588-84058607 | MsG0880047275.01.T01:five_prime_UTR | 30.0% |
| ACAATCTTAACCTCATCTCA+CGG | + | Chr8:84058444-84058463 | MsG0880047275.01.T01:five_prime_UTR | 35.0% | |
| ACATTCGCTAATTTATGCAC+TGG | - | Chr8:84059180-84059199 | None:intergenic | 35.0% | |
| ACCAAAATCAAATGGCTTCT+TGG | + | Chr8:84058630-84058649 | MsG0880047275.01.T01:exon | 35.0% | |
| ATATTCTTTCACCAATCACG+GGG | - | Chr8:84059397-84059416 | None:intergenic | 35.0% | |
| ATCTCTCTCATCAAACCTAA+AGG | - | Chr8:84058389-84058408 | None:intergenic | 35.0% | |
| ATGAAGAAGAATTAAGGTGG+CGG | + | Chr8:84059321-84059340 | MsG0880047275.01.T01:three_prime_UTR | 35.0% | |
| CATTCGCTAATTTATGCACT+GGG | - | Chr8:84059179-84059198 | None:intergenic | 35.0% | |
| GATATTCTTTCACCAATCAC+GGG | - | Chr8:84059398-84059417 | None:intergenic | 35.0% | |
| TACTTATTGAACCGTCAAAG+AGG | - | Chr8:84059464-84059483 | None:intergenic | 35.0% | |
| TGAAGTTATGTTACACTCTG+TGG | - | Chr8:84059124-84059143 | None:intergenic | 35.0% | |
| ! | AAACCTGTTTGAGACTTCTT+AGG | - | Chr8:84058725-84058744 | None:intergenic | 35.0% |
| ! | CACGTGAAGATCTTTTCAAT+TGG | - | Chr8:84058335-84058354 | None:intergenic | 35.0% |
| !! | TCCAAGAAGCCATTTGATTT+TGG | - | Chr8:84058634-84058653 | None:intergenic | 35.0% |
| !!! | TTTTTTGAATGGTGTTGCGA+TGG | - | Chr8:84058663-84058682 | None:intergenic | 35.0% |
| AAGGTGAAGTAATGGCATGT+GGG | + | Chr8:84059046-84059065 | MsG0880047275.01.T01:CDS | 40.0% | |
| CAAACACAAACACAGAGAGA+AGG | - | Chr8:84058487-84058506 | None:intergenic | 40.0% | |
| GATCCTAAGAAGTCTCAAAC+AGG | + | Chr8:84058719-84058738 | MsG0880047275.01.T01:CDS | 40.0% | |
| GATGAGGTTAAGATTGTGGA+AGG | - | Chr8:84058441-84058460 | None:intergenic | 40.0% | |
| GTGAGATGAGGTTAAGATTG+TGG | - | Chr8:84058445-84058464 | None:intergenic | 40.0% | |
| TCAAGTTATGTGGTCAATGC+TGG | + | Chr8:84059080-84059099 | MsG0880047275.01.T01:CDS | 40.0% | |
| TCTCATCAAACCTAAAGGAC+TGG | - | Chr8:84058384-84058403 | None:intergenic | 40.0% | |
| TTATGCACTGGGACTTCAAA+GGG | - | Chr8:84059168-84059187 | None:intergenic | 40.0% | |
| TTATGTGGTCAATGCTGGAT+AGG | + | Chr8:84059085-84059104 | MsG0880047275.01.T01:CDS | 40.0% | |
| TTTATGCACTGGGACTTCAA+AGG | - | Chr8:84059169-84059188 | None:intergenic | 40.0% | |
| ! | AGAACAAGAGAGGCGTATAA+TGG | + | Chr8:84059017-84059036 | MsG0880047275.01.T01:intron | 40.0% |
| ! | GTGTCTGTTTTCCTCTTTGA+CGG | + | Chr8:84059450-84059469 | MsG0880047275.01.T01:three_prime_UTR | 40.0% |
| ! | TTCTTAGGATCCCTTGTTGT+TGG | - | Chr8:84058710-84058729 | None:intergenic | 40.0% |
| !!! | TTAAGGTGGCGGTTTTAGTT+TGG | + | Chr8:84059332-84059351 | MsG0880047275.01.T01:three_prime_UTR | 40.0% |
| ACACAGAGAGAAGGAAAGAG+AGG | - | Chr8:84058478-84058497 | None:intergenic | 45.0% | |
| CAAGGTGAAGTAATGGCATG+TGG | + | Chr8:84059045-84059064 | MsG0880047275.01.T01:CDS | 45.0% | |
| GGATCTGCAAGGTGAAGTAA+TGG | + | Chr8:84059038-84059057 | MsG0880047275.01.T01:CDS | 45.0% | |
| GTGCTTATGTCCAGTCCTTT+AGG | + | Chr8:84058371-84058390 | MsG0880047275.01.T01:five_prime_UTR | 45.0% | |
| TATGTTACACTCTGTGGCTG+TGG | - | Chr8:84059118-84059137 | None:intergenic | 45.0% | |
| !! | AGGCGTATAATGGATCTGCA+AGG | + | Chr8:84059027-84059046 | MsG0880047275.01.T01:CDS | 45.0% |
| ACACTCTGTGGCTGTGGATT+TGG | - | Chr8:84059112-84059131 | None:intergenic | 50.0% | |
| TTGTTGGGAATCCCCGTGAT+TGG | + | Chr8:84059383-84059402 | MsG0880047275.01.T01:three_prime_UTR | 50.0% | |
| GGAGCAAGATCCGTGAGATG+AGG | - | Chr8:84058457-84058476 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr8 | gene | 84058332 | 84059497 | 84058332 | ID=MsG0880047275.01;Name=MsG0880047275.01 |
| Chr8 | mRNA | 84058332 | 84059497 | 84058332 | ID=MsG0880047275.01.T01;Parent=MsG0880047275.01;Name=MsG0880047275.01.T01;_AED=0.19;_eAED=0.19;_QI=309|1|1|1|0|0|2|345|77 |
| Chr8 | exon | 84058332 | 84058740 | 84058332 | ID=MsG0880047275.01.T01:exon:35850;Parent=MsG0880047275.01.T01 |
| Chr8 | exon | 84059019 | 84059497 | 84059019 | ID=MsG0880047275.01.T01:exon:35851;Parent=MsG0880047275.01.T01 |
| Chr8 | five_prime_UTR | 84058332 | 84058640 | 84058332 | ID=MsG0880047275.01.T01:five_prime_utr;Parent=MsG0880047275.01.T01 |
| Chr8 | CDS | 84058641 | 84058740 | 84058641 | ID=MsG0880047275.01.T01:cds;Parent=MsG0880047275.01.T01 |
| Chr8 | CDS | 84059019 | 84059152 | 84059019 | ID=MsG0880047275.01.T01:cds;Parent=MsG0880047275.01.T01 |
| Chr8 | three_prime_UTR | 84059153 | 84059497 | 84059153 | ID=MsG0880047275.01.T01:three_prime_utr;Parent=MsG0880047275.01.T01 |
| Gene Sequence |
| Protein sequence |
