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.gene39088.t1 | XP_014489716.1 | 71.4 | 63 | 18 | 0 | 1 | 63 | 188 | 250 | 1.10E-14 | 89 |
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.gene39088.t1 | A0A1S3T7H8 | 71.4 | 63 | 18 | 0 | 1 | 63 | 188 | 250 | 8.1e-15 | 89.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052519 | MS.gene39088 | 0.80708 | 6.02E-50 | -1.69E-46 |
| MS.gene057208 | MS.gene39088 | 0.824914 | 6.23E-54 | -1.69E-46 |
| MS.gene058783 | MS.gene39088 | 0.80653 | 7.87E-50 | -1.69E-46 |
| MS.gene060935 | MS.gene39088 | 0.814209 | 1.73E-51 | -1.69E-46 |
| MS.gene060937 | MS.gene39088 | 0.805225 | 1.48E-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.gene39088.t1 | MTR_7g090880 | 70.000 | 60 | 17 | 1 | 4 | 63 | 241 | 299 | 1.56e-20 | 83.6 |
| MS.gene39088.t1 | MTR_7g090860 | 51.136 | 88 | 17 | 3 | 1 | 63 | 378 | 464 | 4.14e-15 | 68.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATTTAGTCCAAAAGCATTT+AGG | 0.188378 | 7.4:+17981464 | MS.gene39088:CDS |
| CCACATCCCCTAAATGCTTT+TGG | 0.276786 | 7.4:-17981472 | None:intergenic |
| ATTTAGTCCAAAAGCATTTA+GGG | 0.302968 | 7.4:+17981465 | MS.gene39088:CDS |
| TCATCGGTAATGGCTTCATT+AGG | 0.400546 | 7.4:+17981800 | MS.gene39088:CDS |
| TTACCGATGAATCTGCAGTT+TGG | 0.436753 | 7.4:-17981787 | None:intergenic |
| CCAAAAGCATTTAGGGGATG+TGG | 0.478987 | 7.4:+17981472 | MS.gene39088:CDS |
| ATTGATCAAAACTGAAGATA+AGG | 0.483534 | 7.4:+17981573 | MS.gene39088:CDS |
| AACTGCAGATTCATCGGTAA+TGG | 0.492553 | 7.4:+17981790 | MS.gene39088:CDS |
| TCTCGGAGCGTTTCCACCAC+AGG | 0.526097 | 7.4:-17981512 | None:intergenic |
| AAGCCAAACTGCAGATTCAT+CGG | 0.554703 | 7.4:+17981784 | MS.gene39088:intron |
| ATGGAAGCGGTCACCTGTGG+TGG | 0.556018 | 7.4:+17981499 | MS.gene39088:CDS |
| CCACAGGTGACCGCTTCCAT+AGG | 0.560769 | 7.4:-17981496 | None:intergenic |
| ATTTAGGGGATGTGGACCTA+TGG | 0.569229 | 7.4:+17981480 | MS.gene39088:CDS |
| AGAACAGCTGCATAGAATCT+CGG | 0.579898 | 7.4:-17981529 | None:intergenic |
| TTTAGTCCAAAAGCATTTAG+GGG | 0.630242 | 7.4:+17981466 | MS.gene39088:CDS |
| GGGATGTGGACCTATGGAAG+CGG | 0.634079 | 7.4:+17981486 | MS.gene39088:CDS |
| CCTATGGAAGCGGTCACCTG+TGG | 0.654345 | 7.4:+17981496 | MS.gene39088:CDS |
| CCGTTTGCTCATCTACAGAG+TGG | 0.685995 | 7.4:-17981829 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAACTAATCTAAAAAGT+TGG | - | chr7.4:17980850-17980869 | None:intergenic | 15.0% |
| !! | TTCTTAATTGTATTTAAAGA+AGG | + | chr7.4:17981049-17981068 | MS.gene39088:intron | 15.0% |
| !!! | CATTGTATCTTAAAATATTT+TGG | - | chr7.4:17981126-17981145 | None:intergenic | 15.0% |
| !!! | GTATTGTTTTAAATTGTTTT+TGG | + | chr7.4:17980891-17980910 | MS.gene39088:intron | 15.0% |
| !! | AGTTCCTAAAATGATATTAT+AGG | - | chr7.4:17981103-17981122 | None:intergenic | 20.0% |
| !! | ATGATAAATCTATGATTCAT+TGG | - | chr7.4:17981417-17981436 | None:intergenic | 20.0% |
| !! | GAGAAATTTAACAAAAACAT+TGG | - | chr7.4:17980732-17980751 | None:intergenic | 20.0% |
| !!! | AAGACTTTATCTTTGAAAAT+TGG | + | chr7.4:17981719-17981738 | MS.gene39088:intron | 20.0% |
| !!! | ATTTGTAGTTTTTGTTATTC+AGG | + | chr7.4:17981330-17981349 | MS.gene39088:intron | 20.0% |
| !!! | ATTTTTGGCAAAAAATAGAA+GGG | + | chr7.4:17981669-17981688 | MS.gene39088:intron | 20.0% |
| !!! | TACTCCTATAATATCATTTT+AGG | + | chr7.4:17981096-17981115 | MS.gene39088:intron | 20.0% |
| !!! | TATTTTTGGCAAAAAATAGA+AGG | + | chr7.4:17981668-17981687 | MS.gene39088:intron | 20.0% |
| ! | AAAATGAAAGTGACTAAATG+CGG | - | chr7.4:17980693-17980712 | None:intergenic | 25.0% |
| ! | AACCCTACATATTAACAAAA+AGG | - | chr7.4:17980918-17980937 | None:intergenic | 25.0% |
| ! | ATTGATCAAAACTGAAGATA+AGG | + | chr7.4:17981573-17981592 | MS.gene39088:CDS | 25.0% |
| ! | TATTAACTGTTAAAATACCC+TGG | - | chr7.4:17981171-17981190 | None:intergenic | 25.0% |
| ! | TTCAAAGATAAAGTCTTTCA+TGG | - | chr7.4:17981716-17981735 | None:intergenic | 25.0% |
| !! | GTCCTTTTTGTTAATATGTA+GGG | + | chr7.4:17980913-17980932 | MS.gene39088:intron | 25.0% |
| !!! | ATTTAGTCCAAAAGCATTTA+GGG | + | chr7.4:17981465-17981484 | MS.gene39088:CDS | 25.0% |
| ACTACAAATTCAAGAAGTTC+AGG | - | chr7.4:17981319-17981338 | None:intergenic | 30.0% | |
| ACTTGTGAGAGTCTATAATA+TGG | + | chr7.4:17980784-17980803 | MS.gene39088:intron | 30.0% | |
| AGGAAATACCTCATGAAATA+CGG | + | chr7.4:17981069-17981088 | MS.gene39088:intron | 30.0% | |
| AGTAATTTCCGTATTTCATG+AGG | - | chr7.4:17981080-17981099 | None:intergenic | 30.0% | |
| TAAAAAGTTGGATGAAGCTT+TGG | - | chr7.4:17980838-17980857 | None:intergenic | 30.0% | |
| TCAGTTCTTTGTACATTGTA+TGG | - | chr7.4:17981006-17981025 | None:intergenic | 30.0% | |
| ! | CATGAAACAGGAACTATTTT+TGG | + | chr7.4:17981654-17981673 | MS.gene39088:intron | 30.0% |
| ! | GGTCCTTTTTGTTAATATGT+AGG | + | chr7.4:17980912-17980931 | MS.gene39088:intron | 30.0% |
| ! | TAAGATGATTTTGCAATTCC+AGG | + | chr7.4:17981224-17981243 | MS.gene39088:intron | 30.0% |
| ! | TAATATGTAGGGTTTTCGTA+TGG | + | chr7.4:17980924-17980943 | MS.gene39088:intron | 30.0% |
| !! | GATTTAGTCCAAAAGCATTT+AGG | + | chr7.4:17981464-17981483 | MS.gene39088:CDS | 30.0% |
| !! | TTTAGTCCAAAAGCATTTAG+GGG | + | chr7.4:17981466-17981485 | MS.gene39088:CDS | 30.0% |
| AAAGAACTGAACTCTACTTG+TGG | + | chr7.4:17981016-17981035 | MS.gene39088:intron | 35.0% | |
| ACATGGACTTATCATGAAAC+AGG | + | chr7.4:17981642-17981661 | MS.gene39088:intron | 35.0% | |
| CAATACTGTCTCTAGTATAC+AGG | + | chr7.4:17981438-17981457 | MS.gene39088:intron | 35.0% | |
| GGTTTGTGACAAGTTAGTTA+TGG | + | chr7.4:17981690-17981709 | MS.gene39088:intron | 35.0% | |
| TTCTTGATCAAAACACTCTG+AGG | + | chr7.4:17981600-17981619 | MS.gene39088:intron | 35.0% | |
| ! | CAGGATAATGAATTTTCCGT+AGG | - | chr7.4:17981294-17981313 | None:intergenic | 35.0% |
| !! | TTTGATTTGGCTTGTGAACA+TGG | + | chr7.4:17981625-17981644 | MS.gene39088:intron | 35.0% |
| AAATGCGAACTCGGTCAATT+AGG | + | chr7.4:17981264-17981283 | MS.gene39088:intron | 40.0% | |
| AACTGCAGATTCATCGGTAA+TGG | + | chr7.4:17981790-17981809 | MS.gene39088:CDS | 40.0% | |
| AAGCCAAACTGCAGATTCAT+CGG | + | chr7.4:17981784-17981803 | MS.gene39088:intron | 40.0% | |
| AAGTTTGCGGGAAGATATCA+AGG | - | chr7.4:17981749-17981768 | None:intergenic | 40.0% | |
| AATTCAAGAAGTTCAGGAGC+AGG | - | chr7.4:17981313-17981332 | None:intergenic | 40.0% | |
| AGAACAGCTGCATAGAATCT+CGG | - | chr7.4:17981532-17981551 | None:intergenic | 40.0% | |
| ATCATCCATGGACAAGTTTG+CGG | - | chr7.4:17981762-17981781 | None:intergenic | 40.0% | |
| TAATTGACCGAGTTCGCATT+TGG | - | chr7.4:17981265-17981284 | None:intergenic | 40.0% | |
| TTACCGATGAATCTGCAGTT+TGG | - | chr7.4:17981790-17981809 | None:intergenic | 40.0% | |
| ! | AGTTTGGCTTAGATCATCCA+TGG | - | chr7.4:17981774-17981793 | None:intergenic | 40.0% |
| ! | TCATCGGTAATGGCTTCATT+AGG | + | chr7.4:17981800-17981819 | MS.gene39088:CDS | 40.0% |
| !! | ACACTCTGAGGTCTTTGATT+TGG | + | chr7.4:17981612-17981631 | MS.gene39088:intron | 40.0% |
| ATCGTCTCCAAATGCGAACT+CGG | + | chr7.4:17981255-17981274 | MS.gene39088:intron | 45.0% | |
| ATTTAGGGGATGTGGACCTA+TGG | + | chr7.4:17981480-17981499 | MS.gene39088:CDS | 45.0% | |
| CGGTCAATTAGGAGTTCCTA+CGG | + | chr7.4:17981275-17981294 | MS.gene39088:intron | 45.0% | |
| CTGTTAAAATACCCTGGAGC+TGG | - | chr7.4:17981165-17981184 | None:intergenic | 45.0% | |
| GTGACATATTTCCAGCTCCA+GGG | + | chr7.4:17981151-17981170 | MS.gene39088:intron | 45.0% | |
| TCATCCATGGACAAGTTTGC+GGG | - | chr7.4:17981761-17981780 | None:intergenic | 45.0% | |
| TGTGACATATTTCCAGCTCC+AGG | + | chr7.4:17981150-17981169 | MS.gene39088:intron | 45.0% | |
| ! | CCACATCCCCTAAATGCTTT+TGG | - | chr7.4:17981475-17981494 | None:intergenic | 45.0% |
| !! | AGCTTTGGAACTGCTACAGT+TGG | - | chr7.4:17980823-17980842 | None:intergenic | 45.0% |
| !! | CCAAAAGCATTTAGGGGATG+TGG | + | chr7.4:17981472-17981491 | MS.gene39088:CDS | 45.0% |
| !! | GCTTTGGAACTGCTACAGTT+GGG | - | chr7.4:17980822-17980841 | None:intergenic | 45.0% |
| TCTTCCCGCAAACTTGTCCA+TGG | + | chr7.4:17981754-17981773 | MS.gene39088:intron | 50.0% | |
| TGGAGACGATAACAGCAACC+TGG | - | chr7.4:17981245-17981264 | None:intergenic | 50.0% | |
| GGAACTGCTACAGTTGGGCT+GGG | - | chr7.4:17980817-17980836 | None:intergenic | 55.0% | |
| GGGATGTGGACCTATGGAAG+CGG | + | chr7.4:17981486-17981505 | MS.gene39088:CDS | 55.0% | |
| TGGAACTGCTACAGTTGGGC+TGG | - | chr7.4:17980818-17980837 | None:intergenic | 55.0% | |
| ATGGAAGCGGTCACCTGTGG+TGG | + | chr7.4:17981499-17981518 | MS.gene39088:CDS | 60.0% | |
| CCACAGGTGACCGCTTCCAT+AGG | - | chr7.4:17981499-17981518 | None:intergenic | 60.0% | |
| CCTATGGAAGCGGTCACCTG+TGG | + | chr7.4:17981496-17981515 | MS.gene39088:CDS | 60.0% | |
| ! | GCTACAGTTGGGCTGGGAAC+AGG | - | chr7.4:17980811-17980830 | None:intergenic | 60.0% |
| ! | TCTCGGAGCGTTTCCACCAC+AGG | - | chr7.4:17981515-17981534 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 17980628 | 17981843 | 17980628 | ID=MS.gene39088 |
| chr7.4 | mRNA | 17980628 | 17981843 | 17980628 | ID=MS.gene39088.t1;Parent=MS.gene39088 |
| chr7.4 | exon | 17980628 | 17980681 | 17980628 | ID=MS.gene39088.t1.exon1;Parent=MS.gene39088.t1 |
| chr7.4 | CDS | 17980628 | 17980681 | 17980628 | ID=cds.MS.gene39088.t1;Parent=MS.gene39088.t1 |
| chr7.4 | exon | 17981460 | 17981594 | 17981460 | ID=MS.gene39088.t1.exon2;Parent=MS.gene39088.t1 |
| chr7.4 | CDS | 17981460 | 17981594 | 17981460 | ID=cds.MS.gene39088.t1;Parent=MS.gene39088.t1 |
| chr7.4 | exon | 17981787 | 17981843 | 17981787 | ID=MS.gene39088.t1.exon3;Parent=MS.gene39088.t1 |
| chr7.4 | CDS | 17981787 | 17981843 | 17981787 | ID=cds.MS.gene39088.t1;Parent=MS.gene39088.t1 |
| Gene Sequence |
| Protein sequence |
