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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796290 | CAB4302962.1 | 80.769 | 78 | 15 | 0 | 1 | 78 | 1 | 78 | 1.57e-36 | 128 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796290 | sp|P49689|RS30_ARATH | 95.161 | 62 | 3 | 0 | 1 | 62 | 1 | 62 | 3.66e-29 | 101 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796290 | A0A6J5WTG2 | 80.769 | 78 | 15 | 0 | 1 | 78 | 1 | 78 | 7.48e-37 | 128 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0796290 | Msa0833690 | 0.838065 | 3.587201e-57 | -8.615850e-47 |
| Msa0796290 | Msa1013430 | 0.819706 | 1.008726e-52 | -8.615850e-47 |
| Msa0796290 | Msa1084560 | 0.844642 | 6.661405e-59 | -8.615850e-47 |
| Msa0796290 | Msa1132630 | 0.844312 | 8.171999e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796290 | MtrunA17_Chr4g0056141 | 100.000 | 62 | 0 | 0 | 1 | 62 | 1 | 62 | 9.26e-40 | 125 |
| Msa0796290 | MtrunA17_Chr5g0399231 | 100.000 | 62 | 0 | 0 | 1 | 62 | 1 | 62 | 9.26e-40 | 125 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0796290 | AT2G19750.1 | 95.161 | 62 | 3 | 0 | 1 | 62 | 1 | 62 | 3.72e-30 | 101 |
| Msa0796290 | AT5G56670.1 | 95.161 | 62 | 3 | 0 | 1 | 62 | 1 | 62 | 3.72e-30 | 101 |
| Msa0796290 | AT4G29390.1 | 95.161 | 62 | 3 | 0 | 1 | 62 | 1 | 62 | 3.72e-30 | 101 |
Find 21 sgRNAs with CRISPR-Local
Find 118 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTTGCTACCTTTGGTGTT+TGG | 0.335294 | 5_3:+8354365 | None:intergenic |
| TTGTCTTGCTTTGCTACCTT+TGG | 0.348505 | 5_3:+8354358 | None:intergenic |
| TGTTTGGCCTCTAACCTTAC+CGG | 0.358772 | 5_3:+8354381 | None:intergenic |
| TCTTACTTCTCAGATGAGTT+TGG | 0.367396 | 5_3:+8354145 | None:intergenic |
| GTTATTGTAGTTGTTGGATT+CGG | 0.405984 | 5_3:-8354181 | Msa0796290:intron |
| GCCTCTAACCTTACCGGCAC+GGG | 0.419662 | 5_3:+8354387 | None:intergenic |
| ATCGTTGGCCCGTGCCGGTA+AGG | 0.433030 | 5_3:-8354395 | Msa0796290:CDS |
| GCCCGTGCCGGTAAGGTTAG+AGG | 0.445776 | 5_3:-8354388 | Msa0796290:CDS |
| ACGCTTGTGAGCACGGCCAC+GGG | 0.451262 | 5_3:+8354324 | None:intergenic |
| CACGGATCGTTGGCCCGTGC+CGG | 0.457604 | 5_3:-8354400 | Msa0796290:CDS |
| TACGCTTGTGAGCACGGCCA+CGG | 0.461093 | 5_3:+8354323 | None:intergenic |
| GGCCTCTAACCTTACCGGCA+CGG | 0.499402 | 5_3:+8354386 | None:intergenic |
| ACTGCATACGCTTGTGAGCA+CGG | 0.575185 | 5_3:+8354317 | None:intergenic |
| CGCTTGTGAGCACGGCCACG+GGG | 0.579942 | 5_3:+8354325 | None:intergenic |
| AGGAAAGGTTCACGGATCGT+TGG | 0.583409 | 5_3:-8354410 | Msa0796290:CDS |
| TACCGGCAGTGACGAATCTG+CGG | 0.585546 | 5_3:+8354290 | None:intergenic |
| AACCGCAGATTCGTCACTGC+CGG | 0.593013 | 5_3:-8354292 | Msa0796290:intron |
| GTTGGATTCGGTAAGAAGAG+AGG | 0.609691 | 5_3:-8354169 | Msa0796290:CDS |
| GGTTAGAGGCCAAACACCAA+AGG | 0.645954 | 5_3:-8354374 | Msa0796290:CDS |
| GACAAGAAGAAGCAGCCCCG+TGG | 0.665991 | 5_3:-8354340 | Msa0796290:CDS |
| TCAAAGTCTAGACTGAGATG+TGG | 0.681962 | 5_3:+8353486 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGAATAAATCTAAAAAATTA+GGG | + | chr5_3:8353741-8353760 | None:intergenic | 10.0% |
| !! | ATGAATAAATCTAAAAAATT+AGG | + | chr5_3:8353742-8353761 | None:intergenic | 10.0% |
| !! | TGAATAAATCTAAAAAATTA+GGG | + | chr5_3:8353741-8353760 | None:intergenic | 10.0% |
| !! | ATGAATAAATCTAAAAAATT+AGG | + | chr5_3:8353742-8353761 | None:intergenic | 10.0% |
| !! | TAACATATTTCAAAAACTAA+GGG | + | chr5_3:8353901-8353920 | None:intergenic | 15.0% |
| !! | TTAACATATTTCAAAAACTA+AGG | + | chr5_3:8353902-8353921 | None:intergenic | 15.0% |
| !!! | TTTCCTCTTTTTTTTTTTTT+TGG | - | chr5_3:8353943-8353962 | Msa0796290:intron | 15.0% |
| !!! | TTCCTCTTTTTTTTTTTTTT+GGG | - | chr5_3:8353944-8353963 | Msa0796290:intron | 15.0% |
| !! | TAACATATTTCAAAAACTAA+GGG | + | chr5_3:8353901-8353920 | None:intergenic | 15.0% |
| !! | TTAACATATTTCAAAAACTA+AGG | + | chr5_3:8353902-8353921 | None:intergenic | 15.0% |
| !!! | TTTCCTCTTTTTTTTTTTTT+TGG | - | chr5_3:8353943-8353962 | Msa0796290:intron | 15.0% |
| !!! | TTCCTCTTTTTTTTTTTTTT+GGG | - | chr5_3:8353944-8353963 | Msa0796290:intron | 15.0% |
| !! | AACATATTTCAAAAACTAAG+GGG | + | chr5_3:8353900-8353919 | None:intergenic | 20.0% |
| !! | ATCCCAAAAAAAAAAAAAAG+AGG | + | chr5_3:8353949-8353968 | None:intergenic | 20.0% |
| !! | ATATTTAACTAGCACAAAAA+AGG | + | chr5_3:8353998-8354017 | None:intergenic | 20.0% |
| !! | AACATATTTCAAAAACTAAG+GGG | + | chr5_3:8353900-8353919 | None:intergenic | 20.0% |
| !! | ATCCCAAAAAAAAAAAAAAG+AGG | + | chr5_3:8353949-8353968 | None:intergenic | 20.0% |
| !! | ATATTTAACTAGCACAAAAA+AGG | + | chr5_3:8353998-8354017 | None:intergenic | 20.0% |
| !!! | ATTCTTGTTATTGTAGTTGT+TGG | - | chr5_3:8353807-8353826 | Msa0796290:intron | 25.0% |
| ! | AACTAAAGCCTAATTTCTTA+GGG | + | chr5_3:8354065-8354084 | None:intergenic | 25.0% |
| ! | TAACTAAAGCCTAATTTCTT+AGG | + | chr5_3:8354066-8354085 | None:intergenic | 25.0% |
| ! | TTATATCTGCTGAATAATTG+TGG | - | chr5_3:8354104-8354123 | Msa0796290:intron | 25.0% |
| ! | AATCGACTAAATTATTTCGT+AGG | - | chr5_3:8354276-8354295 | Msa0796290:intron | 25.0% |
| !!! | GTTTGCTATGTATTAAGATT+AGG | - | chr5_3:8354302-8354321 | Msa0796290:CDS | 25.0% |
| !!! | ATTCTTGTTATTGTAGTTGT+TGG | - | chr5_3:8353807-8353826 | Msa0796290:intron | 25.0% |
| ! | AACTAAAGCCTAATTTCTTA+GGG | + | chr5_3:8354065-8354084 | None:intergenic | 25.0% |
| ! | TAACTAAAGCCTAATTTCTT+AGG | + | chr5_3:8354066-8354085 | None:intergenic | 25.0% |
| ! | TTATATCTGCTGAATAATTG+TGG | - | chr5_3:8354104-8354123 | Msa0796290:intron | 25.0% |
| ! | AATCGACTAAATTATTTCGT+AGG | - | chr5_3:8354276-8354295 | Msa0796290:intron | 25.0% |
| !!! | GTTTGCTATGTATTAAGATT+AGG | - | chr5_3:8354302-8354321 | Msa0796290:CDS | 25.0% |
| !! | AACAATGAAATCGATTTTGC+AGG | - | chr5_3:8353564-8353583 | Msa0796290:intron | 30.0% |
| TCTAAAAAATTAGGGTTTCG+AGG | + | chr5_3:8353733-8353752 | None:intergenic | 30.0% | |
| GTTATTGTAGTTGTTGGATT+CGG | - | chr5_3:8353813-8353832 | Msa0796290:intron | 30.0% | |
| ! | GTCTTATTCCCTAAGAAATT+AGG | - | chr5_3:8354054-8354073 | Msa0796290:intron | 30.0% |
| ! | TTAACACTATCATTTTGCTG+TGG | + | chr5_3:8354197-8354216 | None:intergenic | 30.0% |
| TGTATTAAGATTAGGATGAG+TGG | - | chr5_3:8354310-8354329 | Msa0796290:CDS | 30.0% | |
| ! | GGACATATGATATGAGTTTT+TGG | - | chr5_3:8354390-8354409 | Msa0796290:CDS | 30.0% |
| !! | AACAATGAAATCGATTTTGC+AGG | - | chr5_3:8353564-8353583 | Msa0796290:intron | 30.0% |
| TCTAAAAAATTAGGGTTTCG+AGG | + | chr5_3:8353733-8353752 | None:intergenic | 30.0% | |
| GTTATTGTAGTTGTTGGATT+CGG | - | chr5_3:8353813-8353832 | Msa0796290:intron | 30.0% | |
| ! | GTCTTATTCCCTAAGAAATT+AGG | - | chr5_3:8354054-8354073 | Msa0796290:intron | 30.0% |
| ! | TTAACACTATCATTTTGCTG+TGG | + | chr5_3:8354197-8354216 | None:intergenic | 30.0% |
| TGTATTAAGATTAGGATGAG+TGG | - | chr5_3:8354310-8354329 | Msa0796290:CDS | 30.0% | |
| ! | GGACATATGATATGAGTTTT+TGG | - | chr5_3:8354390-8354409 | Msa0796290:CDS | 30.0% |
| !! | TGAAATCGATTTTGCAGGAA+AGG | - | chr5_3:8353569-8353588 | Msa0796290:intron | 35.0% |
| TCTTACTTCTCAGATGAGTT+TGG | + | chr5_3:8353852-8353871 | None:intergenic | 35.0% | |
| TAGTCAGTGAAATTCGTAGT+TGG | - | chr5_3:8354251-8354270 | Msa0796290:intron | 35.0% | |
| !!! | ATGAGTGGTTTTATCCATCA+CGG | - | chr5_3:8354325-8354344 | Msa0796290:CDS | 35.0% |
| CATCACGGAACATATATGAT+GGG | - | chr5_3:8354340-8354359 | Msa0796290:CDS | 35.0% | |
| TACCTTGTGTTCATATAGAC+TGG | - | chr5_3:8354369-8354388 | Msa0796290:CDS | 35.0% | |
| !!! | GATATGAGTTTTTGGCGAAT+AGG | - | chr5_3:8354398-8354417 | Msa0796290:CDS | 35.0% |
| !!! | AGTTCTGTTTTGTTTCCTGT+AGG | - | chr5_3:8354457-8354476 | Msa0796290:intron | 35.0% |
| !! | TGAAATCGATTTTGCAGGAA+AGG | - | chr5_3:8353569-8353588 | Msa0796290:intron | 35.0% |
| TCTTACTTCTCAGATGAGTT+TGG | + | chr5_3:8353852-8353871 | None:intergenic | 35.0% | |
| TAGTCAGTGAAATTCGTAGT+TGG | - | chr5_3:8354251-8354270 | Msa0796290:intron | 35.0% | |
| !!! | ATGAGTGGTTTTATCCATCA+CGG | - | chr5_3:8354325-8354344 | Msa0796290:CDS | 35.0% |
| CATCACGGAACATATATGAT+GGG | - | chr5_3:8354340-8354359 | Msa0796290:CDS | 35.0% | |
| TACCTTGTGTTCATATAGAC+TGG | - | chr5_3:8354369-8354388 | Msa0796290:CDS | 35.0% | |
| !!! | GATATGAGTTTTTGGCGAAT+AGG | - | chr5_3:8354398-8354417 | Msa0796290:CDS | 35.0% |
| !!! | AGTTCTGTTTTGTTTCCTGT+AGG | - | chr5_3:8354457-8354476 | Msa0796290:intron | 35.0% |
| ! | GATTTTGCAGGAAAGGTTCA+CGG | - | chr5_3:8353576-8353595 | Msa0796290:intron | 40.0% |
| TTGTCTTGCTTTGCTACCTT+TGG | + | chr5_3:8353639-8353658 | None:intergenic | 40.0% | |
| ! | TTAGGGTTTCGAGGTATTAC+CGG | + | chr5_3:8353724-8353743 | None:intergenic | 40.0% |
| TCATCTGAGAAGTAAGATCG+TGG | - | chr5_3:8353855-8353874 | Msa0796290:intron | 40.0% | |
| TAATTGTGGTGCGAATTGCA+TGG | - | chr5_3:8354118-8354137 | Msa0796290:intron | 40.0% | |
| ! | TCACTGACTACGTATGTGTT+TGG | + | chr5_3:8354241-8354260 | None:intergenic | 40.0% |
| CCATCATATATGTTCCGTGA+TGG | + | chr5_3:8354342-8354361 | None:intergenic | 40.0% | |
| CCATCACGGAACATATATGA+TGG | - | chr5_3:8354339-8354358 | Msa0796290:CDS | 40.0% | |
| GTCCAGTCTATATGAACACA+AGG | + | chr5_3:8354374-8354393 | None:intergenic | 40.0% | |
| TCAAAGTCTAGACTGAGATG+TGG | + | chr5_3:8354511-8354530 | None:intergenic | 40.0% | |
| ! | GATTTTGCAGGAAAGGTTCA+CGG | - | chr5_3:8353576-8353595 | Msa0796290:intron | 40.0% |
| TTGTCTTGCTTTGCTACCTT+TGG | + | chr5_3:8353639-8353658 | None:intergenic | 40.0% | |
| ! | TTAGGGTTTCGAGGTATTAC+CGG | + | chr5_3:8353724-8353743 | None:intergenic | 40.0% |
| TCATCTGAGAAGTAAGATCG+TGG | - | chr5_3:8353855-8353874 | Msa0796290:intron | 40.0% | |
| TAATTGTGGTGCGAATTGCA+TGG | - | chr5_3:8354118-8354137 | Msa0796290:intron | 40.0% | |
| ! | TCACTGACTACGTATGTGTT+TGG | + | chr5_3:8354241-8354260 | None:intergenic | 40.0% |
| CCATCATATATGTTCCGTGA+TGG | + | chr5_3:8354342-8354361 | None:intergenic | 40.0% | |
| CCATCACGGAACATATATGA+TGG | - | chr5_3:8354339-8354358 | Msa0796290:CDS | 40.0% | |
| GTCCAGTCTATATGAACACA+AGG | + | chr5_3:8354374-8354393 | None:intergenic | 40.0% | |
| TCAAAGTCTAGACTGAGATG+TGG | + | chr5_3:8354511-8354530 | None:intergenic | 40.0% | |
| TGTTTGGCCTCTAACCTTAC+CGG | + | chr5_3:8353616-8353635 | None:intergenic | 45.0% | |
| !! | GCTTTGCTACCTTTGGTGTT+TGG | + | chr5_3:8353632-8353651 | None:intergenic | 45.0% |
| ! | GTTGGATTCGGTAAGAAGAG+AGG | - | chr5_3:8353825-8353844 | Msa0796290:intron | 45.0% |
| TGCGAATTGCATGGTAGAAG+TGG | - | chr5_3:8354127-8354146 | Msa0796290:intron | 45.0% | |
| TGTTTGGCCTCTAACCTTAC+CGG | + | chr5_3:8353616-8353635 | None:intergenic | 45.0% | |
| !! | GCTTTGCTACCTTTGGTGTT+TGG | + | chr5_3:8353632-8353651 | None:intergenic | 45.0% |
| ! | GTTGGATTCGGTAAGAAGAG+AGG | - | chr5_3:8353825-8353844 | Msa0796290:intron | 45.0% |
| TGCGAATTGCATGGTAGAAG+TGG | - | chr5_3:8354127-8354146 | Msa0796290:intron | 45.0% | |
| AGGAAAGGTTCACGGATCGT+TGG | - | chr5_3:8353584-8353603 | Msa0796290:intron | 50.0% | |
| GGTTAGAGGCCAAACACCAA+AGG | - | chr5_3:8353620-8353639 | Msa0796290:intron | 50.0% | |
| ACTGCATACGCTTGTGAGCA+CGG | + | chr5_3:8353680-8353699 | None:intergenic | 50.0% | |
| TTTGCAGTCAGAGAGCCTAC+AGG | + | chr5_3:8354475-8354494 | None:intergenic | 50.0% | |
| AGGAAAGGTTCACGGATCGT+TGG | - | chr5_3:8353584-8353603 | Msa0796290:intron | 50.0% | |
| GGTTAGAGGCCAAACACCAA+AGG | - | chr5_3:8353620-8353639 | Msa0796290:intron | 50.0% | |
| ACTGCATACGCTTGTGAGCA+CGG | + | chr5_3:8353680-8353699 | None:intergenic | 50.0% | |
| TTTGCAGTCAGAGAGCCTAC+AGG | + | chr5_3:8354475-8354494 | None:intergenic | 50.0% | |
| AACCGCAGATTCGTCACTGC+CGG | - | chr5_3:8353702-8353721 | Msa0796290:intron | 55.0% | |
| TACCGGCAGTGACGAATCTG+CGG | + | chr5_3:8353707-8353726 | None:intergenic | 55.0% | |
| AACCGCAGATTCGTCACTGC+CGG | - | chr5_3:8353702-8353721 | Msa0796290:intron | 55.0% | |
| TACCGGCAGTGACGAATCTG+CGG | + | chr5_3:8353707-8353726 | None:intergenic | 55.0% | |
| GCCTCTAACCTTACCGGCAC+GGG | + | chr5_3:8353610-8353629 | None:intergenic | 60.0% | |
| GGCCTCTAACCTTACCGGCA+CGG | + | chr5_3:8353611-8353630 | None:intergenic | 60.0% | |
| GACAAGAAGAAGCAGCCCCG+TGG | - | chr5_3:8353654-8353673 | Msa0796290:intron | 60.0% | |
| TACGCTTGTGAGCACGGCCA+CGG | + | chr5_3:8353674-8353693 | None:intergenic | 60.0% | |
| GCCTCTAACCTTACCGGCAC+GGG | + | chr5_3:8353610-8353629 | None:intergenic | 60.0% | |
| GGCCTCTAACCTTACCGGCA+CGG | + | chr5_3:8353611-8353630 | None:intergenic | 60.0% | |
| GACAAGAAGAAGCAGCCCCG+TGG | - | chr5_3:8353654-8353673 | Msa0796290:intron | 60.0% | |
| TACGCTTGTGAGCACGGCCA+CGG | + | chr5_3:8353674-8353693 | None:intergenic | 60.0% | |
| ! | ATCGTTGGCCCGTGCCGGTA+AGG | - | chr5_3:8353599-8353618 | Msa0796290:intron | 65.0% |
| ! | GCCCGTGCCGGTAAGGTTAG+AGG | - | chr5_3:8353606-8353625 | Msa0796290:intron | 65.0% |
| ACGCTTGTGAGCACGGCCAC+GGG | + | chr5_3:8353673-8353692 | None:intergenic | 65.0% | |
| ! | ATCGTTGGCCCGTGCCGGTA+AGG | - | chr5_3:8353599-8353618 | Msa0796290:intron | 65.0% |
| ! | GCCCGTGCCGGTAAGGTTAG+AGG | - | chr5_3:8353606-8353625 | Msa0796290:intron | 65.0% |
| ACGCTTGTGAGCACGGCCAC+GGG | + | chr5_3:8353673-8353692 | None:intergenic | 65.0% | |
| CACGGATCGTTGGCCCGTGC+CGG | - | chr5_3:8353594-8353613 | Msa0796290:intron | 70.0% | |
| CGCTTGTGAGCACGGCCACG+GGG | + | chr5_3:8353672-8353691 | None:intergenic | 70.0% | |
| CACGGATCGTTGGCCCGTGC+CGG | - | chr5_3:8353594-8353613 | Msa0796290:intron | 70.0% | |
| CGCTTGTGAGCACGGCCACG+GGG | + | chr5_3:8353672-8353691 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 8353486 | 8354530 | 8353486 | ID=Msa0796290;Name=Msa0796290 |
| chr5_3 | mRNA | 8353486 | 8354530 | 8353486 | ID=Msa0796290-mRNA-1;Parent=Msa0796290;Name=Msa0796290-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0|0|0|0.5|1|1|4|0|78 |
| chr5_3 | exon | 8354527 | 8354530 | 8354527 | ID=Msa0796290-mRNA-1:exon:3483;Parent=Msa0796290-mRNA-1 |
| chr5_3 | exon | 8354293 | 8354430 | 8354293 | ID=Msa0796290-mRNA-1:exon:3482;Parent=Msa0796290-mRNA-1 |
| chr5_3 | exon | 8354151 | 8354193 | 8354151 | ID=Msa0796290-mRNA-1:exon:3481;Parent=Msa0796290-mRNA-1 |
| chr5_3 | exon | 8353486 | 8353537 | 8353486 | ID=Msa0796290-mRNA-1:exon:3480;Parent=Msa0796290-mRNA-1 |
| chr5_3 | CDS | 8354527 | 8354530 | 8354527 | ID=Msa0796290-mRNA-1:cds;Parent=Msa0796290-mRNA-1 |
| chr5_3 | CDS | 8354293 | 8354430 | 8354293 | ID=Msa0796290-mRNA-1:cds;Parent=Msa0796290-mRNA-1 |
| chr5_3 | CDS | 8354151 | 8354193 | 8354151 | ID=Msa0796290-mRNA-1:cds;Parent=Msa0796290-mRNA-1 |
| chr5_3 | CDS | 8353486 | 8353537 | 8353486 | ID=Msa0796290-mRNA-1:cds;Parent=Msa0796290-mRNA-1 |
| Gene Sequence |
| Protein sequence |
