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.gene38810.t1 | XP_003625051.2 | 96.3 | 219 | 7 | 1 | 1 | 218 | 1 | 219 | 6.00E-109 | 403.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38810.t1 | Q9ZVB5 | 41.0 | 239 | 124 | 6 | 1 | 231 | 1 | 230 | 4.2e-34 | 146.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38810.t1 | G7KRQ0 | 96.3 | 219 | 7 | 1 | 1 | 218 | 1 | 219 | 4.4e-109 | 403.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene38810.t1 | TF | bHLH |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene38810.t1 | MTR_7g090410 | 96.347 | 219 | 7 | 1 | 1 | 218 | 1 | 219 | 8.21e-153 | 425 |
| MS.gene38810.t1 | MTR_1g048720 | 59.641 | 223 | 80 | 7 | 1 | 218 | 1 | 218 | 3.24e-76 | 229 |
| MS.gene38810.t1 | MTR_1g048720 | 59.641 | 223 | 80 | 7 | 1 | 218 | 1 | 218 | 4.44e-76 | 230 |
| MS.gene38810.t1 | MTR_1g048720 | 59.193 | 223 | 80 | 8 | 1 | 218 | 1 | 217 | 1.07e-73 | 223 |
| MS.gene38810.t1 | MTR_1g048720 | 59.193 | 223 | 80 | 8 | 1 | 218 | 1 | 217 | 1.20e-73 | 224 |
| MS.gene38810.t1 | MTR_1g048750 | 56.444 | 225 | 84 | 6 | 1 | 222 | 1 | 214 | 6.04e-73 | 223 |
| MS.gene38810.t1 | MTR_1g048710 | 57.919 | 221 | 78 | 7 | 1 | 218 | 1 | 209 | 9.73e-66 | 204 |
| MS.gene38810.t1 | MTR_0007s0330 | 34.211 | 152 | 91 | 4 | 66 | 215 | 6 | 150 | 1.28e-11 | 61.6 |
| MS.gene38810.t1 | MTR_0007s0330 | 32.121 | 165 | 103 | 4 | 66 | 228 | 18 | 175 | 1.42e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38810.t1 | AT3G56970 | 43.913 | 230 | 110 | 8 | 1 | 218 | 1 | 223 | 4.24e-48 | 159 |
| MS.gene38810.t1 | AT2G41240 | 40.664 | 241 | 122 | 7 | 1 | 231 | 1 | 230 | 2.70e-41 | 141 |
| MS.gene38810.t1 | AT3G56980 | 42.918 | 233 | 113 | 6 | 1 | 218 | 1 | 228 | 2.15e-40 | 139 |
| MS.gene38810.t1 | AT2G41240 | 40.249 | 241 | 122 | 8 | 1 | 231 | 1 | 229 | 9.23e-39 | 135 |
| MS.gene38810.t1 | AT5G04150 | 43.713 | 167 | 85 | 3 | 56 | 218 | 76 | 237 | 2.89e-36 | 128 |
| MS.gene38810.t1 | AT5G04150 | 43.713 | 167 | 85 | 3 | 56 | 218 | 76 | 237 | 6.82e-36 | 128 |
Find 39 sgRNAs with CRISPR-Local
Find 89 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCTCTTTATGACTAATTA+AGG | 0.218000 | 7.1:+16828918 | None:intergenic |
| TCAGTTCTCATACTCAAATA+TGG | 0.224302 | 7.1:-16828971 | MS.gene38810:CDS |
| AGCTTCTTAGCCATAAGTTT+AGG | 0.275147 | 7.1:+16828811 | None:intergenic |
| TCACTTCGTTCACTTCTTCC+TGG | 0.286326 | 7.1:-16828733 | MS.gene38810:CDS |
| GCTTCTTAGCCATAAGTTTA+GGG | 0.291086 | 7.1:+16828812 | None:intergenic |
| AAGACACGTGAAATTGTTAC+TGG | 0.322176 | 7.1:+16827907 | None:intergenic |
| TCTTCTTCTTCTAAAACCTT+TGG | 0.334379 | 7.1:-16827616 | MS.gene38810:CDS |
| GCCACAATCCCCTAAACTTA+TGG | 0.343588 | 7.1:-16828821 | MS.gene38810:CDS |
| TCAATCTCAACATGTTCCTT+TGG | 0.352411 | 7.1:+16828847 | None:intergenic |
| TTGATGTGTTTAGAAAATAA+TGG | 0.374175 | 7.1:-16827655 | MS.gene38810:CDS |
| AAATATGGGATGGCTCTTAG+AGG | 0.422867 | 7.1:-16828956 | MS.gene38810:CDS |
| GCACGGGTTAATTAGAAGCT+TGG | 0.441997 | 7.1:-16827157 | MS.gene38810:CDS |
| GGTGAAGAGAATTGATGATA+AGG | 0.444850 | 7.1:+16828868 | None:intergenic |
| CAGTTCTCATACTCAAATAT+GGG | 0.463285 | 7.1:-16828970 | MS.gene38810:CDS |
| CTCAGATAGAGGAATCTTGT+AGG | 0.481665 | 7.1:+16827681 | None:intergenic |
| TCTTCTTCTAAAACCTTTGG+AGG | 0.482465 | 7.1:-16827613 | MS.gene38810:CDS |
| CACATCAAGATCTCAGATAG+AGG | 0.501569 | 7.1:+16827670 | None:intergenic |
| GCCATAAGTTTAGGGGATTG+TGG | 0.507590 | 7.1:+16828820 | None:intergenic |
| TTATGACTAATTAAGGACTC+TGG | 0.527310 | 7.1:+16828925 | None:intergenic |
| CTTCTAAAACCTTTGGAGGG+AGG | 0.546758 | 7.1:-16827609 | MS.gene38810:CDS |
| ACGTGTCTTAAAATACATAC+CGG | 0.551566 | 7.1:-16827893 | MS.gene38810:CDS |
| TCTTCCTGGTGAAGATCAAA+CGG | 0.553586 | 7.1:-16828719 | MS.gene38810:intron |
| ACAAAAGCAGAATTGTAACT+TGG | 0.558897 | 7.1:+16827763 | None:intergenic |
| CTTCTTAGCCATAAGTTTAG+GGG | 0.566289 | 7.1:+16828813 | None:intergenic |
| CTTCTTCTAAAACCTTTGGA+GGG | 0.566421 | 7.1:-16827612 | MS.gene38810:CDS |
| ATAGAAGAGCCTCCCTCCAA+AGG | 0.569392 | 7.1:+16827600 | None:intergenic |
| TCATCAATTCTCTTCACCAA+AGG | 0.579398 | 7.1:-16828863 | MS.gene38810:CDS |
| TTTGAGTATGAGAACTGAGG+TGG | 0.582813 | 7.1:+16828976 | None:intergenic |
| TTACCATAATAATATAGTGG+GGG | 0.598517 | 7.1:+16827116 | None:intergenic |
| TACCATAATAATATAGTGGG+GGG | 0.599211 | 7.1:+16827117 | None:intergenic |
| GATTTACAAAAGCAAGTGCA+AGG | 0.608962 | 7.1:-16827871 | MS.gene38810:CDS |
| TCTCATACTCAAATATGGGA+TGG | 0.610260 | 7.1:-16828966 | MS.gene38810:CDS |
| GGTTAATTAGAAGCTTGGAA+AGG | 0.644231 | 7.1:-16827152 | MS.gene38810:CDS |
| ATTACCGTTTGATCTTCACC+AGG | 0.645561 | 7.1:+16828715 | None:intergenic |
| TTGAGTATGAGAACTGAGGT+GGG | 0.646626 | 7.1:+16828977 | None:intergenic |
| CAGTTAACAAAGAATCGCAA+AGG | 0.655004 | 7.1:-16827795 | MS.gene38810:CDS |
| TTTACCATAATAATATAGTG+GGG | 0.658365 | 7.1:+16827115 | None:intergenic |
| GATCACGTTCACTAGCATTG+TGG | 0.694395 | 7.1:+16828785 | None:intergenic |
| ATATTTGAGTATGAGAACTG+AGG | 0.721433 | 7.1:+16828973 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GATATATTAATTAAAAGTTT+AGG | - | chr7.1:16828887-16828906 | MS.gene38810:CDS | 10.0% |
| !! | CATACCAAATTAAATAAAAT+TGG | + | chr7.1:16827435-16827454 | None:intergenic | 15.0% |
| !!! | ATAGCTAATTGTTATTTAAA+AGG | - | chr7.1:16827898-16827917 | MS.gene38810:CDS | 15.0% |
| !!! | CAATTTTATTTAATTTGGTA+TGG | - | chr7.1:16827433-16827452 | MS.gene38810:intron | 15.0% |
| !!! | TTAATTAAAAGTTTAGGATT+TGG | - | chr7.1:16828893-16828912 | MS.gene38810:CDS | 15.0% |
| !!! | TTGGTTAGTTTTTTTTTTTT+TGG | + | chr7.1:16827759-16827778 | None:intergenic | 15.0% |
| !!! | TTTTTTTTCTTCAAATAGAT+TGG | + | chr7.1:16827778-16827797 | None:intergenic | 15.0% |
| !! | AAGCAGAAAAATAATCATTT+GGG | - | chr7.1:16828834-16828853 | MS.gene38810:CDS | 20.0% |
| !! | CCAAATTAAATAAAATTGGA+AGG | + | chr7.1:16827431-16827450 | None:intergenic | 20.0% |
| !! | TTGATGTGTTTAGAAAATAA+TGG | - | chr7.1:16828452-16828471 | MS.gene38810:intron | 20.0% |
| !!! | AACCTACTTTAAGAAAAAAA+GGG | - | chr7.1:16827944-16827963 | MS.gene38810:intron | 20.0% |
| !!! | AAGCTATTTTTTAAAATGAC+AGG | - | chr7.1:16827510-16827529 | MS.gene38810:intron | 20.0% |
| !!! | CCTTCCAATTTTATTTAATT+TGG | - | chr7.1:16827428-16827447 | MS.gene38810:intron | 20.0% |
| !!! | TAACCTACTTTAAGAAAAAA+AGG | - | chr7.1:16827943-16827962 | MS.gene38810:intron | 20.0% |
| !!! | TAGTACATATTTTAATAGCA+CGG | - | chr7.1:16828933-16828952 | MS.gene38810:CDS | 20.0% |
| ! | ACCCTAATTGTTTACTATTA+AGG | - | chr7.1:16828669-16828688 | MS.gene38810:intron | 25.0% |
| ! | ATGTGCAAAAAAATTAGTGA+TGG | - | chr7.1:16827850-16827869 | MS.gene38810:CDS | 25.0% |
| ! | CCCTAATTGTTTACTATTAA+GGG | - | chr7.1:16828670-16828689 | MS.gene38810:intron | 25.0% |
| ! | CCCTTAATAGTAAACAATTA+GGG | + | chr7.1:16828673-16828692 | None:intergenic | 25.0% |
| ! | CTTCTCTTTATGACTAATTA+AGG | + | chr7.1:16827192-16827211 | None:intergenic | 25.0% |
| ! | GAAGCAGAAAAATAATCATT+TGG | - | chr7.1:16828833-16828852 | MS.gene38810:CDS | 25.0% |
| ! | TCCCTTAATAGTAAACAATT+AGG | + | chr7.1:16828674-16828693 | None:intergenic | 25.0% |
| ! | TGACGTATTCATAATATGAA+TGG | - | chr7.1:16828074-16828093 | MS.gene38810:intron | 25.0% |
| ! | TTACCATAATAATATAGTGG+GGG | + | chr7.1:16828994-16829013 | None:intergenic | 25.0% |
| !!! | AATGTTTTGGAATTATGTCA+CGG | - | chr7.1:16828011-16828030 | MS.gene38810:intron | 25.0% |
| !!! | AGTACATATTTTAATAGCAC+GGG | - | chr7.1:16828934-16828953 | MS.gene38810:CDS | 25.0% |
| !!! | ATTTATTTTGCAATGTTTGC+AGG | - | chr7.1:16828749-16828768 | MS.gene38810:CDS | 25.0% |
| !!! | TTTAGCTTTATATAACTCCA+TGG | - | chr7.1:16827539-16827558 | MS.gene38810:intron | 25.0% |
| AAATAATCATTTGGGCACTA+TGG | - | chr7.1:16828842-16828861 | MS.gene38810:CDS | 30.0% | |
| ACAAAAGCAGAATTGTAACT+TGG | + | chr7.1:16828347-16828366 | None:intergenic | 30.0% | |
| ACGTGTCTTAAAATACATAC+CGG | - | chr7.1:16828214-16828233 | MS.gene38810:intron | 30.0% | |
| ATATTTGAGTATGAGAACTG+AGG | + | chr7.1:16827137-16827156 | None:intergenic | 30.0% | |
| CAGTTCTCATACTCAAATAT+GGG | - | chr7.1:16827137-16827156 | MS.gene38810:CDS | 30.0% | |
| CCAATGAATGATTAATCTAG+AGG | + | chr7.1:16827695-16827714 | None:intergenic | 30.0% | |
| CCTCTAGATTAATCATTCAT+TGG | - | chr7.1:16827692-16827711 | MS.gene38810:CDS | 30.0% | |
| CTAGAGATAAGCATAATCAT+AGG | + | chr7.1:16827590-16827609 | None:intergenic | 30.0% | |
| CTATGATTATGCTTATCTCT+AGG | - | chr7.1:16827588-16827607 | MS.gene38810:CDS | 30.0% | |
| TCAGTTCTCATACTCAAATA+TGG | - | chr7.1:16827136-16827155 | MS.gene38810:CDS | 30.0% | |
| TTATGACTAATTAAGGACTC+TGG | + | chr7.1:16827185-16827204 | None:intergenic | 30.0% | |
| ! | CTGTTTGTTTCGTAATGTTT+TGG | - | chr7.1:16827998-16828017 | MS.gene38810:intron | 30.0% |
| ! | TACCATAATAATATAGTGGG+GGG | + | chr7.1:16828993-16829012 | None:intergenic | 30.0% |
| !! | AAGAGTTTTGATCTGACTAT+TGG | - | chr7.1:16827639-16827658 | MS.gene38810:CDS | 30.0% |
| !! | CTTCTATAACTTGCATTTTC+AGG | - | chr7.1:16828523-16828542 | MS.gene38810:intron | 30.0% |
| !! | TCTTCTTCTTCTAAAACCTT+TGG | - | chr7.1:16828491-16828510 | MS.gene38810:intron | 30.0% |
| !!! | CACCCTTTTTTTCTTAAAGT+AGG | + | chr7.1:16827949-16827968 | None:intergenic | 30.0% |
| !!! | TTTTTTCTGCAACATCAACA+TGG | + | chr7.1:16828171-16828190 | None:intergenic | 30.0% |
| AAGACACGTGAAATTGTTAC+TGG | + | chr7.1:16828203-16828222 | None:intergenic | 35.0% | |
| AGCTTCTTAGCCATAAGTTT+AGG | + | chr7.1:16827299-16827318 | None:intergenic | 35.0% | |
| ATTGGATCAGAGACTATTCT+TGG | - | chr7.1:16827710-16827729 | MS.gene38810:CDS | 35.0% | |
| CAGTTAACAAAGAATCGCAA+AGG | - | chr7.1:16828312-16828331 | MS.gene38810:intron | 35.0% | |
| CTTCTTAGCCATAAGTTTAG+GGG | + | chr7.1:16827297-16827316 | None:intergenic | 35.0% | |
| GATTTACAAAAGCAAGTGCA+AGG | - | chr7.1:16828236-16828255 | MS.gene38810:intron | 35.0% | |
| GCTTCTTAGCCATAAGTTTA+GGG | + | chr7.1:16827298-16827317 | None:intergenic | 35.0% | |
| GCTTTATATAACTCCATGGT+TGG | - | chr7.1:16827543-16827562 | MS.gene38810:intron | 35.0% | |
| GGTTAATTAGAAGCTTGGAA+AGG | - | chr7.1:16828955-16828974 | MS.gene38810:CDS | 35.0% | |
| TCAATCTCAACATGTTCCTT+TGG | + | chr7.1:16827263-16827282 | None:intergenic | 35.0% | |
| TCATCAATTCTCTTCACCAA+AGG | - | chr7.1:16827244-16827263 | MS.gene38810:intron | 35.0% | |
| TCTCATACTCAAATATGGGA+TGG | - | chr7.1:16827141-16827160 | MS.gene38810:CDS | 35.0% | |
| ! | CTTTTGTAGTTTCGACAAGT+AGG | - | chr7.1:16828360-16828379 | MS.gene38810:intron | 35.0% |
| ! | GGTGAAGAGAATTGATGATA+AGG | + | chr7.1:16827242-16827261 | None:intergenic | 35.0% |
| ! | TAGGTCTGATGATGAAAGTT+TGG | - | chr7.1:16827607-16827626 | MS.gene38810:CDS | 35.0% |
| ! | TATTTTGCAATGTTTGCAGG+TGG | - | chr7.1:16828752-16828771 | MS.gene38810:CDS | 35.0% |
| !! | CTTCTTCTAAAACCTTTGGA+GGG | - | chr7.1:16828495-16828514 | MS.gene38810:intron | 35.0% |
| !! | TCTTCTTCTAAAACCTTTGG+AGG | - | chr7.1:16828494-16828513 | MS.gene38810:intron | 35.0% |
| !! | TGCACTTGCTTTTGTAAATC+CGG | + | chr7.1:16828236-16828255 | None:intergenic | 35.0% |
| AAATATGGGATGGCTCTTAG+AGG | - | chr7.1:16827151-16827170 | MS.gene38810:CDS | 40.0% | |
| ATTACCGTTTGATCTTCACC+AGG | + | chr7.1:16827395-16827414 | None:intergenic | 40.0% | |
| CACATCAAGATCTCAGATAG+AGG | + | chr7.1:16828440-16828459 | None:intergenic | 40.0% | |
| CTCAGATAGAGGAATCTTGT+AGG | + | chr7.1:16828429-16828448 | None:intergenic | 40.0% | |
| TCTTCCTGGTGAAGATCAAA+CGG | - | chr7.1:16827388-16827407 | MS.gene38810:intron | 40.0% | |
| TGCCCCCCACTATATTATTA+TGG | - | chr7.1:16828988-16829007 | MS.gene38810:CDS | 40.0% | |
| TTGAGTATGAGAACTGAGGT+GGG | + | chr7.1:16827133-16827152 | None:intergenic | 40.0% | |
| TTTCATCATCAGACCAACCA+TGG | + | chr7.1:16827559-16827578 | None:intergenic | 40.0% | |
| TTTGAGTATGAGAACTGAGG+TGG | + | chr7.1:16827134-16827153 | None:intergenic | 40.0% | |
| GATCACGTTCACTAGCATTG+TGG | + | chr7.1:16827325-16827344 | None:intergenic | 45.0% | |
| GCCACAATCCCCTAAACTTA+TGG | - | chr7.1:16827286-16827305 | MS.gene38810:intron | 45.0% | |
| GCCATAAGTTTAGGGGATTG+TGG | + | chr7.1:16827290-16827309 | None:intergenic | 45.0% | |
| TCACTTCGTTCACTTCTTCC+TGG | - | chr7.1:16827374-16827393 | MS.gene38810:intron | 45.0% | |
| ! | GCACGGGTTAATTAGAAGCT+TGG | - | chr7.1:16828950-16828969 | MS.gene38810:CDS | 45.0% |
| !! | CTTCTAAAACCTTTGGAGGG+AGG | - | chr7.1:16828498-16828517 | MS.gene38810:intron | 45.0% |
| ATAGAAGAGCCTCCCTCCAA+AGG | + | chr7.1:16828510-16828529 | None:intergenic | 50.0% | |
| CTATTGGACCCTCACTCGAG+TGG | - | chr7.1:16827655-16827674 | MS.gene38810:CDS | 55.0% | |
| ACCCTCACTCGAGTGGATGG+TGG | - | chr7.1:16827662-16827681 | MS.gene38810:CDS | 60.0% | |
| CCCACCATCCACTCGAGTGA+GGG | + | chr7.1:16827666-16827685 | None:intergenic | 60.0% | |
| CCCTCACTCGAGTGGATGGT+GGG | - | chr7.1:16827663-16827682 | MS.gene38810:CDS | 60.0% | |
| CCTCACTCGAGTGGATGGTG+GGG | - | chr7.1:16827664-16827683 | MS.gene38810:CDS | 60.0% | |
| TGGACCCTCACTCGAGTGGA+TGG | - | chr7.1:16827659-16827678 | MS.gene38810:CDS | 60.0% | |
| !! | ACTCGAGTGGATGGTGGGGT+TGG | - | chr7.1:16827668-16827687 | MS.gene38810:CDS | 60.0% |
| CCCCACCATCCACTCGAGTG+AGG | + | chr7.1:16827667-16827686 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.1 | gene | 16827116 | 16829013 | 16827116 | ID=MS.gene38810 |
| chr7.1 | mRNA | 16827116 | 16829013 | 16827116 | ID=MS.gene38810.t1;Parent=MS.gene38810 |
| chr7.1 | exon | 16828720 | 16829013 | 16828720 | ID=MS.gene38810.t1.exon1;Parent=MS.gene38810.t1 |
| chr7.1 | CDS | 16828720 | 16829013 | 16828720 | ID=cds.MS.gene38810.t1;Parent=MS.gene38810.t1 |
| chr7.1 | exon | 16827585 | 16827944 | 16827585 | ID=MS.gene38810.t1.exon2;Parent=MS.gene38810.t1 |
| chr7.1 | CDS | 16827585 | 16827944 | 16827585 | ID=cds.MS.gene38810.t1;Parent=MS.gene38810.t1 |
| chr7.1 | exon | 16827116 | 16827178 | 16827116 | ID=MS.gene38810.t1.exon3;Parent=MS.gene38810.t1 |
| chr7.1 | CDS | 16827116 | 16827178 | 16827116 | ID=cds.MS.gene38810.t1;Parent=MS.gene38810.t1 |
| Gene Sequence |
| Protein sequence |
