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.gene71894.t1 | XP_019454446.1 | 79.1 | 115 | 24 | 0 | 6 | 120 | 100 | 214 | 1.00E-48 | 202.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71894.t1 | Q9FHB2 | 57.0 | 114 | 49 | 0 | 7 | 120 | 89 | 202 | 5.6e-35 | 148.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71894.t1 | A0A4P1R855 | 79.1 | 115 | 24 | 0 | 6 | 120 | 100 | 214 | 7.4e-49 | 202.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene71894.t1 | TF | B3 |
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.gene71894.t1 | MTR_2g102450 | 73.504 | 117 | 31 | 0 | 4 | 120 | 47 | 163 | 1.47e-63 | 197 |
| MS.gene71894.t1 | MTR_2g102450 | 73.504 | 117 | 31 | 0 | 4 | 120 | 101 | 217 | 5.23e-62 | 194 |
| MS.gene71894.t1 | MTR_4g008310 | 66.087 | 115 | 39 | 0 | 6 | 120 | 178 | 292 | 1.15e-51 | 166 |
| MS.gene71894.t1 | MTR_3g101520 | 48.039 | 102 | 53 | 0 | 19 | 120 | 100 | 201 | 1.08e-30 | 109 |
| MS.gene71894.t1 | MTR_3g101520 | 48.039 | 102 | 53 | 0 | 19 | 120 | 108 | 209 | 1.70e-30 | 108 |
| MS.gene71894.t1 | MTR_4g101970 | 80.645 | 31 | 6 | 0 | 90 | 120 | 55 | 85 | 4.39e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene71894.t1 | AT5G58280 | 57.018 | 114 | 49 | 0 | 7 | 120 | 89 | 202 | 1.15e-40 | 136 |
| MS.gene71894.t1 | AT5G58280 | 57.018 | 114 | 49 | 0 | 7 | 120 | 121 | 234 | 2.03e-40 | 136 |
| MS.gene71894.t1 | AT5G58280 | 57.018 | 114 | 49 | 0 | 7 | 120 | 122 | 235 | 2.08e-40 | 136 |
| MS.gene71894.t1 | AT3G19184 | 49.020 | 102 | 52 | 0 | 19 | 120 | 104 | 205 | 3.84e-27 | 101 |
| MS.gene71894.t1 | AT3G19184 | 49.020 | 102 | 52 | 0 | 19 | 120 | 104 | 205 | 5.01e-27 | 101 |
| MS.gene71894.t1 | AT5G42700 | 46.078 | 102 | 55 | 0 | 19 | 120 | 59 | 160 | 6.81e-26 | 95.9 |
| MS.gene71894.t1 | AT5G42700 | 46.078 | 102 | 55 | 0 | 19 | 120 | 104 | 205 | 2.00e-25 | 95.9 |
Find 23 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTGCATTGGAACATAAAT+TGG | 0.189949 | 8.3:-19443793 | MS.gene71894:CDS |
| AATATTAGTAACATGGCTAT+TGG | 0.329071 | 8.3:-19444271 | None:intergenic |
| TCTTCCAGGGTCTTCCTAGT+AGG | 0.396253 | 8.3:-19443935 | MS.gene71894:intron |
| ACCATTGACTTGATAAATGA+TGG | 0.398569 | 8.3:+19444133 | None:intergenic |
| GAGTATGATGTTGTCTATAT+TGG | 0.436717 | 8.3:-19443849 | MS.gene71894:CDS |
| GTCTATATTGGCAGTAGAAG+TGG | 0.481140 | 8.3:-19443837 | MS.gene71894:CDS |
| AACAACAAAGAACTCGTGCT+TGG | 0.497832 | 8.3:-19444198 | MS.gene71894:CDS |
| TCCATCATTTATCAAGTCAA+TGG | 0.499589 | 8.3:-19444134 | MS.gene71894:CDS |
| TGTTCCTCACAAAACCTACT+AGG | 0.504504 | 8.3:+19443921 | None:intergenic |
| AAGTCAATGGTCCGGTCTCA+TGG | 0.512045 | 8.3:-19444121 | MS.gene71894:CDS |
| ACAAAGAACTCGTGCTTGGA+AGG | 0.515051 | 8.3:-19444194 | MS.gene71894:CDS |
| GACTCTTTAGTTACGTTGCA+AGG | 0.524631 | 8.3:-19444249 | MS.gene71894:CDS |
| GAAGTGGGCTAAGTGGTGGC+TGG | 0.540038 | 8.3:-19443821 | MS.gene71894:CDS |
| GGGCTAAGTGGTGGCTGGAG+AGG | 0.544907 | 8.3:-19443816 | MS.gene71894:CDS |
| CATTTATCAAGTCAATGGTC+CGG | 0.559658 | 8.3:-19444129 | MS.gene71894:CDS |
| AACAGCTAAAACCATGAGAC+CGG | 0.566641 | 8.3:+19444110 | None:intergenic |
| TTTAGAGGATGAAAATGGCT+CGG | 0.571858 | 8.3:-19443871 | MS.gene71894:CDS |
| TCGTGCTTGGAAGGCTGCAG+AGG | 0.573588 | 8.3:-19444185 | MS.gene71894:CDS |
| TCTATATTGGCAGTAGAAGT+GGG | 0.573838 | 8.3:-19443836 | MS.gene71894:CDS |
| TTGGAACATAAATTGGATGA+TGG | 0.579994 | 8.3:-19443786 | MS.gene71894:CDS |
| GGCAGTAGAAGTGGGCTAAG+TGG | 0.585137 | 8.3:-19443828 | MS.gene71894:CDS |
| TGGCTGGAGAGGATTTGCAT+TGG | 0.612968 | 8.3:-19443805 | MS.gene71894:CDS |
| AGTAGAAGTGGGCTAAGTGG+TGG | 0.694572 | 8.3:-19443825 | MS.gene71894:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GACAAATAAATATAATATTT+TGG | + | chr8.3:19444066-19444085 | None:intergenic | 10.0% |
| !! | TAAAAAGAATGTACAAAACA+TGG | + | chr8.3:19443998-19444017 | None:intergenic | 20.0% |
| !!! | GTTCAGAATATTTTTCTATA+TGG | - | chr8.3:19443957-19443976 | MS.gene71894:intron | 20.0% |
| ! | ATTTGCATTGGAACATAAAT+TGG | - | chr8.3:19444233-19444252 | MS.gene71894:CDS | 25.0% |
| ! | TATTTGTCTTTATTCTTCCA+GGG | - | chr8.3:19444078-19444097 | MS.gene71894:intron | 25.0% |
| ! | TTATTTGTCTTTATTCTTCC+AGG | - | chr8.3:19444077-19444096 | MS.gene71894:intron | 25.0% |
| !!! | ATGATTTTAGAGGATGAAAA+TGG | - | chr8.3:19444150-19444169 | MS.gene71894:CDS | 25.0% |
| GAGTATGATGTTGTCTATAT+TGG | - | chr8.3:19444177-19444196 | MS.gene71894:CDS | 30.0% | |
| TCCATCATTTATCAAGTCAA+TGG | - | chr8.3:19443892-19443911 | MS.gene71894:CDS | 30.0% | |
| TTGGAACATAAATTGGATGA+TGG | - | chr8.3:19444240-19444259 | MS.gene71894:CDS | 30.0% | |
| ! | AGTGCATAACATGATTTTAG+AGG | - | chr8.3:19444140-19444159 | MS.gene71894:CDS | 30.0% |
| ! | ATCATGTTATGCACTGTTTT+TGG | + | chr8.3:19444135-19444154 | None:intergenic | 30.0% |
| !! | ACCATTGACTTGATAAATGA+TGG | + | chr8.3:19443896-19443915 | None:intergenic | 30.0% |
| !!! | GCTTTTTCGATTTCATCTAT+TGG | + | chr8.3:19443803-19443822 | None:intergenic | 30.0% |
| AAACATGGATAAGAATGTGC+AGG | + | chr8.3:19443983-19444002 | None:intergenic | 35.0% | |
| CATTTATCAAGTCAATGGTC+CGG | - | chr8.3:19443897-19443916 | MS.gene71894:CDS | 35.0% | |
| TCTATATTGGCAGTAGAAGT+GGG | - | chr8.3:19444190-19444209 | MS.gene71894:CDS | 35.0% | |
| TTTAGAGGATGAAAATGGCT+CGG | - | chr8.3:19444155-19444174 | MS.gene71894:CDS | 35.0% | |
| !!! | CTCATGGTTTTAGCTGTTTT+TGG | - | chr8.3:19443921-19443940 | MS.gene71894:CDS | 35.0% |
| !!! | TGGTTTTAGCTGTTTTTGGT+TGG | - | chr8.3:19443925-19443944 | MS.gene71894:CDS | 35.0% |
| AACAACAAAGAACTCGTGCT+TGG | - | chr8.3:19443828-19443847 | MS.gene71894:CDS | 40.0% | |
| AACAGCTAAAACCATGAGAC+CGG | + | chr8.3:19443919-19443938 | None:intergenic | 40.0% | |
| GACTCTTTAGTTACGTTGCA+AGG | - | chr8.3:19443777-19443796 | MS.gene71894:CDS | 40.0% | |
| GTCTATATTGGCAGTAGAAG+TGG | - | chr8.3:19444189-19444208 | MS.gene71894:CDS | 40.0% | |
| TGTTCCTCACAAAACCTACT+AGG | + | chr8.3:19444108-19444127 | None:intergenic | 40.0% | |
| !! | TCTTCCTAGTAGGTTTTGTG+AGG | - | chr8.3:19444101-19444120 | MS.gene71894:intron | 40.0% |
| AAAACCTACTAGGAAGACCC+TGG | + | chr8.3:19444098-19444117 | None:intergenic | 45.0% | |
| ACAAAGAACTCGTGCTTGGA+AGG | - | chr8.3:19443832-19443851 | MS.gene71894:CDS | 45.0% | |
| AAGTCAATGGTCCGGTCTCA+TGG | - | chr8.3:19443905-19443924 | MS.gene71894:CDS | 50.0% | |
| TCTTCCAGGGTCTTCCTAGT+AGG | - | chr8.3:19444091-19444110 | MS.gene71894:intron | 50.0% | |
| TGGCTGGAGAGGATTTGCAT+TGG | - | chr8.3:19444221-19444240 | MS.gene71894:CDS | 50.0% | |
| !! | AGTAGAAGTGGGCTAAGTGG+TGG | - | chr8.3:19444201-19444220 | MS.gene71894:CDS | 50.0% |
| !! | GGCAGTAGAAGTGGGCTAAG+TGG | - | chr8.3:19444198-19444217 | MS.gene71894:CDS | 55.0% |
| TCGTGCTTGGAAGGCTGCAG+AGG | - | chr8.3:19443841-19443860 | MS.gene71894:CDS | 60.0% | |
| !! | GAAGTGGGCTAAGTGGTGGC+TGG | - | chr8.3:19444205-19444224 | MS.gene71894:CDS | 60.0% |
| GGGCTAAGTGGTGGCTGGAG+AGG | - | chr8.3:19444210-19444229 | MS.gene71894:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.3 | gene | 19443767 | 19444281 | 19443767 | ID=MS.gene71894 |
| chr8.3 | mRNA | 19443767 | 19444281 | 19443767 | ID=MS.gene71894.t1;Parent=MS.gene71894 |
| chr8.3 | exon | 19444102 | 19444281 | 19444102 | ID=MS.gene71894.t1.exon1;Parent=MS.gene71894.t1 |
| chr8.3 | CDS | 19444102 | 19444281 | 19444102 | ID=cds.MS.gene71894.t1;Parent=MS.gene71894.t1 |
| chr8.3 | exon | 19443767 | 19443949 | 19443767 | ID=MS.gene71894.t1.exon2;Parent=MS.gene71894.t1 |
| chr8.3 | CDS | 19443767 | 19443949 | 19443767 | ID=cds.MS.gene71894.t1;Parent=MS.gene71894.t1 |
| Gene Sequence |
| Protein sequence |
