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.gene35050.t1 | XP_013457227.1 | 97.2 | 213 | 6 | 0 | 1 | 213 | 27 | 239 | 5.20E-104 | 387.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35050.t1 | Q9LSF6 | 57.7 | 215 | 82 | 3 | 8 | 213 | 3 | 217 | 1.8e-57 | 223.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35050.t1 | A0A072UQC2 | 97.2 | 213 | 6 | 0 | 1 | 213 | 27 | 239 | 3.8e-104 | 387.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene59206 | MS.gene35050 | PPI |
| MS.gene000219 | MS.gene35050 | PPI |
| MS.gene48173 | MS.gene35050 | PPI |
| MS.gene67394 | MS.gene35050 | PPI |
| MS.gene006180 | MS.gene35050 | PPI |
| MS.gene066222 | MS.gene35050 | PPI |
| MS.gene60673 | MS.gene35050 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35050.t1 | MTR_4g094325 | 97.183 | 213 | 6 | 0 | 1 | 213 | 27 | 239 | 3.49e-152 | 422 |
| MS.gene35050.t1 | MTR_1g099010 | 62.802 | 207 | 73 | 2 | 7 | 213 | 15 | 217 | 3.60e-86 | 254 |
| MS.gene35050.t1 | MTR_4g094332 | 63.679 | 212 | 73 | 2 | 6 | 213 | 13 | 224 | 2.54e-83 | 247 |
| MS.gene35050.t1 | MTR_4g094328 | 62.212 | 217 | 77 | 2 | 2 | 213 | 8 | 224 | 2.81e-83 | 247 |
| MS.gene35050.t1 | MTR_4g094330 | 62.212 | 217 | 77 | 2 | 2 | 213 | 8 | 224 | 2.81e-83 | 247 |
| MS.gene35050.t1 | MTR_6g034975 | 61.215 | 214 | 75 | 3 | 4 | 213 | 1 | 210 | 2.00e-78 | 234 |
| MS.gene35050.t1 | MTR_0119s0010 | 60.406 | 197 | 68 | 2 | 14 | 210 | 23 | 209 | 3.99e-70 | 213 |
| MS.gene35050.t1 | MTR_0119s0020 | 60.406 | 197 | 68 | 2 | 14 | 210 | 23 | 209 | 3.99e-70 | 213 |
| MS.gene35050.t1 | MTR_2g008110 | 60.406 | 197 | 68 | 2 | 14 | 210 | 23 | 209 | 4.12e-70 | 213 |
| MS.gene35050.t1 | MTR_4g094335 | 55.714 | 210 | 86 | 2 | 10 | 212 | 20 | 229 | 3.01e-66 | 204 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene35050.t1 | AT3G43660 | 58.852 | 209 | 73 | 3 | 6 | 213 | 2 | 198 | 2.95e-82 | 243 |
| MS.gene35050.t1 | AT1G21140 | 59.524 | 210 | 71 | 5 | 6 | 213 | 3 | 200 | 1.34e-74 | 224 |
| MS.gene35050.t1 | AT3G43630 | 61.053 | 190 | 69 | 1 | 23 | 212 | 12 | 196 | 3.56e-72 | 218 |
| MS.gene35050.t1 | AT1G76800 | 59.794 | 194 | 72 | 1 | 20 | 213 | 9 | 196 | 5.65e-70 | 212 |
| MS.gene35050.t1 | AT3G25190 | 59.070 | 215 | 79 | 3 | 8 | 213 | 3 | 217 | 2.09e-69 | 211 |
Find 43 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTAACTTCATTGTTATTA+TGG | 0.164844 | 4.4:-20491483 | None:intergenic |
| CTCTTAGCCATTGTGCTCTT+TGG | 0.168089 | 4.4:-20491564 | None:intergenic |
| TCTTAGCCATTGTGCTCTTT+GGG | 0.283198 | 4.4:-20491563 | None:intergenic |
| ATGGCTATGGCTATTACTTT+TGG | 0.286846 | 4.4:+20492051 | MS.gene35050:CDS |
| GGTGCAACTGTTCCATTGTT+AGG | 0.312326 | 4.4:+20491880 | MS.gene35050:CDS |
| TCAATAACATCACTGATATT+AGG | 0.320977 | 4.4:+20491619 | MS.gene35050:CDS |
| ATGCTTCTAGCTGGATTTGC+AGG | 0.330228 | 4.4:+20491673 | MS.gene35050:CDS |
| TGAACTATAGCCAACTAATT+TGG | 0.332042 | 4.4:-20492079 | None:intergenic |
| TTTCTTCGGTTTCTTGAGTT+TGG | 0.348710 | 4.4:-20491525 | None:intergenic |
| TGGCTAAGAGCTGCTTTGTT+AGG | 0.351691 | 4.4:+20491577 | MS.gene35050:CDS |
| AATTGCAGGAGCATGTAGTA+TGG | 0.371115 | 4.4:+20491699 | MS.gene35050:CDS |
| CAACAAACAACCTTATCTTA+TGG | 0.372163 | 4.4:-20491921 | None:intergenic |
| ATAGCAGCTTGAAAAGGATT+TGG | 0.379593 | 4.4:-20491832 | None:intergenic |
| TATTGATACCAAACCATCAT+TGG | 0.397645 | 4.4:-20491602 | None:intergenic |
| GGATTTGCAGGACTAATTGC+AGG | 0.405837 | 4.4:+20491685 | MS.gene35050:CDS |
| GTTAGGAGCCAATGATGGTT+TGG | 0.408839 | 4.4:+20491594 | MS.gene35050:CDS |
| GGAGCATGTAGTATGGGAAT+TGG | 0.413287 | 4.4:+20491706 | MS.gene35050:CDS |
| ATAAGGTTGTTTGTTGTTGT+TGG | 0.419241 | 4.4:+20491928 | MS.gene35050:CDS |
| GTTGTTTGTTGTTGTTGGTA+TGG | 0.425598 | 4.4:+20491933 | MS.gene35050:CDS |
| TTGTTGGTGTTTGGTGGAGT+TGG | 0.434863 | 4.4:+20491967 | MS.gene35050:CDS |
| GTACACTCAATTTGACATAA+TGG | 0.442870 | 4.4:+20491744 | MS.gene35050:CDS |
| AGTGGTGGTTGGAGGTTGGA+TGG | 0.447165 | 4.4:+20492032 | MS.gene35050:CDS |
| TTAGAGTGGTGGTTGGAGGT+TGG | 0.453273 | 4.4:+20492028 | MS.gene35050:CDS |
| TTGTACTTTATGGTTTCTCT+TGG | 0.457022 | 4.4:+20491457 | None:intergenic |
| TTTGGCTTGACCAAATTAGT+TGG | 0.462254 | 4.4:+20492069 | MS.gene35050:CDS |
| GGTGGAGTTGGAGCAATACT+TGG | 0.463894 | 4.4:+20491979 | MS.gene35050:CDS |
| TGTGTTAGAGTGGTGGTTGG+AGG | 0.467615 | 4.4:+20492024 | MS.gene35050:CDS |
| TGTTAGGAGCAGCATTGGTA+AGG | 0.467798 | 4.4:+20491896 | MS.gene35050:CDS |
| TTTGCATTGTTGGTGTTTGG+TGG | 0.472445 | 4.4:+20491961 | MS.gene35050:CDS |
| GGTTGGAGGTTGGATGGCTA+TGG | 0.474740 | 4.4:+20492038 | MS.gene35050:CDS |
| TCCATTGTTAGGAGCAGCAT+TGG | 0.480068 | 4.4:+20491891 | MS.gene35050:CDS |
| ATCAAAACAATGCTTCTAGC+TGG | 0.493445 | 4.4:+20491664 | MS.gene35050:CDS |
| TCTTGTGTTAGAGTGGTGGT+TGG | 0.541101 | 4.4:+20492021 | MS.gene35050:CDS |
| GATGCAATAGCAGCTTGAAA+AGG | 0.549841 | 4.4:-20491838 | None:intergenic |
| ACCAATGCTGCTCCTAACAA+TGG | 0.557852 | 4.4:-20491892 | None:intergenic |
| GCTTTGTTAGGAGCCAATGA+TGG | 0.562216 | 4.4:+20491589 | MS.gene35050:CDS |
| GTTAGGAGCAGCATTGGTAA+GGG | 0.568514 | 4.4:+20491897 | MS.gene35050:CDS |
| ATTGCAGGAGCATGTAGTAT+GGG | 0.575864 | 4.4:+20491700 | MS.gene35050:CDS |
| ACATCACTGATATTAGGTGT+TGG | 0.581679 | 4.4:+20491625 | MS.gene35050:CDS |
| TGGTAAGGGACCATAAGATA+AGG | 0.588888 | 4.4:+20491911 | MS.gene35050:CDS |
| AATGTCTTGTGTTAGAGTGG+TGG | 0.635471 | 4.4:+20492017 | MS.gene35050:CDS |
| GAAAATGTCTTGTGTTAGAG+TGG | 0.645932 | 4.4:+20492014 | MS.gene35050:CDS |
| ACTATTCCCAAAGAGCACAA+TGG | 0.686489 | 4.4:+20491557 | MS.gene35050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATTAACTTCATTGTTATTA+TGG | - | chr4.4:20491486-20491505 | None:intergenic | 20.0% |
| ! | TCAATAACATCACTGATATT+AGG | + | chr4.4:20491619-20491638 | MS.gene35050:CDS | 25.0% |
| !!! | ATAGTCAATGTTGTTTTCTT+CGG | - | chr4.4:20491542-20491561 | None:intergenic | 25.0% |
| CAACAAACAACCTTATCTTA+TGG | - | chr4.4:20491924-20491943 | None:intergenic | 30.0% | |
| GTACACTCAATTTGACATAA+TGG | + | chr4.4:20491744-20491763 | MS.gene35050:CDS | 30.0% | |
| TATTGATACCAAACCATCAT+TGG | - | chr4.4:20491605-20491624 | None:intergenic | 30.0% | |
| TGAACTATAGCCAACTAATT+TGG | - | chr4.4:20492082-20492101 | None:intergenic | 30.0% | |
| ! | TCAGCAATTGCATTTTCATT+TGG | + | chr4.4:20491859-20491878 | MS.gene35050:CDS | 30.0% |
| !! | ATAAGGTTGTTTGTTGTTGT+TGG | + | chr4.4:20491928-20491947 | MS.gene35050:CDS | 30.0% |
| ACATCACTGATATTAGGTGT+TGG | + | chr4.4:20491625-20491644 | MS.gene35050:CDS | 35.0% | |
| ATAGCAGCTTGAAAAGGATT+TGG | - | chr4.4:20491835-20491854 | None:intergenic | 35.0% | |
| ATCAAAACAATGCTTCTAGC+TGG | + | chr4.4:20491664-20491683 | MS.gene35050:CDS | 35.0% | |
| GAAAATGTCTTGTGTTAGAG+TGG | + | chr4.4:20492014-20492033 | MS.gene35050:CDS | 35.0% | |
| TTTCTTCGGTTTCTTGAGTT+TGG | - | chr4.4:20491528-20491547 | None:intergenic | 35.0% | |
| ! | ATGGCTATGGCTATTACTTT+TGG | + | chr4.4:20492051-20492070 | MS.gene35050:CDS | 35.0% |
| !! | AGTTTTGCATTGTTGGTGTT+TGG | + | chr4.4:20491958-20491977 | MS.gene35050:CDS | 35.0% |
| !! | GTTGTTTGTTGTTGTTGGTA+TGG | + | chr4.4:20491933-20491952 | MS.gene35050:CDS | 35.0% |
| !! | TTTGGCTTGACCAAATTAGT+TGG | + | chr4.4:20492069-20492088 | MS.gene35050:CDS | 35.0% |
| !!! | TATGGCTAGTTTTGCATTGT+TGG | + | chr4.4:20491951-20491970 | MS.gene35050:CDS | 35.0% |
| AATGTCTTGTGTTAGAGTGG+TGG | + | chr4.4:20492017-20492036 | MS.gene35050:CDS | 40.0% | |
| GATGCAATAGCAGCTTGAAA+AGG | - | chr4.4:20491841-20491860 | None:intergenic | 40.0% | |
| TCTTAGCCATTGTGCTCTTT+GGG | - | chr4.4:20491566-20491585 | None:intergenic | 40.0% | |
| TGGTAAGGGACCATAAGATA+AGG | + | chr4.4:20491911-20491930 | MS.gene35050:CDS | 40.0% | |
| ! | AATTGCAGGAGCATGTAGTA+TGG | + | chr4.4:20491699-20491718 | MS.gene35050:CDS | 40.0% |
| ! | ACTATTCCCAAAGAGCACAA+TGG | + | chr4.4:20491557-20491576 | MS.gene35050:CDS | 40.0% |
| ! | ATTGCAGGAGCATGTAGTAT+GGG | + | chr4.4:20491700-20491719 | MS.gene35050:CDS | 40.0% |
| ! | CAACAGCACTTTTGTTGAAG+AGG | + | chr4.4:20491795-20491814 | MS.gene35050:CDS | 40.0% |
| ! | TTTGCATTGTTGGTGTTTGG+TGG | + | chr4.4:20491961-20491980 | MS.gene35050:CDS | 40.0% |
| ACCAATGCTGCTCCTAACAA+TGG | - | chr4.4:20491895-20491914 | None:intergenic | 45.0% | |
| CTCTTAGCCATTGTGCTCTT+TGG | - | chr4.4:20491567-20491586 | None:intergenic | 45.0% | |
| GGAGCATGTAGTATGGGAAT+TGG | + | chr4.4:20491706-20491725 | MS.gene35050:CDS | 45.0% | |
| GGATTTGCAGGACTAATTGC+AGG | + | chr4.4:20491685-20491704 | MS.gene35050:CDS | 45.0% | |
| GGTGCAACTGTTCCATTGTT+AGG | + | chr4.4:20491880-20491899 | MS.gene35050:CDS | 45.0% | |
| GTTAGGAGCCAATGATGGTT+TGG | + | chr4.4:20491594-20491613 | MS.gene35050:CDS | 45.0% | |
| TCCATTGTTAGGAGCAGCAT+TGG | + | chr4.4:20491891-20491910 | MS.gene35050:CDS | 45.0% | |
| TCTTGTGTTAGAGTGGTGGT+TGG | + | chr4.4:20492021-20492040 | MS.gene35050:CDS | 45.0% | |
| ! | ATGCTTCTAGCTGGATTTGC+AGG | + | chr4.4:20491673-20491692 | MS.gene35050:CDS | 45.0% |
| ! | GCTTTGTTAGGAGCCAATGA+TGG | + | chr4.4:20491589-20491608 | MS.gene35050:CDS | 45.0% |
| ! | TGGCTAAGAGCTGCTTTGTT+AGG | + | chr4.4:20491577-20491596 | MS.gene35050:CDS | 45.0% |
| ! | TTGTTGGTGTTTGGTGGAGT+TGG | + | chr4.4:20491967-20491986 | MS.gene35050:CDS | 45.0% |
| !! | GTTAGGAGCAGCATTGGTAA+GGG | + | chr4.4:20491897-20491916 | MS.gene35050:CDS | 45.0% |
| !! | TGTTAGGAGCAGCATTGGTA+AGG | + | chr4.4:20491896-20491915 | MS.gene35050:CDS | 45.0% |
| GGTGGAGTTGGAGCAATACT+TGG | + | chr4.4:20491979-20491998 | MS.gene35050:CDS | 50.0% | |
| TGTGTTAGAGTGGTGGTTGG+AGG | + | chr4.4:20492024-20492043 | MS.gene35050:CDS | 50.0% | |
| TTAGAGTGGTGGTTGGAGGT+TGG | + | chr4.4:20492028-20492047 | MS.gene35050:CDS | 50.0% | |
| AGTGGTGGTTGGAGGTTGGA+TGG | + | chr4.4:20492032-20492051 | MS.gene35050:CDS | 55.0% | |
| GGTTGGAGGTTGGATGGCTA+TGG | + | chr4.4:20492038-20492057 | MS.gene35050:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 20491466 | 20492107 | 20491466 | ID=MS.gene35050 |
| chr4.4 | mRNA | 20491466 | 20492107 | 20491466 | ID=MS.gene35050.t1;Parent=MS.gene35050 |
| chr4.4 | exon | 20491466 | 20492107 | 20491466 | ID=MS.gene35050.t1.exon1;Parent=MS.gene35050.t1 |
| chr4.4 | CDS | 20491466 | 20492107 | 20491466 | ID=cds.MS.gene35050.t1;Parent=MS.gene35050.t1 |
| Gene Sequence |
| Protein sequence |
