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.gene031903.t1 | XP_003601024.1 | 92.6 | 284 | 10 | 1 | 1 | 284 | 1 | 273 | 4.80E-145 | 523.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene031903.t1 | Q9LYL9 | 47.3 | 275 | 143 | 2 | 1 | 275 | 1 | 273 | 6.5e-66 | 252.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene031903.t1 | G7J2Y2 | 92.6 | 284 | 10 | 1 | 1 | 284 | 1 | 273 | 3.4e-145 | 523.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene031903.t1 | TR | TRAF |
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.gene031903.t1 | MTR_3g072160 | 92.606 | 284 | 10 | 1 | 1 | 284 | 1 | 273 | 0.0 | 520 |
| MS.gene031903.t1 | MTR_3g072160 | 94.954 | 218 | 11 | 0 | 67 | 284 | 19 | 236 | 2.46e-145 | 407 |
| MS.gene031903.t1 | MTR_3g088660 | 26.699 | 206 | 142 | 4 | 69 | 269 | 35 | 236 | 4.56e-19 | 84.7 |
| MS.gene031903.t1 | MTR_5g096700 | 31.847 | 157 | 103 | 3 | 88 | 244 | 83 | 235 | 2.36e-15 | 74.7 |
| MS.gene031903.t1 | MTR_5g096700 | 31.847 | 157 | 103 | 3 | 88 | 244 | 142 | 294 | 4.30e-15 | 74.7 |
| MS.gene031903.t1 | MTR_3g061090 | 31.548 | 168 | 107 | 4 | 77 | 244 | 62 | 221 | 2.02e-14 | 71.6 |
| MS.gene031903.t1 | MTR_3g061090 | 32.353 | 170 | 103 | 5 | 77 | 244 | 134 | 293 | 4.55e-14 | 71.6 |
| MS.gene031903.t1 | MTR_3g088560 | 30.539 | 167 | 105 | 5 | 80 | 244 | 10 | 167 | 4.23e-11 | 61.6 |
| MS.gene031903.t1 | MTR_1g029850 | 32.414 | 145 | 93 | 3 | 98 | 242 | 152 | 291 | 8.80e-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.gene031903.t1 | AT3G56230 | 47.273 | 275 | 143 | 2 | 1 | 275 | 1 | 273 | 8.36e-85 | 256 |
| MS.gene031903.t1 | AT1G01640 | 46.632 | 193 | 97 | 4 | 88 | 279 | 1 | 188 | 8.86e-54 | 174 |
| MS.gene031903.t1 | AT1G01640 | 47.674 | 172 | 84 | 4 | 109 | 279 | 1 | 167 | 3.11e-47 | 156 |
| MS.gene031903.t1 | AT2G40450 | 40.000 | 180 | 103 | 3 | 96 | 270 | 9 | 188 | 1.38e-26 | 103 |
| MS.gene031903.t1 | AT5G48510 | 37.222 | 180 | 109 | 3 | 100 | 275 | 13 | 192 | 9.30e-26 | 102 |
| MS.gene031903.t1 | AT4G04090 | 32.353 | 170 | 114 | 1 | 106 | 274 | 20 | 189 | 4.10e-24 | 96.7 |
| MS.gene031903.t1 | AT2G05330 | 37.063 | 143 | 88 | 2 | 130 | 270 | 34 | 176 | 2.19e-21 | 90.1 |
| MS.gene031903.t1 | AT4G08455 | 28.230 | 209 | 134 | 6 | 73 | 269 | 44 | 248 | 5.49e-19 | 84.7 |
| MS.gene031903.t1 | AT2G05330 | 37.121 | 132 | 81 | 2 | 141 | 270 | 1 | 132 | 1.14e-17 | 79.0 |
| MS.gene031903.t1 | AT3G29740 | 44.186 | 86 | 44 | 2 | 89 | 171 | 3 | 87 | 2.12e-13 | 65.1 |
| MS.gene031903.t1 | AT1G21780 | 32.414 | 145 | 93 | 3 | 98 | 242 | 148 | 287 | 2.51e-12 | 66.6 |
| MS.gene031903.t1 | AT1G21780 | 32.414 | 145 | 93 | 3 | 98 | 242 | 148 | 287 | 2.51e-12 | 66.6 |
| MS.gene031903.t1 | AT1G55760 | 34.752 | 141 | 81 | 5 | 107 | 244 | 160 | 292 | 8.67e-11 | 62.0 |
Find 44 sgRNAs with CRISPR-Local
Find 65 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTGGAGGTCTTAATATTAA+TGG | 0.173482 | 3.4:+71153168 | None:intergenic |
| TTATAGAGAAATTGATAATT+TGG | 0.186682 | 3.4:+71151862 | None:intergenic |
| TGCACAAATGCTTCAAATTT+AGG | 0.193574 | 3.4:+71151938 | None:intergenic |
| ATTCTAATTCTTCATGGTTC+AGG | 0.311738 | 3.4:+71152215 | None:intergenic |
| TAGTGTCTCAAATGCATTAG+AGG | 0.315759 | 3.4:+71152048 | None:intergenic |
| CTCGAATTTCGCCGCGAAAT+AGG | 0.318434 | 3.4:+71153039 | None:intergenic |
| AGGATGTCTCCTTCAAATCT+TGG | 0.335688 | 3.4:+71152002 | None:intergenic |
| ACCTGCTCATAAATCCGTTT+TGG | 0.337217 | 3.4:-71152748 | MS.gene031903:intron |
| CTACAGTGGGACATTGCCTT+TGG | 0.341122 | 3.4:-71152176 | MS.gene031903:CDS |
| AGAGAGATTCTAATTCTTCA+TGG | 0.342558 | 3.4:+71152209 | None:intergenic |
| GCCCCACATATTGTATTCCT+TGG | 0.412240 | 3.4:+71153150 | None:intergenic |
| GGGCATGTTATGAAGGAGTT+AGG | 0.432141 | 3.4:-71153131 | MS.gene031903:CDS |
| TGTGTGAATTTGTTCTTTGA+AGG | 0.437509 | 3.4:+71152809 | None:intergenic |
| GTTTCAAGAGCATTTGTGAA+TGG | 0.440008 | 3.4:-71151887 | MS.gene031903:CDS |
| TTGTTCAAACCAAGATTTGA+AGG | 0.441270 | 3.4:-71152011 | MS.gene031903:CDS |
| ACGGATTTATGAGCAGGTAT+AGG | 0.452650 | 3.4:+71152753 | None:intergenic |
| CCACATATTGTATTCCTTGG+AGG | 0.461630 | 3.4:+71153153 | None:intergenic |
| TTGATAAGTCCAGGCAATCT+TGG | 0.471602 | 3.4:-71152780 | MS.gene031903:CDS |
| AAAACAATCACTACTCCAAA+TGG | 0.473612 | 3.4:-71153066 | MS.gene031903:CDS |
| AATTCTTCATGGTTCAGGTC+AGG | 0.475170 | 3.4:+71152220 | None:intergenic |
| AGAGTTATTGTGTTACAAGT+TGG | 0.476255 | 3.4:+71152244 | None:intergenic |
| ATAGGTGGACCAAGATTGCC+TGG | 0.498249 | 3.4:+71152771 | None:intergenic |
| TCACAGTATTTCAGCAAATG+TGG | 0.504898 | 3.4:+71152097 | None:intergenic |
| CACAGTATTTCAGCAAATGT+GGG | 0.507721 | 3.4:+71152098 | None:intergenic |
| AATTTGAAGCATTTGTGCAT+AGG | 0.515796 | 3.4:-71151934 | MS.gene031903:CDS |
| TTCGCGGCGAAATTCGAGTA+AGG | 0.516513 | 3.4:-71153034 | MS.gene031903:CDS |
| CCTCCAAGGAATACAATATG+TGG | 0.523672 | 3.4:-71153153 | MS.gene031903:CDS |
| ACCAAAACGGATTTATGAGC+AGG | 0.528361 | 3.4:+71152747 | None:intergenic |
| ATATGTGGGGCATGTTATGA+AGG | 0.533797 | 3.4:-71153138 | MS.gene031903:CDS |
| TCTTAGAATTTCTCTACAGT+GGG | 0.539455 | 3.4:-71152189 | MS.gene031903:CDS |
| CGCGAAATAGGAGAACCATT+TGG | 0.543566 | 3.4:+71153051 | None:intergenic |
| CAAGATTTGGCTTATCTCAG+AGG | 0.546377 | 3.4:-71152843 | MS.gene031903:CDS |
| CAAATGGTTCTCCTATTTCG+CGG | 0.549333 | 3.4:-71153050 | MS.gene031903:CDS |
| AAAACAAGAACTCACCAAAA+CGG | 0.553720 | 3.4:+71152734 | None:intergenic |
| ACAGATATATTGATAAGTCC+AGG | 0.558976 | 3.4:-71152789 | MS.gene031903:CDS |
| CTCTTAGAATTTCTCTACAG+TGG | 0.583649 | 3.4:-71152190 | MS.gene031903:CDS |
| CTCCAAGGAATACAATATGT+GGG | 0.586870 | 3.4:-71153152 | MS.gene031903:CDS |
| CTTATCAGCTGCTTGTGACA+AGG | 0.589102 | 3.4:+71152129 | None:intergenic |
| CACTTGATGATTGCATAAGA+TGG | 0.603274 | 3.4:-71152902 | MS.gene031903:CDS |
| GATTTATGAGCAGGTATAGG+TGG | 0.605249 | 3.4:+71152756 | None:intergenic |
| AGCATGATCAACATGATGAA+CGG | 0.624401 | 3.4:-71153108 | MS.gene031903:CDS |
| CATTAATATTAAGACCTCCA+AGG | 0.644737 | 3.4:-71153167 | MS.gene031903:CDS |
| TCCAAGGAATACAATATGTG+GGG | 0.668052 | 3.4:-71153151 | MS.gene031903:CDS |
| ACTAATTGCACAGTTAAATG+CGG | 0.678765 | 3.4:+71151908 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTAATGAAAATTATTTAAT+GGG | + | chr3.4:71152350-71152369 | None:intergenic | 10.0% |
| !!! | AGATAAAATAAAGTATTTTT+TGG | - | chr3.4:71152449-71152468 | MS.gene031903:intron | 10.0% |
| !!! | ATTTTTAACTAAGAAATTAA+AGG | + | chr3.4:71153078-71153097 | None:intergenic | 10.0% |
| !! | GGTTAATGAAAATTATTTAA+TGG | + | chr3.4:71152351-71152370 | None:intergenic | 15.0% |
| !! | TATTTATGTTATTGTAATGT+AGG | - | chr3.4:71152734-71152753 | MS.gene031903:intron | 15.0% |
| !!! | TAAAATAAAGTATTTTTTGG+CGG | - | chr3.4:71152452-71152471 | MS.gene031903:intron | 15.0% |
| !!! | TATTTTTTTGTTTACAAAGA+GGG | + | chr3.4:71152527-71152546 | None:intergenic | 15.0% |
| !!! | TTATAGAGAAATTGATAATT+TGG | + | chr3.4:71153198-71153217 | None:intergenic | 15.0% |
| !!! | TTATTTTTTTGTTTACAAAG+AGG | + | chr3.4:71152528-71152547 | None:intergenic | 15.0% |
| !! | AAAGCTTAAAAAAAATAAGC+TGG | - | chr3.4:71152605-71152624 | MS.gene031903:intron | 20.0% |
| !! | AGTTAAAAATATTGAGCATA+TGG | - | chr3.4:71153088-71153107 | MS.gene031903:CDS | 20.0% |
| !! | TAATCAACAAAAACAAGATT+TGG | - | chr3.4:71152201-71152220 | MS.gene031903:CDS | 20.0% |
| !!! | CTTGTTTTTGTTGATTAAAT+TGG | + | chr3.4:71152198-71152217 | None:intergenic | 20.0% |
| !!! | TTCTTTTCATAATTCTTCTA+TGG | - | chr3.4:71152056-71152075 | MS.gene031903:CDS | 20.0% |
| ! | TCAAGTGTATAATCTAAAAG+AGG | - | chr3.4:71152102-71152121 | MS.gene031903:CDS | 25.0% |
| AAAACAAGAACTCACCAAAA+CGG | + | chr3.4:71152326-71152345 | None:intergenic | 30.0% | |
| AAAACAATCACTACTCCAAA+TGG | - | chr3.4:71151991-71152010 | MS.gene031903:CDS | 30.0% | |
| ACAGATATATTGATAAGTCC+AGG | - | chr3.4:71152268-71152287 | MS.gene031903:CDS | 30.0% | |
| ACTAATTGCACAGTTAAATG+CGG | + | chr3.4:71153152-71153171 | None:intergenic | 30.0% | |
| AGAGAGATTCTAATTCTTCA+TGG | + | chr3.4:71152851-71152870 | None:intergenic | 30.0% | |
| AGAGTTATTGTGTTACAAGT+TGG | + | chr3.4:71152816-71152835 | None:intergenic | 30.0% | |
| ATTCTAATTCTTCATGGTTC+AGG | + | chr3.4:71152845-71152864 | None:intergenic | 30.0% | |
| CATTAATATTAAGACCTCCA+AGG | - | chr3.4:71151890-71151909 | MS.gene031903:CDS | 30.0% | |
| CTTGGAGGTCTTAATATTAA+TGG | + | chr3.4:71151892-71151911 | None:intergenic | 30.0% | |
| TCTTAGAATTTCTCTACAGT+GGG | - | chr3.4:71152868-71152887 | MS.gene031903:CDS | 30.0% | |
| TGCACAAATGCTTCAAATTT+AGG | + | chr3.4:71153122-71153141 | None:intergenic | 30.0% | |
| TTGTTCAAACCAAGATTTGA+AGG | - | chr3.4:71153046-71153065 | MS.gene031903:CDS | 30.0% | |
| ! | AATTTGAAGCATTTGTGCAT+AGG | - | chr3.4:71153123-71153142 | MS.gene031903:CDS | 30.0% |
| ! | TGTGTGAATTTGTTCTTTGA+AGG | + | chr3.4:71152251-71152270 | None:intergenic | 30.0% |
| ! | TGTTTCTCCAATTTTTCCAA+AGG | + | chr3.4:71152900-71152919 | None:intergenic | 30.0% |
| !!! | CTCGGTGTAGTTTTTTTTTT+GGG | - | chr3.4:71152494-71152513 | MS.gene031903:intron | 30.0% |
| !!! | TCTCGGTGTAGTTTTTTTTT+TGG | - | chr3.4:71152493-71152512 | MS.gene031903:intron | 30.0% |
| AGCATGATCAACATGATGAA+CGG | - | chr3.4:71151949-71151968 | MS.gene031903:CDS | 35.0% | |
| CACAGTATTTCAGCAAATGT+GGG | + | chr3.4:71152962-71152981 | None:intergenic | 35.0% | |
| CTCCAAGGAATACAATATGT+GGG | - | chr3.4:71151905-71151924 | MS.gene031903:CDS | 35.0% | |
| CTCTTAGAATTTCTCTACAG+TGG | - | chr3.4:71152867-71152886 | MS.gene031903:CDS | 35.0% | |
| TAGTGTCTCAAATGCATTAG+AGG | + | chr3.4:71153012-71153031 | None:intergenic | 35.0% | |
| TCACAGTATTTCAGCAAATG+TGG | + | chr3.4:71152963-71152982 | None:intergenic | 35.0% | |
| TCCAAGGAATACAATATGTG+GGG | - | chr3.4:71151906-71151925 | MS.gene031903:CDS | 35.0% | |
| ! | CACTTGATGATTGCATAAGA+TGG | - | chr3.4:71152155-71152174 | MS.gene031903:CDS | 35.0% |
| ! | GACATTGCCTTTGGAAAAAT+TGG | - | chr3.4:71152890-71152909 | MS.gene031903:CDS | 35.0% |
| !! | GTTTCAAGAGCATTTGTGAA+TGG | - | chr3.4:71153170-71153189 | MS.gene031903:CDS | 35.0% |
| AATTCTTCATGGTTCAGGTC+AGG | + | chr3.4:71152840-71152859 | None:intergenic | 40.0% | |
| ACGGATTTATGAGCAGGTAT+AGG | + | chr3.4:71152307-71152326 | None:intergenic | 40.0% | |
| AGGATGTCTCCTTCAAATCT+TGG | + | chr3.4:71153058-71153077 | None:intergenic | 40.0% | |
| ATATGTGGGGCATGTTATGA+AGG | - | chr3.4:71151919-71151938 | MS.gene031903:CDS | 40.0% | |
| CAAATGGTTCTCCTATTTCG+CGG | - | chr3.4:71152007-71152026 | MS.gene031903:CDS | 40.0% | |
| CCACATATTGTATTCCTTGG+AGG | + | chr3.4:71151907-71151926 | None:intergenic | 40.0% | |
| CCTCCAAGGAATACAATATG+TGG | - | chr3.4:71151904-71151923 | MS.gene031903:CDS | 40.0% | |
| GATTTATGAGCAGGTATAGG+TGG | + | chr3.4:71152304-71152323 | None:intergenic | 40.0% | |
| TTCTGTCTCACGATTGATCT+CGG | - | chr3.4:71152476-71152495 | MS.gene031903:intron | 40.0% | |
| TTGATAAGTCCAGGCAATCT+TGG | - | chr3.4:71152277-71152296 | MS.gene031903:CDS | 40.0% | |
| ! | ACCAAAACGGATTTATGAGC+AGG | + | chr3.4:71152313-71152332 | None:intergenic | 40.0% |
| ! | ACCTGCTCATAAATCCGTTT+TGG | - | chr3.4:71152309-71152328 | MS.gene031903:intron | 40.0% |
| ! | CAAGATTTGGCTTATCTCAG+AGG | - | chr3.4:71152214-71152233 | MS.gene031903:CDS | 40.0% |
| CAATCATCAAGTGTCTGCAG+AGG | + | chr3.4:71152148-71152167 | None:intergenic | 45.0% | |
| CGCGAAATAGGAGAACCATT+TGG | + | chr3.4:71152009-71152028 | None:intergenic | 45.0% | |
| CTTATCAGCTGCTTGTGACA+AGG | + | chr3.4:71152931-71152950 | None:intergenic | 45.0% | |
| GCCCCACATATTGTATTCCT+TGG | + | chr3.4:71151910-71151929 | None:intergenic | 45.0% | |
| GGGCATGTTATGAAGGAGTT+AGG | - | chr3.4:71151926-71151945 | MS.gene031903:CDS | 45.0% | |
| !!! | AAATTTTAAATATTAAAGAA+TGG | + | chr3.4:71152372-71152391 | None:intergenic | 5.0% |
| ATAGGTGGACCAAGATTGCC+TGG | + | chr3.4:71152289-71152308 | None:intergenic | 50.0% | |
| CTACAGTGGGACATTGCCTT+TGG | - | chr3.4:71152881-71152900 | MS.gene031903:CDS | 50.0% | |
| CTCGAATTTCGCCGCGAAAT+AGG | + | chr3.4:71152021-71152040 | None:intergenic | 50.0% | |
| TTCGCGGCGAAATTCGAGTA+AGG | - | chr3.4:71152023-71152042 | MS.gene031903:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 71151862 | 71153217 | 71151862 | ID=MS.gene031903 |
| chr3.4 | mRNA | 71151862 | 71153217 | 71151862 | ID=MS.gene031903.t1;Parent=MS.gene031903 |
| chr3.4 | exon | 71153002 | 71153217 | 71153002 | ID=MS.gene031903.t1.exon1;Parent=MS.gene031903.t1 |
| chr3.4 | CDS | 71153002 | 71153217 | 71153002 | ID=cds.MS.gene031903.t1;Parent=MS.gene031903.t1 |
| chr3.4 | exon | 71152749 | 71152925 | 71152749 | ID=MS.gene031903.t1.exon2;Parent=MS.gene031903.t1 |
| chr3.4 | CDS | 71152749 | 71152925 | 71152749 | ID=cds.MS.gene031903.t1;Parent=MS.gene031903.t1 |
| chr3.4 | exon | 71151862 | 71152323 | 71151862 | ID=MS.gene031903.t1.exon3;Parent=MS.gene031903.t1 |
| chr3.4 | CDS | 71151862 | 71152323 | 71151862 | ID=cds.MS.gene031903.t1;Parent=MS.gene031903.t1 |
| Gene Sequence |
| Protein sequence |
