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.gene49166.t1 | XP_003592178.1 | 87.1 | 334 | 15 | 6 | 1 | 327 | 1 | 313 | 3.60E-144 | 521.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49166.t1 | Q9FLX4 | 31.6 | 323 | 155 | 12 | 1 | 307 | 1 | 273 | 2.8e-20 | 100.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49166.t1 | G7IDX6 | 87.1 | 334 | 15 | 6 | 1 | 327 | 1 | 313 | 2.6e-144 | 521.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050119 | MS.gene49166 | 0.800142 | 1.66E-48 | -1.69E-46 |
| MS.gene052611 | MS.gene49166 | 0.804012 | 2.65E-49 | -1.69E-46 |
| MS.gene055358 | MS.gene49166 | 0.800619 | 1.32E-48 | -1.69E-46 |
| MS.gene057060 | MS.gene49166 | 0.809396 | 1.93E-50 | -1.69E-46 |
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.gene49166.t1 | MTR_1g099550 | 87.126 | 334 | 15 | 6 | 1 | 327 | 1 | 313 | 0.0 | 561 |
| MS.gene49166.t1 | MTR_8g099045 | 30.278 | 360 | 164 | 13 | 1 | 297 | 1 | 336 | 4.47e-30 | 117 |
| MS.gene49166.t1 | MTR_5g009870 | 40.000 | 225 | 96 | 12 | 104 | 302 | 159 | 370 | 7.96e-30 | 117 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49166.t1 | AT5G52870 | 33.651 | 315 | 146 | 11 | 1 | 301 | 1 | 266 | 1.09e-33 | 125 |
| MS.gene49166.t1 | AT5G52870 | 33.651 | 315 | 146 | 11 | 1 | 301 | 1 | 266 | 1.36e-33 | 126 |
Find 61 sgRNAs with CRISPR-Local
Find 81 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTGAAACTCGCTCTGTTT+TGG | 0.159958 | 1.3:-68584892 | None:intergenic |
| CTTTAAACTTCCTCAAGTTC+TGG | 0.310344 | 1.3:+68584343 | MS.gene49166:CDS |
| GAAACTTTGGTAGCAAAATT+CGG | 0.358487 | 1.3:+68584850 | MS.gene49166:CDS |
| GATTAAGCCTCTTTATGTTA+AGG | 0.375290 | 1.3:+68584941 | MS.gene49166:CDS |
| TTTGTTGTCGAAATCATTCA+TGG | 0.384507 | 1.3:-68584466 | None:intergenic |
| TTCGAAACCTTAACATAAAG+AGG | 0.384723 | 1.3:-68584948 | None:intergenic |
| CACCGGCGGTTGGCTCTTTG+AGG | 0.387789 | 1.3:+68585036 | MS.gene49166:CDS |
| GAAAGTGGTGACGAAGCATT+TGG | 0.391796 | 1.3:+68585091 | MS.gene49166:CDS |
| ATTAGTTTCAGCTTTCTCAT+AGG | 0.416256 | 1.3:-68584541 | None:intergenic |
| ATGGATGTTGTTGGTGGTGA+TGG | 0.423562 | 1.3:+68585356 | MS.gene49166:CDS |
| GAGCTTGTTCTCCGGCGAAC+AGG | 0.426734 | 1.3:+68585144 | MS.gene49166:CDS |
| TTCAGAAAACAGAGAAGAAC+TGG | 0.432309 | 1.3:+68584702 | MS.gene49166:CDS |
| GGTAGCAAAATTCGGAATCA+AGG | 0.437082 | 1.3:+68584858 | MS.gene49166:CDS |
| GATTCTTCAATGGATGTTGT+TGG | 0.446904 | 1.3:+68585347 | MS.gene49166:intron |
| AGGTCGTCGGGTACGGTGGC+CGG | 0.454518 | 1.3:+68585122 | MS.gene49166:CDS |
| GAGAACAGCACAAGAAACTT+TGG | 0.457374 | 1.3:+68584837 | MS.gene49166:CDS |
| TGCTGATCTTAGAAGTGAAA+TGG | 0.459585 | 1.3:-68584658 | None:intergenic |
| TTCGAAGAGGTATGGTGATA+AGG | 0.470661 | 1.3:+68584965 | MS.gene49166:CDS |
| TGCTTCGCCGTCGTCGTCAC+CGG | 0.472585 | 1.3:+68585019 | MS.gene49166:CDS |
| TAAGAGTAGGTCGTCGGGTA+CGG | 0.475412 | 1.3:+68585115 | MS.gene49166:CDS |
| GTTAAGGTTTCGAAGAGGTA+TGG | 0.486790 | 1.3:+68584957 | MS.gene49166:CDS |
| ATAGGTTCGTTTGGAGACAT+AGG | 0.497979 | 1.3:-68584585 | None:intergenic |
| GGTGATAAGGTGAAATTCTC+CGG | 0.500103 | 1.3:+68584978 | MS.gene49166:CDS |
| TCTCTACTAAGCATTGGAGT+TGG | 0.501297 | 1.3:-68584816 | None:intergenic |
| CTGTTCTCTCTACTAAGCAT+TGG | 0.523196 | 1.3:-68584822 | None:intergenic |
| GTCACCACTTTCATCCCAGC+CGG | 0.525414 | 1.3:-68585080 | None:intergenic |
| AAAGTGGTGACGAAGCATTT+GGG | 0.526267 | 1.3:+68585092 | MS.gene49166:CDS |
| AAGATGAGGAACAGTGATGT+TGG | 0.527025 | 1.3:-68584385 | None:intergenic |
| GAGGAAGTTTAAAGCATCCA+TGG | 0.529668 | 1.3:-68584334 | None:intergenic |
| TTGGACATGTGGGTCGTCGT+TGG | 0.532511 | 1.3:-68584490 | None:intergenic |
| AGCTACCGTCATCCCCTCGC+CGG | 0.534216 | 1.3:-68584997 | None:intergenic |
| CAAAACAGAGCGAGTTTCAA+AGG | 0.536455 | 1.3:+68584893 | MS.gene49166:CDS |
| TGTTGTTCTTCCAGAACTTG+AGG | 0.537675 | 1.3:-68584353 | None:intergenic |
| TTGGGTAAGAGTAGGTCGTC+GGG | 0.544095 | 1.3:+68585110 | MS.gene49166:CDS |
| CCGTCGTCGTCACCGGCGGT+TGG | 0.545238 | 1.3:+68585026 | MS.gene49166:CDS |
| AAGGTGAAATTCTCCGGCGA+GGG | 0.550532 | 1.3:+68584984 | MS.gene49166:CDS |
| AAGGTAAAGATTCTGAAACT+TGG | 0.555444 | 1.3:-68584681 | None:intergenic |
| TTCCTCAAAGAGCCAACCGC+CGG | 0.558224 | 1.3:-68585038 | None:intergenic |
| AGAAGTGAAATGGGTGATTG+TGG | 0.566819 | 1.3:-68584648 | None:intergenic |
| GGTGGCCGGAGCTTGTTCTC+CGG | 0.566890 | 1.3:+68585136 | MS.gene49166:CDS |
| ATTCTCCGGCGAGGGGATGA+CGG | 0.568736 | 1.3:+68584992 | MS.gene49166:CDS |
| GCTGATCTTAGAAGTGAAAT+GGG | 0.571175 | 1.3:-68584657 | None:intergenic |
| CGAAGCATTTGGGTAAGAGT+AGG | 0.585768 | 1.3:+68585102 | MS.gene49166:CDS |
| TTTGGGTAAGAGTAGGTCGT+CGG | 0.592489 | 1.3:+68585109 | MS.gene49166:CDS |
| ACGCTGTTGCAGCAACATGA+TGG | 0.598349 | 1.3:+68585176 | MS.gene49166:CDS |
| GTATCATCACTCCTGTTCGC+CGG | 0.598908 | 1.3:-68585155 | None:intergenic |
| TCTTCAATGGATGTTGTTGG+TGG | 0.599000 | 1.3:+68585350 | MS.gene49166:CDS |
| GTTCGCCGGAGAACAAGCTC+CGG | 0.605965 | 1.3:-68585141 | None:intergenic |
| TTCGCCGTCGTCGTCACCGG+CGG | 0.615008 | 1.3:+68585022 | MS.gene49166:CDS |
| GAGTAGGTCGTCGGGTACGG+TGG | 0.623063 | 1.3:+68585118 | MS.gene49166:CDS |
| CCAACCGCCGGTGACGACGA+CGG | 0.626873 | 1.3:-68585026 | None:intergenic |
| CTTTGAGGAAAGAGAAACAC+GGG | 0.634887 | 1.3:+68585051 | MS.gene49166:CDS |
| TCTGTTTCTACAACAAGATG+AGG | 0.645146 | 1.3:-68584399 | None:intergenic |
| AAGAGATCCTTCAATTCCAG+AGG | 0.646564 | 1.3:+68585224 | MS.gene49166:CDS |
| AGGTGAAATTCTCCGGCGAG+GGG | 0.653189 | 1.3:+68584985 | MS.gene49166:CDS |
| GAATCAGAAGAAAGAAACCA+AGG | 0.653413 | 1.3:+68584749 | MS.gene49166:CDS |
| TAAGGTGAAATTCTCCGGCG+AGG | 0.664840 | 1.3:+68584983 | MS.gene49166:CDS |
| ATGAGGAACAGTGATGTTGG+AGG | 0.666650 | 1.3:-68584382 | None:intergenic |
| TTTATGTTAAGGTTTCGAAG+AGG | 0.679040 | 1.3:+68584952 | MS.gene49166:CDS |
| AATTCGGAATCAAGGAACAG+AGG | 0.681760 | 1.3:+68584866 | MS.gene49166:CDS |
| TCTTTGAGGAAAGAGAAACA+CGG | 0.735127 | 1.3:+68585050 | MS.gene49166:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATTTTCAGATTCTTCAA+TGG | + | chr1.3:68585337-68585356 | MS.gene49166:intron | 20.0% |
| !! | TTCAACAAGAAATTCTTTTG+AGG | + | chr1.3:68585388-68585407 | MS.gene49166:CDS | 25.0% |
| GATTAAGCCTCTTTATGTTA+AGG | + | chr1.3:68584941-68584960 | MS.gene49166:CDS | 30.0% | |
| TAGTTTCACAGAAAAAACCT+TGG | - | chr1.3:68584769-68584788 | None:intergenic | 30.0% | |
| TTCGAAACCTTAACATAAAG+AGG | - | chr1.3:68584951-68584970 | None:intergenic | 30.0% | |
| TTTATGTTAAGGTTTCGAAG+AGG | + | chr1.3:68584952-68584971 | MS.gene49166:CDS | 30.0% | |
| ! | ATTAGTTTCAGCTTTCTCAT+AGG | - | chr1.3:68584544-68584563 | None:intergenic | 30.0% |
| ! | GAAACTTTGGTAGCAAAATT+CGG | + | chr1.3:68584850-68584869 | MS.gene49166:CDS | 30.0% |
| ! | GTTTTCTGTTTTGTGAGTTT+TGG | - | chr1.3:68584517-68584536 | None:intergenic | 30.0% |
| ! | TGTGAAACAAATTTTACCTC+TGG | - | chr1.3:68585243-68585262 | None:intergenic | 30.0% |
| ! | TTTGTTGTCGAAATCATTCA+TGG | - | chr1.3:68584469-68584488 | None:intergenic | 30.0% |
| !! | AAGGTAAAGATTCTGAAACT+TGG | - | chr1.3:68584684-68584703 | None:intergenic | 30.0% |
| !!! | AATTTTACCTCTGGAATTGA+AGG | - | chr1.3:68585234-68585253 | None:intergenic | 30.0% |
| !!! | AGCACTTTTCTTTTTGAGAT+AGG | - | chr1.3:68584606-68584625 | None:intergenic | 30.0% |
| !!! | ATAGGAAGTGTTGTTTTTTG+AGG | - | chr1.3:68584570-68584589 | None:intergenic | 30.0% |
| CTTTAAACTTCCTCAAGTTC+TGG | + | chr1.3:68584343-68584362 | MS.gene49166:CDS | 35.0% | |
| GAATCAGAAGAAAGAAACCA+AGG | + | chr1.3:68584749-68584768 | MS.gene49166:CDS | 35.0% | |
| GATTCTTCAATGGATGTTGT+TGG | + | chr1.3:68585347-68585366 | MS.gene49166:intron | 35.0% | |
| GCTGATCTTAGAAGTGAAAT+GGG | - | chr1.3:68584660-68584679 | None:intergenic | 35.0% | |
| TGCTGATCTTAGAAGTGAAA+TGG | - | chr1.3:68584661-68584680 | None:intergenic | 35.0% | |
| TTCAGAAAACAGAGAAGAAC+TGG | + | chr1.3:68584702-68584721 | MS.gene49166:CDS | 35.0% | |
| ! | AGTTCTTCTCTGTTTTCTGA+AGG | - | chr1.3:68584703-68584722 | None:intergenic | 35.0% |
| ! | TCTTTGAGGAAAGAGAAACA+CGG | + | chr1.3:68585050-68585069 | MS.gene49166:CDS | 35.0% |
| !! | TCTGTTTCTACAACAAGATG+AGG | - | chr1.3:68584402-68584421 | None:intergenic | 35.0% |
| !! | TTTGAAACTCGCTCTGTTTT+GGG | - | chr1.3:68584894-68584913 | None:intergenic | 35.0% |
| !!! | CTGTTTTGTGAGTTTTGGTT+TGG | - | chr1.3:68584512-68584531 | None:intergenic | 35.0% |
| !!! | CTTTTTGAGATAGGTTCGTT+TGG | - | chr1.3:68584597-68584616 | None:intergenic | 35.0% |
| !!! | GGTGATTGTGGTTTTGAAAT+GGG | - | chr1.3:68584639-68584658 | None:intergenic | 35.0% |
| !!! | GGTTTTGAAATGGGTTCAAT+TGG | - | chr1.3:68584630-68584649 | None:intergenic | 35.0% |
| AAGAGATCCTTCAATTCCAG+AGG | + | chr1.3:68585224-68585243 | MS.gene49166:CDS | 40.0% | |
| AAGATGAGGAACAGTGATGT+TGG | - | chr1.3:68584388-68584407 | None:intergenic | 40.0% | |
| AATTCGGAATCAAGGAACAG+AGG | + | chr1.3:68584866-68584885 | MS.gene49166:CDS | 40.0% | |
| AGAAGTGAAATGGGTGATTG+TGG | - | chr1.3:68584651-68584670 | None:intergenic | 40.0% | |
| ATAGGTTCGTTTGGAGACAT+AGG | - | chr1.3:68584588-68584607 | None:intergenic | 40.0% | |
| CAAAACAGAGCGAGTTTCAA+AGG | + | chr1.3:68584893-68584912 | MS.gene49166:CDS | 40.0% | |
| CTGTTCTCTCTACTAAGCAT+TGG | - | chr1.3:68584825-68584844 | None:intergenic | 40.0% | |
| GAGAACAGCACAAGAAACTT+TGG | + | chr1.3:68584837-68584856 | MS.gene49166:CDS | 40.0% | |
| GGTAGCAAAATTCGGAATCA+AGG | + | chr1.3:68584858-68584877 | MS.gene49166:CDS | 40.0% | |
| GGTGATAAGGTGAAATTCTC+CGG | + | chr1.3:68584978-68584997 | MS.gene49166:CDS | 40.0% | |
| GTTAAGGTTTCGAAGAGGTA+TGG | + | chr1.3:68584957-68584976 | MS.gene49166:CDS | 40.0% | |
| TCTTCAATGGATGTTGTTGG+TGG | + | chr1.3:68585350-68585369 | MS.gene49166:CDS | 40.0% | |
| TGTTGTTCTTCCAGAACTTG+AGG | - | chr1.3:68584356-68584375 | None:intergenic | 40.0% | |
| ! | AAAGTGGTGACGAAGCATTT+GGG | + | chr1.3:68585092-68585111 | MS.gene49166:CDS | 40.0% |
| ! | CTTTGAGGAAAGAGAAACAC+GGG | + | chr1.3:68585051-68585070 | MS.gene49166:CDS | 40.0% |
| ! | TTCGAAGAGGTATGGTGATA+AGG | + | chr1.3:68584965-68584984 | MS.gene49166:CDS | 40.0% |
| !! | TCTCTACTAAGCATTGGAGT+TGG | - | chr1.3:68584819-68584838 | None:intergenic | 40.0% |
| !!! | CTTTGAAACTCGCTCTGTTT+TGG | - | chr1.3:68584895-68584914 | None:intergenic | 40.0% |
| !!! | GAGTTTTGGTTTGGACATGT+GGG | - | chr1.3:68584503-68584522 | None:intergenic | 40.0% |
| !!! | GGGTGATTGTGGTTTTGAAA+TGG | - | chr1.3:68584640-68584659 | None:intergenic | 40.0% |
| !!! | TGAGTTTTGGTTTGGACATG+TGG | - | chr1.3:68584504-68584523 | None:intergenic | 40.0% |
| ATGAGGAACAGTGATGTTGG+AGG | - | chr1.3:68584385-68584404 | None:intergenic | 45.0% | |
| TTTGGGTAAGAGTAGGTCGT+CGG | + | chr1.3:68585109-68585128 | MS.gene49166:CDS | 45.0% | |
| ! | AGAGAAACACGGGAGTTTTC+CGG | + | chr1.3:68585061-68585080 | MS.gene49166:CDS | 45.0% |
| ! | CGAAGCATTTGGGTAAGAGT+AGG | + | chr1.3:68585102-68585121 | MS.gene49166:CDS | 45.0% |
| ! | GAAAGTGGTGACGAAGCATT+TGG | + | chr1.3:68585091-68585110 | MS.gene49166:CDS | 45.0% |
| !! | ATGGATGTTGTTGGTGGTGA+TGG | + | chr1.3:68585356-68585375 | MS.gene49166:CDS | 45.0% |
| AAGGTGAAATTCTCCGGCGA+GGG | + | chr1.3:68584984-68585003 | MS.gene49166:CDS | 50.0% | |
| ACGCTGTTGCAGCAACATGA+TGG | + | chr1.3:68585176-68585195 | MS.gene49166:CDS | 50.0% | |
| GTATCATCACTCCTGTTCGC+CGG | - | chr1.3:68585158-68585177 | None:intergenic | 50.0% | |
| TAAGAGTAGGTCGTCGGGTA+CGG | + | chr1.3:68585115-68585134 | MS.gene49166:CDS | 50.0% | |
| TAAGGTGAAATTCTCCGGCG+AGG | + | chr1.3:68584983-68585002 | MS.gene49166:CDS | 50.0% | |
| TTGGGTAAGAGTAGGTCGTC+GGG | + | chr1.3:68585110-68585129 | MS.gene49166:CDS | 50.0% | |
| ! | TTTTCCGGCTGGGATGAAAG+TGG | + | chr1.3:68585076-68585095 | MS.gene49166:CDS | 50.0% |
| AGGTGAAATTCTCCGGCGAG+GGG | + | chr1.3:68584985-68585004 | MS.gene49166:CDS | 55.0% | |
| GTCACCACTTTCATCCCAGC+CGG | - | chr1.3:68585083-68585102 | None:intergenic | 55.0% | |
| TTCCTCAAAGAGCCAACCGC+CGG | - | chr1.3:68585041-68585060 | None:intergenic | 55.0% | |
| TTGGACATGTGGGTCGTCGT+TGG | - | chr1.3:68584493-68584512 | None:intergenic | 55.0% | |
| ! | AAACACGGGAGTTTTCCGGC+TGG | + | chr1.3:68585065-68585084 | MS.gene49166:CDS | 55.0% |
| ! | AACACGGGAGTTTTCCGGCT+GGG | + | chr1.3:68585066-68585085 | MS.gene49166:CDS | 55.0% |
| ATTCTCCGGCGAGGGGATGA+CGG | + | chr1.3:68584992-68585011 | MS.gene49166:CDS | 60.0% | |
| GTTCGCCGGAGAACAAGCTC+CGG | - | chr1.3:68585144-68585163 | None:intergenic | 60.0% | |
| ! | GAGCTTGTTCTCCGGCGAAC+AGG | + | chr1.3:68585144-68585163 | MS.gene49166:CDS | 60.0% |
| AGCTACCGTCATCCCCTCGC+CGG | - | chr1.3:68585000-68585019 | None:intergenic | 65.0% | |
| GAGTAGGTCGTCGGGTACGG+TGG | + | chr1.3:68585118-68585137 | MS.gene49166:CDS | 65.0% | |
| TGCTTCGCCGTCGTCGTCAC+CGG | + | chr1.3:68585019-68585038 | MS.gene49166:CDS | 65.0% | |
| ! | CACCGGCGGTTGGCTCTTTG+AGG | + | chr1.3:68585036-68585055 | MS.gene49166:CDS | 65.0% |
| ! | GGTGGCCGGAGCTTGTTCTC+CGG | + | chr1.3:68585136-68585155 | MS.gene49166:CDS | 65.0% |
| AGGTCGTCGGGTACGGTGGC+CGG | + | chr1.3:68585122-68585141 | MS.gene49166:CDS | 70.0% | |
| CCAACCGCCGGTGACGACGA+CGG | - | chr1.3:68585029-68585048 | None:intergenic | 70.0% | |
| TTCGCCGTCGTCGTCACCGG+CGG | + | chr1.3:68585022-68585041 | MS.gene49166:CDS | 70.0% | |
| CCGTCGTCGTCACCGGCGGT+TGG | + | chr1.3:68585026-68585045 | MS.gene49166:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 68584336 | 68585421 | 68584336 | ID=MS.gene49166 |
| chr1.3 | mRNA | 68584336 | 68585421 | 68584336 | ID=MS.gene49166.t1;Parent=MS.gene49166 |
| chr1.3 | exon | 68584336 | 68585245 | 68584336 | ID=MS.gene49166.t1.exon1;Parent=MS.gene49166.t1 |
| chr1.3 | CDS | 68584336 | 68585245 | 68584336 | ID=cds.MS.gene49166.t1;Parent=MS.gene49166.t1 |
| chr1.3 | exon | 68585348 | 68585421 | 68585348 | ID=MS.gene49166.t1.exon2;Parent=MS.gene49166.t1 |
| chr1.3 | CDS | 68585348 | 68585421 | 68585348 | ID=cds.MS.gene49166.t1;Parent=MS.gene49166.t1 |
| Gene Sequence |
| Protein sequence |
