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.gene66354.t1 | XP_013453212.1 | 99.5 | 191 | 1 | 0 | 1 | 191 | 30 | 220 | 1.70E-61 | 245.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene66354.t1 | O82197 | 91.8 | 134 | 10 | 1 | 1 | 134 | 29 | 161 | 4.8e-57 | 222.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene66354.t1 | I3SEH2 | 99.5 | 191 | 1 | 0 | 1 | 191 | 30 | 220 | 1.2e-61 | 245.7 |
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.gene66354 | MS.gene06372 | PPI |
| MS.gene013289 | MS.gene66354 | PPI |
| MS.gene049254 | MS.gene66354 | PPI |
| MS.gene40918 | MS.gene66354 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene66354.t1 | MTR_6g090515 | 96.335 | 191 | 7 | 0 | 1 | 191 | 30 | 220 | 1.69e-130 | 365 |
| MS.gene66354.t1 | MTR_8g102030 | 85.864 | 191 | 25 | 2 | 1 | 191 | 34 | 222 | 1.34e-93 | 272 |
| MS.gene66354.t1 | MTR_8g102020 | 72.775 | 191 | 35 | 2 | 1 | 191 | 32 | 205 | 1.37e-71 | 216 |
| MS.gene66354.t1 | MTR_1g090490 | 30.000 | 180 | 107 | 4 | 4 | 165 | 36 | 214 | 3.34e-13 | 65.9 |
| MS.gene66354.t1 | MTR_1g090490 | 30.000 | 180 | 107 | 4 | 4 | 165 | 36 | 214 | 3.43e-13 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene66354.t1 | AT2G19830 | 83.854 | 192 | 23 | 3 | 1 | 191 | 10 | 194 | 1.71e-97 | 281 |
| MS.gene66354.t1 | AT2G19830 | 83.854 | 192 | 23 | 3 | 1 | 191 | 29 | 213 | 3.00e-97 | 281 |
| MS.gene66354.t1 | AT4G29160 | 86.667 | 180 | 23 | 1 | 13 | 191 | 13 | 192 | 3.21e-96 | 277 |
| MS.gene66354.t1 | AT4G29160 | 86.667 | 180 | 23 | 1 | 13 | 191 | 40 | 219 | 1.03e-95 | 277 |
| MS.gene66354.t1 | AT4G29160 | 86.667 | 180 | 23 | 1 | 13 | 191 | 40 | 219 | 1.03e-95 | 277 |
| MS.gene66354.t1 | AT5G04850 | 30.935 | 139 | 88 | 1 | 10 | 140 | 35 | 173 | 3.02e-12 | 63.5 |
| MS.gene66354.t1 | AT3G10640 | 30.220 | 182 | 101 | 4 | 10 | 165 | 35 | 216 | 1.01e-11 | 62.0 |
| MS.gene66354.t1 | AT3G10640 | 30.488 | 164 | 93 | 4 | 33 | 175 | 1 | 164 | 6.22e-11 | 58.9 |
| MS.gene66354.t1 | AT5G09260 | 31.250 | 144 | 94 | 2 | 15 | 157 | 41 | 180 | 8.70e-11 | 59.3 |
Find 44 sgRNAs with CRISPR-Local
Find 81 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTAGAAATGCTTGAGAAAA+AGG | 0.221659 | 6.4:-62998635 | None:intergenic |
| TCCTCAGGAGTCGGCTTTGC+AGG | 0.229972 | 6.4:+62997321 | None:intergenic |
| TTGAATCTGCTTCATGTTCT+CGG | 0.295683 | 6.4:+62998010 | None:intergenic |
| GGAAAATGTACTCCTTAAAA+AGG | 0.296574 | 6.4:-62998614 | MS.gene66354:CDS |
| CACCAAAAGAAAGAACAAAA+AGG | 0.308755 | 6.4:-62998560 | MS.gene66354:CDS |
| AGATGAATTGGCAGCTTTGC+AGG | 0.311410 | 6.4:-62997298 | MS.gene66354:CDS |
| GGAAGCAGAACTTGAAGAAT+TGG | 0.342673 | 6.4:-62997442 | MS.gene66354:CDS |
| CGTGCAGGTTGCCTCCCAGC+TGG | 0.353565 | 6.4:+62997351 | None:intergenic |
| CCCACAGTGCACGTCCCAGC+TGG | 0.353629 | 6.4:-62997366 | MS.gene66354:CDS |
| AAATCAGCAGCTGCGCCAAT+TGG | 0.388496 | 6.4:+62997972 | None:intergenic |
| GGAGTCGGCTTTGCAGGAAC+AGG | 0.397015 | 6.4:+62997327 | None:intergenic |
| GACTCCTGAGGAAGATGAAT+TGG | 0.412289 | 6.4:-62997310 | MS.gene66354:CDS |
| TTGTTCTTTACAGGATGAAC+TGG | 0.425074 | 6.4:-62997463 | MS.gene66354:intron |
| GGAGCAGGAGCTGTAGTTGC+TGG | 0.442696 | 6.4:+62997387 | None:intergenic |
| TAATAGATGATAATGTTAGA+AGG | 0.453601 | 6.4:-62998260 | MS.gene66354:intron |
| CCAGTTGCGTATTCATGACC+AGG | 0.454482 | 6.4:-62998367 | MS.gene66354:intron |
| GCAGATTCAAGAAGCATTGT+CGG | 0.464581 | 6.4:-62997997 | MS.gene66354:CDS |
| AGAATTGGAGAGTGCTGAGT+TGG | 0.466125 | 6.4:-62997427 | MS.gene66354:CDS |
| TTCAATGTTTGAAGAGGAAG+AGG | 0.475427 | 6.4:-62998425 | MS.gene66354:CDS |
| ACGGTAGATGCATTAAGAAC+AGG | 0.475441 | 6.4:-62998218 | MS.gene66354:CDS |
| CCAGCTGGGACGTGCACTGT+GGG | 0.476274 | 6.4:+62997366 | None:intergenic |
| TGCTAAAGCCACCACGGAAA+CGG | 0.478535 | 6.4:-62998237 | MS.gene66354:CDS |
| GGGACGTGCACTGTGGGAGC+AGG | 0.480823 | 6.4:+62997372 | None:intergenic |
| CCTGGTCATGAATACGCAAC+TGG | 0.481018 | 6.4:+62998367 | None:intergenic |
| GAAGCATTGTCGGCTCCAAT+TGG | 0.482599 | 6.4:-62997987 | MS.gene66354:CDS |
| TTTGCAGGAACAGGGCGTGC+AGG | 0.497715 | 6.4:+62997336 | None:intergenic |
| CTGTTCATTTATCTCGTCCA+TGG | 0.501356 | 6.4:+62998034 | None:intergenic |
| GGCAGCTTTGCAGGCCGAGA+TGG | 0.501629 | 6.4:-62997289 | MS.gene66354:CDS |
| GTGCAGGTTGCCTCCCAGCT+GGG | 0.526011 | 6.4:+62997352 | None:intergenic |
| GCTGCCAATTCATCTTCCTC+AGG | 0.526016 | 6.4:+62997306 | None:intergenic |
| TGCATCTACCGTTTCCGTGG+TGG | 0.528353 | 6.4:+62998229 | None:intergenic |
| AATTCATCTTCCTCAGGAGT+CGG | 0.548839 | 6.4:+62997312 | None:intergenic |
| CCACAGTGCACGTCCCAGCT+GGG | 0.553286 | 6.4:-62997365 | MS.gene66354:CDS |
| CGGCAATTCAATGTTTGAAG+AGG | 0.561917 | 6.4:-62998431 | MS.gene66354:CDS |
| AACAGGAGCAGCTACTATGA+AGG | 0.577122 | 6.4:-62998201 | MS.gene66354:CDS |
| ACCCGCTCAAAGTGCCATCT+CGG | 0.577280 | 6.4:+62997275 | None:intergenic |
| TAATGCATCTACCGTTTCCG+TGG | 0.578301 | 6.4:+62998226 | None:intergenic |
| CCCAGCTGGGACGTGCACTG+TGG | 0.592771 | 6.4:+62997365 | None:intergenic |
| GAACAACAAGTTGAGCAGCT+TGG | 0.596454 | 6.4:-62998396 | MS.gene66354:CDS |
| GAGTCGGCTTTGCAGGAACA+GGG | 0.596697 | 6.4:+62997328 | None:intergenic |
| TCCTGCAAAGCCGACTCCTG+AGG | 0.597589 | 6.4:-62997322 | MS.gene66354:CDS |
| TGATGACGTCGACAAGACCA+TGG | 0.612646 | 6.4:-62998051 | MS.gene66354:CDS |
| CAGTGCACGTCCCAGCTGGG+AGG | 0.680562 | 6.4:-62997362 | MS.gene66354:CDS |
| AGAAGGTGCTAAAGCCACCA+CGG | 0.700426 | 6.4:-62998243 | MS.gene66354:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATGTTTATTTATTTATGT+TGG | - | chr6.4:62997978-62997997 | MS.gene66354:CDS | 10.0% |
| !! | ATGATTTATTTAATTGAGTT+TGG | - | chr6.4:62997811-62997830 | MS.gene66354:intron | 15.0% |
| !!! | TCATTTTCTTAAAATATGAT+TGG | + | chr6.4:62998302-62998321 | None:intergenic | 15.0% |
| !! | TTGATTACGTAAAAAAAATG+AGG | + | chr6.4:62998144-62998163 | None:intergenic | 20.0% |
| !!! | TAATAGATGATAATGTTAGA+AGG | - | chr6.4:62997649-62997668 | MS.gene66354:intron | 20.0% |
| !!! | TTTAGTTTTAGTTTAGACAA+TGG | - | chr6.4:62997581-62997600 | MS.gene66354:intron | 20.0% |
| ! | AATAAATTCAGAATGCTACA+AGG | + | chr6.4:62998428-62998447 | None:intergenic | 25.0% |
| ! | ACCAAAAGAAAGAACAAAAA+GGG | - | chr6.4:62997350-62997369 | MS.gene66354:CDS | 25.0% |
| ! | CTGAATTTATTGTTCTTTAC+AGG | - | chr6.4:62998437-62998456 | MS.gene66354:intron | 25.0% |
| ! | TTCAGACAGATTAAGAAAAA+TGG | - | chr6.4:62998114-62998133 | MS.gene66354:intron | 25.0% |
| ! | TTCTAATTTCACTTAATCCA+TGG | - | chr6.4:62997426-62997445 | MS.gene66354:CDS | 25.0% |
| !! | GTTTGATTATTTGTACCTTT+TGG | - | chr6.4:62998014-62998033 | MS.gene66354:CDS | 25.0% |
| !!! | CTTTTCACTTAACTTTGTTT+TGG | - | chr6.4:62998192-62998211 | MS.gene66354:CDS | 25.0% |
| AAAGAAAGAACAAAAAGGGT+AGG | - | chr6.4:62997354-62997373 | MS.gene66354:CDS | 30.0% | |
| CACCAAAAGAAAGAACAAAA+AGG | - | chr6.4:62997349-62997368 | MS.gene66354:CDS | 30.0% | |
| CTACTCTGGACTTAAAATAT+AGG | + | chr6.4:62998248-62998267 | None:intergenic | 30.0% | |
| GGAAAATGTACTCCTTAAAA+AGG | - | chr6.4:62997295-62997314 | MS.gene66354:CDS | 30.0% | |
| TTGAATGTAACCACATGTAT+CGG | - | chr6.4:62998328-62998347 | MS.gene66354:intron | 30.0% | |
| TTTGTAGATAAGTACTACTC+TGG | + | chr6.4:62998262-62998281 | None:intergenic | 30.0% | |
| ! | ACCCTTTTTGTTCTTTCTTT+TGG | + | chr6.4:62997354-62997373 | None:intergenic | 30.0% |
| !! | CTTTCTTTTGGTGTATTCTT+TGG | + | chr6.4:62997342-62997361 | None:intergenic | 30.0% |
| ATCTACAAAACGCTAATGCA+TGG | - | chr6.4:62998273-62998292 | MS.gene66354:intron | 35.0% | |
| CAGCATTATACACAACCAAA+AGG | + | chr6.4:62998032-62998051 | None:intergenic | 35.0% | |
| TTCAATGTTTGAAGAGGAAG+AGG | - | chr6.4:62997484-62997503 | MS.gene66354:intron | 35.0% | |
| TTGAATCTGCTTCATGTTCT+CGG | + | chr6.4:62997902-62997921 | None:intergenic | 35.0% | |
| TTGTTCTTTACAGGATGAAC+TGG | - | chr6.4:62998446-62998465 | MS.gene66354:intron | 35.0% | |
| ! | AAACTCTGAAGAACAAGTAG+AGG | + | chr6.4:62997399-62997418 | None:intergenic | 35.0% |
| ! | ATGTGTTCAATCTGAAGTGT+TGG | - | chr6.4:62998378-62998397 | MS.gene66354:CDS | 35.0% |
| ! | TAATCTTCTTTTGCGTCTTC+TGG | - | chr6.4:62997614-62997633 | MS.gene66354:intron | 35.0% |
| !!! | TGAGTTTTTGTTTTACGCAG+CGG | - | chr6.4:62997458-62997477 | MS.gene66354:intron | 35.0% |
| AAAACTCAAGTCACGTTCCA+TGG | + | chr6.4:62997446-62997465 | None:intergenic | 40.0% | |
| AATTCATCTTCCTCAGGAGT+CGG | + | chr6.4:62998600-62998619 | None:intergenic | 40.0% | |
| ACGGTAGATGCATTAAGAAC+AGG | - | chr6.4:62997691-62997710 | MS.gene66354:intron | 40.0% | |
| CGGCAATTCAATGTTTGAAG+AGG | - | chr6.4:62997478-62997497 | MS.gene66354:intron | 40.0% | |
| CTGTTCATTTATCTCGTCCA+TGG | + | chr6.4:62997878-62997897 | None:intergenic | 40.0% | |
| GGAAGCAGAACTTGAAGAAT+TGG | - | chr6.4:62998467-62998486 | MS.gene66354:intron | 40.0% | |
| TGTACTCCTTAAAAAGGCCA+CGG | - | chr6.4:62997301-62997320 | MS.gene66354:CDS | 40.0% | |
| !! | GCAGATTCAAGAAGCATTGT+CGG | - | chr6.4:62997912-62997931 | MS.gene66354:intron | 40.0% |
| !! | TTGGTTCTGTTTCTTTCTGC+AGG | - | chr6.4:62997830-62997849 | MS.gene66354:intron | 40.0% |
| AACAGGAGCAGCTACTATGA+AGG | - | chr6.4:62997708-62997727 | MS.gene66354:intron | 45.0% | |
| AATACAACTGCGTTCACACC+TGG | + | chr6.4:62997563-62997582 | None:intergenic | 45.0% | |
| AGATGAATTGGCAGCTTTGC+AGG | - | chr6.4:62998611-62998630 | MS.gene66354:CDS | 45.0% | |
| CTGCTGTACAATACTCTCTG+GGG | - | chr6.4:62998049-62998068 | MS.gene66354:CDS | 45.0% | |
| GACTCCTGAGGAAGATGAAT+TGG | - | chr6.4:62998599-62998618 | MS.gene66354:CDS | 45.0% | |
| GCTGCTGTACAATACTCTCT+GGG | - | chr6.4:62998048-62998067 | MS.gene66354:CDS | 45.0% | |
| TAATGCATCTACCGTTTCCG+TGG | + | chr6.4:62997686-62997705 | None:intergenic | 45.0% | |
| TGCTGCTGTACAATACTCTC+TGG | - | chr6.4:62998047-62998066 | MS.gene66354:CDS | 45.0% | |
| ! | GAACAACAAGTTGAGCAGCT+TGG | - | chr6.4:62997513-62997532 | MS.gene66354:intron | 45.0% |
| ! | TCTTCTTTTGCGTCTTCTGG+TGG | - | chr6.4:62997617-62997636 | MS.gene66354:intron | 45.0% |
| !! | AGAATTGGAGAGTGCTGAGT+TGG | - | chr6.4:62998482-62998501 | MS.gene66354:intron | 45.0% |
| !! | CTGAAGTGTTGGTGCTACAT+TGG | - | chr6.4:62998389-62998408 | MS.gene66354:CDS | 45.0% |
| AAATCAGCAGCTGCGCCAAT+TGG | + | chr6.4:62997940-62997959 | None:intergenic | 50.0% | |
| CCAGTTGCGTATTCATGACC+AGG | - | chr6.4:62997542-62997561 | MS.gene66354:intron | 50.0% | |
| CCTGGTCATGAATACGCAAC+TGG | + | chr6.4:62997545-62997564 | None:intergenic | 50.0% | |
| GCTGCCAATTCATCTTCCTC+AGG | + | chr6.4:62998606-62998625 | None:intergenic | 50.0% | |
| TGCTAAAGCCACCACGGAAA+CGG | - | chr6.4:62997672-62997691 | MS.gene66354:intron | 50.0% | |
| ! | CTTCTGCCGTGGCCTTTTTA+AGG | + | chr6.4:62997310-62997329 | None:intergenic | 50.0% |
| ! | TCTTTTGCGTCTTCTGGTGG+TGG | - | chr6.4:62997620-62997639 | MS.gene66354:intron | 50.0% |
| ! | TGATGACGTCGACAAGACCA+TGG | - | chr6.4:62997858-62997877 | MS.gene66354:intron | 50.0% |
| !! | AGAAGGTGCTAAAGCCACCA+CGG | - | chr6.4:62997666-62997685 | MS.gene66354:intron | 50.0% |
| !! | CAGTACAGTGCCGATACATG+TGG | + | chr6.4:62998341-62998360 | None:intergenic | 50.0% |
| !! | GAAGCATTGTCGGCTCCAAT+TGG | - | chr6.4:62997922-62997941 | MS.gene66354:intron | 50.0% |
| !!! | GGCTTTTTCAACTTCTGCCG+TGG | + | chr6.4:62997321-62997340 | None:intergenic | 50.0% |
| ATCGGCACTGTACTGCGTGT+CGG | - | chr6.4:62998346-62998365 | MS.gene66354:intron | 55.0% | |
| TGCATCTACCGTTTCCGTGG+TGG | + | chr6.4:62997683-62997702 | None:intergenic | 55.0% | |
| ! | GAGTCGGCTTTGCAGGAACA+GGG | + | chr6.4:62998584-62998603 | None:intergenic | 55.0% |
| !!! | CGCAGCTGCTGATTTTGACG+AGG | - | chr6.4:62997945-62997964 | MS.gene66354:intron | 55.0% |
| GGAGCAGGAGCTGTAGTTGC+TGG | + | chr6.4:62998525-62998544 | None:intergenic | 60.0% | |
| TTTGCAGGAACAGGGCGTGC+AGG | + | chr6.4:62998576-62998595 | None:intergenic | 60.0% | |
| ! | GGAGTCGGCTTTGCAGGAAC+AGG | + | chr6.4:62998585-62998604 | None:intergenic | 60.0% |
| ! | TCCTCAGGAGTCGGCTTTGC+AGG | + | chr6.4:62998591-62998610 | None:intergenic | 60.0% |
| ! | TCCTGCAAAGCCGACTCCTG+AGG | - | chr6.4:62998587-62998606 | MS.gene66354:CDS | 60.0% |
| CCACAGTGCACGTCCCAGCT+GGG | - | chr6.4:62998544-62998563 | MS.gene66354:intron | 65.0% | |
| CCAGCTGGGACGTGCACTGT+GGG | + | chr6.4:62998546-62998565 | None:intergenic | 65.0% | |
| GGCAGCTTTGCAGGCCGAGA+TGG | - | chr6.4:62998620-62998639 | MS.gene66354:CDS | 65.0% | |
| GTGCAGGTTGCCTCCCAGCT+GGG | + | chr6.4:62998560-62998579 | None:intergenic | 65.0% | |
| CAGTGCACGTCCCAGCTGGG+AGG | - | chr6.4:62998547-62998566 | MS.gene66354:intron | 70.0% | |
| CCCACAGTGCACGTCCCAGC+TGG | - | chr6.4:62998543-62998562 | MS.gene66354:intron | 70.0% | |
| CCCAGCTGGGACGTGCACTG+TGG | + | chr6.4:62998547-62998566 | None:intergenic | 70.0% | |
| CGTGCAGGTTGCCTCCCAGC+TGG | + | chr6.4:62998561-62998580 | None:intergenic | 70.0% | |
| GGGACGTGCACTGTGGGAGC+AGG | + | chr6.4:62998540-62998559 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 62997281 | 62998650 | 62997281 | ID=MS.gene66354 |
| chr6.4 | mRNA | 62997281 | 62998650 | 62997281 | ID=MS.gene66354.t1;Parent=MS.gene66354 |
| chr6.4 | exon | 62998560 | 62998650 | 62998560 | ID=MS.gene66354.t1.exon1;Parent=MS.gene66354.t1 |
| chr6.4 | CDS | 62998560 | 62998650 | 62998560 | ID=cds.MS.gene66354.t1;Parent=MS.gene66354.t1 |
| chr6.4 | exon | 62998368 | 62998453 | 62998368 | ID=MS.gene66354.t1.exon2;Parent=MS.gene66354.t1 |
| chr6.4 | CDS | 62998368 | 62998453 | 62998368 | ID=cds.MS.gene66354.t1;Parent=MS.gene66354.t1 |
| chr6.4 | exon | 62998185 | 62998276 | 62998185 | ID=MS.gene66354.t1.exon3;Parent=MS.gene66354.t1 |
| chr6.4 | CDS | 62998185 | 62998276 | 62998185 | ID=cds.MS.gene66354.t1;Parent=MS.gene66354.t1 |
| chr6.4 | exon | 62997965 | 62998079 | 62997965 | ID=MS.gene66354.t1.exon4;Parent=MS.gene66354.t1 |
| chr6.4 | CDS | 62997965 | 62998079 | 62997965 | ID=cds.MS.gene66354.t1;Parent=MS.gene66354.t1 |
| chr6.4 | exon | 62997281 | 62997472 | 62997281 | ID=MS.gene66354.t1.exon5;Parent=MS.gene66354.t1 |
| chr6.4 | CDS | 62997281 | 62997472 | 62997281 | ID=cds.MS.gene66354.t1;Parent=MS.gene66354.t1 |
| Gene Sequence |
| Protein sequence |
