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.gene031952.t1 | XP_003600927.2 | 98.5 | 262 | 4 | 0 | 1 | 262 | 1 | 262 | 1.40E-135 | 492.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene031952.t1 | Q9XEF0 | 42.9 | 275 | 116 | 8 | 3 | 261 | 1 | 250 | 5.6e-40 | 166.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene031952.t1 | G7JBT8 | 98.5 | 262 | 4 | 0 | 1 | 262 | 1 | 262 | 1.0e-135 | 492.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene031952.t1 | TF | bHLH |
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.gene031952.t1 | MTR_3g070970 | 98.473 | 262 | 4 | 0 | 1 | 262 | 1 | 262 | 0.0 | 531 |
| MS.gene031952.t1 | MTR_1g093750 | 45.503 | 189 | 94 | 3 | 66 | 254 | 151 | 330 | 3.39e-43 | 150 |
| MS.gene031952.t1 | MTR_2g015890 | 41.243 | 177 | 82 | 4 | 73 | 242 | 67 | 228 | 1.38e-28 | 109 |
| MS.gene031952.t1 | MTR_4g079760 | 35.533 | 197 | 106 | 4 | 65 | 254 | 60 | 242 | 4.33e-24 | 97.8 |
| MS.gene031952.t1 | MTR_2g015890 | 46.667 | 120 | 51 | 2 | 73 | 192 | 67 | 173 | 5.35e-24 | 96.7 |
| MS.gene031952.t1 | MTR_2g091190 | 33.880 | 183 | 104 | 4 | 63 | 238 | 49 | 221 | 8.76e-23 | 94.0 |
| MS.gene031952.t1 | MTR_4g087920 | 33.166 | 199 | 113 | 6 | 67 | 255 | 69 | 257 | 1.39e-22 | 94.0 |
| MS.gene031952.t1 | MTR_5g032375 | 35.028 | 177 | 85 | 5 | 73 | 236 | 45 | 204 | 1.07e-19 | 85.1 |
| MS.gene031952.t1 | MTR_5g066080 | 29.596 | 223 | 107 | 5 | 51 | 234 | 7 | 218 | 2.76e-16 | 76.6 |
| MS.gene031952.t1 | MTR_2g015890 | 37.931 | 145 | 68 | 4 | 105 | 242 | 1 | 130 | 1.31e-15 | 72.8 |
| MS.gene031952.t1 | MTR_2g015890 | 41.111 | 90 | 36 | 2 | 105 | 192 | 1 | 75 | 3.23e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene031952.t1 | AT2G40200 | 44.245 | 278 | 108 | 10 | 3 | 261 | 1 | 250 | 1.45e-55 | 179 |
| MS.gene031952.t1 | AT1G68810 | 41.538 | 195 | 98 | 4 | 66 | 255 | 167 | 350 | 4.83e-36 | 132 |
| MS.gene031952.t1 | AT3G25710 | 46.405 | 153 | 70 | 2 | 69 | 220 | 128 | 269 | 6.73e-34 | 125 |
| MS.gene031952.t1 | AT3G56770 | 36.216 | 185 | 106 | 4 | 61 | 243 | 33 | 207 | 9.39e-34 | 122 |
| MS.gene031952.t1 | AT2G41130 | 34.426 | 183 | 107 | 4 | 63 | 242 | 57 | 229 | 4.83e-25 | 100 |
| MS.gene031952.t1 | AT4G38070 | 33.108 | 148 | 82 | 3 | 73 | 220 | 92 | 222 | 1.46e-18 | 82.8 |
Find 36 sgRNAs with CRISPR-Local
Find 91 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTGATGTTGAAGCAATTT+TGG | 0.180765 | 3.4:-70470082 | None:intergenic |
| TATATTAGTGCTTTGTTCTA+AGG | 0.204855 | 3.4:+70470002 | MS.gene031952:CDS |
| ATTTCCCATTTGGATGAGTA+TGG | 0.281846 | 3.4:+70468503 | None:intergenic |
| GTCTTAAACCTTTGAGGACT+TGG | 0.282951 | 3.4:-70469930 | None:intergenic |
| AATATCTCTGACTCTTCTTC+TGG | 0.300411 | 3.4:+70468636 | MS.gene031952:CDS |
| ATTAGTTCAGAGAACAATTC+TGG | 0.307068 | 3.4:-70469907 | None:intergenic |
| TTTGGTCACTGCTGATTTAA+GGG | 0.341399 | 3.4:-70470064 | None:intergenic |
| TTGAAGGGAGTGTTGAAGAT+AGG | 0.378452 | 3.4:+70468700 | MS.gene031952:CDS |
| TTGTAAGTCTTAAACCTTTG+AGG | 0.389696 | 3.4:-70469936 | None:intergenic |
| CTCTGCTTGACTATGACTCT+TGG | 0.398647 | 3.4:-70468736 | None:intergenic |
| CTCTGCCTCTTACTTCTTGT+AGG | 0.400975 | 3.4:-70470117 | None:intergenic |
| ATGGACAAAGCAGCATTACT+AGG | 0.419485 | 3.4:+70469691 | MS.gene031952:CDS |
| TCTTCAACACTCCCTTCAAT+AGG | 0.436660 | 3.4:-70468696 | None:intergenic |
| TTTGTTCACTTTGTTAGTGT+TGG | 0.440377 | 3.4:-70469836 | None:intergenic |
| GAAGAGTCAGAGATATTATG+AGG | 0.460214 | 3.4:-70468630 | None:intergenic |
| GGCAGTATTTGAGCACAAAC+TGG | 0.465507 | 3.4:+70468550 | MS.gene031952:CDS |
| TGGTTTACCTTATCAGACTT+AGG | 0.468900 | 3.4:-70468813 | None:intergenic |
| CAAAATTGCTTCAACATCAA+TGG | 0.471398 | 3.4:+70470083 | MS.gene031952:CDS |
| ACTTATTCCTAAGTCTGATA+AGG | 0.480745 | 3.4:+70468806 | MS.gene031952:CDS |
| GATACTTCATCAATTTCAGT+TGG | 0.481484 | 3.4:-70469781 | None:intergenic |
| TCATGGAATTTACCTATTGA+AGG | 0.482372 | 3.4:+70468684 | MS.gene031952:CDS |
| CAGAGAAAAGACGTAGAGAC+AGG | 0.494900 | 3.4:+70468754 | MS.gene031952:CDS |
| TGAAGGGAGTGTTGAAGATA+GGG | 0.514386 | 3.4:+70468701 | MS.gene031952:CDS |
| GCTGACATAGCAAGTGTTGG+TGG | 0.516083 | 3.4:+70469967 | MS.gene031952:CDS |
| AATATAGTGAATTTCAGTCA+TGG | 0.537343 | 3.4:+70468667 | MS.gene031952:CDS |
| CATGGAATTTACCTATTGAA+GGG | 0.539204 | 3.4:+70468685 | MS.gene031952:CDS |
| ATCTGTGTAGGTACAGTCAC+AGG | 0.552887 | 3.4:-70468603 | None:intergenic |
| AGATCTAAAGCGAAAAGCAA+TGG | 0.560117 | 3.4:+70469735 | MS.gene031952:CDS |
| ATTGTCCTACAAGAAGTAAG+AGG | 0.570567 | 3.4:+70470112 | MS.gene031952:CDS |
| GAACTAATCCAAGTCCTCAA+AGG | 0.579974 | 3.4:+70469922 | MS.gene031952:CDS |
| TGGACAAAGCAGCATTACTA+GGG | 0.580902 | 3.4:+70469692 | MS.gene031952:CDS |
| AAAGCTGACATAGCAAGTGT+TGG | 0.610561 | 3.4:+70469964 | MS.gene031952:CDS |
| TGGTTTCATCTTCAACAACA+TGG | 0.610583 | 3.4:-70469816 | None:intergenic |
| AATTACTATACAAAATGAGA+AGG | 0.613826 | 3.4:-70470150 | None:intergenic |
| TTATGAGGTAGTATCTGTGT+AGG | 0.633198 | 3.4:-70468615 | None:intergenic |
| ACTACTATGATTCTTCTGAG+TGG | 0.709835 | 3.4:+70468529 | MS.gene031952:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AACTTCAAGATTTTTAAAAA+TGG | + | chr3.4:70469353-70469372 | MS.gene031952:intron | 15.0% |
| !! | ATAAAAATTGACAGAATAAC+GGG | - | chr3.4:70469265-70469284 | None:intergenic | 20.0% |
| !! | ATATTCTCTCCAAAATAAAA+GGG | - | chr3.4:70469326-70469345 | None:intergenic | 20.0% |
| !! | CATAAAAATTGACAGAATAA+CGG | - | chr3.4:70469266-70469285 | None:intergenic | 20.0% |
| !! | CTGAAAATAATTTGAGAAAA+TGG | - | chr3.4:70469503-70469522 | None:intergenic | 20.0% |
| !! | TATATTCTCTCCAAAATAAA+AGG | - | chr3.4:70469327-70469346 | None:intergenic | 20.0% |
| !!! | TACAATTTTCTGCAATATTA+AGG | + | chr3.4:70469599-70469618 | MS.gene031952:intron | 20.0% |
| !!! | TTTCAATTGTACTTTAAAGT+AGG | + | chr3.4:70469128-70469147 | MS.gene031952:intron | 20.0% |
| !!! | TTTTATTTTGGAGAGAATAT+AGG | + | chr3.4:70469326-70469345 | MS.gene031952:intron | 20.0% |
| ! | AATATAGTGAATTTCAGTCA+TGG | + | chr3.4:70468667-70468686 | MS.gene031952:CDS | 25.0% |
| ! | ACAAATGATTATGTTATGCA+AGG | - | chr3.4:70469661-70469680 | None:intergenic | 25.0% |
| ! | CAAATGATTATGTTATGCAA+GGG | - | chr3.4:70469660-70469679 | None:intergenic | 25.0% |
| ! | TATTCTCTCCAAAATAAAAG+GGG | - | chr3.4:70469325-70469344 | None:intergenic | 25.0% |
| ! | TTACATTTCATGCAAGAAAA+TGG | + | chr3.4:70468925-70468944 | MS.gene031952:intron | 25.0% |
| ! | TTGTAATCAAATATGACTAG+TGG | - | chr3.4:70469584-70469603 | None:intergenic | 25.0% |
| !! | AATTTTATGGAAGTTCCAAA+AGG | - | chr3.4:70469049-70469068 | None:intergenic | 25.0% |
| !! | ACTACAGCAACAAAATTTTA+TGG | - | chr3.4:70469062-70469081 | None:intergenic | 25.0% |
| !! | TATATTAGTGCTTTGTTCTA+AGG | + | chr3.4:70470002-70470021 | MS.gene031952:CDS | 25.0% |
| !! | TCGTGATTTTGCTTAATTTA+TGG | - | chr3.4:70469194-70469213 | None:intergenic | 25.0% |
| !!! | ACTTTAAAGTAGGCATAATT+TGG | + | chr3.4:70469138-70469157 | MS.gene031952:intron | 25.0% |
| !!! | CTTTAAAGTAGGCATAATTT+GGG | + | chr3.4:70469139-70469158 | MS.gene031952:intron | 25.0% |
| AAAATGGAATTAGCCACTTA+GGG | + | chr3.4:70468941-70468960 | MS.gene031952:intron | 30.0% | |
| AATGCAACATCTTATCACTT+GGG | - | chr3.4:70468971-70468990 | None:intergenic | 30.0% | |
| ACTCGCTATAATTCAAAACA+CGG | + | chr3.4:70469093-70469112 | MS.gene031952:intron | 30.0% | |
| ACTTATTCCTAAGTCTGATA+AGG | + | chr3.4:70468806-70468825 | MS.gene031952:CDS | 30.0% | |
| ATGTTGCATTCATTCAATTC+AGG | + | chr3.4:70468981-70469000 | MS.gene031952:intron | 30.0% | |
| ATTAGTTCAGAGAACAATTC+TGG | - | chr3.4:70469910-70469929 | None:intergenic | 30.0% | |
| CAAAATTGCTTCAACATCAA+TGG | + | chr3.4:70470083-70470102 | MS.gene031952:CDS | 30.0% | |
| CATGGAATTTACCTATTGAA+GGG | + | chr3.4:70468685-70468704 | MS.gene031952:CDS | 30.0% | |
| GATACTTCATCAATTTCAGT+TGG | - | chr3.4:70469784-70469803 | None:intergenic | 30.0% | |
| TCATGGAATTTACCTATTGA+AGG | + | chr3.4:70468684-70468703 | MS.gene031952:CDS | 30.0% | |
| TTGTAAGTCTTAAACCTTTG+AGG | - | chr3.4:70469939-70469958 | None:intergenic | 30.0% | |
| TTTGTTCACTTTGTTAGTGT+TGG | - | chr3.4:70469839-70469858 | None:intergenic | 30.0% | |
| ! | CATTGATGTTGAAGCAATTT+TGG | - | chr3.4:70470085-70470104 | None:intergenic | 30.0% |
| ! | CTAAAGTATCATTGCTACAT+AGG | - | chr3.4:70469426-70469445 | None:intergenic | 30.0% |
| ! | TTTTGACAAAAGCTACCTTT+TGG | + | chr3.4:70469031-70469050 | MS.gene031952:intron | 30.0% |
| !! | TTCCATTTCCCCTTTTATTT+TGG | + | chr3.4:70469314-70469333 | MS.gene031952:intron | 30.0% |
| AATATCTCTGACTCTTCTTC+TGG | + | chr3.4:70468636-70468655 | MS.gene031952:CDS | 35.0% | |
| ACATGTGTTTGTATCTGACA+TGG | - | chr3.4:70469462-70469481 | None:intergenic | 35.0% | |
| ACTACTATGATTCTTCTGAG+TGG | + | chr3.4:70468529-70468548 | MS.gene031952:CDS | 35.0% | |
| ATCATTTGTGTACTTGCAGA+TGG | + | chr3.4:70469672-70469691 | MS.gene031952:intron | 35.0% | |
| ATGTGAATCCAAACATGCAT+CGG | + | chr3.4:70469283-70469302 | MS.gene031952:intron | 35.0% | |
| ATTAATTCCCGATGCATGTT+TGG | - | chr3.4:70469294-70469313 | None:intergenic | 35.0% | |
| ATTGTCCTACAAGAAGTAAG+AGG | + | chr3.4:70470112-70470131 | MS.gene031952:CDS | 35.0% | |
| CTCCAAAATAAAAGGGGAAA+TGG | - | chr3.4:70469319-70469338 | None:intergenic | 35.0% | |
| GAAAATGGAATTAGCCACTT+AGG | + | chr3.4:70468940-70468959 | MS.gene031952:intron | 35.0% | |
| GAAGAGTCAGAGATATTATG+AGG | - | chr3.4:70468633-70468652 | None:intergenic | 35.0% | |
| GAATGCAACATCTTATCACT+TGG | - | chr3.4:70468972-70468991 | None:intergenic | 35.0% | |
| GTCATCGAATATCTTAACTC+CGG | - | chr3.4:70469399-70469418 | None:intergenic | 35.0% | |
| TCAATTTCTTAGCGTATGCT+TGG | + | chr3.4:70469163-70469182 | MS.gene031952:intron | 35.0% | |
| TCATCGAATATCTTAACTCC+GGG | - | chr3.4:70469398-70469417 | None:intergenic | 35.0% | |
| TGGTTTACCTTATCAGACTT+AGG | - | chr3.4:70468816-70468835 | None:intergenic | 35.0% | |
| TGGTTTCATCTTCAACAACA+TGG | - | chr3.4:70469819-70469838 | None:intergenic | 35.0% | |
| TTATGAGGTAGTATCTGTGT+AGG | - | chr3.4:70468618-70468637 | None:intergenic | 35.0% | |
| TTCATTCAATTCAGGCTTTG+AGG | + | chr3.4:70468989-70469008 | MS.gene031952:intron | 35.0% | |
| TTCCTCATTAAAGACAGACA+CGG | - | chr3.4:70469552-70469571 | None:intergenic | 35.0% | |
| ! | AGATCTAAAGCGAAAAGCAA+TGG | + | chr3.4:70469735-70469754 | MS.gene031952:CDS | 35.0% |
| !! | ACCTTGATTTTGACAAACTG+GGG | - | chr3.4:70469238-70469257 | None:intergenic | 35.0% |
| !! | CACCTTGATTTTGACAAACT+GGG | - | chr3.4:70469239-70469258 | None:intergenic | 35.0% |
| !! | TTTGGTCACTGCTGATTTAA+GGG | - | chr3.4:70470067-70470086 | None:intergenic | 35.0% |
| !!! | TTTTGGTCACTGCTGATTTA+AGG | - | chr3.4:70470068-70470087 | None:intergenic | 35.0% |
| AAAGCTGACATAGCAAGTGT+TGG | + | chr3.4:70469964-70469983 | MS.gene031952:CDS | 40.0% | |
| ACCCCAGTTTGTCAAAATCA+AGG | + | chr3.4:70469234-70469253 | MS.gene031952:intron | 40.0% | |
| ATGGACAAAGCAGCATTACT+AGG | + | chr3.4:70469691-70469710 | MS.gene031952:CDS | 40.0% | |
| CATCGAATATCTTAACTCCG+GGG | - | chr3.4:70469397-70469416 | None:intergenic | 40.0% | |
| CCAGTTTGTCAAAATCAAGG+TGG | + | chr3.4:70469237-70469256 | MS.gene031952:intron | 40.0% | |
| GAACTAATCCAAGTCCTCAA+AGG | + | chr3.4:70469922-70469941 | MS.gene031952:CDS | 40.0% | |
| TCTTCAACACTCCCTTCAAT+AGG | - | chr3.4:70468699-70468718 | None:intergenic | 40.0% | |
| TGGACAAAGCAGCATTACTA+GGG | + | chr3.4:70469692-70469711 | MS.gene031952:CDS | 40.0% | |
| TGTGAATCCAAACATGCATC+GGG | + | chr3.4:70469284-70469303 | MS.gene031952:intron | 40.0% | |
| ! | GTCTTAAACCTTTGAGGACT+TGG | - | chr3.4:70469933-70469952 | None:intergenic | 40.0% |
| !! | CCACCTTGATTTTGACAAAC+TGG | - | chr3.4:70469240-70469259 | None:intergenic | 40.0% |
| !! | TGAAGGGAGTGTTGAAGATA+GGG | + | chr3.4:70468701-70468720 | MS.gene031952:CDS | 40.0% |
| !! | TTGAAGGGAGTGTTGAAGAT+AGG | + | chr3.4:70468700-70468719 | MS.gene031952:CDS | 40.0% |
| AAATCGCGTTGCAGTTCTGT+CGG | - | chr3.4:70469628-70469647 | None:intergenic | 45.0% | |
| ATCTGTGTAGGTACAGTCAC+AGG | - | chr3.4:70468606-70468625 | None:intergenic | 45.0% | |
| ATTAAAGACAGACACGGACG+CGG | - | chr3.4:70469546-70469565 | None:intergenic | 45.0% | |
| CAGAGAAAAGACGTAGAGAC+AGG | + | chr3.4:70468754-70468773 | MS.gene031952:CDS | 45.0% | |
| CTCTGCCTCTTACTTCTTGT+AGG | - | chr3.4:70470120-70470139 | None:intergenic | 45.0% | |
| CTCTGCTTGACTATGACTCT+TGG | - | chr3.4:70468739-70468758 | None:intergenic | 45.0% | |
| GGCAGTATTTGAGCACAAAC+TGG | + | chr3.4:70468550-70468569 | MS.gene031952:CDS | 45.0% | |
| GTCCGTGTCTGTCTTTAATG+AGG | + | chr3.4:70469547-70469566 | MS.gene031952:intron | 45.0% | |
| ! | ACTGGGGTGTCACAAAATCA+TGG | - | chr3.4:70469222-70469241 | None:intergenic | 45.0% |
| ! | TCACTTGGGTTTTCCCTAAG+TGG | - | chr3.4:70468957-70468976 | None:intergenic | 45.0% |
| !! | GAAAAAATAAAAAATAAAAT+TGG | - | chr3.4:70468836-70468855 | None:intergenic | 5.0% |
| AATCGCGTTGCAGTTCTGTC+GGG | - | chr3.4:70469627-70469646 | None:intergenic | 50.0% | |
| ATATCTTAACTCCGGGGCAC+AGG | - | chr3.4:70469391-70469410 | None:intergenic | 50.0% | |
| !! | GCTGACATAGCAAGTGTTGG+TGG | + | chr3.4:70469967-70469986 | MS.gene031952:CDS | 50.0% |
| TTAACTCCGGGGCACAGGCG+CGG | - | chr3.4:70469386-70469405 | None:intergenic | 65.0% | |
| CTCCAACCGCGCCTGTGCCC+CGG | + | chr3.4:70469377-70469396 | MS.gene031952:intron | 75.0% | |
| ! | CTCCGGGGCACAGGCGCGGT+TGG | - | chr3.4:70469382-70469401 | None:intergenic | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 70468516 | 70470167 | 70468516 | ID=MS.gene031952 |
| chr3.4 | mRNA | 70468516 | 70470167 | 70468516 | ID=MS.gene031952.t1;Parent=MS.gene031952 |
| chr3.4 | exon | 70468516 | 70468827 | 70468516 | ID=MS.gene031952.t1.exon1;Parent=MS.gene031952.t1 |
| chr3.4 | CDS | 70468516 | 70468827 | 70468516 | ID=cds.MS.gene031952.t1;Parent=MS.gene031952.t1 |
| chr3.4 | exon | 70469691 | 70470167 | 70469691 | ID=MS.gene031952.t1.exon2;Parent=MS.gene031952.t1 |
| chr3.4 | CDS | 70469691 | 70470167 | 70469691 | ID=cds.MS.gene031952.t1;Parent=MS.gene031952.t1 |
| Gene Sequence |
| Protein sequence |
