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.gene49420.t1 | XP_013452841.1 | 92.7 | 165 | 12 | 0 | 1 | 165 | 1 | 165 | 1.20E-79 | 305.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49420.t1 | D9UBX6 | 38.5 | 91 | 55 | 1 | 14 | 103 | 16 | 106 | 3.4e-11 | 69.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49420.t1 | A0A072UAS6 | 92.7 | 165 | 12 | 0 | 1 | 165 | 1 | 165 | 8.6e-80 | 305.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene058339 | MS.gene49420 | 0.820419 | 6.93E-53 | -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.gene49420.t1 | MTR_6g478190 | 92.727 | 165 | 12 | 0 | 1 | 165 | 1 | 165 | 2.65e-112 | 316 |
| MS.gene49420.t1 | MTR_7g086130 | 40.449 | 89 | 53 | 0 | 12 | 100 | 9 | 97 | 4.97e-20 | 82.8 |
| MS.gene49420.t1 | MTR_5g087470 | 43.158 | 95 | 54 | 0 | 6 | 100 | 5 | 99 | 1.51e-18 | 80.1 |
| MS.gene49420.t1 | MTR_6g079910 | 89.474 | 38 | 4 | 0 | 1 | 38 | 1 | 38 | 1.87e-18 | 76.3 |
| MS.gene49420.t1 | MTR_5g087450 | 42.697 | 89 | 51 | 0 | 12 | 100 | 12 | 100 | 2.39e-18 | 79.3 |
| MS.gene49420.t1 | MTR_7g086130 | 38.298 | 94 | 53 | 1 | 12 | 100 | 9 | 102 | 1.66e-17 | 76.3 |
| MS.gene49420.t1 | MTR_5g087480 | 32.061 | 131 | 81 | 3 | 1 | 126 | 1 | 128 | 1.95e-14 | 69.7 |
| MS.gene49420.t1 | MTR_5g087480 | 35.417 | 96 | 59 | 2 | 1 | 96 | 1 | 93 | 1.91e-13 | 66.6 |
| MS.gene49420.t1 | MTR_4g107860 | 31.818 | 110 | 72 | 1 | 15 | 124 | 23 | 129 | 1.73e-12 | 63.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49420.t1 | AT1G54400 | 43.750 | 96 | 53 | 1 | 7 | 101 | 6 | 101 | 9.49e-22 | 87.0 |
| MS.gene49420.t1 | AT2G27140 | 40.385 | 104 | 62 | 0 | 1 | 104 | 1 | 104 | 1.23e-20 | 85.1 |
| MS.gene49420.t1 | AT5G20970 | 40.000 | 115 | 66 | 2 | 12 | 124 | 8 | 121 | 6.91e-18 | 78.2 |
| MS.gene49420.t1 | AT5G04890 | 39.773 | 88 | 52 | 1 | 14 | 100 | 16 | 103 | 5.95e-15 | 71.2 |
Find 24 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCATAGAGAAACATTCATTT+TGG | 0.198351 | 6.2:-77032066 | MS.gene49420:CDS |
| TTTCTCTATGGTTGCATCTT+TGG | 0.207665 | 6.2:+77032078 | None:intergenic |
| CCAAAATGAATGTTTCTCTA+TGG | 0.325882 | 6.2:+77032066 | None:intergenic |
| AAAATCTTCATACAATCTTT+TGG | 0.330843 | 6.2:+77032981 | None:intergenic |
| TCCTGATTTCTTTGTGGAAA+CGG | 0.353868 | 6.2:+77032194 | None:intergenic |
| TTGAAATCCTGATTTCTTTG+TGG | 0.360661 | 6.2:+77032188 | None:intergenic |
| ACAACAATTCAAATTGTGAT+TGG | 0.374136 | 6.2:-77032022 | MS.gene49420:CDS |
| AAGGTTCAAACTAACGATAA+AGG | 0.388478 | 6.2:-77032265 | MS.gene49420:CDS |
| GCCGTTTCCACAAAGAAATC+AGG | 0.392632 | 6.2:-77032195 | MS.gene49420:CDS |
| AAACAACATCATGATGCATT+TGG | 0.402983 | 6.2:-77031947 | MS.gene49420:CDS |
| TCAAATTGTGATTGGAGTAA+TGG | 0.419262 | 6.2:-77032014 | MS.gene49420:CDS |
| GGTAGTAGCTTCAGCAACTT+TGG | 0.424641 | 6.2:+77033002 | None:intergenic |
| TTTGTGATCCATTTGCAGTA+AGG | 0.441165 | 6.2:+77032955 | None:intergenic |
| CAAGAGATTGTGATGTGAAT+GGG | 0.446532 | 6.2:-77032168 | MS.gene49420:CDS |
| AGGTTCAAACTAACGATAAA+GGG | 0.452103 | 6.2:-77032264 | MS.gene49420:CDS |
| ATTTATGGAGAAAGGACTCT+TGG | 0.477919 | 6.2:-77032232 | MS.gene49420:CDS |
| TCAAGAGATTGTGATGTGAA+TGG | 0.485526 | 6.2:-77032169 | MS.gene49420:CDS |
| ATTCTAGAGATTGATTTGAA+AGG | 0.547773 | 6.2:-77032919 | MS.gene49420:intron |
| GTAATGGCTATGGTTGCACT+AGG | 0.553548 | 6.2:-77031998 | MS.gene49420:CDS |
| TGTGATTGGAGTAATGGCTA+TGG | 0.602709 | 6.2:-77032008 | MS.gene49420:CDS |
| TGCAAATGGATCACAAAGGA+AGG | 0.605441 | 6.2:-77032949 | MS.gene49420:CDS |
| GGTTGCACTAGGGACTTATG+TGG | 0.633161 | 6.2:-77031987 | MS.gene49420:CDS |
| TAATGGCTATGGTTGCACTA+GGG | 0.679191 | 6.2:-77031997 | MS.gene49420:CDS |
| TTACTGCAAATGGATCACAA+AGG | 0.775712 | 6.2:-77032953 | MS.gene49420:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATTTATTAAAATCTGTA+AGG | + | chr6.2:77032216-77032235 | None:intergenic | 10.0% |
| !! | AAATTTATTAAAATCTGTAA+GGG | + | chr6.2:77032215-77032234 | None:intergenic | 10.0% |
| !! | ACTAATATTTGTTTATTAAA+TGG | + | chr6.2:77032589-77032608 | None:intergenic | 10.0% |
| !! | TATAATATTTAGTAAAATAG+AGG | + | chr6.2:77032278-77032297 | None:intergenic | 10.0% |
| !!! | CTATTTTACTAAATATTATA+AGG | - | chr6.2:77032278-77032297 | MS.gene49420:CDS | 10.0% |
| !! | AATTAGACAAAATAATTGTT+TGG | + | chr6.2:77032410-77032429 | None:intergenic | 15.0% |
| !! | AGACAAAAAAAAATTATAGT+TGG | - | chr6.2:77032165-77032184 | MS.gene49420:CDS | 15.0% |
| !! | GACAAAAAAAAATTATAGTT+GGG | - | chr6.2:77032166-77032185 | MS.gene49420:CDS | 15.0% |
| !!! | ATAAACAAATATTAGTCTAA+TGG | - | chr6.2:77032593-77032612 | MS.gene49420:intron | 15.0% |
| !!! | ATTTCTAACGTTTTTTATTT+TGG | + | chr6.2:77032535-77032554 | None:intergenic | 15.0% |
| !!! | GAATTTGAAACATTTTTTTT+AGG | - | chr6.2:77032305-77032324 | MS.gene49420:intron | 15.0% |
| !!! | TACGAAATTTATATTTTAAG+AGG | - | chr6.2:77032081-77032100 | MS.gene49420:CDS | 15.0% |
| !!! | TTTCTAACGTTTTTTATTTT+GGG | + | chr6.2:77032534-77032553 | None:intergenic | 15.0% |
| !! | AAAATTATAGTTGGGTTATT+TGG | - | chr6.2:77032174-77032193 | MS.gene49420:CDS | 20.0% |
| !!! | AAAATCTTCATACAATCTTT+TGG | + | chr6.2:77031953-77031972 | None:intergenic | 20.0% |
| !!! | AATCATTTTAGGTTTCAAAA+AGG | - | chr6.2:77032635-77032654 | MS.gene49420:intron | 20.0% |
| !!! | TAGTAAAATAGAGGATTTTA+TGG | + | chr6.2:77032269-77032288 | None:intergenic | 20.0% |
| !!! | TATTTCTCTTGAATCATTTT+AGG | - | chr6.2:77032624-77032643 | MS.gene49420:intron | 20.0% |
| ! | AAAGGGATCCTAAAAATTTA+TGG | - | chr6.2:77032684-77032703 | MS.gene49420:intron | 25.0% |
| ! | ACAACAATTCAAATTGTGAT+TGG | - | chr6.2:77032909-77032928 | MS.gene49420:intron | 25.0% |
| ! | CAAAAAATTGGGTAAATTAG+AGG | + | chr6.2:77032499-77032518 | None:intergenic | 25.0% |
| ! | TCCTAAAAATTTATGGAGAA+AGG | - | chr6.2:77032691-77032710 | MS.gene49420:intron | 25.0% |
| ! | TTTCTCGACAACAAAAAATT+GGG | + | chr6.2:77032510-77032529 | None:intergenic | 25.0% |
| !! | AGGATTTTATGGTAAAAAAG+AGG | + | chr6.2:77032258-77032277 | None:intergenic | 25.0% |
| !! | ATAGAGAAACATTCATTTTG+GGG | - | chr6.2:77032867-77032886 | MS.gene49420:intron | 25.0% |
| !! | CATAGAGAAACATTCATTTT+GGG | - | chr6.2:77032866-77032885 | MS.gene49420:intron | 25.0% |
| !! | CTAACAAGAGTATATAATCA+AGG | + | chr6.2:77032048-77032067 | None:intergenic | 25.0% |
| !! | TCCTTTCTCCATAAATTTTT+AGG | + | chr6.2:77032695-77032714 | None:intergenic | 25.0% |
| !! | TGTTGAATTACTTCAGTTTT+TGG | + | chr6.2:77032831-77032850 | None:intergenic | 25.0% |
| !! | TTTTCTCGACAACAAAAAAT+TGG | + | chr6.2:77032511-77032530 | None:intergenic | 25.0% |
| !!! | ATTCTAGAGATTGATTTGAA+AGG | - | chr6.2:77032012-77032031 | MS.gene49420:CDS | 25.0% |
| !!! | TTTTGAGAAGAAAAGATAGT+GGG | + | chr6.2:77032345-77032364 | None:intergenic | 25.0% |
| !!! | TTTTTGAGAAGAAAAGATAG+TGG | + | chr6.2:77032346-77032365 | None:intergenic | 25.0% |
| !!! | TTTTTGTCTAACTTGCATAA+AGG | + | chr6.2:77032154-77032173 | None:intergenic | 25.0% |
| AAAATCAGAGACATGGTATT+GGG | - | chr6.2:77032119-77032138 | MS.gene49420:CDS | 30.0% | |
| AAACAACATCATGATGCATT+TGG | - | chr6.2:77032984-77033003 | MS.gene49420:CDS | 30.0% | |
| AAGGTTCAAACTAACGATAA+AGG | - | chr6.2:77032666-77032685 | MS.gene49420:intron | 30.0% | |
| AGGTTCAAACTAACGATAAA+GGG | - | chr6.2:77032667-77032686 | MS.gene49420:intron | 30.0% | |
| CCAAAATGAATGTTTCTCTA+TGG | + | chr6.2:77032868-77032887 | None:intergenic | 30.0% | |
| TAAAATCAGAGACATGGTAT+TGG | - | chr6.2:77032118-77032137 | MS.gene49420:CDS | 30.0% | |
| TCAAATTGTGATTGGAGTAA+TGG | - | chr6.2:77032917-77032936 | MS.gene49420:intron | 30.0% | |
| TTGAAATCCTGATTTCTTTG+TGG | + | chr6.2:77032746-77032765 | None:intergenic | 30.0% | |
| TTGGGTTATTTGGACAAAAA+GGG | - | chr6.2:77032184-77032203 | MS.gene49420:CDS | 30.0% | |
| TTTCAAAAAGGAGCAACTTA+AGG | - | chr6.2:77032647-77032666 | MS.gene49420:intron | 30.0% | |
| TTTGAGAAGAAAAGATAGTG+GGG | + | chr6.2:77032344-77032363 | None:intergenic | 30.0% | |
| ! | AATACCATGTCTCTGATTTT+AGG | + | chr6.2:77032119-77032138 | None:intergenic | 30.0% |
| ! | ATACCATGTCTCTGATTTTA+GGG | + | chr6.2:77032118-77032137 | None:intergenic | 30.0% |
| ! | ATTCAAGCAAAGTTTTCTCA+AGG | - | chr6.2:77032786-77032805 | MS.gene49420:intron | 30.0% |
| ! | ATTTTGAACCTTACTGCAAA+TGG | - | chr6.2:77031968-77031987 | MS.gene49420:CDS | 30.0% |
| ! | CCATAGAGAAACATTCATTT+TGG | - | chr6.2:77032865-77032884 | MS.gene49420:intron | 30.0% |
| ! | TAACTTGCATAAAGGACTAA+AGG | + | chr6.2:77032146-77032165 | None:intergenic | 30.0% |
| ! | TAGAGAAACATTCATTTTGG+GGG | - | chr6.2:77032868-77032887 | MS.gene49420:intron | 30.0% |
| ! | TTCAAGCAAAGTTTTCTCAA+GGG | - | chr6.2:77032787-77032806 | MS.gene49420:intron | 30.0% |
| ATTTATGGAGAAAGGACTCT+TGG | - | chr6.2:77032699-77032718 | MS.gene49420:intron | 35.0% | |
| CAAGAGATTGTGATGTGAAT+GGG | - | chr6.2:77032763-77032782 | MS.gene49420:intron | 35.0% | |
| GTTGGGTTATTTGGACAAAA+AGG | - | chr6.2:77032183-77032202 | MS.gene49420:CDS | 35.0% | |
| TATCCCTAAAATCAGAGACA+TGG | - | chr6.2:77032112-77032131 | MS.gene49420:CDS | 35.0% | |
| TCAAGAGATTGTGATGTGAA+TGG | - | chr6.2:77032762-77032781 | MS.gene49420:intron | 35.0% | |
| TCCTGATTTCTTTGTGGAAA+CGG | + | chr6.2:77032740-77032759 | None:intergenic | 35.0% | |
| TGGGTTATTTGGACAAAAAG+GGG | - | chr6.2:77032185-77032204 | MS.gene49420:CDS | 35.0% | |
| TTACTGCAAATGGATCACAA+AGG | - | chr6.2:77031978-77031997 | MS.gene49420:CDS | 35.0% | |
| TTTCTCTATGGTTGCATCTT+TGG | + | chr6.2:77032856-77032875 | None:intergenic | 35.0% | |
| TTTGTGATCCATTTGCAGTA+AGG | + | chr6.2:77031979-77031998 | None:intergenic | 35.0% | |
| ! | AGAGAAACATTCATTTTGGG+GGG | - | chr6.2:77032869-77032888 | MS.gene49420:intron | 35.0% |
| !!! | GATAGTGGGGCATTTTAATA+CGG | + | chr6.2:77032331-77032350 | None:intergenic | 35.0% |
| GTTATTTGGACAAAAAGGGG+TGG | - | chr6.2:77032188-77032207 | MS.gene49420:CDS | 40.0% | |
| TAATGGCTATGGTTGCACTA+GGG | - | chr6.2:77032934-77032953 | MS.gene49420:CDS | 40.0% | |
| TGCAAATGGATCACAAAGGA+AGG | - | chr6.2:77031982-77032001 | MS.gene49420:CDS | 40.0% | |
| TGTGATTGGAGTAATGGCTA+TGG | - | chr6.2:77032923-77032942 | MS.gene49420:CDS | 40.0% | |
| GCCGTTTCCACAAAGAAATC+AGG | - | chr6.2:77032736-77032755 | MS.gene49420:intron | 45.0% | |
| GGTAGTAGCTTCAGCAACTT+TGG | + | chr6.2:77031932-77031951 | None:intergenic | 45.0% | |
| GTAATGGCTATGGTTGCACT+AGG | - | chr6.2:77032933-77032952 | MS.gene49420:CDS | 45.0% | |
| !!! | TATTTTACTAAATATTATAA+GGG | - | chr6.2:77032279-77032298 | MS.gene49420:CDS | 5.0% |
| GGTTGCACTAGGGACTTATG+TGG | - | chr6.2:77032944-77032963 | MS.gene49420:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.2 | gene | 77031922 | 77033031 | 77031922 | ID=MS.gene49420 |
| chr6.2 | mRNA | 77031922 | 77033031 | 77031922 | ID=MS.gene49420.t1;Parent=MS.gene49420 |
| chr6.2 | exon | 77032920 | 77033031 | 77032920 | ID=MS.gene49420.t1.exon1;Parent=MS.gene49420.t1 |
| chr6.2 | CDS | 77032920 | 77033031 | 77032920 | ID=cds.MS.gene49420.t1;Parent=MS.gene49420.t1 |
| chr6.2 | exon | 77031922 | 77032307 | 77031922 | ID=MS.gene49420.t1.exon2;Parent=MS.gene49420.t1 |
| chr6.2 | CDS | 77031922 | 77032307 | 77031922 | ID=cds.MS.gene49420.t1;Parent=MS.gene49420.t1 |
| Gene Sequence |
| Protein sequence |
