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.gene20456.t1 | XP_013450955.1 | 100 | 92 | 0 | 0 | 1 | 92 | 1 | 92 | 5.70E-39 | 169.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20456.t1 | Q9LJX1 | 76.9 | 91 | 20 | 1 | 1 | 90 | 1 | 91 | 2.7e-29 | 129.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20456.t1 | A0A072UGS5 | 100.0 | 92 | 0 | 0 | 1 | 92 | 1 | 92 | 4.1e-39 | 169.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene20456.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.gene20456.t1 | MTR_6g011670 | 100.000 | 92 | 0 | 0 | 1 | 92 | 1 | 92 | 2.04e-59 | 176 |
| MS.gene20456.t1 | MTR_7g010120 | 84.946 | 93 | 13 | 1 | 1 | 92 | 1 | 93 | 1.04e-47 | 147 |
| MS.gene20456.t1 | MTR_5g039180 | 68.421 | 76 | 24 | 0 | 15 | 90 | 17 | 92 | 5.25e-33 | 110 |
| MS.gene20456.t1 | MTR_3g438070 | 73.077 | 78 | 19 | 1 | 15 | 92 | 17 | 92 | 1.24e-32 | 108 |
| MS.gene20456.t1 | MTR_7g059260 | 49.351 | 77 | 36 | 1 | 1 | 77 | 1 | 74 | 8.21e-13 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20456.t1 | AT3G28857 | 76.923 | 91 | 20 | 1 | 1 | 90 | 1 | 91 | 8.84e-43 | 134 |
| MS.gene20456.t1 | AT5G39860 | 75.000 | 80 | 19 | 1 | 12 | 90 | 12 | 91 | 3.34e-36 | 118 |
| MS.gene20456.t1 | AT1G26945 | 77.333 | 75 | 17 | 0 | 17 | 91 | 19 | 93 | 2.16e-35 | 116 |
| MS.gene20456.t1 | AT5G15160 | 72.368 | 76 | 20 | 1 | 17 | 91 | 18 | 93 | 5.02e-33 | 110 |
| MS.gene20456.t1 | AT1G74500 | 67.089 | 79 | 23 | 2 | 15 | 92 | 17 | 93 | 2.20e-29 | 100 |
| MS.gene20456.t1 | AT3G47710 | 61.702 | 94 | 32 | 3 | 1 | 92 | 1 | 92 | 7.29e-29 | 99.8 |
Find 11 sgRNAs with CRISPR-Local
Find 113 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAAAGCTTATTGATTAATT+AGG | 0.226540 | 6.3:+6332446 | None:intergenic |
| TGAAAGATTATCTCAGTTAT+TGG | 0.286390 | 6.3:-6332512 | MS.gene20456:CDS |
| TGTAGTTGCAAGTCTCTTGT+AGG | 0.341927 | 6.3:+6332569 | None:intergenic |
| AGGAACAAGTTGACGTAACT+TGG | 0.402465 | 6.3:+6334789 | None:intergenic |
| TGTGCAGGTATCAGCATCTA+AGG | 0.416549 | 6.3:-6332593 | MS.gene20456:intron |
| GAACGTCTATGACGAATCTC+AGG | 0.523567 | 6.3:+6334769 | None:intergenic |
| CTTCTGATAATATTAGCCTC+TGG | 0.544212 | 6.3:+6332469 | None:intergenic |
| TATATATTATGTCTAGCAGA+AGG | 0.605924 | 6.3:-6334870 | None:intergenic |
| TTATGTCTAGCAGAAGGTCA+AGG | 0.634096 | 6.3:-6334864 | MS.gene20456:CDS |
| TCGTCATAGACGTTCAGACA+AGG | 0.661917 | 6.3:-6334761 | MS.gene20456:intron |
| AATTGATGCTGATAGTCCAG+AGG | 0.714162 | 6.3:-6332485 | MS.gene20456:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTTTAAAAAAAAATAT+AGG | - | chr6.3:6332776-6332795 | MS.gene20456:intron | 0.0% |
| !! | AAGAAATTAACATAATATTA+TGG | - | chr6.3:6332846-6332865 | MS.gene20456:intron | 10.0% |
| !! | AGAAATTAACATAATATTAT+GGG | - | chr6.3:6332847-6332866 | MS.gene20456:intron | 10.0% |
| !! | TTATTCATAATTTATGAATA+TGG | - | chr6.3:6334573-6334592 | MS.gene20456:intron | 10.0% |
| !! | TTTAAAGGATATATATTATA+GGG | + | chr6.3:6333331-6333350 | None:intergenic | 10.0% |
| !!! | TTATATTTTCATATATAACT+AGG | - | chr6.3:6332724-6332743 | MS.gene20456:intron | 10.0% |
| !!! | TTTTAAAGGATATATATTAT+AGG | + | chr6.3:6333332-6333351 | None:intergenic | 10.0% |
| !!! | TTTTATTGATTTATTTACTT+TGG | + | chr6.3:6334148-6334167 | None:intergenic | 10.0% |
| !! | AAAAACTAACATAAAAACTA+AGG | + | chr6.3:6332596-6332615 | None:intergenic | 15.0% |
| !! | TAATAACATATGTTAAGAAA+AGG | + | chr6.3:6332690-6332709 | None:intergenic | 15.0% |
| !! | TATATCATAACAATAGTAAA+TGG | - | chr6.3:6332897-6332916 | MS.gene20456:intron | 15.0% |
| !! | TTTATGTAACTAATCAAAAT+TGG | + | chr6.3:6334335-6334354 | None:intergenic | 15.0% |
| !!! | CAATAAATATTTTCAATCAA+TGG | - | chr6.3:6333469-6333488 | MS.gene20456:intron | 15.0% |
| !!! | TAGTTTTTATGTTAGTTTTT+GGG | - | chr6.3:6332596-6332615 | MS.gene20456:intron | 15.0% |
| !!! | TTAGTTTTTATGTTAGTTTT+TGG | - | chr6.3:6332595-6332614 | MS.gene20456:intron | 15.0% |
| !!! | TTTGATTAGTTACATAAAAA+TGG | - | chr6.3:6334337-6334356 | MS.gene20456:intron | 15.0% |
| !! | AAAAGGAAAATATTGTTAGT+GGG | + | chr6.3:6332673-6332692 | None:intergenic | 20.0% |
| !! | AATTAACAATAACATGTGTA+GGG | - | chr6.3:6333520-6333539 | MS.gene20456:intron | 20.0% |
| !! | ACATAAAACCAAGTTTAATT+TGG | - | chr6.3:6332800-6332819 | MS.gene20456:intron | 20.0% |
| !! | AGACTACTAAAATATAACAT+TGG | + | chr6.3:6333124-6333143 | None:intergenic | 20.0% |
| !! | ATAAAATAATGTTCGTACTT+AGG | + | chr6.3:6334073-6334092 | None:intergenic | 20.0% |
| !! | ATACAACTACAATAAAATCA+TGG | - | chr6.3:6334091-6334110 | MS.gene20456:intron | 20.0% |
| !! | ATTAACATAATATTATGGGT+AGG | - | chr6.3:6332851-6332870 | MS.gene20456:intron | 20.0% |
| !! | CACAAAAAAAAAATCAAAAC+TGG | + | chr6.3:6334233-6334252 | None:intergenic | 20.0% |
| !! | CATAATATATGTAAGATTAG+GGG | + | chr6.3:6334272-6334291 | None:intergenic | 20.0% |
| !! | CATTAGTAGAAATTATGTTA+TGG | - | chr6.3:6333399-6333418 | MS.gene20456:intron | 20.0% |
| !! | CGATCTTTGATAAAATAAAT+TGG | + | chr6.3:6333434-6333453 | None:intergenic | 20.0% |
| !! | CTTAAAAATATAACGTAAAG+TGG | - | chr6.3:6333218-6333237 | MS.gene20456:intron | 20.0% |
| !! | GCATAATATATGTAAGATTA+GGG | + | chr6.3:6334273-6334292 | None:intergenic | 20.0% |
| !! | TAAAATAATGTTCGTACTTA+GGG | + | chr6.3:6334072-6334091 | None:intergenic | 20.0% |
| !! | TGCATAATATATGTAAGATT+AGG | + | chr6.3:6334274-6334293 | None:intergenic | 20.0% |
| !!! | AAGGTTTTAAAGGTAAAAAA+AGG | - | chr6.3:6333904-6333923 | MS.gene20456:intron | 20.0% |
| !!! | AATCGTTAACATGTATTTTA+AGG | + | chr6.3:6333378-6333397 | None:intergenic | 20.0% |
| !!! | AGCATTTTTCAACTTTTTAA+AGG | + | chr6.3:6333346-6333365 | None:intergenic | 20.0% |
| !!! | ATCGTTAACATGTATTTTAA+GGG | + | chr6.3:6333377-6333396 | None:intergenic | 20.0% |
| !!! | CAGTTTTGATTTTTTTTTTG+TGG | - | chr6.3:6334231-6334250 | MS.gene20456:intron | 20.0% |
| !!! | CTATAATAATATAGCCTTAT+AGG | + | chr6.3:6333634-6333653 | None:intergenic | 20.0% |
| !!! | TAATAATGAGAAACGTTTTT+TGG | - | chr6.3:6333794-6333813 | MS.gene20456:intron | 20.0% |
| !!! | TTTAAAACCTTTTCCTTTTT+GGG | + | chr6.3:6333895-6333914 | None:intergenic | 20.0% |
| ! | AAAAAAAATCAAAACTGGAC+TGG | + | chr6.3:6334228-6334247 | None:intergenic | 25.0% |
| ! | AAACAATGATAAGGATCTTA+CGG | + | chr6.3:6333151-6333170 | None:intergenic | 25.0% |
| ! | ATAACAATAGTAAATGGTCA+AGG | - | chr6.3:6332903-6332922 | MS.gene20456:intron | 25.0% |
| ! | ATTCATTAAACAATGTTACC+AGG | + | chr6.3:6333183-6333202 | None:intergenic | 25.0% |
| ! | GAAAAGGAAAATATTGTTAG+TGG | + | chr6.3:6332674-6332693 | None:intergenic | 25.0% |
| ! | GAATTAACAATAACATGTGT+AGG | - | chr6.3:6333519-6333538 | MS.gene20456:intron | 25.0% |
| ! | GTATGTAATAAAAGCCTATA+AGG | - | chr6.3:6333617-6333636 | MS.gene20456:intron | 25.0% |
| ! | GTCTAAAAAAAATGGCTTAT+TGG | - | chr6.3:6333592-6333611 | MS.gene20456:intron | 25.0% |
| ! | TAACAATAGTAAATGGTCAA+GGG | - | chr6.3:6332904-6332923 | MS.gene20456:intron | 25.0% |
| ! | TAGAAACATATCTAAGAACT+TGG | - | chr6.3:6333651-6333670 | MS.gene20456:intron | 25.0% |
| ! | TCATAATTTATGAATATGGC+AGG | - | chr6.3:6334577-6334596 | MS.gene20456:intron | 25.0% |
| ! | TGAAAGATTATCTCAGTTAT+TGG | - | chr6.3:6334803-6334822 | MS.gene20456:CDS | 25.0% |
| ! | TTCATTAAACAATGTTACCA+GGG | + | chr6.3:6333182-6333201 | None:intergenic | 25.0% |
| ! | TTTAGGTCTCATATTATGTT+CGG | - | chr6.3:6334197-6334216 | MS.gene20456:intron | 25.0% |
| !! | TGTACAAACACATCAATTTT+TGG | - | chr6.3:6334017-6334036 | MS.gene20456:intron | 25.0% |
| !! | TTAAAACCTTTTCCTTTTTG+GGG | + | chr6.3:6333894-6333913 | None:intergenic | 25.0% |
| !!! | AAAACCAAGTTTAATTTGGA+AGG | - | chr6.3:6332804-6332823 | MS.gene20456:intron | 25.0% |
| !!! | AAACCAAGTTTAATTTGGAA+GGG | - | chr6.3:6332805-6332824 | MS.gene20456:intron | 25.0% |
| !!! | CAAAAAGGAAAAGGTTTTAA+AGG | - | chr6.3:6333894-6333913 | MS.gene20456:intron | 25.0% |
| !!! | CTTTAAAACCTTTTCCTTTT+TGG | + | chr6.3:6333896-6333915 | None:intergenic | 25.0% |
| CTCTCTTGGTCTAAAAAAAA+TGG | - | chr6.3:6333584-6333603 | MS.gene20456:intron | 30.0% | |
| TATCCCTTCCAAATTAAACT+TGG | + | chr6.3:6332811-6332830 | None:intergenic | 30.0% | |
| TGATAATCATATCTCGCTTT+AGG | - | chr6.3:6334180-6334199 | MS.gene20456:intron | 30.0% | |
| ! | ACTGACTAATTTTATTGTGC+AGG | - | chr6.3:6334707-6334726 | MS.gene20456:intron | 30.0% |
| ! | GCACTTGTTAAACAATGATA+AGG | + | chr6.3:6333160-6333179 | None:intergenic | 30.0% |
| !!! | CATTTTTTTTAGACCAAGAG+AGG | + | chr6.3:6333586-6333605 | None:intergenic | 30.0% |
| AAATGCTCACAAGTGTCTTA+GGG | + | chr6.3:6333308-6333327 | None:intergenic | 35.0% | |
| AACATTGGCGACAAATAATG+TGG | + | chr6.3:6333109-6333128 | None:intergenic | 35.0% | |
| AATGCTCTTCAAATTTGACG+AGG | + | chr6.3:6333045-6333064 | None:intergenic | 35.0% | |
| AGTGGGGATAAAACTTTGTT+GGG | + | chr6.3:6333563-6333582 | None:intergenic | 35.0% | |
| GGGTTAAGAGACATTATCAA+AGG | + | chr6.3:6332653-6332672 | None:intergenic | 35.0% | |
| TAACAGTCATGAGGTAATTG+TGG | - | chr6.3:6333938-6333957 | MS.gene20456:intron | 35.0% | |
| TAATTTGGAAGGGATAGTCT+AGG | - | chr6.3:6332815-6332834 | MS.gene20456:intron | 35.0% | |
| TATACTGTCCTTTGTCACAA+AGG | + | chr6.3:6334639-6334658 | None:intergenic | 35.0% | |
| TCTTGAAGCTCATGAAAATC+AGG | - | chr6.3:6333015-6333034 | MS.gene20456:intron | 35.0% | |
| ! | CTTCTGATAATATTAGCCTC+TGG | + | chr6.3:6334849-6334868 | None:intergenic | 35.0% |
| ! | TGAGTTTAGGTTAGTTGGTA+GGG | + | chr6.3:6334301-6334320 | None:intergenic | 35.0% |
| !!! | TCAAAGGAGTTTTAAGCAAG+AGG | + | chr6.3:6332637-6332656 | None:intergenic | 35.0% |
| AATTGATGCTGATAGTCCAG+AGG | - | chr6.3:6334830-6334849 | MS.gene20456:CDS | 40.0% | |
| AGATTGACCATGACATTGTC+TGG | + | chr6.3:6333681-6333700 | None:intergenic | 40.0% | |
| CACATGATACATGTACGAGT+CGG | + | chr6.3:6333745-6333764 | None:intergenic | 40.0% | |
| CCAATAGTCCTTTGTGACAA+AGG | - | chr6.3:6334628-6334647 | MS.gene20456:intron | 40.0% | |
| CCTTTGTCACAAAGGACTAT+TGG | + | chr6.3:6334631-6334650 | None:intergenic | 40.0% | |
| GAAATGCTCACAAGTGTCTT+AGG | + | chr6.3:6333309-6333328 | None:intergenic | 40.0% | |
| GAGTGGGGATAAAACTTTGT+TGG | + | chr6.3:6333564-6333583 | None:intergenic | 40.0% | |
| GTCATGGTCAATCTTACGAA+GGG | - | chr6.3:6333687-6333706 | MS.gene20456:intron | 40.0% | |
| TATAACGCAGAACCCCAAAA+AGG | - | chr6.3:6333879-6333898 | MS.gene20456:intron | 40.0% | |
| TCATTGTTTAACAAGTGCCC+TGG | - | chr6.3:6333162-6333181 | MS.gene20456:intron | 40.0% | |
| TGTAGTTGCAAGTCTCTTGT+AGG | + | chr6.3:6334749-6334768 | None:intergenic | 40.0% | |
| TGTCATGGTCAATCTTACGA+AGG | - | chr6.3:6333686-6333705 | MS.gene20456:intron | 40.0% | |
| ! | AAATCAAAACTGGACTGGAC+TGG | + | chr6.3:6334223-6334242 | None:intergenic | 40.0% |
| ! | AGGAACAAGTTGACGTAACT+TGG | + | chr6.3:6332529-6332548 | None:intergenic | 40.0% |
| ! | GTCAATCTTACGAAGGGTAT+AGG | - | chr6.3:6333693-6333712 | MS.gene20456:intron | 40.0% |
| ! | GTGAGTTTAGGTTAGTTGGT+AGG | + | chr6.3:6334302-6334321 | None:intergenic | 40.0% |
| ! | TTTTAGACCAAGAGAGGAGT+GGG | + | chr6.3:6333580-6333599 | None:intergenic | 40.0% |
| ! | TTTTTAGACCAAGAGAGGAG+TGG | + | chr6.3:6333581-6333600 | None:intergenic | 40.0% |
| ACTGCACTGTAACAGTCATG+AGG | - | chr6.3:6333929-6333948 | MS.gene20456:intron | 45.0% | |
| CCAACTAACCTAAACTCACG+AGG | - | chr6.3:6334303-6334322 | MS.gene20456:intron | 45.0% | |
| GAACGTCTATGACGAATCTC+AGG | + | chr6.3:6332549-6332568 | None:intergenic | 45.0% | |
| GCAGAACCCCAAAAAGGAAA+AGG | - | chr6.3:6333885-6333904 | MS.gene20456:intron | 45.0% | |
| TCGTCATAGACGTTCAGACA+AGG | - | chr6.3:6332554-6332573 | MS.gene20456:CDS | 45.0% | |
| TGAATGGTGTGGGAACAGTT+TGG | + | chr6.3:6333720-6333739 | None:intergenic | 45.0% | |
| TGGTCAACCAGACAATGTCA+TGG | - | chr6.3:6333671-6333690 | MS.gene20456:intron | 45.0% | |
| TGTGCAGGTATCAGCATCTA+AGG | - | chr6.3:6334722-6334741 | MS.gene20456:intron | 45.0% | |
| TTTAGACCAAGAGAGGAGTG+GGG | + | chr6.3:6333579-6333598 | None:intergenic | 45.0% | |
| ! | CCTCGTGAGTTTAGGTTAGT+TGG | + | chr6.3:6334306-6334325 | None:intergenic | 45.0% |
| ! | TTTTATCCCCACTCCTCTCT+TGG | - | chr6.3:6333570-6333589 | MS.gene20456:intron | 45.0% |
| !! | TTATACGGCAGAGCTTTGAG+TGG | - | chr6.3:6332956-6332975 | MS.gene20456:intron | 45.0% |
| !!! | AAAAATTAATTTAACTTATA+CGG | - | chr6.3:6332941-6332960 | MS.gene20456:intron | 5.0% |
| !!! | TATTATTATTATTATTTTGA+AGG | - | chr6.3:6334412-6334431 | MS.gene20456:intron | 5.0% |
| CATGTACGAGTCGGTGTGAA+TGG | + | chr6.3:6333736-6333755 | None:intergenic | 50.0% | |
| GGACTGATCCTCGTGAGTTT+AGG | + | chr6.3:6334314-6334333 | None:intergenic | 50.0% | |
| ACGAGTCGGTGTGAATGGTG+TGG | + | chr6.3:6333731-6333750 | None:intergenic | 55.0% | |
| CGAGTCGGTGTGAATGGTGT+GGG | + | chr6.3:6333730-6333749 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.3 | gene | 6332453 | 6334884 | 6332453 | ID=MS.gene20456 |
| chr6.3 | mRNA | 6332453 | 6334884 | 6332453 | ID=MS.gene20456.t1;Parent=MS.gene20456 |
| chr6.3 | exon | 6334762 | 6334884 | 6334762 | ID=MS.gene20456.t1.exon1;Parent=MS.gene20456.t1 |
| chr6.3 | CDS | 6334762 | 6334884 | 6334762 | ID=cds.MS.gene20456.t1;Parent=MS.gene20456.t1 |
| chr6.3 | exon | 6332453 | 6332608 | 6332453 | ID=MS.gene20456.t1.exon2;Parent=MS.gene20456.t1 |
| chr6.3 | CDS | 6332453 | 6332608 | 6332453 | ID=cds.MS.gene20456.t1;Parent=MS.gene20456.t1 |
| Gene Sequence |
| Protein sequence |
