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.gene31378.t1 | KEH39262.1 | 91.2 | 331 | 29 | 0 | 1 | 331 | 34 | 364 | 3.10E-164 | 587.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31378.t1 | A0A072VM96 | 91.2 | 331 | 29 | 0 | 1 | 331 | 35 | 365 | 2.3e-164 | 587.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050156 | MS.gene31378 | 0.803998 | 2.67E-49 | -1.69E-46 |
| MS.gene052333 | MS.gene31378 | 0.807198 | 5.68E-50 | -1.69E-46 |
| MS.gene053166 | MS.gene31378 | 0.807852 | 4.13E-50 | -1.69E-46 |
| MS.gene054559 | MS.gene31378 | 0.836555 | 8.74E-57 | -1.69E-46 |
| MS.gene055453 | MS.gene31378 | -0.800102 | 1.69E-48 | -1.69E-46 |
| MS.gene055455 | MS.gene31378 | -0.802549 | 5.32E-49 | -1.69E-46 |
| MS.gene05604 | MS.gene31378 | 0.81036 | 1.20E-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.gene31378.t1 | MTR_2g091180 | 91.239 | 331 | 29 | 0 | 1 | 331 | 1 | 331 | 0.0 | 626 |
| MS.gene31378.t1 | MTR_2g091180 | 91.239 | 331 | 29 | 0 | 1 | 331 | 34 | 364 | 0.0 | 625 |
| MS.gene31378.t1 | MTR_2g091180 | 91.239 | 331 | 29 | 0 | 1 | 331 | 35 | 365 | 0.0 | 624 |
| MS.gene31378.t1 | MTR_2g091180 | 89.124 | 331 | 29 | 1 | 1 | 331 | 35 | 358 | 0.0 | 605 |
| MS.gene31378.t1 | MTR_2g091180 | 88.839 | 224 | 25 | 0 | 1 | 224 | 35 | 258 | 4.21e-144 | 407 |
| MS.gene31378.t1 | MTR_4g079720 | 41.854 | 356 | 163 | 7 | 1 | 327 | 42 | 382 | 2.23e-70 | 224 |
| MS.gene31378.t1 | MTR_4g079720 | 41.292 | 356 | 159 | 7 | 1 | 327 | 42 | 376 | 2.44e-69 | 221 |
| MS.gene31378.t1 | MTR_5g052190 | 50.857 | 175 | 74 | 4 | 111 | 274 | 570 | 743 | 3.51e-35 | 136 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 55 sgRNAs with CRISPR-Local
Find 83 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAACGTTGAAATGACTTCTT+AGG | 0.149183 | 2.4:-9159639 | None:intergenic |
| TTGCATGGGAACAATGAAAA+TGG | 0.296806 | 2.4:+9160888 | MS.gene31378:CDS |
| TCAAGTATGAATCATGATTC+TGG | 0.348680 | 2.4:+9159708 | MS.gene31378:CDS |
| GTACTATGAGAACAATCTTC+AGG | 0.406202 | 2.4:-9160247 | None:intergenic |
| GCATTAGCATATTGACCTAT+AGG | 0.407489 | 2.4:-9159606 | None:intergenic |
| CTTTGTATTAACCGTTGCCT+TGG | 0.433232 | 2.4:-9160704 | None:intergenic |
| TATTGACCTATAGGCAATAC+AGG | 0.434816 | 2.4:-9159597 | None:intergenic |
| GAGACATCATCCTGCGAAGT+TGG | 0.437673 | 2.4:-9160939 | None:intergenic |
| TGAGTGCTCGGTTGATCGCT+TGG | 0.441160 | 2.4:-9159688 | None:intergenic |
| GCGACTTCACTGGCTGTCTT+CGG | 0.444331 | 2.4:-9159846 | None:intergenic |
| AAACCGCGGTATTCCCGTAT+TGG | 0.446464 | 2.4:+9160031 | MS.gene31378:CDS |
| TTTGTATTAACCGTTGCCTT+GGG | 0.446863 | 2.4:-9160703 | None:intergenic |
| AGATTTCTTATACAAAGAAA+AGG | 0.463264 | 2.4:-9160832 | None:intergenic |
| AACTAACTGAAGTTCGTCTC+TGG | 0.466709 | 2.4:-9160680 | None:intergenic |
| GGCGTGCAAAACAACATGTT+CGG | 0.468393 | 2.4:+9159760 | MS.gene31378:CDS |
| AACGTTGAAATGACTTCTTA+GGG | 0.471471 | 2.4:-9159638 | None:intergenic |
| TCACTGGCTGTCTTCGGTGC+AGG | 0.473319 | 2.4:-9159840 | None:intergenic |
| GCTACCCCTGTATTGCCTAT+AGG | 0.475822 | 2.4:+9159591 | MS.gene31378:CDS |
| TTCAGCTGAATCAACCAATA+CGG | 0.476111 | 2.4:-9160045 | None:intergenic |
| GAGTTTATGTCCAACTTCGC+AGG | 0.480137 | 2.4:+9160929 | MS.gene31378:CDS |
| ATACAGAGAAGTTCCCATTC+GGG | 0.483134 | 2.4:-9160966 | None:intergenic |
| ATGATTCATACTTGAGTGCT+CGG | 0.490637 | 2.4:-9159700 | None:intergenic |
| TTCCAAGAAAAGAATGGTAA+AGG | 0.491376 | 2.4:+9159659 | MS.gene31378:CDS |
| GAGAATCAAATGCAGATTGT+CGG | 0.494930 | 2.4:+9159507 | None:intergenic |
| TCAACGTTCCAAGAAAAGAA+TGG | 0.498812 | 2.4:+9159653 | MS.gene31378:CDS |
| TGATGTCTCTGAACCCGAAT+GGG | 0.499518 | 2.4:+9160953 | MS.gene31378:CDS |
| GATTTCTTATACAAAGAAAA+GGG | 0.503803 | 2.4:-9160831 | None:intergenic |
| TATACAGAGAAGTTCCCATT+CGG | 0.509868 | 2.4:-9160967 | None:intergenic |
| GAAGAGCTTGCATTATTGCA+TGG | 0.512750 | 2.4:+9160873 | MS.gene31378:CDS |
| GGGAACAATGAAAATGGAAA+TGG | 0.513366 | 2.4:+9160894 | MS.gene31378:CDS |
| CAAGTCGTTGTCTTGTCTCG+TGG | 0.515765 | 2.4:-9160629 | None:intergenic |
| AAGAGCTTGCATTATTGCAT+GGG | 0.541758 | 2.4:+9160874 | MS.gene31378:CDS |
| TCAGCTGAATCAACCAATAC+GGG | 0.546541 | 2.4:-9160044 | None:intergenic |
| ACAATCGCTGTGTCTCATCC+AGG | 0.556728 | 2.4:+9160268 | MS.gene31378:CDS |
| ACAGGGGTAGCACATGAAGA+TGG | 0.556868 | 2.4:-9159579 | None:intergenic |
| CAGATTGTCGGAGAAAGTGT+TGG | 0.564686 | 2.4:+9159519 | MS.gene31378:CDS |
| AAAGTTCTACTCAGAAGTCA+TGG | 0.568093 | 2.4:+9159542 | MS.gene31378:CDS |
| CTTTGTATAAGAAATCTACA+AGG | 0.568921 | 2.4:+9160838 | MS.gene31378:CDS |
| TCAGTTAGTTCCCAAGGCAA+CGG | 0.569255 | 2.4:+9160693 | MS.gene31378:CDS |
| ACAATCTGCTACAGCTGCAA+AGG | 0.574614 | 2.4:-9159976 | None:intergenic |
| CGAACTTCAGTTAGTTCCCA+AGG | 0.579450 | 2.4:+9160687 | MS.gene31378:CDS |
| ATGATGTCTCTGAACCCGAA+TGG | 0.585604 | 2.4:+9160952 | MS.gene31378:CDS |
| GCTCGAGGAAGTTTGTGTCA+TGG | 0.603153 | 2.4:+9160654 | MS.gene31378:CDS |
| ATTGACCTATAGGCAATACA+GGG | 0.623800 | 2.4:-9159596 | None:intergenic |
| CAATGTAAATGAAAATCATG+AGG | 0.632995 | 2.4:+9159917 | MS.gene31378:CDS |
| AGACAACGACTTGAAGCTCG+AGG | 0.652614 | 2.4:+9160639 | MS.gene31378:CDS |
| GGTTAATACAAAGAAGAGAG+AGG | 0.674515 | 2.4:+9160714 | MS.gene31378:CDS |
| GGGGTAGCACATGAAGATGG+AGG | 0.680389 | 2.4:-9159576 | None:intergenic |
| GACATACTTGAAGATGCACA+TGG | 0.688594 | 2.4:+9160095 | MS.gene31378:CDS |
| CAACCAATACGGGAATACCG+CGG | 0.698495 | 2.4:-9160034 | None:intergenic |
| GGGAACTTCTCTGTATACCA+CGG | 0.703402 | 2.4:+9160973 | MS.gene31378:CDS |
| AAATGGAAATGGTGACTGCG+TGG | 0.720049 | 2.4:+9160905 | MS.gene31378:CDS |
| TTGACCTATAGGCAATACAG+GGG | 0.763489 | 2.4:-9159595 | None:intergenic |
| GCAAGTACTGAACAAAACCG+CGG | 0.773893 | 2.4:+9160017 | MS.gene31378:CDS |
| CACCTACAACATGATCACCG+TGG | 0.789761 | 2.4:-9160990 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCAAAAAGAATACTTTTATT+TGG | + | chr2.4:9159739-9159758 | MS.gene31378:CDS | 15.0% |
| !! | AGATTTCTTATACAAAGAAA+AGG | - | chr2.4:9160835-9160854 | None:intergenic | 20.0% |
| !! | GATTTCTTATACAAAGAAAA+GGG | - | chr2.4:9160834-9160853 | None:intergenic | 20.0% |
| ! | ACGTGCATAAAAAATAGAAA+AGG | - | chr2.4:9160754-9160773 | None:intergenic | 25.0% |
| ! | CAATGTAAATGAAAATCATG+AGG | + | chr2.4:9159917-9159936 | MS.gene31378:CDS | 25.0% |
| ! | CGTGCATAAAAAATAGAAAA+GGG | - | chr2.4:9160753-9160772 | None:intergenic | 25.0% |
| ! | CTTTGTATAAGAAATCTACA+AGG | + | chr2.4:9160838-9160857 | MS.gene31378:CDS | 25.0% |
| ! | GTGCATAAAAAATAGAAAAG+GGG | - | chr2.4:9160752-9160771 | None:intergenic | 25.0% |
| !! | ATGTGTATTGAGACAATTTT+AGG | - | chr2.4:9160536-9160555 | None:intergenic | 25.0% |
| !! | CTCATGATTTTCATTTACAT+TGG | - | chr2.4:9159919-9159938 | None:intergenic | 25.0% |
| !! | CTGAAGTACTAATTGAATTT+AGG | + | chr2.4:9160308-9160327 | MS.gene31378:intron | 25.0% |
| !! | TGTGTATTGAGACAATTTTA+GGG | - | chr2.4:9160535-9160554 | None:intergenic | 25.0% |
| !!! | ATATTCATTTTAACCCTGAT+TGG | + | chr2.4:9160560-9160579 | MS.gene31378:intron | 25.0% |
| AACGTTGAAATGACTTCTTA+GGG | - | chr2.4:9159641-9159660 | None:intergenic | 30.0% | |
| ACTTCGTCTAATTAAGAACA+TGG | - | chr2.4:9160437-9160456 | None:intergenic | 30.0% | |
| AGAAGTTCTTGCTTAGAATT+TGG | + | chr2.4:9160391-9160410 | MS.gene31378:intron | 30.0% | |
| ATGGTTTCATTATTACCTCA+TGG | + | chr2.4:9160144-9160163 | MS.gene31378:intron | 30.0% | |
| ATGTTCTTAATTAGACGAAG+TGG | + | chr2.4:9160436-9160455 | MS.gene31378:intron | 30.0% | |
| ATTACCAACAATAAACCATG+AGG | - | chr2.4:9160162-9160181 | None:intergenic | 30.0% | |
| ATTACCTCATGGTTTATTGT+TGG | + | chr2.4:9160155-9160174 | MS.gene31378:intron | 30.0% | |
| GCATGATTTGAATTAATACC+TGG | - | chr2.4:9160289-9160308 | None:intergenic | 30.0% | |
| TCAAGTATGAATCATGATTC+TGG | + | chr2.4:9159708-9159727 | MS.gene31378:CDS | 30.0% | |
| TCTAAGCAAGAACTTCTAAA+TGG | - | chr2.4:9160388-9160407 | None:intergenic | 30.0% | |
| TTCCAAGAAAAGAATGGTAA+AGG | + | chr2.4:9159659-9159678 | MS.gene31378:CDS | 30.0% | |
| TTGCTATAACATTCCAATCA+GGG | - | chr2.4:9160576-9160595 | None:intergenic | 30.0% | |
| TTTCTCGTTTGAAGAAAAAG+TGG | + | chr2.4:9160802-9160821 | MS.gene31378:intron | 30.0% | |
| ! | GTGTATTGAGACAATTTTAG+GGG | - | chr2.4:9160534-9160553 | None:intergenic | 30.0% |
| ! | GTTGCATAACTTTTCTTGTA+GGG | + | chr2.4:9160200-9160219 | MS.gene31378:intron | 30.0% |
| ! | TTTGCTATAACATTCCAATC+AGG | - | chr2.4:9160577-9160596 | None:intergenic | 30.0% |
| AAAGTTCTACTCAGAAGTCA+TGG | + | chr2.4:9159542-9159561 | MS.gene31378:CDS | 35.0% | |
| AAGAGCTTGCATTATTGCAT+GGG | + | chr2.4:9160874-9160893 | MS.gene31378:CDS | 35.0% | |
| ATGATTCATACTTGAGTGCT+CGG | - | chr2.4:9159703-9159722 | None:intergenic | 35.0% | |
| ATTGACCTATAGGCAATACA+GGG | - | chr2.4:9159599-9159618 | None:intergenic | 35.0% | |
| GAACGTTGAAATGACTTCTT+AGG | - | chr2.4:9159642-9159661 | None:intergenic | 35.0% | |
| GCATTAGCATATTGACCTAT+AGG | - | chr2.4:9159609-9159628 | None:intergenic | 35.0% | |
| GGGAACAATGAAAATGGAAA+TGG | + | chr2.4:9160894-9160913 | MS.gene31378:CDS | 35.0% | |
| GGTTAATACAAAGAAGAGAG+AGG | + | chr2.4:9160714-9160733 | MS.gene31378:CDS | 35.0% | |
| GTACTATGAGAACAATCTTC+AGG | - | chr2.4:9160250-9160269 | None:intergenic | 35.0% | |
| GTTTGTATCTTTGTGTCTCT+TGG | + | chr2.4:9160117-9160136 | MS.gene31378:intron | 35.0% | |
| TATACAGAGAAGTTCCCATT+CGG | - | chr2.4:9160970-9160989 | None:intergenic | 35.0% | |
| TATTGACCTATAGGCAATAC+AGG | - | chr2.4:9159600-9159619 | None:intergenic | 35.0% | |
| TCAACGTTCCAAGAAAAGAA+TGG | + | chr2.4:9159653-9159672 | MS.gene31378:CDS | 35.0% | |
| TTCAGCTGAATCAACCAATA+CGG | - | chr2.4:9160048-9160067 | None:intergenic | 35.0% | |
| TTGCATGGGAACAATGAAAA+TGG | + | chr2.4:9160888-9160907 | MS.gene31378:CDS | 35.0% | |
| TTTGTATTAACCGTTGCCTT+GGG | - | chr2.4:9160706-9160725 | None:intergenic | 35.0% | |
| ! | AGCCTTTACCATTCTTTTCT+TGG | - | chr2.4:9159664-9159683 | None:intergenic | 35.0% |
| ! | CGTTGCATAACTTTTCTTGT+AGG | + | chr2.4:9160199-9160218 | MS.gene31378:intron | 35.0% |
| AACTAACTGAAGTTCGTCTC+TGG | - | chr2.4:9160683-9160702 | None:intergenic | 40.0% | |
| ATACAGAGAAGTTCCCATTC+GGG | - | chr2.4:9160969-9160988 | None:intergenic | 40.0% | |
| CGATCAAAAACAGATGGATG+CGG | + | chr2.4:9159870-9159889 | MS.gene31378:CDS | 40.0% | |
| CTTTGTATTAACCGTTGCCT+TGG | - | chr2.4:9160707-9160726 | None:intergenic | 40.0% | |
| CTTTGTGTCTCTTGGACATA+TGG | + | chr2.4:9160125-9160144 | MS.gene31378:intron | 40.0% | |
| GAAGAGCTTGCATTATTGCA+TGG | + | chr2.4:9160873-9160892 | MS.gene31378:CDS | 40.0% | |
| GACATACTTGAAGATGCACA+TGG | + | chr2.4:9160095-9160114 | MS.gene31378:CDS | 40.0% | |
| TCAGCTGAATCAACCAATAC+GGG | - | chr2.4:9160047-9160066 | None:intergenic | 40.0% | |
| TTGACCTATAGGCAATACAG+GGG | - | chr2.4:9159598-9159617 | None:intergenic | 40.0% | |
| !!! | GTCTCGTGGTTTTATCATCT+TGG | - | chr2.4:9160618-9160637 | None:intergenic | 40.0% |
| AAATGGAAATGGTGACTGCG+TGG | + | chr2.4:9160905-9160924 | MS.gene31378:CDS | 45.0% | |
| ACAATCTGCTACAGCTGCAA+AGG | - | chr2.4:9159979-9159998 | None:intergenic | 45.0% | |
| ATGATGTCTCTGAACCCGAA+TGG | + | chr2.4:9160952-9160971 | MS.gene31378:CDS | 45.0% | |
| CGAACTTCAGTTAGTTCCCA+AGG | + | chr2.4:9160687-9160706 | MS.gene31378:CDS | 45.0% | |
| GAGTTTATGTCCAACTTCGC+AGG | + | chr2.4:9160929-9160948 | MS.gene31378:CDS | 45.0% | |
| GGCGTGCAAAACAACATGTT+CGG | + | chr2.4:9159760-9159779 | MS.gene31378:CDS | 45.0% | |
| GGGAACTTCTCTGTATACCA+CGG | + | chr2.4:9160973-9160992 | MS.gene31378:CDS | 45.0% | |
| GTCGCTCGATCAAAAACAGA+TGG | + | chr2.4:9159864-9159883 | MS.gene31378:CDS | 45.0% | |
| TCAGTTAGTTCCCAAGGCAA+CGG | + | chr2.4:9160693-9160712 | MS.gene31378:CDS | 45.0% | |
| TGATGTCTCTGAACCCGAAT+GGG | + | chr2.4:9160953-9160972 | MS.gene31378:CDS | 45.0% | |
| ! | CAGATTGTCGGAGAAAGTGT+TGG | + | chr2.4:9159519-9159538 | MS.gene31378:CDS | 45.0% |
| ! | TTTTGATCGAGCGACTTCAC+TGG | - | chr2.4:9159859-9159878 | None:intergenic | 45.0% |
| !! | GCAAGTACTGAACAAAACCG+CGG | + | chr2.4:9160017-9160036 | MS.gene31378:CDS | 45.0% |
| AAACCGCGGTATTCCCGTAT+TGG | + | chr2.4:9160031-9160050 | MS.gene31378:CDS | 50.0% | |
| ACAATCGCTGTGTCTCATCC+AGG | + | chr2.4:9160268-9160287 | MS.gene31378:CDS | 50.0% | |
| ACAGGGGTAGCACATGAAGA+TGG | - | chr2.4:9159582-9159601 | None:intergenic | 50.0% | |
| AGACAACGACTTGAAGCTCG+AGG | + | chr2.4:9160639-9160658 | MS.gene31378:CDS | 50.0% | |
| CAACCAATACGGGAATACCG+CGG | - | chr2.4:9160037-9160056 | None:intergenic | 50.0% | |
| CAAGTCGTTGTCTTGTCTCG+TGG | - | chr2.4:9160632-9160651 | None:intergenic | 50.0% | |
| GAGACATCATCCTGCGAAGT+TGG | - | chr2.4:9160942-9160961 | None:intergenic | 50.0% | |
| GCTACCCCTGTATTGCCTAT+AGG | + | chr2.4:9159591-9159610 | MS.gene31378:CDS | 50.0% | |
| GCTCGAGGAAGTTTGTGTCA+TGG | + | chr2.4:9160654-9160673 | MS.gene31378:CDS | 50.0% | |
| GGGGTAGCACATGAAGATGG+AGG | - | chr2.4:9159579-9159598 | None:intergenic | 55.0% | |
| TGAGTGCTCGGTTGATCGCT+TGG | - | chr2.4:9159691-9159710 | None:intergenic | 55.0% | |
| ! | GCGACTTCACTGGCTGTCTT+CGG | - | chr2.4:9159849-9159868 | None:intergenic | 55.0% |
| ! | TCACTGGCTGTCTTCGGTGC+AGG | - | chr2.4:9159843-9159862 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.4 | gene | 9159516 | 9160998 | 9159516 | ID=MS.gene31378 |
| chr2.4 | mRNA | 9159516 | 9160998 | 9159516 | ID=MS.gene31378.t1;Parent=MS.gene31378 |
| chr2.4 | exon | 9159516 | 9160116 | 9159516 | ID=MS.gene31378.t1.exon1;Parent=MS.gene31378.t1 |
| chr2.4 | CDS | 9159516 | 9160116 | 9159516 | ID=cds.MS.gene31378.t1;Parent=MS.gene31378.t1 |
| chr2.4 | exon | 9160221 | 9160289 | 9160221 | ID=MS.gene31378.t1.exon2;Parent=MS.gene31378.t1 |
| chr2.4 | CDS | 9160221 | 9160289 | 9160221 | ID=cds.MS.gene31378.t1;Parent=MS.gene31378.t1 |
| chr2.4 | exon | 9160593 | 9160735 | 9160593 | ID=MS.gene31378.t1.exon3;Parent=MS.gene31378.t1 |
| chr2.4 | CDS | 9160593 | 9160735 | 9160593 | ID=cds.MS.gene31378.t1;Parent=MS.gene31378.t1 |
| chr2.4 | exon | 9160816 | 9160998 | 9160816 | ID=MS.gene31378.t1.exon4;Parent=MS.gene31378.t1 |
| chr2.4 | CDS | 9160816 | 9160998 | 9160816 | ID=cds.MS.gene31378.t1;Parent=MS.gene31378.t1 |
| Gene Sequence |
| Protein sequence |
