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.gene053413.t1 | XP_003590058.1 | 98.1 | 103 | 2 | 0 | 1 | 103 | 50 | 152 | 1.20E-45 | 192.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene053413.t1 | Q8L7R5 | 67.6 | 102 | 33 | 0 | 1 | 102 | 50 | 151 | 6.4e-32 | 137.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene053413.t1 | G7I5E9 | 98.1 | 103 | 2 | 0 | 1 | 103 | 50 | 152 | 8.6e-46 | 192.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene053413.t1 | TF | C3H |
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.gene053413.t1 | MTR_1g043450 | 98.058 | 103 | 2 | 0 | 1 | 103 | 50 | 152 | 4.60e-68 | 201 |
| MS.gene053413.t1 | MTR_1g074040 | 71.845 | 103 | 29 | 0 | 1 | 103 | 49 | 151 | 9.30e-52 | 159 |
| MS.gene053413.t1 | MTR_1g073950 | 69.903 | 103 | 31 | 0 | 1 | 103 | 50 | 152 | 4.83e-50 | 155 |
| MS.gene053413.t1 | MTR_4g021340 | 54.808 | 104 | 45 | 1 | 1 | 102 | 51 | 154 | 6.09e-34 | 114 |
| MS.gene053413.t1 | MTR_4g058950 | 39.604 | 101 | 60 | 1 | 2 | 102 | 85 | 184 | 2.97e-19 | 78.2 |
| MS.gene053413.t1 | MTR_4g113590 | 63.043 | 46 | 17 | 0 | 1 | 46 | 9 | 54 | 1.31e-14 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene053413.t1 | AT3G23200 | 67.647 | 102 | 33 | 0 | 1 | 102 | 23 | 124 | 4.73e-46 | 144 |
| MS.gene053413.t1 | AT3G23200 | 67.647 | 102 | 33 | 0 | 1 | 102 | 50 | 151 | 6.12e-46 | 145 |
| MS.gene053413.t1 | AT3G53850 | 52.885 | 104 | 47 | 1 | 1 | 102 | 50 | 153 | 8.89e-34 | 114 |
| MS.gene053413.t1 | AT3G53850 | 52.885 | 104 | 47 | 1 | 1 | 102 | 50 | 153 | 8.89e-34 | 114 |
| MS.gene053413.t1 | AT3G53850 | 52.885 | 104 | 47 | 1 | 1 | 102 | 37 | 140 | 9.51e-34 | 114 |
| MS.gene053413.t1 | AT5G02060 | 50.000 | 102 | 49 | 1 | 1 | 100 | 50 | 151 | 3.03e-25 | 92.8 |
| MS.gene053413.t1 | AT2G28370 | 44.000 | 100 | 55 | 1 | 3 | 102 | 80 | 178 | 7.28e-21 | 82.4 |
| MS.gene053413.t1 | AT2G37200 | 42.045 | 88 | 49 | 2 | 14 | 101 | 93 | 178 | 5.57e-19 | 77.4 |
| MS.gene053413.t1 | AT2G37200 | 42.045 | 88 | 49 | 2 | 14 | 101 | 122 | 207 | 1.03e-18 | 77.4 |
Find 20 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTATTAACCAAAGCATTATT+AGG | 0.170267 | 1.4:-27691384 | None:intergenic |
| GATATGGGACATTGCCATTT+TGG | 0.170837 | 1.4:+27691289 | MS.gene053413:CDS |
| GCCTCTTTGTTGTTGGTGAT+TGG | 0.275327 | 1.4:+27690835 | MS.gene053413:CDS |
| CAATGGCTTTACAAATCATT+TGG | 0.304130 | 1.4:+27690739 | None:intergenic |
| TTTGACACTCCTCTCCAAAA+TGG | 0.331427 | 1.4:-27691303 | None:intergenic |
| CCTCTTTGTTGTTGGTGATT+GGG | 0.376698 | 1.4:+27690836 | MS.gene053413:CDS |
| GCTGCAGCTTCTGCCTCAGC+TGG | 0.388706 | 1.4:+27691244 | MS.gene053413:CDS |
| TATTAACCAAAGCATTATTA+GGG | 0.389148 | 1.4:-27691383 | None:intergenic |
| TTGATTAGCCTCTTTGTTGT+TGG | 0.412424 | 1.4:+27690828 | MS.gene053413:CDS |
| TATCATCCCTAATAATGCTT+TGG | 0.418492 | 1.4:+27691377 | MS.gene053413:CDS |
| TTCGTTGGATGCTTATGCTT+TGG | 0.430874 | 1.4:+27690776 | MS.gene053413:CDS |
| ATGCTTTGGTTAATAGCAGC+AGG | 0.438809 | 1.4:+27691391 | MS.gene053413:CDS |
| AGGCAAAAGCAACAGAAATC+TGG | 0.443728 | 1.4:-27691330 | None:intergenic |
| ACAAAGAGGCTAATCAATAC+AGG | 0.449483 | 1.4:-27690822 | None:intergenic |
| AATGGCAATGTCCCATATCA+TGG | 0.478377 | 1.4:-27691285 | None:intergenic |
| AATTGAGATCCAACTCATGA+AGG | 0.575382 | 1.4:-27691350 | None:intergenic |
| CCCAATCACCAACAACAAAG+AGG | 0.590501 | 1.4:-27690836 | None:intergenic |
| CAAAGAGGCTAATCAATACA+GGG | 0.608265 | 1.4:-27690821 | None:intergenic |
| TGCTTTGGTTAATAGCAGCA+GGG | 0.625504 | 1.4:+27691392 | MS.gene053413:CDS |
| CAAAACTGTAAGTCCAGCTG+AGG | 0.661899 | 1.4:-27691257 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAGTTATAAGTTGTTTTCAT+AGG | - | chr1.4:27691088-27691107 | None:intergenic | 20.0% |
| !!! | TATTAACCAAAGCATTATTA+GGG | - | chr1.4:27691386-27691405 | None:intergenic | 20.0% |
| ! | AAACAGTTTCACAAATTCTA+AGG | - | chr1.4:27690989-27691008 | None:intergenic | 25.0% |
| ! | TTGCTTCAAACAAATTAGTT+AGG | - | chr1.4:27690890-27690909 | None:intergenic | 25.0% |
| !! | CTATTAACCAAAGCATTATT+AGG | - | chr1.4:27691387-27691406 | None:intergenic | 25.0% |
| !! | TAGAATTTGTGAAACTGTTT+TGG | + | chr1.4:27690989-27691008 | MS.gene053413:intron | 25.0% |
| !!! | TAACAAATGCTTGTTTTGAT+TGG | + | chr1.4:27690941-27690960 | MS.gene053413:intron | 25.0% |
| ATCCAAACAAGACTTAAGTT+TGG | + | chr1.4:27691187-27691206 | MS.gene053413:intron | 30.0% | |
| TATCATCCCTAATAATGCTT+TGG | + | chr1.4:27691377-27691396 | MS.gene053413:CDS | 30.0% | |
| TTATGCTTTGGTGAAAAAGA+AGG | + | chr1.4:27690788-27690807 | MS.gene053413:CDS | 30.0% | |
| ! | GTTTTGTACTTCCATGATAT+GGG | + | chr1.4:27691274-27691293 | MS.gene053413:CDS | 30.0% |
| !! | AACCAAACTTAAGTCTTGTT+TGG | - | chr1.4:27691192-27691211 | None:intergenic | 30.0% |
| !! | AGGTAATTTTGAAGAGCTTA+TGG | - | chr1.4:27691068-27691087 | None:intergenic | 30.0% |
| !! | AGTTTTGTACTTCCATGATA+TGG | + | chr1.4:27691273-27691292 | MS.gene053413:CDS | 30.0% |
| AATTGAGATCCAACTCATGA+AGG | - | chr1.4:27691353-27691372 | None:intergenic | 35.0% | |
| ACAAAGAGGCTAATCAATAC+AGG | - | chr1.4:27690825-27690844 | None:intergenic | 35.0% | |
| CAAAGAGGCTAATCAATACA+GGG | - | chr1.4:27690824-27690843 | None:intergenic | 35.0% | |
| !! | TTCACAAATTCTAAGGCAAG+TGG | - | chr1.4:27690982-27691001 | None:intergenic | 35.0% |
| !! | TTGATTAGCCTCTTTGTTGT+TGG | + | chr1.4:27690828-27690847 | MS.gene053413:CDS | 35.0% |
| AATGGCAATGTCCCATATCA+TGG | - | chr1.4:27691288-27691307 | None:intergenic | 40.0% | |
| AGGCAAAAGCAACAGAAATC+TGG | - | chr1.4:27691333-27691352 | None:intergenic | 40.0% | |
| ATGCTTTGGTTAATAGCAGC+AGG | + | chr1.4:27691391-27691410 | MS.gene053413:CDS | 40.0% | |
| TGCTTTGGTTAATAGCAGCA+GGG | + | chr1.4:27691392-27691411 | MS.gene053413:CDS | 40.0% | |
| TTCGTTGGATGCTTATGCTT+TGG | + | chr1.4:27690776-27690795 | MS.gene053413:CDS | 40.0% | |
| TTTGACACTCCTCTCCAAAA+TGG | - | chr1.4:27691306-27691325 | None:intergenic | 40.0% | |
| ! | GATATTGTTGCTGTTACCTG+TGG | - | chr1.4:27691220-27691239 | None:intergenic | 40.0% |
| !! | CCTCTTTGTTGTTGGTGATT+GGG | + | chr1.4:27690836-27690855 | MS.gene053413:CDS | 40.0% |
| !! | GATATGGGACATTGCCATTT+TGG | + | chr1.4:27691289-27691308 | MS.gene053413:CDS | 40.0% |
| !! | TAAGTTTGGTTCTTGACCAC+AGG | + | chr1.4:27691201-27691220 | MS.gene053413:intron | 40.0% |
| !! | TTGCTTTTGCCTTCATGAGT+TGG | + | chr1.4:27691341-27691360 | MS.gene053413:CDS | 40.0% |
| CAAAACTGTAAGTCCAGCTG+AGG | - | chr1.4:27691260-27691279 | None:intergenic | 45.0% | |
| CCCAATCACCAACAACAAAG+AGG | - | chr1.4:27690839-27690858 | None:intergenic | 45.0% | |
| !! | GAGTTTTGTGCTTGCTTCGT+TGG | + | chr1.4:27690761-27690780 | MS.gene053413:CDS | 45.0% |
| !! | GCCTCTTTGTTGTTGGTGAT+TGG | + | chr1.4:27690835-27690854 | MS.gene053413:CDS | 45.0% |
| !!! | GGGACATTGCCATTTTGGAG+AGG | + | chr1.4:27691294-27691313 | MS.gene053413:CDS | 50.0% |
| GCTGCAGCTTCTGCCTCAGC+TGG | + | chr1.4:27691244-27691263 | MS.gene053413:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 27690741 | 27691417 | 27690741 | ID=MS.gene053413 |
| chr1.4 | mRNA | 27690741 | 27691417 | 27690741 | ID=MS.gene053413.t1;Parent=MS.gene053413 |
| chr1.4 | exon | 27690741 | 27690857 | 27690741 | ID=MS.gene053413.t1.exon1;Parent=MS.gene053413.t1 |
| chr1.4 | CDS | 27690741 | 27690857 | 27690741 | ID=cds.MS.gene053413.t1;Parent=MS.gene053413.t1 |
| chr1.4 | exon | 27691223 | 27691417 | 27691223 | ID=MS.gene053413.t1.exon2;Parent=MS.gene053413.t1 |
| chr1.4 | CDS | 27691223 | 27691417 | 27691223 | ID=cds.MS.gene053413.t1;Parent=MS.gene053413.t1 |
| Gene Sequence |
| Protein sequence |
