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.gene84386.t1 | ABR28332.1 | 90.7 | 140 | 13 | 0 | 31 | 170 | 174 | 313 | 5.00E-65 | 257.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84386.t1 | Q8S9H7 | 50.5 | 99 | 42 | 3 | 31 | 126 | 166 | 260 | 8.2e-16 | 85.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84386.t1 | A0A072U1U5 | 90.7 | 140 | 13 | 0 | 31 | 170 | 174 | 313 | 3.6e-65 | 257.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049142 | MS.gene84386 | 0.804434 | 2.16E-49 | -1.69E-46 |
| MS.gene049159 | MS.gene84386 | 0.811848 | 5.70E-51 | -1.69E-46 |
| MS.gene050807 | MS.gene84386 | 0.802909 | 4.49E-49 | -1.69E-46 |
| MS.gene05157 | MS.gene84386 | 0.810618 | 1.05E-50 | -1.69E-46 |
| MS.gene052665 | MS.gene84386 | 0.801931 | 7.13E-49 | -1.69E-46 |
| MS.gene055466 | MS.gene84386 | 0.800802 | 1.22E-48 | -1.69E-46 |
| MS.gene058010 | MS.gene84386 | 0.806358 | 8.55E-50 | -1.69E-46 |
| MS.gene05847 | MS.gene84386 | 0.801408 | 9.13E-49 | -1.69E-46 |
| MS.gene059842 | MS.gene84386 | 0.816804 | 4.58E-52 | -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.gene84386.t1 | MTR_7g067080 | 83.439 | 157 | 19 | 1 | 14 | 170 | 164 | 313 | 8.98e-90 | 265 |
| MS.gene84386.t1 | MTR_5g069710 | 41.958 | 143 | 74 | 6 | 31 | 169 | 166 | 303 | 5.45e-19 | 82.0 |
| MS.gene84386.t1 | MTR_3g462790 | 40.000 | 145 | 71 | 7 | 31 | 168 | 181 | 316 | 1.00e-16 | 76.3 |
| MS.gene84386.t1 | MTR_4g015130 | 83.784 | 37 | 6 | 0 | 33 | 69 | 29 | 65 | 2.54e-15 | 67.8 |
| MS.gene84386.t1 | MTR_5g081860 | 72.727 | 44 | 10 | 1 | 31 | 72 | 159 | 202 | 3.40e-12 | 63.2 |
| MS.gene84386.t1 | MTR_1g033620 | 41.176 | 102 | 42 | 3 | 31 | 132 | 39 | 122 | 5.91e-12 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84386.t1 | AT5G58900 | 86.842 | 38 | 5 | 0 | 31 | 68 | 175 | 212 | 3.75e-16 | 74.3 |
| MS.gene84386.t1 | AT2G38090 | 64.151 | 53 | 12 | 1 | 14 | 66 | 165 | 210 | 2.61e-14 | 69.3 |
| MS.gene84386.t1 | AT5G01200 | 64.151 | 53 | 12 | 1 | 14 | 66 | 170 | 215 | 3.89e-14 | 68.6 |
| MS.gene84386.t1 | AT5G05790 | 59.091 | 66 | 21 | 2 | 28 | 93 | 162 | 221 | 8.23e-14 | 67.8 |
| MS.gene84386.t1 | AT5G05790 | 59.091 | 66 | 21 | 2 | 28 | 93 | 162 | 221 | 8.23e-14 | 67.8 |
| MS.gene84386.t1 | AT3G11280 | 70.732 | 41 | 12 | 0 | 31 | 71 | 161 | 201 | 2.82e-11 | 60.5 |
| MS.gene84386.t1 | AT3G11280 | 70.732 | 41 | 12 | 0 | 31 | 71 | 161 | 201 | 2.82e-11 | 60.5 |
Find 48 sgRNAs with CRISPR-Local
Find 66 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTTCTTCTCCGGACCATT+TGG | 0.330961 | 7.3:-37783615 | MS.gene84386:CDS |
| AATGGTTGCCATGGCCACTA+TGG | 0.386123 | 7.3:-37784497 | MS.gene84386:CDS |
| CACTGTGATATCATGGATAC+TGG | 0.389987 | 7.3:+37783682 | None:intergenic |
| ACTATTGTATCATCTATGTT+TGG | 0.402843 | 7.3:+37784460 | None:intergenic |
| GTATTTCATTAGACAACTTT+CGG | 0.417382 | 7.3:-37783726 | MS.gene84386:CDS |
| TAGTATCAAAAGGTGAAAAC+TGG | 0.419071 | 7.3:+37783390 | None:intergenic |
| TTAGCTGAATTGAAAACAAA+TGG | 0.424453 | 7.3:+37783506 | None:intergenic |
| GGACTGTTACTGTCTGATAA+AGG | 0.430324 | 7.3:+37783635 | None:intergenic |
| TGGTTAAGCAGGAATTTGAT+TGG | 0.447231 | 7.3:-37783550 | MS.gene84386:CDS |
| CTGCAAAATAATAATCTGTC+CGG | 0.474710 | 7.3:-37783575 | MS.gene84386:CDS |
| TTCATTAGACAACTTTCGGC+AGG | 0.476262 | 7.3:-37783722 | MS.gene84386:CDS |
| GATTCGAAACCTTCACCAAA+TGG | 0.477753 | 7.3:+37783600 | None:intergenic |
| TCTGTCCGGCATGGTTAAGC+AGG | 0.487254 | 7.3:-37783561 | MS.gene84386:CDS |
| TTTCGGCAGGGAAGGATAAG+AGG | 0.487494 | 7.3:-37783709 | MS.gene84386:CDS |
| TTCTCCGGACCATTTGGTGA+AGG | 0.489086 | 7.3:-37783609 | MS.gene84386:CDS |
| ACCAAATGGTCCGGAGAAGA+AGG | 0.495780 | 7.3:+37783614 | None:intergenic |
| CAGTAACAGTCCTTCTTCTC+CGG | 0.499685 | 7.3:-37783624 | MS.gene84386:CDS |
| GATGGACGAGGGGAAGGAGC+AGG | 0.502527 | 7.3:-37784426 | MS.gene84386:intron |
| GCATGACTTGCGACTTGAGT+TGG | 0.503766 | 7.3:+37783755 | None:intergenic |
| ACAAATGGCATACCCTCGTC+TGG | 0.504398 | 7.3:+37783521 | None:intergenic |
| TCACACGAATTCAAATCGCC+GGG | 0.506441 | 7.3:-37783446 | MS.gene84386:CDS |
| ATTTGCAAAATAGTATCAAA+AGG | 0.512642 | 7.3:+37783380 | None:intergenic |
| TTCACACGAATTCAAATCGC+CGG | 0.521176 | 7.3:-37783447 | MS.gene84386:CDS |
| GATTGACCACTGTGATATCA+TGG | 0.524764 | 7.3:+37783675 | None:intergenic |
| GGTATCCATGATGAGTGCTT+CGG | 0.532341 | 7.3:+37783411 | None:intergenic |
| GAAACCTTCACCAAATGGTC+CGG | 0.536679 | 7.3:+37783605 | None:intergenic |
| TAGACAACTTTCGGCAGGGA+AGG | 0.537556 | 7.3:-37783717 | MS.gene84386:CDS |
| TTAGAAGATGGACGAGGGGA+AGG | 0.538012 | 7.3:-37784432 | MS.gene84386:CDS |
| AGTCGTCATGGTAGCCATAG+TGG | 0.542346 | 7.3:+37784483 | None:intergenic |
| CATGGTAGCCATAGTGGCCA+TGG | 0.561822 | 7.3:+37784489 | None:intergenic |
| CAATAGTGAGCATTAGAAGA+TGG | 0.569115 | 7.3:-37784444 | MS.gene84386:CDS |
| ATCTATGTTTGGAGTCGTCA+TGG | 0.573254 | 7.3:+37784471 | None:intergenic |
| GTACTCCGAAGCACTCATCA+TGG | 0.587369 | 7.3:-37783416 | MS.gene84386:CDS |
| AAATAATAATCTGTCCGGCA+TGG | 0.595884 | 7.3:-37783570 | MS.gene84386:CDS |
| AAATTCCTGCTTAACCATGC+CGG | 0.599040 | 7.3:+37783556 | None:intergenic |
| AGCTAAAGGAAACATGTATG+TGG | 0.604060 | 7.3:-37783489 | MS.gene84386:CDS |
| TGATTGGAAATTACCAGACG+AGG | 0.606901 | 7.3:-37783534 | MS.gene84386:CDS |
| ATGTATGTGGCACCATCGTG+CGG | 0.608930 | 7.3:-37783476 | MS.gene84386:CDS |
| AGCATTAGAAGATGGACGAG+GGG | 0.612109 | 7.3:-37784436 | MS.gene84386:CDS |
| TGTATGTGGCACCATCGTGC+GGG | 0.614283 | 7.3:-37783475 | MS.gene84386:CDS |
| GATTGGAAATTACCAGACGA+GGG | 0.615371 | 7.3:-37783533 | MS.gene84386:CDS |
| TCATTAGACAACTTTCGGCA+GGG | 0.621929 | 7.3:-37783721 | MS.gene84386:CDS |
| GAGCATTAGAAGATGGACGA+GGG | 0.623917 | 7.3:-37784437 | MS.gene84386:CDS |
| TGAGCATTAGAAGATGGACG+AGG | 0.635568 | 7.3:-37784438 | MS.gene84386:CDS |
| CTTCGGAGTACATTACGCCC+CGG | 0.650752 | 7.3:+37783428 | None:intergenic |
| TGTGAAGAAATCCCGCACGA+TGG | 0.693240 | 7.3:+37783464 | None:intergenic |
| CACACGAATTCAAATCGCCG+GGG | 0.734992 | 7.3:-37783445 | MS.gene84386:CDS |
| CAGTATCCATGATATCACAG+TGG | 0.783772 | 7.3:-37783681 | MS.gene84386:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTAAAATATTTGTTACT+TGG | + | chr7.3:37784021-37784040 | None:intergenic | 10.0% |
| !! | ATTTGCAAAATAGTATCAAA+AGG | + | chr7.3:37784477-37784496 | None:intergenic | 20.0% |
| !!! | TATTTTAATTTTCCATACCA+AGG | - | chr7.3:37784030-37784049 | MS.gene84386:intron | 20.0% |
| ! | ACTATTGTATCATCTATGTT+TGG | + | chr7.3:37783397-37783416 | None:intergenic | 25.0% |
| ! | ATCATTCAACTAAAAACTGA+AGG | + | chr7.3:37783539-37783558 | None:intergenic | 25.0% |
| ! | GTAGCACATAGTATATAATA+CGG | + | chr7.3:37783745-37783764 | None:intergenic | 25.0% |
| ! | GTATTTCATTAGACAACTTT+CGG | - | chr7.3:37784128-37784147 | MS.gene84386:intron | 25.0% |
| ! | TTAGCTGAATTGAAAACAAA+TGG | + | chr7.3:37784351-37784370 | None:intergenic | 25.0% |
| !!! | ATAAAGGCAATTTTGTTTCT+TGG | + | chr7.3:37784206-37784225 | None:intergenic | 25.0% |
| !!! | TTTGTTTTCAATTCAGCTAA+AGG | - | chr7.3:37784351-37784370 | MS.gene84386:intron | 25.0% |
| CTGCAAAATAATAATCTGTC+CGG | - | chr7.3:37784279-37784298 | MS.gene84386:intron | 30.0% | |
| TAAAAACTGAAGGAAGAAAG+TGG | + | chr7.3:37783529-37783548 | None:intergenic | 30.0% | |
| TAGTATCAAAAGGTGAAAAC+TGG | + | chr7.3:37784467-37784486 | None:intergenic | 30.0% | |
| ! | AAAAATGAAGCACTTTCTAC+AGG | + | chr7.3:37783569-37783588 | None:intergenic | 30.0% |
| ! | AAGAATTTGAAGCACGTTTA+AGG | - | chr7.3:37783812-37783831 | MS.gene84386:intron | 30.0% |
| !!! | GATTTTAACTACACTCAATG+TGG | + | chr7.3:37784073-37784092 | None:intergenic | 30.0% |
| !!! | GTAGAAAGTGCTTCATTTTT+TGG | - | chr7.3:37783569-37783588 | MS.gene84386:CDS | 30.0% |
| AAATAATAATCTGTCCGGCA+TGG | - | chr7.3:37784284-37784303 | MS.gene84386:intron | 35.0% | |
| AGCTAAAGGAAACATGTATG+TGG | - | chr7.3:37784365-37784384 | MS.gene84386:intron | 35.0% | |
| CAATAGTGAGCATTAGAAGA+TGG | - | chr7.3:37783410-37783429 | MS.gene84386:CDS | 35.0% | |
| TGGTTAAGCAGGAATTTGAT+TGG | - | chr7.3:37784304-37784323 | MS.gene84386:intron | 35.0% | |
| !!! | GAAAGTGCTTCATTTTTTGG+TGG | - | chr7.3:37783572-37783591 | MS.gene84386:CDS | 35.0% |
| AAATTCCTGCTTAACCATGC+CGG | + | chr7.3:37784301-37784320 | None:intergenic | 40.0% | |
| CACTGTGATATCATGGATAC+TGG | + | chr7.3:37784175-37784194 | None:intergenic | 40.0% | |
| CAGTATCCATGATATCACAG+TGG | - | chr7.3:37784173-37784192 | MS.gene84386:intron | 40.0% | |
| GATTCGAAACCTTCACCAAA+TGG | + | chr7.3:37784257-37784276 | None:intergenic | 40.0% | |
| GATTGACCACTGTGATATCA+TGG | + | chr7.3:37784182-37784201 | None:intergenic | 40.0% | |
| GATTGGAAATTACCAGACGA+GGG | - | chr7.3:37784321-37784340 | MS.gene84386:intron | 40.0% | |
| GGAAGAAAGTGGTATGTTTG+TGG | + | chr7.3:37783518-37783537 | None:intergenic | 40.0% | |
| GGACTGTTACTGTCTGATAA+AGG | + | chr7.3:37784222-37784241 | None:intergenic | 40.0% | |
| TCATTAGACAACTTTCGGCA+GGG | - | chr7.3:37784133-37784152 | MS.gene84386:intron | 40.0% | |
| TGATTGGAAATTACCAGACG+AGG | - | chr7.3:37784320-37784339 | MS.gene84386:intron | 40.0% | |
| TTCACACGAATTCAAATCGC+CGG | - | chr7.3:37784407-37784426 | MS.gene84386:intron | 40.0% | |
| TTCATTAGACAACTTTCGGC+AGG | - | chr7.3:37784132-37784151 | MS.gene84386:intron | 40.0% | |
| ! | ATCTATGTTTGGAGTCGTCA+TGG | + | chr7.3:37783386-37783405 | None:intergenic | 40.0% |
| ! | TGAAGCACTTTCTACAGGAA+AGG | + | chr7.3:37783564-37783583 | None:intergenic | 40.0% |
| AGCATTAGAAGATGGACGAG+GGG | - | chr7.3:37783418-37783437 | MS.gene84386:CDS | 45.0% | |
| CAGTAACAGTCCTTCTTCTC+CGG | - | chr7.3:37784230-37784249 | MS.gene84386:intron | 45.0% | |
| CTCAATGTGGACTCAAGACA+AGG | + | chr7.3:37784060-37784079 | None:intergenic | 45.0% | |
| GAAACCTTCACCAAATGGTC+CGG | + | chr7.3:37784252-37784271 | None:intergenic | 45.0% | |
| GAGCATTAGAAGATGGACGA+GGG | - | chr7.3:37783417-37783436 | MS.gene84386:CDS | 45.0% | |
| GGTATCCATGATGAGTGCTT+CGG | + | chr7.3:37784446-37784465 | None:intergenic | 45.0% | |
| TCACACGAATTCAAATCGCC+GGG | - | chr7.3:37784408-37784427 | MS.gene84386:intron | 45.0% | |
| TGAGCATTAGAAGATGGACG+AGG | - | chr7.3:37783416-37783435 | MS.gene84386:CDS | 45.0% | |
| !! | ACTCAAGACAAGGTTAGCCT+TGG | + | chr7.3:37784050-37784069 | None:intergenic | 45.0% |
| !! | AGACAAGGTTAGCCTTGGTA+TGG | + | chr7.3:37784045-37784064 | None:intergenic | 45.0% |
| !! | TTATGTAAATTTAAATTAAT+AGG | - | chr7.3:37783977-37783996 | MS.gene84386:intron | 5.0% |
| ACAAATGGCATACCCTCGTC+TGG | + | chr7.3:37784336-37784355 | None:intergenic | 50.0% | |
| ACCAAATGGTCCGGAGAAGA+AGG | + | chr7.3:37784243-37784262 | None:intergenic | 50.0% | |
| AGTCGTCATGGTAGCCATAG+TGG | + | chr7.3:37783374-37783393 | None:intergenic | 50.0% | |
| ATGTATGTGGCACCATCGTG+CGG | - | chr7.3:37784378-37784397 | MS.gene84386:intron | 50.0% | |
| CACACGAATTCAAATCGCCG+GGG | - | chr7.3:37784409-37784428 | MS.gene84386:intron | 50.0% | |
| GTCGTCACTGTTCTAGCAGA+AGG | + | chr7.3:37783458-37783477 | None:intergenic | 50.0% | |
| TAGACAACTTTCGGCAGGGA+AGG | - | chr7.3:37784137-37784156 | MS.gene84386:intron | 50.0% | |
| TCCTTCTTCTCCGGACCATT+TGG | - | chr7.3:37784239-37784258 | MS.gene84386:intron | 50.0% | |
| TGTGAAGAAATCCCGCACGA+TGG | + | chr7.3:37784393-37784412 | None:intergenic | 50.0% | |
| TTAGAAGATGGACGAGGGGA+AGG | - | chr7.3:37783422-37783441 | MS.gene84386:CDS | 50.0% | |
| TTTCGGCAGGGAAGGATAAG+AGG | - | chr7.3:37784145-37784164 | MS.gene84386:intron | 50.0% | |
| ! | GCATGACTTGCGACTTGAGT+TGG | + | chr7.3:37784102-37784121 | None:intergenic | 50.0% |
| ! | GTACTCCGAAGCACTCATCA+TGG | - | chr7.3:37784438-37784457 | MS.gene84386:CDS | 50.0% |
| ! | TTCTCCGGACCATTTGGTGA+AGG | - | chr7.3:37784245-37784264 | MS.gene84386:intron | 50.0% |
| CATGGTAGCCATAGTGGCCA+TGG | + | chr7.3:37783368-37783387 | None:intergenic | 55.0% | |
| CTTCGGAGTACATTACGCCC+CGG | + | chr7.3:37784429-37784448 | None:intergenic | 55.0% | |
| TCTGTCCGGCATGGTTAAGC+AGG | - | chr7.3:37784293-37784312 | MS.gene84386:intron | 55.0% | |
| TGTATGTGGCACCATCGTGC+GGG | - | chr7.3:37784379-37784398 | MS.gene84386:intron | 55.0% | |
| GATGGACGAGGGGAAGGAGC+AGG | - | chr7.3:37783428-37783447 | MS.gene84386:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.3 | gene | 37783358 | 37784518 | 37783358 | ID=MS.gene84386 |
| chr7.3 | mRNA | 37783358 | 37784518 | 37783358 | ID=MS.gene84386.t1;Parent=MS.gene84386 |
| chr7.3 | exon | 37784427 | 37784518 | 37784427 | ID=MS.gene84386.t1.exon1;Parent=MS.gene84386.t1 |
| chr7.3 | CDS | 37784427 | 37784518 | 37784427 | ID=cds.MS.gene84386.t1;Parent=MS.gene84386.t1 |
| chr7.3 | exon | 37783358 | 37783778 | 37783358 | ID=MS.gene84386.t1.exon2;Parent=MS.gene84386.t1 |
| chr7.3 | CDS | 37783358 | 37783778 | 37783358 | ID=cds.MS.gene84386.t1;Parent=MS.gene84386.t1 |
| Gene Sequence |
| Protein sequence |
