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.gene28509.t1 | XP_024626767.1 | 73 | 355 | 45 | 1 | 1 | 355 | 1 | 304 | 1.60E-137 | 499.2 |
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.gene28509.t1 | A0A2N9I863 | 58.7 | 361 | 130 | 5 | 1 | 353 | 1 | 350 | 1.1e-105 | 392.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049824 | MS.gene28509 | 0.815624 | 8.40E-52 | -1.69E-46 |
| MS.gene049825 | MS.gene28509 | 0.826764 | 2.27E-54 | -1.69E-46 |
| MS.gene050253 | MS.gene28509 | 0.80376 | 2.99E-49 | -1.69E-46 |
| MS.gene05538 | MS.gene28509 | 0.920545 | 1.12E-87 | -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.gene28509.t1 | MTR_7g062720 | 94.697 | 132 | 7 | 0 | 1 | 132 | 1 | 132 | 1.12e-87 | 261 |
| MS.gene28509.t1 | MTR_4g037355 | 71.875 | 128 | 24 | 3 | 151 | 278 | 1 | 116 | 1.55e-54 | 176 |
| MS.gene28509.t1 | MTR_5g061150 | 62.500 | 120 | 45 | 0 | 27 | 146 | 17 | 136 | 2.91e-46 | 154 |
| MS.gene28509.t1 | MTR_4g112730 | 75.000 | 64 | 16 | 0 | 138 | 201 | 1 | 64 | 2.91e-26 | 100 |
| MS.gene28509.t1 | MTR_1g036690 | 60.465 | 86 | 23 | 3 | 271 | 355 | 5 | 80 | 9.74e-24 | 93.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 64 sgRNAs with CRISPR-Local
Find 85 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGAGGCCCTTAACATTTC+TGG | 0.105015 | 8.4:-28111001 | MS.gene28509:CDS |
| GCATCTCAACACAATCATTT+TGG | 0.131367 | 8.4:-28110425 | MS.gene28509:CDS |
| TTCCACTTCTGGTGGGAAAA+TGG | 0.172180 | 8.4:+28110296 | None:intergenic |
| TCTTAAGTGCTTCATTTATA+TGG | 0.216688 | 8.4:+28110849 | None:intergenic |
| ATCCAATCATATCTTGCTTT+TGG | 0.220117 | 8.4:+28110743 | None:intergenic |
| GATGCTGATTATGATATTTA+TGG | 0.234910 | 8.4:-28110077 | MS.gene28509:CDS |
| AATACTACTCCTTTGGATAT+TGG | 0.253196 | 8.4:-28110047 | MS.gene28509:CDS |
| TCCACTTCTGGTGGGAAAAT+GGG | 0.275118 | 8.4:+28110297 | None:intergenic |
| TTTGTATACTTCAGAATTAT+AGG | 0.281074 | 8.4:+28110685 | None:intergenic |
| TGTTGAGATGCATTCACTTC+AGG | 0.293409 | 8.4:+28110437 | None:intergenic |
| TGCCATAAAAGAAGGAAATA+AGG | 0.335057 | 8.4:-28110915 | MS.gene28509:CDS |
| AGTTGTTTCCAGAAATGTTA+AGG | 0.345031 | 8.4:+28110993 | None:intergenic |
| CACCAGCAGGGCGAGCTTCA+TGG | 0.368055 | 8.4:+28110471 | None:intergenic |
| CGCGGTCGCGGTCGTGGTCG+TGG | 0.378998 | 8.4:-28110377 | MS.gene28509:CDS |
| ATTGATCACCTTGTTGAAGA+TGG | 0.391237 | 8.4:-28109996 | MS.gene28509:CDS |
| GTTGTTTCCAGAAATGTTAA+GGG | 0.399743 | 8.4:+28110994 | None:intergenic |
| TAATTTAATTTCTTGTCTCC+TGG | 0.400386 | 8.4:-28110528 | MS.gene28509:CDS |
| CTGGAAACAACTATTTGACT+TGG | 0.414379 | 8.4:-28110982 | MS.gene28509:CDS |
| TACTTAGCTGCTGAAGGAAA+TGG | 0.418999 | 8.4:-28110941 | MS.gene28509:CDS |
| GTTGAGATGCATTCACTTCA+GGG | 0.423894 | 8.4:+28110438 | None:intergenic |
| TAAAGGTCAACCAAATGCTT+TGG | 0.429910 | 8.4:+28110164 | None:intergenic |
| GGTCATGCCCACAATCCTAA+TGG | 0.437132 | 8.4:-28110332 | MS.gene28509:CDS |
| AACCATGAAGCTCGCCCTGC+TGG | 0.438159 | 8.4:-28110473 | MS.gene28509:CDS |
| TGACATGAATACTACTCCTT+TGG | 0.440582 | 8.4:-28110054 | MS.gene28509:CDS |
| GGGAATGGAGCTACACCAGC+AGG | 0.445287 | 8.4:+28110458 | None:intergenic |
| CGTGGTCGCGGTCGCGGTCG+TGG | 0.450743 | 8.4:-28110383 | MS.gene28509:CDS |
| CGTGGTCGTGGTCGCGGTCG+CGG | 0.452026 | 8.4:-28110389 | MS.gene28509:CDS |
| CCACTTCTGGTGGGAAAATG+GGG | 0.456004 | 8.4:+28110298 | None:intergenic |
| TCTCTCAAAACTTCACTTTG+AGG | 0.457299 | 8.4:-28111017 | MS.gene28509:CDS |
| ATGTCGTACTCCAAAGCATT+TGG | 0.465557 | 8.4:-28110174 | MS.gene28509:CDS |
| TTTGGGAGCGCTCGTGGTCG+TGG | 0.467855 | 8.4:-28110407 | MS.gene28509:CDS |
| TCCCAAAAGCAAGATATGAT+TGG | 0.468237 | 8.4:-28110745 | MS.gene28509:CDS |
| TGAAAGATCCACTTGTGCTC+TGG | 0.468533 | 8.4:-28110811 | MS.gene28509:CDS |
| AGCGCTCGTGGTCGTGGTCG+TGG | 0.471808 | 8.4:-28110401 | MS.gene28509:CDS |
| ACTCATTATGCTTATAAAGA+TGG | 0.483040 | 8.4:-28110104 | MS.gene28509:CDS |
| TTGTTGTTGCAAGAGCATAT+TGG | 0.488960 | 8.4:+28110580 | None:intergenic |
| CGTGGTCGTGGTCGTGGTCG+CGG | 0.491270 | 8.4:-28110395 | MS.gene28509:CDS |
| TGCAACAACAATACCGTGAA+AGG | 0.491455 | 8.4:-28110568 | MS.gene28509:CDS |
| CATTGTTCTGTTCAGCAACC+AGG | 0.503364 | 8.4:+28110510 | None:intergenic |
| AAAGTATCTGTTATCGATGT+GGG | 0.505636 | 8.4:-28110220 | MS.gene28509:CDS |
| GCAACAACAATACCGTGAAA+GGG | 0.512293 | 8.4:-28110567 | MS.gene28509:CDS |
| AGTTTATTCCAGAGCACAAG+TGG | 0.512360 | 8.4:+28110803 | None:intergenic |
| GATGCATTCACTTCAGGGAA+TGG | 0.514758 | 8.4:+28110443 | None:intergenic |
| GAAAAGAATGAAAATGAGAA+GGG | 0.529787 | 8.4:-28110266 | MS.gene28509:CDS |
| TAAGTACATTTCAGTATCTA+CGG | 0.532057 | 8.4:+28110958 | None:intergenic |
| TGGAAACAACTATTTGACTT+GGG | 0.534823 | 8.4:-28110981 | MS.gene28509:CDS |
| TGAAAAGAATGAAAATGAGA+AGG | 0.541748 | 8.4:-28110267 | MS.gene28509:CDS |
| AATATGCATGGTCGTGGTCG+TGG | 0.544688 | 8.4:-28110353 | MS.gene28509:CDS |
| AATGGAGATGCCATAAAAGA+AGG | 0.547076 | 8.4:-28110923 | MS.gene28509:CDS |
| GAGCATATTGGATGCATGAA+AGG | 0.547906 | 8.4:+28110592 | None:intergenic |
| AAGAATGAAAATGAGAAGGG+TGG | 0.573649 | 8.4:-28110263 | MS.gene28509:CDS |
| GAAAGTATCTGTTATCGATG+TGG | 0.574435 | 8.4:-28110221 | MS.gene28509:CDS |
| GAAATGTACTTAGCTGCTGA+AGG | 0.580070 | 8.4:-28110947 | MS.gene28509:CDS |
| ACTTCTCAATTAGAATTGTG+TGG | 0.587587 | 8.4:-28110659 | MS.gene28509:CDS |
| CGTGGTCGTGGAAATATGCA+TGG | 0.608255 | 8.4:-28110365 | MS.gene28509:CDS |
| CAACAACAATACCGTGAAAG+GGG | 0.610582 | 8.4:-28110566 | MS.gene28509:CDS |
| AAGAAATCACCAATATCCAA+AGG | 0.617484 | 8.4:+28110038 | None:intergenic |
| AGTATCTGTTATCGATGTGG+GGG | 0.620042 | 8.4:-28110218 | MS.gene28509:CDS |
| CGTGGAAATATGCATGGTCG+TGG | 0.624916 | 8.4:-28110359 | MS.gene28509:CDS |
| CTTCATTTATATGGTGACGA+AGG | 0.627090 | 8.4:+28110858 | None:intergenic |
| AAGTATCTGTTATCGATGTG+GGG | 0.635242 | 8.4:-28110219 | MS.gene28509:CDS |
| TCACGATTCCATCTTCAACA+AGG | 0.635824 | 8.4:+28109988 | None:intergenic |
| GGAATGGAGCTACACCAGCA+GGG | 0.651331 | 8.4:+28110459 | None:intergenic |
| CAAGTGGATCTTTCACAGTG+AGG | 0.718603 | 8.4:+28110819 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACTAAAAAACAAAGGAAAAA+TGG | - | chr8.4:28110873-28110892 | MS.gene28509:CDS | 20.0% |
| !! | TTTGTATACTTCAGAATTAT+AGG | + | chr8.4:28110323-28110342 | None:intergenic | 20.0% |
| ! | ACTCATTATGCTTATAAAGA+TGG | - | chr8.4:28110901-28110920 | MS.gene28509:CDS | 25.0% |
| ! | GAAAAGAATGAAAATGAGAA+GGG | - | chr8.4:28110739-28110758 | MS.gene28509:CDS | 25.0% |
| ! | TAAGTACATTTCAGTATCTA+CGG | + | chr8.4:28110050-28110069 | None:intergenic | 25.0% |
| ! | TCTTAAGTGCTTCATTTATA+TGG | + | chr8.4:28110159-28110178 | None:intergenic | 25.0% |
| ! | TGAAAAGAATGAAAATGAGA+AGG | - | chr8.4:28110738-28110757 | MS.gene28509:CDS | 25.0% |
| !! | GATGCTGATTATGATATTTA+TGG | - | chr8.4:28110928-28110947 | MS.gene28509:CDS | 25.0% |
| !! | TAATTTAATTTCTTGTCTCC+TGG | - | chr8.4:28110477-28110496 | MS.gene28509:CDS | 25.0% |
| !!! | TTTCATTATTTTTCCACTTC+TGG | + | chr8.4:28110723-28110742 | None:intergenic | 25.0% |
| !!! | TTTTTAGTGATTGCTGATAA+AGG | + | chr8.4:28110861-28110880 | None:intergenic | 25.0% |
| AAGAAATCACCAATATCCAA+AGG | + | chr8.4:28110970-28110989 | None:intergenic | 30.0% | |
| AATACTACTCCTTTGGATAT+TGG | - | chr8.4:28110958-28110977 | MS.gene28509:CDS | 30.0% | |
| ACTTCTCAATTAGAATTGTG+TGG | - | chr8.4:28110346-28110365 | MS.gene28509:CDS | 30.0% | |
| CAGCAATCACTAAAAAACAA+AGG | - | chr8.4:28110865-28110884 | MS.gene28509:CDS | 30.0% | |
| TGCCATAAAAGAAGGAAATA+AGG | - | chr8.4:28110090-28110109 | MS.gene28509:CDS | 30.0% | |
| TGGTGAAAAAATAACAGATG+CGG | - | chr8.4:28110366-28110385 | MS.gene28509:CDS | 30.0% | |
| ! | AAAGTATCTGTTATCGATGT+GGG | - | chr8.4:28110785-28110804 | MS.gene28509:CDS | 30.0% |
| ! | AGTTGTTTCCAGAAATGTTA+AGG | + | chr8.4:28110015-28110034 | None:intergenic | 30.0% |
| ! | ATCCAATCATATCTTGCTTT+TGG | + | chr8.4:28110265-28110284 | None:intergenic | 30.0% |
| ! | CATCTCAACACAATCATTTT+GGG | - | chr8.4:28110581-28110600 | MS.gene28509:CDS | 30.0% |
| ! | GAATTTTCCATTAGGATTGT+GGG | + | chr8.4:28110683-28110702 | None:intergenic | 30.0% |
| ! | GTTGTTTCCAGAAATGTTAA+GGG | + | chr8.4:28110014-28110033 | None:intergenic | 30.0% |
| ! | TGAATTTTCCATTAGGATTG+TGG | + | chr8.4:28110684-28110703 | None:intergenic | 30.0% |
| ! | TGGAAACAACTATTTGACTT+GGG | - | chr8.4:28110024-28110043 | MS.gene28509:CDS | 30.0% |
| !! | ATTATTTTTCCACTTCTGGT+GGG | + | chr8.4:28110719-28110738 | None:intergenic | 30.0% |
| !! | TCCAATCATATCTTGCTTTT+GGG | + | chr8.4:28110264-28110283 | None:intergenic | 30.0% |
| !!! | ATTTTTGAAATCCCCTTTCA+CGG | + | chr8.4:28110453-28110472 | None:intergenic | 30.0% |
| !!! | TGCCTTATTTCCTTCTTTTA+TGG | + | chr8.4:28110095-28110114 | None:intergenic | 30.0% |
| !!! | TGCTTTTGCTTTTTGTTGTT+CGG | + | chr8.4:28110119-28110138 | None:intergenic | 30.0% |
| AAGAATGAAAATGAGAAGGG+TGG | - | chr8.4:28110742-28110761 | MS.gene28509:CDS | 35.0% | |
| AAGTATCTGTTATCGATGTG+GGG | - | chr8.4:28110786-28110805 | MS.gene28509:CDS | 35.0% | |
| AATGGAGATGCCATAAAAGA+AGG | - | chr8.4:28110082-28110101 | MS.gene28509:CDS | 35.0% | |
| ATTGATCACCTTGTTGAAGA+TGG | - | chr8.4:28111009-28111028 | MS.gene28509:CDS | 35.0% | |
| CTGGAAACAACTATTTGACT+TGG | - | chr8.4:28110023-28110042 | MS.gene28509:CDS | 35.0% | |
| TAAAGGTCAACCAAATGCTT+TGG | + | chr8.4:28110844-28110863 | None:intergenic | 35.0% | |
| TCCCAAAAGCAAGATATGAT+TGG | - | chr8.4:28110260-28110279 | MS.gene28509:CDS | 35.0% | |
| TCTCTCAAAACTTCACTTTG+AGG | - | chr8.4:28109988-28110007 | MS.gene28509:CDS | 35.0% | |
| TGACATGAATACTACTCCTT+TGG | - | chr8.4:28110951-28110970 | MS.gene28509:CDS | 35.0% | |
| ! | CTTCATTTATATGGTGACGA+AGG | + | chr8.4:28110150-28110169 | None:intergenic | 35.0% |
| ! | GCATCTCAACACAATCATTT+TGG | - | chr8.4:28110580-28110599 | MS.gene28509:CDS | 35.0% |
| ! | TTGTTGTTGCAAGAGCATAT+TGG | + | chr8.4:28110428-28110447 | None:intergenic | 35.0% |
| !! | AATCATATCTTGCTTTTGGG+AGG | + | chr8.4:28110261-28110280 | None:intergenic | 35.0% |
| !! | CATTATTTTTCCACTTCTGG+TGG | + | chr8.4:28110720-28110739 | None:intergenic | 35.0% |
| !! | GAAAGTATCTGTTATCGATG+TGG | - | chr8.4:28110784-28110803 | MS.gene28509:CDS | 35.0% |
| AGTATCTGTTATCGATGTGG+GGG | - | chr8.4:28110787-28110806 | MS.gene28509:CDS | 40.0% | |
| AGTTTATTCCAGAGCACAAG+TGG | + | chr8.4:28110205-28110224 | None:intergenic | 40.0% | |
| CAACAACAATACCGTGAAAG+GGG | - | chr8.4:28110439-28110458 | MS.gene28509:CDS | 40.0% | |
| GAAATGTACTTAGCTGCTGA+AGG | - | chr8.4:28110058-28110077 | MS.gene28509:CDS | 40.0% | |
| GAGCATATTGGATGCATGAA+AGG | + | chr8.4:28110416-28110435 | None:intergenic | 40.0% | |
| GCAACAACAATACCGTGAAA+GGG | - | chr8.4:28110438-28110457 | MS.gene28509:CDS | 40.0% | |
| GTTGAGATGCATTCACTTCA+GGG | + | chr8.4:28110570-28110589 | None:intergenic | 40.0% | |
| TACTTAGCTGCTGAAGGAAA+TGG | - | chr8.4:28110064-28110083 | MS.gene28509:CDS | 40.0% | |
| TCACGATTCCATCTTCAACA+AGG | + | chr8.4:28111020-28111039 | None:intergenic | 40.0% | |
| TGCAACAACAATACCGTGAA+AGG | - | chr8.4:28110437-28110456 | MS.gene28509:CDS | 40.0% | |
| TGTTGAGATGCATTCACTTC+AGG | + | chr8.4:28110571-28110590 | None:intergenic | 40.0% | |
| ! | ATGTCGTACTCCAAAGCATT+TGG | - | chr8.4:28110831-28110850 | MS.gene28509:CDS | 40.0% |
| ! | TTTGAGGCCCTTAACATTTC+TGG | - | chr8.4:28110004-28110023 | MS.gene28509:CDS | 40.0% |
| !! | TCTTGCTTTTGGGAGGATAA+TGG | + | chr8.4:28110254-28110273 | None:intergenic | 40.0% |
| !!! | GGGGTTCTGAATTTTCCATT+AGG | + | chr8.4:28110691-28110710 | None:intergenic | 40.0% |
| CAAGTGGATCTTTCACAGTG+AGG | + | chr8.4:28110189-28110208 | None:intergenic | 45.0% | |
| CATTGTTCTGTTCAGCAACC+AGG | + | chr8.4:28110498-28110517 | None:intergenic | 45.0% | |
| GATGCATTCACTTCAGGGAA+TGG | + | chr8.4:28110565-28110584 | None:intergenic | 45.0% | |
| TCCACTTCTGGTGGGAAAAT+GGG | + | chr8.4:28110711-28110730 | None:intergenic | 45.0% | |
| TGAAAGATCCACTTGTGCTC+TGG | - | chr8.4:28110194-28110213 | MS.gene28509:CDS | 45.0% | |
| TGTTATCGATGTGGGGGAAA+AGG | - | chr8.4:28110793-28110812 | MS.gene28509:CDS | 45.0% | |
| TTCCACTTCTGGTGGGAAAA+TGG | + | chr8.4:28110712-28110731 | None:intergenic | 45.0% | |
| AATATGCATGGTCGTGGTCG+TGG | - | chr8.4:28110652-28110671 | MS.gene28509:CDS | 50.0% | |
| CCACTTCTGGTGGGAAAATG+GGG | + | chr8.4:28110710-28110729 | None:intergenic | 50.0% | |
| CGTGGAAATATGCATGGTCG+TGG | - | chr8.4:28110646-28110665 | MS.gene28509:CDS | 50.0% | |
| CGTGGTCGTGGAAATATGCA+TGG | - | chr8.4:28110640-28110659 | MS.gene28509:CDS | 50.0% | |
| GATGTGGGGGAAAAGGTCAT+TGG | - | chr8.4:28110800-28110819 | MS.gene28509:CDS | 50.0% | |
| GGTCATGCCCACAATCCTAA+TGG | - | chr8.4:28110673-28110692 | MS.gene28509:CDS | 50.0% | |
| !!! | AATCATTTTGGGAGCGCTCG+TGG | - | chr8.4:28110592-28110611 | MS.gene28509:CDS | 50.0% |
| GGAATGGAGCTACACCAGCA+GGG | + | chr8.4:28110549-28110568 | None:intergenic | 55.0% | |
| ! | CCCCATTTTCCCACCAGAAG+TGG | - | chr8.4:28110707-28110726 | MS.gene28509:CDS | 55.0% |
| AACCATGAAGCTCGCCCTGC+TGG | - | chr8.4:28110532-28110551 | MS.gene28509:CDS | 60.0% | |
| GGGAATGGAGCTACACCAGC+AGG | + | chr8.4:28110550-28110569 | None:intergenic | 60.0% | |
| CACCAGCAGGGCGAGCTTCA+TGG | + | chr8.4:28110537-28110556 | None:intergenic | 65.0% | |
| !! | TTTGGGAGCGCTCGTGGTCG+TGG | - | chr8.4:28110598-28110617 | MS.gene28509:CDS | 65.0% |
| AGCGCTCGTGGTCGTGGTCG+TGG | - | chr8.4:28110604-28110623 | MS.gene28509:CDS | 70.0% | |
| CGTGGTCGTGGTCGTGGTCG+CGG | - | chr8.4:28110610-28110629 | MS.gene28509:CDS | 70.0% | |
| CGTGGTCGTGGTCGCGGTCG+CGG | - | chr8.4:28110616-28110635 | MS.gene28509:CDS | 75.0% | |
| ! | CGCGGTCGCGGTCGTGGTCG+TGG | - | chr8.4:28110628-28110647 | MS.gene28509:CDS | 80.0% |
| ! | CGTGGTCGCGGTCGCGGTCG+TGG | - | chr8.4:28110622-28110641 | MS.gene28509:CDS | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 28109980 | 28111047 | 28109980 | ID=MS.gene28509 |
| chr8.4 | mRNA | 28109980 | 28111047 | 28109980 | ID=MS.gene28509.t1;Parent=MS.gene28509 |
| chr8.4 | exon | 28109980 | 28111047 | 28109980 | ID=MS.gene28509.t1.exon1;Parent=MS.gene28509.t1 |
| chr8.4 | CDS | 28109980 | 28111047 | 28109980 | ID=cds.MS.gene28509.t1;Parent=MS.gene28509.t1 |
| Gene Sequence |
| Protein sequence |
