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.gene073211.t1 | RHN60158.1 | 85.1 | 201 | 28 | 1 | 16 | 214 | 116 | 316 | 7.50E-50 | 207.2 |
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.gene073211.t1 | A0A072UIW4 | 85.1 | 201 | 28 | 1 | 16 | 214 | 148 | 348 | 5.4e-50 | 207.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene058197 | MS.gene073211 | 0.807786 | 4.26E-50 | -1.69E-46 |
| MS.gene058198 | MS.gene073211 | 0.804934 | 1.70E-49 | -1.69E-46 |
| MS.gene059300 | MS.gene073211 | 0.817971 | 2.50E-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.gene073211.t1 | MTR_4g046123 | 94.444 | 216 | 10 | 1 | 1 | 214 | 133 | 348 | 1.42e-105 | 308 |
| MS.gene073211.t1 | MTR_2g090150 | 41.475 | 217 | 88 | 7 | 14 | 214 | 86 | 279 | 1.03e-23 | 95.9 |
| MS.gene073211.t1 | MTR_2g012750 | 38.636 | 220 | 85 | 13 | 12 | 214 | 79 | 265 | 1.63e-18 | 81.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 68 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTTCTCCGGCGACGGTTC+TGG | 0.269731 | 4.3:-54535935 | None:intergenic |
| TCACAACAACGACACATAAA+TGG | 0.289155 | 4.3:+54535837 | MS.gene073211:CDS |
| CGTGAGTCCGGTGAAGGTTC+TGG | 0.338918 | 4.3:+54536046 | MS.gene073211:CDS |
| ACGGTTCTGGCCTCCTAGCC+GGG | 0.379505 | 4.3:-54535922 | None:intergenic |
| GTGAGAGGACGCTTCCTTGA+TGG | 0.387313 | 4.3:-54535869 | None:intergenic |
| TGGTGTGGAGAAGGAGAAGA+AGG | 0.389152 | 4.3:+54536165 | MS.gene073211:CDS |
| GACGGTTCTGGCCTCCTAGC+CGG | 0.391616 | 4.3:-54535923 | None:intergenic |
| ACCTCGGTTACTTCTTCTAT+AGG | 0.393054 | 4.3:-54535686 | None:intergenic |
| AGGAAGCTTAATGCAGGTTC+TGG | 0.404339 | 4.3:+54536013 | MS.gene073211:CDS |
| CAAGCTCCGGCGGTGGAGAC+TGG | 0.413405 | 4.3:+54536145 | MS.gene073211:CDS |
| AGTTGAGAAGCTCTCGGTTA+TGG | 0.413468 | 4.3:-54535738 | None:intergenic |
| AATCCAGTCCTGTGGCGAAT+AGG | 0.427345 | 4.3:+54535993 | MS.gene073211:CDS |
| CTTCCTATTCGCCACAGGAC+TGG | 0.434711 | 4.3:-54535996 | None:intergenic |
| TCGTGTTCACGGACGGTTAG+TGG | 0.438814 | 4.3:+54536088 | MS.gene073211:CDS |
| TGAGAATCCTCATGTTTCAA+TGG | 0.457409 | 4.3:+54536243 | MS.gene073211:CDS |
| TCACGGACGGTTAGTGGGTC+AGG | 0.461669 | 4.3:+54536094 | MS.gene073211:CDS |
| GGTGGAGTTCGTCGTGAGTC+CGG | 0.471692 | 4.3:+54536034 | MS.gene073211:CDS |
| TTAGTTTGAAATTTCTGAGA+TGG | 0.479699 | 4.3:-54535659 | None:intergenic |
| AAGGGTGAGAGTGAAGAGGT+TGG | 0.480333 | 4.3:+54536184 | MS.gene073211:CDS |
| AGAAAATGAAGAGCAGTTCG+AGG | 0.483428 | 4.3:+54535954 | MS.gene073211:CDS |
| TAGTTTGAAATTTCTGAGAT+GGG | 0.484189 | 4.3:-54535658 | None:intergenic |
| TCACCGGCGGTGGAAGTGAC+CGG | 0.493073 | 4.3:+54535888 | MS.gene073211:CDS |
| AAGCGTCCTCTCACCGGCGG+TGG | 0.497731 | 4.3:+54535878 | MS.gene073211:CDS |
| CCTCCGGCCAGAACCTTCAC+CGG | 0.506814 | 4.3:-54536053 | None:intergenic |
| GGTGGAGACTGGTGTGGAGA+AGG | 0.516536 | 4.3:+54536156 | MS.gene073211:CDS |
| CAAGGTCACCGTCGTGTTCA+CGG | 0.519123 | 4.3:+54536077 | MS.gene073211:CDS |
| AAGGTTCTGGCCGGAGGTCA+AGG | 0.523520 | 4.3:+54536059 | MS.gene073211:CDS |
| TCAGGTAAAGTAGGTGTTGG+CGG | 0.528256 | 4.3:+54536112 | MS.gene073211:CDS |
| TCCACACCAGTCTCCACCGC+CGG | 0.535489 | 4.3:-54536151 | None:intergenic |
| TCGGAAACAAGCTCCGGCGG+TGG | 0.537152 | 4.3:+54536138 | MS.gene073211:CDS |
| TGACCGGAGGGTAAAATCCC+CGG | 0.543257 | 4.3:+54535904 | MS.gene073211:CDS |
| ACGACGGTGACCTTGACCTC+CGG | 0.545797 | 4.3:-54536069 | None:intergenic |
| TTAAGCTTCCTATTCGCCAC+AGG | 0.546566 | 4.3:-54536001 | None:intergenic |
| CCTCCGGTCACTTCCACCGC+CGG | 0.546906 | 4.3:-54535891 | None:intergenic |
| TCAAGGAAGCGTCCTCTCAC+CGG | 0.547405 | 4.3:+54535872 | MS.gene073211:CDS |
| AGCAGTTCGAGGTTAGTTCG+TGG | 0.552584 | 4.3:+54535965 | MS.gene073211:CDS |
| CGGTGGTCGGAAACAAGCTC+CGG | 0.554143 | 4.3:+54536132 | MS.gene073211:CDS |
| TCACTTCCACCGCCGGTGAG+AGG | 0.554995 | 4.3:-54535884 | None:intergenic |
| AAGTAGGTGTTGGCGGTGGT+CGG | 0.556232 | 4.3:+54536119 | MS.gene073211:CDS |
| GTTAGTGGGTCAGGTAAAGT+AGG | 0.557595 | 4.3:+54536103 | MS.gene073211:CDS |
| GAAGAAGGGTGAGAGTGAAG+AGG | 0.558586 | 4.3:+54536180 | MS.gene073211:CDS |
| AATGGAATCAATCTCCATCA+AGG | 0.559640 | 4.3:+54535855 | MS.gene073211:CDS |
| GTTCGTCGTGAGTCCGGTGA+AGG | 0.561934 | 4.3:+54536040 | MS.gene073211:CDS |
| AAGCTTAATGCAGGTTCTGG+TGG | 0.569926 | 4.3:+54536016 | MS.gene073211:CDS |
| GGGTAAAATCCCCGGCTAGG+AGG | 0.571371 | 4.3:+54535912 | MS.gene073211:CDS |
| GGTAAAGTAGGTGTTGGCGG+TGG | 0.581744 | 4.3:+54536115 | MS.gene073211:CDS |
| CCGGTGAAGGTTCTGGCCGG+AGG | 0.585260 | 4.3:+54536053 | MS.gene073211:CDS |
| GCGAATAGGAAGCTTAATGC+AGG | 0.592607 | 4.3:+54536007 | MS.gene073211:CDS |
| GGTGTGGAGAAGGAGAAGAA+GGG | 0.593260 | 4.3:+54536166 | MS.gene073211:CDS |
| CGTGTTCACGGACGGTTAGT+GGG | 0.595896 | 4.3:+54536089 | MS.gene073211:CDS |
| TGAGAAGCTCTCGGTTATGG+TGG | 0.596210 | 4.3:-54535735 | None:intergenic |
| TAGGAGGCCAGAACCGTCGC+CGG | 0.606522 | 4.3:+54535928 | MS.gene073211:CDS |
| AGTCCGGTGAAGGTTCTGGC+CGG | 0.608355 | 4.3:+54536050 | MS.gene073211:CDS |
| GGAGGGTAAAATCCCCGGCT+AGG | 0.608612 | 4.3:+54535909 | MS.gene073211:CDS |
| CGGTTCTGGCCTCCTAGCCG+GGG | 0.615181 | 4.3:-54535921 | None:intergenic |
| GGGTCAGGTAAAGTAGGTGT+TGG | 0.616505 | 4.3:+54536109 | MS.gene073211:CDS |
| TCCTATAGAAGAAGTAACCG+AGG | 0.620302 | 4.3:+54535685 | MS.gene073211:CDS |
| AAGCTGAGAAACTACTACCT+CGG | 0.621510 | 4.3:-54535702 | None:intergenic |
| AGTAGCAGTTGAGAAGCTCT+CGG | 0.638027 | 4.3:-54535744 | None:intergenic |
| GTCACCGTCGTGTTCACGGA+CGG | 0.642600 | 4.3:+54536081 | MS.gene073211:CDS |
| AAACACTCCATTGAAACATG+AGG | 0.644865 | 4.3:-54536250 | None:intergenic |
| TGGTCGGAAACAAGCTCCGG+CGG | 0.646655 | 4.3:+54536135 | MS.gene073211:CDS |
| CCGGCGGTGGAAGTGACCGG+AGG | 0.650666 | 4.3:+54535891 | MS.gene073211:CDS |
| CGGCGGTGGAAGTGACCGGA+GGG | 0.663542 | 4.3:+54535892 | MS.gene073211:CDS |
| TGGAAGAGAATCCAGTCCTG+TGG | 0.669513 | 4.3:+54535985 | MS.gene073211:CDS |
| TCCGGCGGTGGAGACTGGTG+TGG | 0.669883 | 4.3:+54536150 | MS.gene073211:CDS |
| AGGAAGCGTCCTCTCACCGG+CGG | 0.677209 | 4.3:+54535875 | MS.gene073211:CDS |
| CTAACCGTCCGTGAACACGA+CGG | 0.770766 | 4.3:-54536085 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAGTTTGAAATTTCTGAGA+TGG | - | chr4.3:54535662-54535681 | None:intergenic | 25.0% |
| !!! | TAGTTTGAAATTTCTGAGAT+GGG | - | chr4.3:54535661-54535680 | None:intergenic | 25.0% |
| AAACACTCCATTGAAACATG+AGG | - | chr4.3:54536253-54536272 | None:intergenic | 35.0% | |
| AATGGAATCAATCTCCATCA+AGG | + | chr4.3:54535855-54535874 | MS.gene073211:CDS | 35.0% | |
| TCACAACAACGACACATAAA+TGG | + | chr4.3:54535837-54535856 | MS.gene073211:CDS | 35.0% | |
| TGAGAATCCTCATGTTTCAA+TGG | + | chr4.3:54536243-54536262 | MS.gene073211:CDS | 35.0% | |
| AAAAACGACATCGTTTCGCA+GGG | + | chr4.3:54536211-54536230 | MS.gene073211:CDS | 40.0% | |
| AAGCTGAGAAACTACTACCT+CGG | - | chr4.3:54535705-54535724 | None:intergenic | 40.0% | |
| ACCTCGGTTACTTCTTCTAT+AGG | - | chr4.3:54535689-54535708 | None:intergenic | 40.0% | |
| AGAAAATGAAGAGCAGTTCG+AGG | + | chr4.3:54535954-54535973 | MS.gene073211:CDS | 40.0% | |
| TCCTATAGAAGAAGTAACCG+AGG | + | chr4.3:54535685-54535704 | MS.gene073211:CDS | 40.0% | |
| ! | CTGCTCTTCATTTTCTTCTC+CGG | - | chr4.3:54535950-54535969 | None:intergenic | 40.0% |
| AGGAAGCTTAATGCAGGTTC+TGG | + | chr4.3:54536013-54536032 | MS.gene073211:CDS | 45.0% | |
| AGTAGCAGTTGAGAAGCTCT+CGG | - | chr4.3:54535747-54535766 | None:intergenic | 45.0% | |
| AGTTGAGAAGCTCTCGGTTA+TGG | - | chr4.3:54535741-54535760 | None:intergenic | 45.0% | |
| GAAAAACGACATCGTTTCGC+AGG | + | chr4.3:54536210-54536229 | MS.gene073211:CDS | 45.0% | |
| GCGAATAGGAAGCTTAATGC+AGG | + | chr4.3:54536007-54536026 | MS.gene073211:CDS | 45.0% | |
| TTAAGCTTCCTATTCGCCAC+AGG | - | chr4.3:54536004-54536023 | None:intergenic | 45.0% | |
| ! | AAGCTTAATGCAGGTTCTGG+TGG | + | chr4.3:54536016-54536035 | MS.gene073211:CDS | 45.0% |
| ! | GTTAGTGGGTCAGGTAAAGT+AGG | + | chr4.3:54536103-54536122 | MS.gene073211:CDS | 45.0% |
| ! | TTCATTTTCTTCTCCGGCGA+CGG | - | chr4.3:54535944-54535963 | None:intergenic | 45.0% |
| !! | TCAGGTAAAGTAGGTGTTGG+CGG | + | chr4.3:54536112-54536131 | MS.gene073211:CDS | 45.0% |
| AAGGGTGAGAGTGAAGAGGT+TGG | + | chr4.3:54536184-54536203 | MS.gene073211:CDS | 50.0% | |
| AATCCAGTCCTGTGGCGAAT+AGG | + | chr4.3:54535993-54536012 | MS.gene073211:CDS | 50.0% | |
| GAAGAAGGGTGAGAGTGAAG+AGG | + | chr4.3:54536180-54536199 | MS.gene073211:CDS | 50.0% | |
| GGGTCAGGTAAAGTAGGTGT+TGG | + | chr4.3:54536109-54536128 | MS.gene073211:CDS | 50.0% | |
| GGTGTGGAGAAGGAGAAGAA+GGG | + | chr4.3:54536166-54536185 | MS.gene073211:CDS | 50.0% | |
| TGAGAAGCTCTCGGTTATGG+TGG | - | chr4.3:54535738-54535757 | None:intergenic | 50.0% | |
| TGGAAGAGAATCCAGTCCTG+TGG | + | chr4.3:54535985-54536004 | MS.gene073211:CDS | 50.0% | |
| TGGTGTGGAGAAGGAGAAGA+AGG | + | chr4.3:54536165-54536184 | MS.gene073211:CDS | 50.0% | |
| ! | AGCAGTTCGAGGTTAGTTCG+TGG | + | chr4.3:54535965-54535984 | MS.gene073211:CDS | 50.0% |
| CAAGGTCACCGTCGTGTTCA+CGG | + | chr4.3:54536077-54536096 | MS.gene073211:CDS | 55.0% | |
| CGTGTTCACGGACGGTTAGT+GGG | + | chr4.3:54536089-54536108 | MS.gene073211:CDS | 55.0% | |
| CTAACCGTCCGTGAACACGA+CGG | - | chr4.3:54536088-54536107 | None:intergenic | 55.0% | |
| CTTCCTATTCGCCACAGGAC+TGG | - | chr4.3:54535999-54536018 | None:intergenic | 55.0% | |
| GTGAGAGGACGCTTCCTTGA+TGG | - | chr4.3:54535872-54535891 | None:intergenic | 55.0% | |
| TCGTGTTCACGGACGGTTAG+TGG | + | chr4.3:54536088-54536107 | MS.gene073211:CDS | 55.0% | |
| TGACCGGAGGGTAAAATCCC+CGG | + | chr4.3:54535904-54535923 | MS.gene073211:CDS | 55.0% | |
| ! | TAGCCGGGGATTTTACCCTC+CGG | - | chr4.3:54535910-54535929 | None:intergenic | 55.0% |
| !! | AAGTAGGTGTTGGCGGTGGT+CGG | + | chr4.3:54536119-54536138 | MS.gene073211:CDS | 55.0% |
| !! | GGTAAAGTAGGTGTTGGCGG+TGG | + | chr4.3:54536115-54536134 | MS.gene073211:CDS | 55.0% |
| !! | TCAAGGAAGCGTCCTCTCAC+CGG | + | chr4.3:54535872-54535891 | MS.gene073211:CDS | 55.0% |
| ACGACGGTGACCTTGACCTC+CGG | - | chr4.3:54536072-54536091 | None:intergenic | 60.0% | |
| CGGTGGTCGGAAACAAGCTC+CGG | + | chr4.3:54536132-54536151 | MS.gene073211:CDS | 60.0% | |
| CGTGAGTCCGGTGAAGGTTC+TGG | + | chr4.3:54536046-54536065 | MS.gene073211:CDS | 60.0% | |
| GGAGGGTAAAATCCCCGGCT+AGG | + | chr4.3:54535909-54535928 | MS.gene073211:CDS | 60.0% | |
| GGGTAAAATCCCCGGCTAGG+AGG | + | chr4.3:54535912-54535931 | MS.gene073211:CDS | 60.0% | |
| GGTGGAGACTGGTGTGGAGA+AGG | + | chr4.3:54536156-54536175 | MS.gene073211:CDS | 60.0% | |
| GGTGGAGTTCGTCGTGAGTC+CGG | + | chr4.3:54536034-54536053 | MS.gene073211:CDS | 60.0% | |
| GTCACCGTCGTGTTCACGGA+CGG | + | chr4.3:54536081-54536100 | MS.gene073211:CDS | 60.0% | |
| GTTCGTCGTGAGTCCGGTGA+AGG | + | chr4.3:54536040-54536059 | MS.gene073211:CDS | 60.0% | |
| TGGTCGGAAACAAGCTCCGG+CGG | + | chr4.3:54536135-54536154 | MS.gene073211:CDS | 60.0% | |
| TTCTTCTCCGGCGACGGTTC+TGG | - | chr4.3:54535938-54535957 | None:intergenic | 60.0% | |
| ! | AAGGTTCTGGCCGGAGGTCA+AGG | + | chr4.3:54536059-54536078 | MS.gene073211:CDS | 60.0% |
| ! | AGTCCGGTGAAGGTTCTGGC+CGG | + | chr4.3:54536050-54536069 | MS.gene073211:CDS | 60.0% |
| ! | TCACGGACGGTTAGTGGGTC+AGG | + | chr4.3:54536094-54536113 | MS.gene073211:CDS | 60.0% |
| CCTCCGGCCAGAACCTTCAC+CGG | - | chr4.3:54536056-54536075 | None:intergenic | 65.0% | |
| TAGGAGGCCAGAACCGTCGC+CGG | + | chr4.3:54535928-54535947 | MS.gene073211:CDS | 65.0% | |
| TCACCGGCGGTGGAAGTGAC+CGG | + | chr4.3:54535888-54535907 | MS.gene073211:CDS | 65.0% | |
| TCACTTCCACCGCCGGTGAG+AGG | - | chr4.3:54535887-54535906 | None:intergenic | 65.0% | |
| TCCACACCAGTCTCCACCGC+CGG | - | chr4.3:54536154-54536173 | None:intergenic | 65.0% | |
| TCGGAAACAAGCTCCGGCGG+TGG | + | chr4.3:54536138-54536157 | MS.gene073211:CDS | 65.0% | |
| ! | ACGGTTCTGGCCTCCTAGCC+GGG | - | chr4.3:54535925-54535944 | None:intergenic | 65.0% |
| ! | GACGGTTCTGGCCTCCTAGC+CGG | - | chr4.3:54535926-54535945 | None:intergenic | 65.0% |
| !! | AGGAAGCGTCCTCTCACCGG+CGG | + | chr4.3:54535875-54535894 | MS.gene073211:CDS | 65.0% |
| AAGCGTCCTCTCACCGGCGG+TGG | + | chr4.3:54535878-54535897 | MS.gene073211:CDS | 70.0% | |
| CAAGCTCCGGCGGTGGAGAC+TGG | + | chr4.3:54536145-54536164 | MS.gene073211:CDS | 70.0% | |
| CCTCCGGTCACTTCCACCGC+CGG | - | chr4.3:54535894-54535913 | None:intergenic | 70.0% | |
| CGGCGGTGGAAGTGACCGGA+GGG | + | chr4.3:54535892-54535911 | MS.gene073211:CDS | 70.0% | |
| TCCGGCGGTGGAGACTGGTG+TGG | + | chr4.3:54536150-54536169 | MS.gene073211:CDS | 70.0% | |
| ! | CCGGTGAAGGTTCTGGCCGG+AGG | + | chr4.3:54536053-54536072 | MS.gene073211:CDS | 70.0% |
| ! | CGGTTCTGGCCTCCTAGCCG+GGG | - | chr4.3:54535924-54535943 | None:intergenic | 70.0% |
| CCGGCGGTGGAAGTGACCGG+AGG | + | chr4.3:54535891-54535910 | MS.gene073211:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 54535641 | 54536285 | 54535641 | ID=MS.gene073211 |
| chr4.3 | mRNA | 54535641 | 54536285 | 54535641 | ID=MS.gene073211.t1;Parent=MS.gene073211 |
| chr4.3 | exon | 54535641 | 54536285 | 54535641 | ID=MS.gene073211.t1.exon1;Parent=MS.gene073211.t1 |
| chr4.3 | CDS | 54535641 | 54536285 | 54535641 | ID=cds.MS.gene073211.t1;Parent=MS.gene073211.t1 |
| Gene Sequence |
| Protein sequence |
