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.gene45809.t1 | GAU25656.1 | 92.4 | 157 | 10 | 1 | 10 | 164 | 95 | 251 | 2.70E-76 | 294.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene45809.t1 | B8AU84 | 67.5 | 194 | 24 | 1 | 10 | 164 | 147 | 340 | 8.9e-68 | 257.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene45809.t1 | A0A2Z6M1J6 | 92.4 | 157 | 10 | 1 | 10 | 164 | 95 | 251 | 2.0e-76 | 294.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050587 | MS.gene45809 | 0.830037 | 3.68E-55 | -1.69E-46 |
| MS.gene05456 | MS.gene45809 | 0.82071 | 5.94E-53 | -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.gene45809.t1 | MTR_4g024960 | 78.351 | 194 | 3 | 1 | 10 | 164 | 145 | 338 | 4.99e-100 | 291 |
| MS.gene45809.t1 | MTR_0088s0100 | 48.731 | 197 | 48 | 4 | 10 | 164 | 177 | 362 | 2.44e-45 | 152 |
| MS.gene45809.t1 | MTR_4g024940 | 76.923 | 78 | 17 | 1 | 10 | 87 | 150 | 226 | 2.30e-38 | 131 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene45809.t1 | AT4G08900 | 67.526 | 194 | 24 | 1 | 10 | 164 | 149 | 342 | 8.37e-86 | 255 |
| MS.gene45809.t1 | AT4G08870 | 67.526 | 194 | 24 | 1 | 10 | 164 | 151 | 344 | 5.86e-85 | 253 |
| MS.gene45809.t1 | AT4G08870 | 61.739 | 115 | 37 | 3 | 10 | 124 | 151 | 258 | 4.22e-39 | 134 |
Find 37 sgRNAs with CRISPR-Local
Find 78 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTGTGTCTACATTCTTTC+AGG | 0.164391 | 4.4:+76619654 | MS.gene45809:CDS |
| TCCATTACGCCCACTAGTTT+TGG | 0.236647 | 4.4:+76619678 | MS.gene45809:CDS |
| AACATCCTTCAAAATCTTCA+AGG | 0.391264 | 4.4:+76620837 | MS.gene45809:CDS |
| GATCTCTATCATGACTTTGA+AGG | 0.398628 | 4.4:+76619793 | MS.gene45809:CDS |
| GGCTCATGGTGAGACACTCC+TGG | 0.416403 | 4.4:-76620786 | None:intergenic |
| CCCTCCATGATTCGAGCAAA+AGG | 0.440647 | 4.4:-76619838 | None:intergenic |
| GACACTCCTGGAGCAATTGA+TGG | 0.445703 | 4.4:-76620774 | None:intergenic |
| TCAAAATGAAGAATATCAAC+TGG | 0.451677 | 4.4:-76619760 | None:intergenic |
| TCAGACACAGCTCTAACAAC+TGG | 0.455707 | 4.4:-76619724 | None:intergenic |
| GAAACTAGGAGAAGGTGTTA+AGG | 0.456419 | 4.4:+76620716 | MS.gene45809:intron |
| AATCTTCAAGGTGATATTGT+TGG | 0.461168 | 4.4:+76620849 | MS.gene45809:CDS |
| AAACTAGGAGAAGGTGTTAA+GGG | 0.463051 | 4.4:+76620717 | MS.gene45809:CDS |
| TCTCGAAATGAAAGGCCTCC+TGG | 0.471037 | 4.4:-76620807 | None:intergenic |
| CTTGACCCATCAATTGCTCC+AGG | 0.476192 | 4.4:+76620768 | MS.gene45809:CDS |
| TGCTAAGTTGGTGAGAGAAT+TGG | 0.476269 | 4.4:+76620935 | MS.gene45809:CDS |
| CCCAAAACTAGTGGGCGTAA+TGG | 0.487551 | 4.4:-76619679 | None:intergenic |
| TCAAAGTCATGATAGAGATC+AGG | 0.512683 | 4.4:-76619790 | None:intergenic |
| TGCTCTAGTAGCTGCTAAGT+TGG | 0.517448 | 4.4:+76620923 | MS.gene45809:CDS |
| CTTCAAGGTGATATTGTTGG+TGG | 0.518458 | 4.4:+76620852 | MS.gene45809:CDS |
| GGAGTGTCTCACCATGAGCC+AGG | 0.524336 | 4.4:+76620789 | MS.gene45809:CDS |
| GGTATATGTTTCAATAGATG+TGG | 0.525382 | 4.4:+76620740 | MS.gene45809:CDS |
| CTGTGTCTGAGAAGCTTGGA+GGG | 0.526948 | 4.4:+76619737 | MS.gene45809:CDS |
| CCACAACGTGATACTTATGA+TGG | 0.541787 | 4.4:+76620894 | MS.gene45809:CDS |
| ATGAAAGGCCTCCTGGCTCA+TGG | 0.551410 | 4.4:-76620800 | None:intergenic |
| GCTGTGTCTGAGAAGCTTGG+AGG | 0.555777 | 4.4:+76619736 | MS.gene45809:CDS |
| ACACTCCTGGAGCAATTGAT+GGG | 0.572760 | 4.4:-76620773 | None:intergenic |
| TGAGAATATCTCGAAATGAA+AGG | 0.591080 | 4.4:-76620815 | None:intergenic |
| AGAGCTGTGTCTGAGAAGCT+TGG | 0.596207 | 4.4:+76619733 | MS.gene45809:CDS |
| ACTAGGAGAAGGTGTTAAGG+GGG | 0.598706 | 4.4:+76620719 | MS.gene45809:CDS |
| TGATATTGTTGGTGGAGATG+TGG | 0.606844 | 4.4:+76620860 | MS.gene45809:CDS |
| AACTAGGAGAAGGTGTTAAG+GGG | 0.610066 | 4.4:+76620718 | MS.gene45809:CDS |
| TGATCACCACCCAAAACTAG+TGG | 0.614466 | 4.4:-76619688 | None:intergenic |
| TGTGTGCAGAAACTAGGAGA+AGG | 0.615940 | 4.4:+76620708 | MS.gene45809:intron |
| TTTGCTCGAATCATGGAGGG+TGG | 0.630979 | 4.4:+76619841 | MS.gene45809:CDS |
| CCATCATAAGTATCACGTTG+TGG | 0.632456 | 4.4:-76620894 | None:intergenic |
| GATCACCACCCAAAACTAGT+GGG | 0.666821 | 4.4:-76619687 | None:intergenic |
| GTGTCTCACCATGAGCCAGG+AGG | 0.728214 | 4.4:+76620792 | MS.gene45809:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCATAATTCATTTAATTTAA+TGG | + | chr4.4:76620558-76620577 | MS.gene45809:intron | 10.0% |
| !! | GAAATAAATTGATGTAATAA+TGG | - | chr4.4:76620009-76620028 | None:intergenic | 15.0% |
| !! | TTATTACATCAATTTATTTC+AGG | + | chr4.4:76620009-76620028 | MS.gene45809:intron | 15.0% |
| !! | GTGACATTAAAAAATAGTAT+AGG | - | chr4.4:76620163-76620182 | None:intergenic | 20.0% |
| !! | TTCTTTAAATTTGTAACCTT+GGG | + | chr4.4:76620674-76620693 | MS.gene45809:intron | 20.0% |
| !! | TTTACTATCTTAAGAGAAAT+TGG | - | chr4.4:76619965-76619984 | None:intergenic | 20.0% |
| !!! | ATGACTTTTTGATATAATAG+TGG | - | chr4.4:76620537-76620556 | None:intergenic | 20.0% |
| ! | CATGTAAATTAGAGATGAAA+AGG | + | chr4.4:76620337-76620356 | MS.gene45809:intron | 25.0% |
| ! | CTTCTTTAAATTTGTAACCT+TGG | + | chr4.4:76620673-76620692 | MS.gene45809:intron | 25.0% |
| ! | TAATTTACATGAGCTATGTT+TGG | - | chr4.4:76620328-76620347 | None:intergenic | 25.0% |
| ! | TCAAAATGAAGAATATCAAC+TGG | - | chr4.4:76619763-76619782 | None:intergenic | 25.0% |
| !! | TACATCAATTTATTTCAGGT+TGG | + | chr4.4:76620013-76620032 | MS.gene45809:intron | 25.0% |
| AAATAGTATAGGAGAGAGAT+AGG | - | chr4.4:76620152-76620171 | None:intergenic | 30.0% | |
| AACATCCTTCAAAATCTTCA+AGG | + | chr4.4:76620837-76620856 | MS.gene45809:CDS | 30.0% | |
| AATAGTATAGGAGAGAGATA+GGG | - | chr4.4:76620151-76620170 | None:intergenic | 30.0% | |
| AATCTTCAAGGTGATATTGT+TGG | + | chr4.4:76620849-76620868 | MS.gene45809:CDS | 30.0% | |
| AATTGTGTCTACATTCTTTC+AGG | + | chr4.4:76619654-76619673 | MS.gene45809:CDS | 30.0% | |
| ACACAAAAAGAAATTTCCCA+AGG | - | chr4.4:76620693-76620712 | None:intergenic | 30.0% | |
| GGTATATGTTTCAATAGATG+TGG | + | chr4.4:76620740-76620759 | MS.gene45809:CDS | 30.0% | |
| TACATATGTCAGAATAACGA+TGG | - | chr4.4:76620297-76620316 | None:intergenic | 30.0% | |
| TCTAACATGCACAAACAAAA+TGG | + | chr4.4:76620485-76620504 | MS.gene45809:intron | 30.0% | |
| TGAGAATATCTCGAAATGAA+AGG | - | chr4.4:76620818-76620837 | None:intergenic | 30.0% | |
| TTGTAGCTTTCGAAAAATCA+TGG | + | chr4.4:76620267-76620286 | MS.gene45809:intron | 30.0% | |
| ! | TATCACCTTGAAGATTTTGA+AGG | - | chr4.4:76620845-76620864 | None:intergenic | 30.0% |
| !!! | TACAAACTAGTTTTCACCAT+TGG | - | chr4.4:76620598-76620617 | None:intergenic | 30.0% |
| AGCTTTCGAAAAATCATGGT+CGG | + | chr4.4:76620271-76620290 | MS.gene45809:intron | 35.0% | |
| ATGAGCTATGTTTGGTATCA+TGG | - | chr4.4:76620320-76620339 | None:intergenic | 35.0% | |
| CGTGAGCAAGTCAAAAAATT+TGG | + | chr4.4:76620061-76620080 | MS.gene45809:intron | 35.0% | |
| GATCTCTATCATGACTTTGA+AGG | + | chr4.4:76619793-76619812 | MS.gene45809:CDS | 35.0% | |
| GGTGAGATTTATTGAACCAA+TGG | + | chr4.4:76620579-76620598 | MS.gene45809:intron | 35.0% | |
| TAAACTGTTTGACATCACGA+TGG | + | chr4.4:76620197-76620216 | MS.gene45809:intron | 35.0% | |
| TCAAAGTCATGATAGAGATC+AGG | - | chr4.4:76619793-76619812 | None:intergenic | 35.0% | |
| ! | TCTTTTTGTGTGCAGAAACT+AGG | + | chr4.4:76620702-76620721 | MS.gene45809:intron | 35.0% |
| !! | AAACTAGGAGAAGGTGTTAA+GGG | + | chr4.4:76620717-76620736 | MS.gene45809:CDS | 35.0% |
| AGGAAAATTTGTCTCCAACG+AGG | + | chr4.4:76620357-76620376 | MS.gene45809:intron | 40.0% | |
| CCACAACGTGATACTTATGA+TGG | + | chr4.4:76620894-76620913 | MS.gene45809:CDS | 40.0% | |
| CCATCATAAGTATCACGTTG+TGG | - | chr4.4:76620897-76620916 | None:intergenic | 40.0% | |
| CTAAGTGTTAAAGACCTCGT+TGG | - | chr4.4:76620374-76620393 | None:intergenic | 40.0% | |
| CTTCAAGGTGATATTGTTGG+TGG | + | chr4.4:76620852-76620871 | MS.gene45809:CDS | 40.0% | |
| GTGGATCAGATACTTGTGTA+TGG | - | chr4.4:76620518-76620537 | None:intergenic | 40.0% | |
| GTGTAGAGACACATGAAATG+AGG | + | chr4.4:76620083-76620102 | MS.gene45809:intron | 40.0% | |
| TAAAAATTGCCTGCACGAGT+CGG | - | chr4.4:76619876-76619895 | None:intergenic | 40.0% | |
| ! | AGAGACCAGGTTCTCTAAAA+TGG | - | chr4.4:76620128-76620147 | None:intergenic | 40.0% |
| ! | TGATATTGTTGGTGGAGATG+TGG | + | chr4.4:76620860-76620879 | MS.gene45809:CDS | 40.0% |
| ! | TTCTCCTTTTGCTCGAATCA+TGG | + | chr4.4:76619834-76619853 | MS.gene45809:CDS | 40.0% |
| !! | AACTAGGAGAAGGTGTTAAG+GGG | + | chr4.4:76620718-76620737 | MS.gene45809:CDS | 40.0% |
| !! | AGACCAGGTTCTCTAAAATG+GGG | - | chr4.4:76620126-76620145 | None:intergenic | 40.0% |
| !! | GAAACTAGGAGAAGGTGTTA+AGG | + | chr4.4:76620716-76620735 | MS.gene45809:intron | 40.0% |
| !! | GAGACCAGGTTCTCTAAAAT+GGG | - | chr4.4:76620127-76620146 | None:intergenic | 40.0% |
| !! | TGCTAAGTTGGTGAGAGAAT+TGG | + | chr4.4:76620935-76620954 | MS.gene45809:CDS | 40.0% |
| ACACTCCTGGAGCAATTGAT+GGG | - | chr4.4:76620776-76620795 | None:intergenic | 45.0% | |
| GATCACCACCCAAAACTAGT+GGG | - | chr4.4:76619690-76619709 | None:intergenic | 45.0% | |
| TGATCACCACCCAAAACTAG+TGG | - | chr4.4:76619691-76619710 | None:intergenic | 45.0% | |
| TGCTCTAGTAGCTGCTAAGT+TGG | + | chr4.4:76620923-76620942 | MS.gene45809:CDS | 45.0% | |
| TGTGTGCAGAAACTAGGAGA+AGG | + | chr4.4:76620708-76620727 | MS.gene45809:intron | 45.0% | |
| ! | CCTTTTGCTCGAATCATGGA+GGG | + | chr4.4:76619838-76619857 | MS.gene45809:CDS | 45.0% |
| ! | TCAGACACAGCTCTAACAAC+TGG | - | chr4.4:76619727-76619746 | None:intergenic | 45.0% |
| ! | TCCTTTTGCTCGAATCATGG+AGG | + | chr4.4:76619837-76619856 | MS.gene45809:CDS | 45.0% |
| !! | ACTAGGAGAAGGTGTTAAGG+GGG | + | chr4.4:76620719-76620738 | MS.gene45809:CDS | 45.0% |
| !! | TCCATTACGCCCACTAGTTT+TGG | + | chr4.4:76619678-76619697 | MS.gene45809:CDS | 45.0% |
| !!! | CCATTACGCCCACTAGTTTT+GGG | + | chr4.4:76619679-76619698 | MS.gene45809:CDS | 45.0% |
| AGAGCTGTGTCTGAGAAGCT+TGG | + | chr4.4:76619733-76619752 | MS.gene45809:CDS | 50.0% | |
| CCCTCCATGATTCGAGCAAA+AGG | - | chr4.4:76619841-76619860 | None:intergenic | 50.0% | |
| CTGTGTCTGAGAAGCTTGGA+GGG | + | chr4.4:76619737-76619756 | MS.gene45809:CDS | 50.0% | |
| CTTGACCCATCAATTGCTCC+AGG | + | chr4.4:76620768-76620787 | MS.gene45809:CDS | 50.0% | |
| GACACTCCTGGAGCAATTGA+TGG | - | chr4.4:76620777-76620796 | None:intergenic | 50.0% | |
| TCTCGAAATGAAAGGCCTCC+TGG | - | chr4.4:76620810-76620829 | None:intergenic | 50.0% | |
| TTTGCTCGAATCATGGAGGG+TGG | + | chr4.4:76619841-76619860 | MS.gene45809:CDS | 50.0% | |
| ! | CCCAAAACTAGTGGGCGTAA+TGG | - | chr4.4:76619682-76619701 | None:intergenic | 50.0% |
| !! | TCGCCCCATTTTAGAGAACC+TGG | + | chr4.4:76620120-76620139 | MS.gene45809:intron | 50.0% |
| !!! | TTACGCCCACTAGTTTTGGG+TGG | + | chr4.4:76619682-76619701 | MS.gene45809:CDS | 50.0% |
| ATGAAAGGCCTCCTGGCTCA+TGG | - | chr4.4:76620803-76620822 | None:intergenic | 55.0% | |
| GAGAGAGATAGGGAGAGACC+AGG | - | chr4.4:76620141-76620160 | None:intergenic | 55.0% | |
| GCTGTGTCTGAGAAGCTTGG+AGG | + | chr4.4:76619736-76619755 | MS.gene45809:CDS | 55.0% | |
| GGCTCATGGTGAGACACTCC+TGG | - | chr4.4:76620789-76620808 | None:intergenic | 60.0% | |
| GTGTCTCACCATGAGCCAGG+AGG | + | chr4.4:76620792-76620811 | MS.gene45809:CDS | 60.0% | |
| ! | GGAGTGTCTCACCATGAGCC+AGG | + | chr4.4:76620789-76620808 | MS.gene45809:CDS | 60.0% |
| !! | CTATGCTCGCCGACTCGTGC+AGG | + | chr4.4:76619864-76619883 | MS.gene45809:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 76619646 | 76620977 | 76619646 | ID=MS.gene45809 |
| chr4.4 | mRNA | 76619646 | 76620977 | 76619646 | ID=MS.gene45809.t1;Parent=MS.gene45809 |
| chr4.4 | exon | 76619646 | 76619879 | 76619646 | ID=MS.gene45809.t1.exon1;Parent=MS.gene45809.t1 |
| chr4.4 | CDS | 76619646 | 76619879 | 76619646 | ID=cds.MS.gene45809.t1;Parent=MS.gene45809.t1 |
| chr4.4 | exon | 76620717 | 76620977 | 76620717 | ID=MS.gene45809.t1.exon2;Parent=MS.gene45809.t1 |
| chr4.4 | CDS | 76620717 | 76620977 | 76620717 | ID=cds.MS.gene45809.t1;Parent=MS.gene45809.t1 |
| Gene Sequence |
| Protein sequence |
