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.gene42436.t1 | KEH34366.1 | 71.5 | 228 | 52 | 3 | 1 | 227 | 4 | 219 | 1.40E-75 | 292.7 |
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.gene42436.t1 | A0A072UY95 | 71.5 | 228 | 52 | 3 | 1 | 227 | 4 | 219 | 1.0e-75 | 292.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051932 | MS.gene42436 | 0.886603 | 2.96E-72 | -1.69E-46 |
| MS.gene053491 | MS.gene42436 | 0.847073 | 1.46E-59 | -1.69E-46 |
| MS.gene05578 | MS.gene42436 | 0.814554 | 1.45E-51 | -1.69E-46 |
| MS.gene06044 | MS.gene42436 | 0.852233 | 5.28E-61 | -1.69E-46 |
| MS.gene061081 | MS.gene42436 | 0.827488 | 1.52E-54 | -1.69E-46 |
| MS.gene061245 | MS.gene42436 | 0.852889 | 3.43E-61 | -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.gene42436.t1 | MTR_3g465350 | 77.193 | 228 | 39 | 3 | 1 | 227 | 4 | 219 | 2.98e-119 | 338 |
| MS.gene42436.t1 | MTR_3g465380 | 38.372 | 172 | 92 | 5 | 24 | 187 | 38 | 203 | 6.11e-21 | 87.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 55 sgRNAs with CRISPR-Local
Find 77 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAATAGATCGTCAATATT+AGG | 0.196396 | 1.4:-46973614 | None:intergenic |
| TGCAAACTTAGGAGCCAATT+TGG | 0.218033 | 1.4:+46972105 | MS.gene42436:CDS |
| AAATCCAAGTGAAGAAATTA+AGG | 0.250461 | 1.4:+46973140 | MS.gene42436:CDS |
| GTCACTATTAAGACCCAAAT+TGG | 0.259503 | 1.4:-46972119 | None:intergenic |
| TGAGTCCGAGTCTCGATTAA+AGG | 0.273789 | 1.4:-46972644 | None:intergenic |
| TCCTCTTAGGACCCTTGTTT+TGG | 0.280514 | 1.4:-46972141 | None:intergenic |
| GAACTAGCACAGCTGATTAA+TGG | 0.293544 | 1.4:+46973190 | MS.gene42436:CDS |
| TATTTCAGTCTGATCCTCTT+AGG | 0.304174 | 1.4:-46972154 | None:intergenic |
| CTCCAACATGTGGTTCAGTT+TGG | 0.312413 | 1.4:+46972059 | MS.gene42436:CDS |
| CCAACATCAAACGGTGCTTT+TGG | 0.325999 | 1.4:-46972899 | None:intergenic |
| GTTTGCAGTAGAGTGGTTAA+AGG | 0.332534 | 1.4:-46972089 | None:intergenic |
| TCCAACATGTGGTTCAGTTT+GGG | 0.349563 | 1.4:+46972060 | MS.gene42436:CDS |
| TTGTTCTTACCTTGATCATA+TGG | 0.360817 | 1.4:-46973271 | None:intergenic |
| AGAACACAACAACATGGAAT+TGG | 0.366539 | 1.4:+46973568 | MS.gene42436:CDS |
| ACATAGGTGGCGTCCACATT+TGG | 0.369942 | 1.4:-46973529 | None:intergenic |
| ATAATTTGAGTCTAAATCAT+TGG | 0.376358 | 1.4:-46973239 | None:intergenic |
| GAAATAGATCGTCAATATTA+GGG | 0.384297 | 1.4:-46973613 | None:intergenic |
| GATACAAAGGTGGTTCTGTT+TGG | 0.388046 | 1.4:-46972036 | None:intergenic |
| AACTAGCACAGCTGATTAAT+GGG | 0.393662 | 1.4:+46973191 | MS.gene42436:CDS |
| GCAAACTTAGGAGCCAATTT+GGG | 0.421774 | 1.4:+46972106 | MS.gene42436:CDS |
| GAACACAACAACATGGAATT+GGG | 0.459020 | 1.4:+46973569 | MS.gene42436:CDS |
| GTTCCCTTAATTTCTTCACT+TGG | 0.466132 | 1.4:-46973144 | None:intergenic |
| GGAATTGGGCATGGAATGGA+TGG | 0.466811 | 1.4:+46973583 | MS.gene42436:CDS |
| GTTTCAAAACCATATGATCA+AGG | 0.472120 | 1.4:+46973262 | MS.gene42436:CDS |
| CCAAAAGCACCGTTTGATGT+TGG | 0.496047 | 1.4:+46972899 | MS.gene42436:CDS |
| AATCCAAGTGAAGAAATTAA+GGG | 0.496720 | 1.4:+46973141 | MS.gene42436:CDS |
| GTTGGAGCGTGTGACGTTGA+TGG | 0.506274 | 1.4:+46972917 | MS.gene42436:CDS |
| AACCACTCTACTGCAAACTT+AGG | 0.532758 | 1.4:+46972094 | MS.gene42436:CDS |
| CTCCTAAGTTTGCAGTAGAG+TGG | 0.536634 | 1.4:-46972096 | None:intergenic |
| GTTTCATGCTCATCCGACAT+AGG | 0.537114 | 1.4:-46973545 | None:intergenic |
| AATGTGGACGCCACCTATGT+CGG | 0.552697 | 1.4:+46973532 | MS.gene42436:CDS |
| AAAGGTGGTTCTGTTTGGAA+AGG | 0.562830 | 1.4:-46972031 | None:intergenic |
| TCACACGCTCCAACATCAAA+CGG | 0.566826 | 1.4:-46972908 | None:intergenic |
| ACATGGAATTGGGCATGGAA+TGG | 0.568585 | 1.4:+46973579 | MS.gene42436:CDS |
| TCTTAATAGTGACCAAAACA+AGG | 0.569518 | 1.4:+46972129 | MS.gene42436:CDS |
| GAGTCTAAATCATTGGACAT+TGG | 0.575430 | 1.4:-46973232 | None:intergenic |
| GATCAAGACGGAAGGAAGAT+CGG | 0.579150 | 1.4:+46972674 | MS.gene42436:CDS |
| GACTATTACAAAGCCAAATG+TGG | 0.588677 | 1.4:+46973516 | MS.gene42436:CDS |
| CAACAACATGGAATTGGGCA+TGG | 0.590352 | 1.4:+46973574 | MS.gene42436:CDS |
| ACCAAAACAAGGGTCCTAAG+AGG | 0.590710 | 1.4:+46972140 | MS.gene42436:CDS |
| GTTCTGTTTGGAAAGGAACA+TGG | 0.591842 | 1.4:-46972024 | None:intergenic |
| TCCCAAACTGAACCACATGT+TGG | 0.599459 | 1.4:-46972061 | None:intergenic |
| CAAACTGAACCACATGTTGG+AGG | 0.601431 | 1.4:-46972058 | None:intergenic |
| CACTTAGAGAACATAATGGA+GGG | 0.621926 | 1.4:+46971992 | None:intergenic |
| CCACATGTTGGAGGATACAA+AGG | 0.621996 | 1.4:-46972049 | None:intergenic |
| TCATGCTCATCCGACATAGG+TGG | 0.624811 | 1.4:-46973542 | None:intergenic |
| AGCTCATAGATCAAGACGGA+AGG | 0.626708 | 1.4:+46972666 | MS.gene42436:CDS |
| AAAGAAGCACATCTTAAAGA+CGG | 0.628544 | 1.4:+46972960 | MS.gene42436:CDS |
| CTACGTCGATCAACAAGCTG+AGG | 0.639200 | 1.4:+46973168 | MS.gene42436:CDS |
| CCTTTGTATCCTCCAACATG+TGG | 0.647083 | 1.4:+46972049 | MS.gene42436:CDS |
| TGAAACCTTTAATCGAGACT+CGG | 0.649080 | 1.4:+46972639 | MS.gene42436:CDS |
| TGAAACAGAACACAACAACA+TGG | 0.650313 | 1.4:+46973562 | MS.gene42436:CDS |
| ACTCAGCTCATAGATCAAGA+CGG | 0.691685 | 1.4:+46972662 | MS.gene42436:CDS |
| CTTAATAGTGACCAAAACAA+GGG | 0.698882 | 1.4:+46972130 | MS.gene42436:CDS |
| CATGTTGGAGGATACAAAGG+TGG | 0.702436 | 1.4:-46972046 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAAAAAAAAAAAAAAAATTG+GGG | + | chr1.4:46972271-46972290 | MS.gene42436:intron | 10.0% |
| !! | CTCAAAAAAAAAAAAAAAAT+TGG | + | chr1.4:46972269-46972288 | MS.gene42436:intron | 10.0% |
| !!! | TAATTATTATTTATTGGTTT+TGG | + | chr1.4:46973381-46973400 | MS.gene42436:intron | 10.0% |
| !!! | TTTTTTAAAATGACATATAT+AGG | + | chr1.4:46973494-46973513 | MS.gene42436:intron | 10.0% |
| !! | ACACACAAATATATATATTA+AGG | + | chr1.4:46972300-46972319 | MS.gene42436:intron | 15.0% |
| !! | GTATGCTAATTATTATTTAT+TGG | + | chr1.4:46973375-46973394 | MS.gene42436:intron | 15.0% |
| !! | TAAAAAAGTTAAAGAAATTG+AGG | + | chr1.4:46972714-46972733 | MS.gene42436:CDS | 15.0% |
| !!! | TTTAACTTTTTTACTCAAAT+AGG | - | chr1.4:46972707-46972726 | None:intergenic | 15.0% |
| !!! | TTTGACATTTTAAATAATTG+TGG | + | chr1.4:46972237-46972256 | MS.gene42436:intron | 15.0% |
| !! | AAAAGAATTAATTAGTCACT+AGG | - | chr1.4:46973415-46973434 | None:intergenic | 20.0% |
| !! | ATAATTTGAGTCTAAATCAT+TGG | - | chr1.4:46973242-46973261 | None:intergenic | 20.0% |
| !! | TCATCATAATCTAAATTTCA+AGG | - | chr1.4:46972539-46972558 | None:intergenic | 20.0% |
| !! | TTAAAATGTCAAATATCACA+AGG | - | chr1.4:46972230-46972249 | None:intergenic | 20.0% |
| !!! | CAACATATTAGTTTTTGAAA+AGG | - | chr1.4:46973341-46973360 | None:intergenic | 20.0% |
| ! | AAATCCAAGTGAAGAAATTA+AGG | + | chr1.4:46973140-46973159 | MS.gene42436:CDS | 25.0% |
| ! | AATCCAAGTGAAGAAATTAA+GGG | + | chr1.4:46973141-46973160 | MS.gene42436:CDS | 25.0% |
| ! | ACTTTCAGCTGATAATTAAT+GGG | - | chr1.4:46973110-46973129 | None:intergenic | 25.0% |
| ! | AGAAATAGATCGTCAATATT+AGG | - | chr1.4:46973617-46973636 | None:intergenic | 25.0% |
| ! | AGACTGAAATACATGTAATT+TGG | + | chr1.4:46972166-46972185 | MS.gene42436:intron | 25.0% |
| ! | CATAGCTCAATATATTGATA+AGG | + | chr1.4:46973044-46973063 | MS.gene42436:intron | 25.0% |
| ! | GAAATAGATCGTCAATATTA+GGG | - | chr1.4:46973616-46973635 | None:intergenic | 25.0% |
| CACTTTCAGCTGATAATTAA+TGG | - | chr1.4:46973111-46973130 | None:intergenic | 30.0% | |
| CTTAATAGTGACCAAAACAA+GGG | + | chr1.4:46972130-46972149 | MS.gene42436:CDS | 30.0% | |
| GTTTCAAAACCATATGATCA+AGG | + | chr1.4:46973262-46973281 | MS.gene42436:CDS | 30.0% | |
| TCTTAATAGTGACCAAAACA+AGG | + | chr1.4:46972129-46972148 | MS.gene42436:CDS | 30.0% | |
| TTGTTCTTACCTTGATCATA+TGG | - | chr1.4:46973274-46973293 | None:intergenic | 30.0% | |
| ! | AAAGAAGCACATCTTAAAGA+CGG | + | chr1.4:46972960-46972979 | MS.gene42436:CDS | 30.0% |
| AACTAGCACAGCTGATTAAT+GGG | + | chr1.4:46973191-46973210 | MS.gene42436:CDS | 35.0% | |
| AGAACACAACAACATGGAAT+TGG | + | chr1.4:46973568-46973587 | MS.gene42436:CDS | 35.0% | |
| CGCTCATCATAAATATATGC+AGG | + | chr1.4:46972833-46972852 | MS.gene42436:intron | 35.0% | |
| GAACACAACAACATGGAATT+GGG | + | chr1.4:46973569-46973588 | MS.gene42436:CDS | 35.0% | |
| GACTATTACAAAGCCAAATG+TGG | + | chr1.4:46973516-46973535 | MS.gene42436:CDS | 35.0% | |
| GAGTCTAAATCATTGGACAT+TGG | - | chr1.4:46973235-46973254 | None:intergenic | 35.0% | |
| GTCACTATTAAGACCCAAAT+TGG | - | chr1.4:46972122-46972141 | None:intergenic | 35.0% | |
| GTTCCCTTAATTTCTTCACT+TGG | - | chr1.4:46973147-46973166 | None:intergenic | 35.0% | |
| TATTTCAGTCTGATCCTCTT+AGG | - | chr1.4:46972157-46972176 | None:intergenic | 35.0% | |
| TGAAACAGAACACAACAACA+TGG | + | chr1.4:46973562-46973581 | MS.gene42436:CDS | 35.0% | |
| TGAAACCTTTAATCGAGACT+CGG | + | chr1.4:46972639-46972658 | MS.gene42436:CDS | 35.0% | |
| AACCACTCTACTGCAAACTT+AGG | + | chr1.4:46972094-46972113 | MS.gene42436:CDS | 40.0% | |
| ACACATGCATTATGAGACTC+TGG | - | chr1.4:46972579-46972598 | None:intergenic | 40.0% | |
| ACTCAGCTCATAGATCAAGA+CGG | + | chr1.4:46972662-46972681 | MS.gene42436:CDS | 40.0% | |
| CATGCATTCACCATAGTCAA+TGG | + | chr1.4:46972444-46972463 | MS.gene42436:intron | 40.0% | |
| GAACTAGCACAGCTGATTAA+TGG | + | chr1.4:46973190-46973209 | MS.gene42436:CDS | 40.0% | |
| GCAAACTTAGGAGCCAATTT+GGG | + | chr1.4:46972106-46972125 | MS.gene42436:CDS | 40.0% | |
| GTTCTGTTTGGAAAGGAACA+TGG | - | chr1.4:46972027-46972046 | None:intergenic | 40.0% | |
| GTTTGCAGTAGAGTGGTTAA+AGG | - | chr1.4:46972092-46972111 | None:intergenic | 40.0% | |
| TCCAACATGTGGTTCAGTTT+GGG | + | chr1.4:46972060-46972079 | MS.gene42436:CDS | 40.0% | |
| TGCAAACTTAGGAGCCAATT+TGG | + | chr1.4:46972105-46972124 | MS.gene42436:CDS | 40.0% | |
| ! | AAAGGTGGTTCTGTTTGGAA+AGG | - | chr1.4:46972034-46972053 | None:intergenic | 40.0% |
| ! | GATACAAAGGTGGTTCTGTT+TGG | - | chr1.4:46972039-46972058 | None:intergenic | 40.0% |
| ACATGGAATTGGGCATGGAA+TGG | + | chr1.4:46973579-46973598 | MS.gene42436:CDS | 45.0% | |
| ACCAAAACAAGGGTCCTAAG+AGG | + | chr1.4:46972140-46972159 | MS.gene42436:CDS | 45.0% | |
| AGCTCATAGATCAAGACGGA+AGG | + | chr1.4:46972666-46972685 | MS.gene42436:CDS | 45.0% | |
| CAAACTGAACCACATGTTGG+AGG | - | chr1.4:46972061-46972080 | None:intergenic | 45.0% | |
| CAACAACATGGAATTGGGCA+TGG | + | chr1.4:46973574-46973593 | MS.gene42436:CDS | 45.0% | |
| CATGTTGGAGGATACAAAGG+TGG | - | chr1.4:46972049-46972068 | None:intergenic | 45.0% | |
| CCACATGTTGGAGGATACAA+AGG | - | chr1.4:46972052-46972071 | None:intergenic | 45.0% | |
| CCTTTGTATCCTCCAACATG+TGG | + | chr1.4:46972049-46972068 | MS.gene42436:CDS | 45.0% | |
| CTCCAACATGTGGTTCAGTT+TGG | + | chr1.4:46972059-46972078 | MS.gene42436:CDS | 45.0% | |
| CTCCTAAGTTTGCAGTAGAG+TGG | - | chr1.4:46972099-46972118 | None:intergenic | 45.0% | |
| GATCAAGACGGAAGGAAGAT+CGG | + | chr1.4:46972674-46972693 | MS.gene42436:CDS | 45.0% | |
| GGTCGTAGATCGACATCAAA+CGG | + | chr1.4:46972465-46972484 | MS.gene42436:intron | 45.0% | |
| GTTTCATGCTCATCCGACAT+AGG | - | chr1.4:46973548-46973567 | None:intergenic | 45.0% | |
| TCACACGCTCCAACATCAAA+CGG | - | chr1.4:46972911-46972930 | None:intergenic | 45.0% | |
| TCCCAAACTGAACCACATGT+TGG | - | chr1.4:46972064-46972083 | None:intergenic | 45.0% | |
| TGAGTCCGAGTCTCGATTAA+AGG | - | chr1.4:46972647-46972666 | None:intergenic | 45.0% | |
| ! | CCAACATCAAACGGTGCTTT+TGG | - | chr1.4:46972902-46972921 | None:intergenic | 45.0% |
| ! | CGATCTACGACCATTGACTA+TGG | - | chr1.4:46972457-46972476 | None:intergenic | 45.0% |
| !! | CCAAAAGCACCGTTTGATGT+TGG | + | chr1.4:46972899-46972918 | MS.gene42436:CDS | 45.0% |
| !! | TCCTCTTAGGACCCTTGTTT+TGG | - | chr1.4:46972144-46972163 | None:intergenic | 45.0% |
| !! | TCAAAAAAAAAAAAAAAATT+GGG | + | chr1.4:46972270-46972289 | MS.gene42436:intron | 5.0% |
| AATGTGGACGCCACCTATGT+CGG | + | chr1.4:46973532-46973551 | MS.gene42436:CDS | 50.0% | |
| ACATAGGTGGCGTCCACATT+TGG | - | chr1.4:46973532-46973551 | None:intergenic | 50.0% | |
| CTACGTCGATCAACAAGCTG+AGG | + | chr1.4:46973168-46973187 | MS.gene42436:CDS | 50.0% | |
| GGAATTGGGCATGGAATGGA+TGG | + | chr1.4:46973583-46973602 | MS.gene42436:CDS | 50.0% | |
| TCATGCTCATCCGACATAGG+TGG | - | chr1.4:46973545-46973564 | None:intergenic | 50.0% | |
| GTTGGAGCGTGTGACGTTGA+TGG | + | chr1.4:46972917-46972936 | MS.gene42436:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 46972007 | 46973640 | 46972007 | ID=MS.gene42436 |
| chr1.4 | mRNA | 46972007 | 46973640 | 46972007 | ID=MS.gene42436.t1;Parent=MS.gene42436 |
| chr1.4 | exon | 46972007 | 46972179 | 46972007 | ID=MS.gene42436.t1.exon1;Parent=MS.gene42436.t1 |
| chr1.4 | CDS | 46972007 | 46972179 | 46972007 | ID=cds.MS.gene42436.t1;Parent=MS.gene42436.t1 |
| chr1.4 | exon | 46972639 | 46972735 | 46972639 | ID=MS.gene42436.t1.exon2;Parent=MS.gene42436.t1 |
| chr1.4 | CDS | 46972639 | 46972735 | 46972639 | ID=cds.MS.gene42436.t1;Parent=MS.gene42436.t1 |
| chr1.4 | exon | 46972855 | 46972981 | 46972855 | ID=MS.gene42436.t1.exon3;Parent=MS.gene42436.t1 |
| chr1.4 | CDS | 46972855 | 46972981 | 46972855 | ID=cds.MS.gene42436.t1;Parent=MS.gene42436.t1 |
| chr1.4 | exon | 46973122 | 46973283 | 46973122 | ID=MS.gene42436.t1.exon4;Parent=MS.gene42436.t1 |
| chr1.4 | CDS | 46973122 | 46973283 | 46973122 | ID=cds.MS.gene42436.t1;Parent=MS.gene42436.t1 |
| chr1.4 | exon | 46973516 | 46973640 | 46973516 | ID=MS.gene42436.t1.exon5;Parent=MS.gene42436.t1 |
| chr1.4 | CDS | 46973516 | 46973640 | 46973516 | ID=cds.MS.gene42436.t1;Parent=MS.gene42436.t1 |
| Gene Sequence |
| Protein sequence |
