Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0107390 | XP_013466815.1 | 78.667 | 75 | 10 | 1 | 26 | 94 | 4 | 78 | 1.20e-27 | 114 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0107390 | A0A072VH10 | 78.667 | 75 | 10 | 1 | 26 | 94 | 4 | 78 | 5.75e-28 | 114 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0107390 | Msa0153850 | 0.863013 | 3.368861e-64 | -8.615850e-47 |
| Msa0107390 | Msa0815320 | 0.808386 | 3.177670e-50 | -8.615850e-47 |
| Msa0107390 | Msa0905720 | 0.813600 | 2.357712e-51 | -8.615850e-47 |
| Msa0107390 | Msa1027240 | 0.809388 | 1.939237e-50 | -8.615850e-47 |
| Msa0107390 | Msa1027290 | 0.807387 | 5.183289e-50 | -8.615850e-47 |
| Msa0107390 | Msa1396830 | 0.818246 | 2.166995e-52 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0107390 | MtrunA17_Chr1g0163601 | 78.667 | 75 | 10 | 1 | 26 | 94 | 4 | 78 | 1.11e-31 | 114 |
| Msa0107390 | MtrunA17_Chr1g0163611 | 78.571 | 70 | 9 | 1 | 31 | 94 | 9 | 78 | 3.93e-29 | 107 |
| Msa0107390 | MtrunA17_Chr1g0170931 | 75.439 | 57 | 8 | 1 | 44 | 94 | 5 | 61 | 1.25e-22 | 84.7 |
| Msa0107390 | MtrunA17_Chr1g0163621 | 84.615 | 65 | 4 | 1 | 36 | 94 | 28 | 92 | 1.80e-21 | 86.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 6 sgRNAs with CRISPR-Local
Find 120 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CACAATTCAGGGTGTTGATT+TGG | 0.275738 | 1_3:+17667400 | None:intergenic |
| GGATAAAATATACACAATTC+AGG | 0.323222 | 1_3:+17667388 | None:intergenic |
| ACAGCAGCATTTAGTATTGC+AGG | 0.368682 | 1_3:+17667511 | None:intergenic |
| TGCTTCTAATGAGGTAGAAA+AGG | 0.431760 | 1_3:-17667584 | Msa0107390:CDS |
| GATAAAATATACACAATTCA+GGG | 0.523101 | 1_3:+17667389 | None:intergenic |
| ATATAATCTTGCTTCTAATG+AGG | 0.564642 | 1_3:-17667593 | Msa0107390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAATTTTAAATAAATTTAA+CGG | + | chr1_3:17668250-17668269 | None:intergenic | 0.0% |
| !!! | AAAATTTTAAATAAATTTAA+CGG | + | chr1_3:17668250-17668269 | None:intergenic | 0.0% |
| !! | ACAATTATATGAAATTAAAA+TGG | - | chr1_3:17666731-17666750 | Msa0107390:intron | 10.0% |
| !! | ACAATTATATGAAATTAAAA+TGG | - | chr1_3:17666731-17666750 | Msa0107390:intron | 10.0% |
| !! | TTTACTTAAAAGAAAGAAAA+CGG | + | chr1_3:17666783-17666802 | None:intergenic | 15.0% |
| !! | TTGACCATATAAAATTAAAA+AGG | - | chr1_3:17666839-17666858 | Msa0107390:intron | 15.0% |
| !! | TGACCATATAAAATTAAAAA+GGG | - | chr1_3:17666840-17666859 | Msa0107390:intron | 15.0% |
| !!! | TTCTCTAAAATAATTTTAGA+GGG | + | chr1_3:17667691-17667710 | None:intergenic | 15.0% |
| !!! | TTTCTCTAAAATAATTTTAG+AGG | + | chr1_3:17667692-17667711 | None:intergenic | 15.0% |
| !!! | TAAGTTGAATATAAAATCAA+AGG | - | chr1_3:17667761-17667780 | Msa0107390:intron | 15.0% |
| !!! | TCTATCTTTTGTAAATAATT+CGG | + | chr1_3:17667809-17667828 | None:intergenic | 15.0% |
| !! | ACTCTCTAATATTATATTAA+TGG | + | chr1_3:17667855-17667874 | None:intergenic | 15.0% |
| !! | TTAATGATTATTTAATTCGT+TGG | + | chr1_3:17667972-17667991 | None:intergenic | 15.0% |
| !! | TTTACTTAAAAGAAAGAAAA+CGG | + | chr1_3:17666783-17666802 | None:intergenic | 15.0% |
| !! | TTGACCATATAAAATTAAAA+AGG | - | chr1_3:17666839-17666858 | Msa0107390:intron | 15.0% |
| !! | TGACCATATAAAATTAAAAA+GGG | - | chr1_3:17666840-17666859 | Msa0107390:intron | 15.0% |
| !!! | TTCTCTAAAATAATTTTAGA+GGG | + | chr1_3:17667691-17667710 | None:intergenic | 15.0% |
| !!! | TTTCTCTAAAATAATTTTAG+AGG | + | chr1_3:17667692-17667711 | None:intergenic | 15.0% |
| !!! | TAAGTTGAATATAAAATCAA+AGG | - | chr1_3:17667761-17667780 | Msa0107390:intron | 15.0% |
| !!! | TCTATCTTTTGTAAATAATT+CGG | + | chr1_3:17667809-17667828 | None:intergenic | 15.0% |
| !! | ACTCTCTAATATTATATTAA+TGG | + | chr1_3:17667855-17667874 | None:intergenic | 15.0% |
| !! | TTAATGATTATTTAATTCGT+TGG | + | chr1_3:17667972-17667991 | None:intergenic | 15.0% |
| !!! | AGACCCTTTTTAATTTTATA+TGG | + | chr1_3:17666846-17666865 | None:intergenic | 20.0% |
| !! | AAATAGATCCAAACTTTATT+CGG | - | chr1_3:17667121-17667140 | Msa0107390:intron | 20.0% |
| !! | AAATAGATCCAAACTTTATT+CGG | - | chr1_3:17667121-17667140 | Msa0107390:intron | 20.0% |
| !! | ATACATTGTGTCTATATATA+GGG | - | chr1_3:17667372-17667391 | Msa0107390:intron | 20.0% |
| !!! | CATTGTTATTATGTTTTAGT+AGG | - | chr1_3:17667515-17667534 | Msa0107390:CDS | 20.0% |
| !! | GATAAAATATACACAATTCA+GGG | + | chr1_3:17667669-17667688 | None:intergenic | 20.0% |
| !!! | TATTAATGGCTTTAATCTTT+AGG | + | chr1_3:17667841-17667860 | None:intergenic | 20.0% |
| !! | TGTATATAATTTAGAAAGAG+TGG | + | chr1_3:17668076-17668095 | None:intergenic | 20.0% |
| !!! | AGACCCTTTTTAATTTTATA+TGG | + | chr1_3:17666846-17666865 | None:intergenic | 20.0% |
| !! | AAATAGATCCAAACTTTATT+CGG | - | chr1_3:17667121-17667140 | Msa0107390:intron | 20.0% |
| !! | AAATAGATCCAAACTTTATT+CGG | - | chr1_3:17667121-17667140 | Msa0107390:intron | 20.0% |
| !! | ATACATTGTGTCTATATATA+GGG | - | chr1_3:17667372-17667391 | Msa0107390:intron | 20.0% |
| !!! | CATTGTTATTATGTTTTAGT+AGG | - | chr1_3:17667515-17667534 | Msa0107390:CDS | 20.0% |
| !! | GATAAAATATACACAATTCA+GGG | + | chr1_3:17667669-17667688 | None:intergenic | 20.0% |
| !!! | TATTAATGGCTTTAATCTTT+AGG | + | chr1_3:17667841-17667860 | None:intergenic | 20.0% |
| !! | TGTATATAATTTAGAAAGAG+TGG | + | chr1_3:17668076-17668095 | None:intergenic | 20.0% |
| ! | TAGTAAAGAGCAATTAACAA+AGG | + | chr1_3:17666816-17666835 | None:intergenic | 25.0% |
| !! | GTTTTTGATCAAATCACTTA+AGG | + | chr1_3:17666922-17666941 | None:intergenic | 25.0% |
| ! | GATACATTGTGTCTATATAT+AGG | - | chr1_3:17667371-17667390 | Msa0107390:intron | 25.0% |
| !! | ATATTTTGCTAGGTTCTTTA+TGG | + | chr1_3:17667446-17667465 | None:intergenic | 25.0% |
| !! | AAGCAAGATTATATTTTGCT+AGG | + | chr1_3:17667456-17667475 | None:intergenic | 25.0% |
| ! | ATATAATCTTGCTTCTAATG+AGG | - | chr1_3:17667462-17667481 | Msa0107390:CDS | 25.0% |
| ! | GGATAAAATATACACAATTC+AGG | + | chr1_3:17667670-17667689 | None:intergenic | 25.0% |
| ! | AATCAATAGTGAATCAGTTA+TGG | - | chr1_3:17667990-17668009 | Msa0107390:intron | 25.0% |
| !! | GTCTTTTGTGTAGAATATTA+TGG | - | chr1_3:17668185-17668204 | Msa0107390:intron | 25.0% |
| ! | TAGTAAAGAGCAATTAACAA+AGG | + | chr1_3:17666816-17666835 | None:intergenic | 25.0% |
| !! | GTTTTTGATCAAATCACTTA+AGG | + | chr1_3:17666922-17666941 | None:intergenic | 25.0% |
| ! | GATACATTGTGTCTATATAT+AGG | - | chr1_3:17667371-17667390 | Msa0107390:intron | 25.0% |
| !! | ATATTTTGCTAGGTTCTTTA+TGG | + | chr1_3:17667446-17667465 | None:intergenic | 25.0% |
| !! | AAGCAAGATTATATTTTGCT+AGG | + | chr1_3:17667456-17667475 | None:intergenic | 25.0% |
| ! | ATATAATCTTGCTTCTAATG+AGG | - | chr1_3:17667462-17667481 | Msa0107390:CDS | 25.0% |
| ! | GGATAAAATATACACAATTC+AGG | + | chr1_3:17667670-17667689 | None:intergenic | 25.0% |
| ! | AATCAATAGTGAATCAGTTA+TGG | - | chr1_3:17667990-17668009 | Msa0107390:intron | 25.0% |
| !! | GTCTTTTGTGTAGAATATTA+TGG | - | chr1_3:17668185-17668204 | Msa0107390:intron | 25.0% |
| ACACACTACTATCAAATAGA+AGG | + | chr1_3:17666883-17666902 | None:intergenic | 30.0% | |
| GCACAAAAAGATAGACAAAT+TGG | - | chr1_3:17667310-17667329 | Msa0107390:intron | 30.0% | |
| ATAAGCAACGCTGATATATA+TGG | - | chr1_3:17667349-17667368 | Msa0107390:intron | 30.0% | |
| ! | TTTAGAGAAAAGAGTGTGTA+TGG | - | chr1_3:17667702-17667721 | Msa0107390:intron | 30.0% |
| ! | TTAGAGAAAAGAGTGTGTAT+GGG | - | chr1_3:17667703-17667722 | Msa0107390:intron | 30.0% |
| GTAAAAAAGCCGCAATTTAA+TGG | + | chr1_3:17668016-17668035 | None:intergenic | 30.0% | |
| !!! | TTATTTTAACAGTGCTACAG+TGG | + | chr1_3:17668038-17668057 | None:intergenic | 30.0% |
| TCAAGCTCAAAAAAAAAGGA+TGG | + | chr1_3:17668105-17668124 | None:intergenic | 30.0% | |
| !!! | TCCTTTTTTTTTGAGCTTGA+CGG | - | chr1_3:17668105-17668124 | Msa0107390:intron | 30.0% |
| ACACACTACTATCAAATAGA+AGG | + | chr1_3:17666883-17666902 | None:intergenic | 30.0% | |
| GCACAAAAAGATAGACAAAT+TGG | - | chr1_3:17667310-17667329 | Msa0107390:intron | 30.0% | |
| ATAAGCAACGCTGATATATA+TGG | - | chr1_3:17667349-17667368 | Msa0107390:intron | 30.0% | |
| ! | TTTAGAGAAAAGAGTGTGTA+TGG | - | chr1_3:17667702-17667721 | Msa0107390:intron | 30.0% |
| ! | TTAGAGAAAAGAGTGTGTAT+GGG | - | chr1_3:17667703-17667722 | Msa0107390:intron | 30.0% |
| GTAAAAAAGCCGCAATTTAA+TGG | + | chr1_3:17668016-17668035 | None:intergenic | 30.0% | |
| !!! | TTATTTTAACAGTGCTACAG+TGG | + | chr1_3:17668038-17668057 | None:intergenic | 30.0% |
| TCAAGCTCAAAAAAAAAGGA+TGG | + | chr1_3:17668105-17668124 | None:intergenic | 30.0% | |
| !!! | TCCTTTTTTTTTGAGCTTGA+CGG | - | chr1_3:17668105-17668124 | Msa0107390:intron | 30.0% |
| TTTCTTGTTCCACTACTCAA+AGG | - | chr1_3:17666982-17667001 | Msa0107390:intron | 35.0% | |
| CAAAGGTTGAGGGTAATAAT+TGG | - | chr1_3:17666999-17667018 | Msa0107390:intron | 35.0% | |
| ! | TTGAGGGTAATAATTGGTCT+CGG | - | chr1_3:17667005-17667024 | Msa0107390:intron | 35.0% |
| ACATGCAACCGAATAAAGTT+TGG | + | chr1_3:17667132-17667151 | None:intergenic | 35.0% | |
| ACATGCAACCGAATAAAGTT+TGG | + | chr1_3:17667132-17667151 | None:intergenic | 35.0% | |
| !!! | CAAACATGTGCTGATTTTGA+GGG | + | chr1_3:17667283-17667302 | None:intergenic | 35.0% |
| !!! | TCAAACATGTGCTGATTTTG+AGG | + | chr1_3:17667284-17667303 | None:intergenic | 35.0% |
| TGCTTCTAATGAGGTAGAAA+AGG | - | chr1_3:17667471-17667490 | Msa0107390:CDS | 35.0% | |
| CAGTTATGGCCATTAAATTG+CGG | - | chr1_3:17668004-17668023 | Msa0107390:intron | 35.0% | |
| TTTCTTGTTCCACTACTCAA+AGG | - | chr1_3:17666982-17667001 | Msa0107390:intron | 35.0% | |
| CAAAGGTTGAGGGTAATAAT+TGG | - | chr1_3:17666999-17667018 | Msa0107390:intron | 35.0% | |
| ! | TTGAGGGTAATAATTGGTCT+CGG | - | chr1_3:17667005-17667024 | Msa0107390:intron | 35.0% |
| ACATGCAACCGAATAAAGTT+TGG | + | chr1_3:17667132-17667151 | None:intergenic | 35.0% | |
| ACATGCAACCGAATAAAGTT+TGG | + | chr1_3:17667132-17667151 | None:intergenic | 35.0% | |
| !!! | CAAACATGTGCTGATTTTGA+GGG | + | chr1_3:17667283-17667302 | None:intergenic | 35.0% |
| !!! | TCAAACATGTGCTGATTTTG+AGG | + | chr1_3:17667284-17667303 | None:intergenic | 35.0% |
| TGCTTCTAATGAGGTAGAAA+AGG | - | chr1_3:17667471-17667490 | Msa0107390:CDS | 35.0% | |
| CAGTTATGGCCATTAAATTG+CGG | - | chr1_3:17668004-17668023 | Msa0107390:intron | 35.0% | |
| TTCCACTACTCAAAGGTTGA+GGG | - | chr1_3:17666989-17667008 | Msa0107390:intron | 40.0% | |
| ACAGCAGCATTTAGTATTGC+AGG | + | chr1_3:17667547-17667566 | None:intergenic | 40.0% | |
| !! | CACAATTCAGGGTGTTGATT+TGG | + | chr1_3:17667658-17667677 | None:intergenic | 40.0% |
| ! | GACGTCTCTTCTTCTCTTTT+TGG | + | chr1_3:17667879-17667898 | None:intergenic | 40.0% |
| GCCGTCAAGCTCAAAAAAAA+AGG | + | chr1_3:17668109-17668128 | None:intergenic | 40.0% | |
| GACACATGTCATTCACTTAG+TGG | + | chr1_3:17668136-17668155 | None:intergenic | 40.0% | |
| ATGACATGTGTCCTTGAAAG+TGG | - | chr1_3:17668144-17668163 | Msa0107390:intron | 40.0% | |
| TGACATGTGTCCTTGAAAGT+GGG | - | chr1_3:17668145-17668164 | Msa0107390:intron | 40.0% | |
| GAATATTCTCCCCACTTTCA+AGG | + | chr1_3:17668158-17668177 | None:intergenic | 40.0% | |
| TTCCACTACTCAAAGGTTGA+GGG | - | chr1_3:17666989-17667008 | Msa0107390:intron | 40.0% | |
| ACAGCAGCATTTAGTATTGC+AGG | + | chr1_3:17667547-17667566 | None:intergenic | 40.0% | |
| !! | CACAATTCAGGGTGTTGATT+TGG | + | chr1_3:17667658-17667677 | None:intergenic | 40.0% |
| ! | GACGTCTCTTCTTCTCTTTT+TGG | + | chr1_3:17667879-17667898 | None:intergenic | 40.0% |
| GCCGTCAAGCTCAAAAAAAA+AGG | + | chr1_3:17668109-17668128 | None:intergenic | 40.0% | |
| GACACATGTCATTCACTTAG+TGG | + | chr1_3:17668136-17668155 | None:intergenic | 40.0% | |
| ATGACATGTGTCCTTGAAAG+TGG | - | chr1_3:17668144-17668163 | Msa0107390:intron | 40.0% | |
| TGACATGTGTCCTTGAAAGT+GGG | - | chr1_3:17668145-17668164 | Msa0107390:intron | 40.0% | |
| GAATATTCTCCCCACTTTCA+AGG | + | chr1_3:17668158-17668177 | None:intergenic | 40.0% | |
| GTTCCACTACTCAAAGGTTG+AGG | - | chr1_3:17666988-17667007 | Msa0107390:intron | 45.0% | |
| TACCCTCAACCTTTGAGTAG+TGG | + | chr1_3:17666994-17667013 | None:intergenic | 45.0% | |
| ! | GGTAATAATTGGTCTCGGTG+TGG | - | chr1_3:17667010-17667029 | Msa0107390:intron | 45.0% |
| GACATGTGTCCTTGAAAGTG+GGG | - | chr1_3:17668146-17668165 | Msa0107390:intron | 45.0% | |
| GTTCCACTACTCAAAGGTTG+AGG | - | chr1_3:17666988-17667007 | Msa0107390:intron | 45.0% | |
| TACCCTCAACCTTTGAGTAG+TGG | + | chr1_3:17666994-17667013 | None:intergenic | 45.0% | |
| ! | GGTAATAATTGGTCTCGGTG+TGG | - | chr1_3:17667010-17667029 | Msa0107390:intron | 45.0% |
| GACATGTGTCCTTGAAAGTG+GGG | - | chr1_3:17668146-17668165 | Msa0107390:intron | 45.0% | |
| !! | AATTAATGATTAAATAAAAT+AGG | + | chr1_3:17668313-17668332 | None:intergenic | 5.0% |
| !! | AATTAATGATTAAATAAAAT+AGG | + | chr1_3:17668313-17668332 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 17666704 | 17668373 | 17666704 | ID=Msa0107390;Name=Msa0107390 |
| chr1_3 | mRNA | 17666704 | 17668373 | 17666704 | ID=Msa0107390-mRNA-1;Parent=Msa0107390;Name=Msa0107390-mRNA-1;_AED=0.57;_eAED=0.57;_QI=0|0|0|0.4|0|0|5|0|98 |
| chr1_3 | exon | 17668365 | 17668373 | 17668365 | ID=Msa0107390-mRNA-1:exon:6648;Parent=Msa0107390-mRNA-1 |
| chr1_3 | exon | 17668300 | 17668307 | 17668300 | ID=Msa0107390-mRNA-1:exon:6647;Parent=Msa0107390-mRNA-1 |
| chr1_3 | exon | 17667559 | 17667684 | 17667559 | ID=Msa0107390-mRNA-1:exon:6646;Parent=Msa0107390-mRNA-1 |
| chr1_3 | exon | 17667403 | 17667540 | 17667403 | ID=Msa0107390-mRNA-1:exon:6645;Parent=Msa0107390-mRNA-1 |
| chr1_3 | exon | 17666704 | 17666719 | 17666704 | ID=Msa0107390-mRNA-1:exon:6644;Parent=Msa0107390-mRNA-1 |
| chr1_3 | CDS | 17668365 | 17668373 | 17668365 | ID=Msa0107390-mRNA-1:cds;Parent=Msa0107390-mRNA-1 |
| chr1_3 | CDS | 17668300 | 17668307 | 17668300 | ID=Msa0107390-mRNA-1:cds;Parent=Msa0107390-mRNA-1 |
| chr1_3 | CDS | 17667559 | 17667684 | 17667559 | ID=Msa0107390-mRNA-1:cds;Parent=Msa0107390-mRNA-1 |
| chr1_3 | CDS | 17667403 | 17667540 | 17667403 | ID=Msa0107390-mRNA-1:cds;Parent=Msa0107390-mRNA-1 |
| chr1_3 | CDS | 17666704 | 17666719 | 17666704 | ID=Msa0107390-mRNA-1:cds;Parent=Msa0107390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
