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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623770 | XP_013467425.1 | 83.929 | 168 | 23 | 2 | 1 | 168 | 1 | 164 | 4.57e-92 | 275 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623770 | A0A072VI44 | 83.929 | 168 | 23 | 2 | 1 | 168 | 1 | 164 | 2.18e-92 | 275 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0623770 | Msa1446920 | 0.948067 | 1.964891e-106 | -8.615850e-47 |
| Msa0569100 | Msa0623770 | 0.800798 | 1.217307e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623770 | MtrunA17_Chr1g0171881 | 83.929 | 168 | 23 | 2 | 1 | 168 | 1 | 164 | 4.20e-96 | 275 |
| Msa0623770 | MtrunA17_Chr4g0030371 | 79.518 | 83 | 11 | 1 | 86 | 168 | 1 | 77 | 2.44e-31 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623770 | AT5G40690.1 | 38.462 | 208 | 83 | 6 | 1 | 165 | 1 | 206 | 3.66e-36 | 125 |
| Msa0623770 | AT2G41730.1 | 50.000 | 84 | 36 | 2 | 1 | 81 | 1 | 81 | 3.51e-15 | 68.2 |
| Msa0623770 | AT5G24640.1 | 45.238 | 84 | 39 | 2 | 1 | 81 | 1 | 80 | 1.58e-12 | 61.2 |
Find 55 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCCGCATTTGCCGGTGAATT+TGG | 0.205363 | 4_3:+1101985 | None:intergenic |
| CAACCGGACTCGAATCTTAC+TGG | 0.325031 | 4_3:-1101872 | Msa0623770:CDS |
| AAAATGCTTGTGATTACCTT+TGG | 0.335803 | 4_3:+1101907 | None:intergenic |
| CGAGTACCGGGTGTCGGGTT+AGG | 0.347158 | 4_3:+1102082 | None:intergenic |
| GTAACTTGTTCTACTGTCAT+TGG | 0.359658 | 4_3:+1101698 | None:intergenic |
| CTGTGGCGTGCCGCATTTGC+CGG | 0.362824 | 4_3:+1101976 | None:intergenic |
| TTTGGAATGATTGGTGGGCT+TGG | 0.381078 | 4_3:+1102003 | None:intergenic |
| GCCGGTGAATTTGGAATGAT+TGG | 0.385978 | 4_3:+1101994 | None:intergenic |
| TTCGATTCCCCTCCAACTGC+TGG | 0.391701 | 4_3:-1102046 | Msa0623770:CDS |
| CTCCGGCTGCCGCCTCCATC+CGG | 0.414148 | 4_3:-1101951 | Msa0623770:CDS |
| CAATCTTTCTGATTTCTACA+TGG | 0.421569 | 4_3:-1101825 | Msa0623770:CDS |
| GAATGATTGGTGGGCTTGGA+AGG | 0.425912 | 4_3:+1102007 | None:intergenic |
| CAGTTGGAGGGGAATCGAAC+CGG | 0.429973 | 4_3:+1102050 | None:intergenic |
| TTTGGATTTGTTCTTTGACT+TGG | 0.437582 | 4_3:+1101925 | None:intergenic |
| TGAATCGAGTACCGGGTGTC+GGG | 0.444419 | 4_3:+1102077 | None:intergenic |
| GACCGGATGGAGGCGGCAGC+CGG | 0.457432 | 4_3:+1101949 | None:intergenic |
| CTTACTGGGTTGTCCGCGAC+CGG | 0.458599 | 4_3:-1101857 | Msa0623770:CDS |
| TGCGGCACGCCACAGTGCTC+CGG | 0.463907 | 4_3:-1101968 | Msa0623770:CDS |
| AGAAAGATTGTTTAAAGTCC+CGG | 0.477317 | 4_3:+1101838 | None:intergenic |
| TTGTTCTTTGACTTGGAGAC+CGG | 0.480998 | 4_3:+1101932 | None:intergenic |
| ATATGAAGATGATTGGTGTT+TGG | 0.490876 | 4_3:-1101666 | Msa0623770:CDS |
| ATGAATCGAGTACCGGGTGT+CGG | 0.510454 | 4_3:+1102076 | None:intergenic |
| TCCAAATTCACCGGCAAATG+CGG | 0.527550 | 4_3:-1101986 | Msa0623770:CDS |
| ATTGTTTAAAGTCCCGGTCG+CGG | 0.529848 | 4_3:+1101844 | None:intergenic |
| ATGGTATGGTGAGGACATAT+CGG | 0.534382 | 4_3:-1102111 | Msa0623770:CDS |
| ACTTGGAGACCGGATGGAGG+CGG | 0.537276 | 4_3:+1101942 | None:intergenic |
| TACCGGGTGTCGGGTTAGGA+AGG | 0.539780 | 4_3:+1102086 | None:intergenic |
| TGAAGAGTCCAGCAGTTGGA+GGG | 0.540070 | 4_3:+1102038 | None:intergenic |
| GTGAAGAGTCCAGCAGTTGG+AGG | 0.542067 | 4_3:+1102037 | None:intergenic |
| GGTGAATTTGGAATGATTGG+TGG | 0.542800 | 4_3:+1101997 | None:intergenic |
| AGAGGGCAAGCAACATGGTA+TGG | 0.544442 | 4_3:-1102125 | Msa0623770:CDS |
| ACCAATCATTCCAAATTCAC+CGG | 0.547455 | 4_3:-1101995 | Msa0623770:CDS |
| GTGAATTTGGAATGATTGGT+GGG | 0.548712 | 4_3:+1101998 | None:intergenic |
| AATGATTGGTGGGCTTGGAA+GGG | 0.549805 | 4_3:+1102008 | None:intergenic |
| CCGGGTGATGAATCGAGTAC+CGG | 0.558963 | 4_3:+1102069 | None:intergenic |
| AACCGGACTCGAATCTTACT+GGG | 0.569785 | 4_3:-1101871 | Msa0623770:CDS |
| TTACTGGGTTGTCCGCGACC+GGG | 0.572711 | 4_3:-1101856 | Msa0623770:CDS |
| TGCACTCTAGATGAAGAAGT+GGG | 0.574866 | 4_3:-1101725 | Msa0623770:CDS |
| CCGGTACTCGATTCATCACC+CGG | 0.575989 | 4_3:-1102069 | Msa0623770:CDS |
| ATCCTTCCTAACCCGACACC+CGG | 0.577836 | 4_3:-1102088 | Msa0623770:CDS |
| AGTTGGAGGGGAATCGAACC+GGG | 0.578688 | 4_3:+1102051 | None:intergenic |
| TTTGTGAAGAGTCCAGCAGT+TGG | 0.579848 | 4_3:+1102034 | None:intergenic |
| TCTTTGACTTGGAGACCGGA+TGG | 0.580250 | 4_3:+1101936 | None:intergenic |
| CGGGTGATGAATCGAGTACC+GGG | 0.588075 | 4_3:+1102070 | None:intergenic |
| AACCCAGTAAGATTCGAGTC+CGG | 0.603480 | 4_3:+1101869 | None:intergenic |
| GAAGAGTCCAGCAGTTGGAG+GGG | 0.603678 | 4_3:+1102039 | None:intergenic |
| AAGAGAGAGGGCAAGCAACA+TGG | 0.606726 | 4_3:-1102130 | Msa0623770:CDS |
| TTGACTTGGAGACCGGATGG+AGG | 0.611016 | 4_3:+1101939 | None:intergenic |
| GTGCACTCTAGATGAAGAAG+TGG | 0.617109 | 4_3:-1101726 | Msa0623770:CDS |
| AGGCGGCAGCCGGAGCACTG+TGG | 0.644535 | 4_3:+1101959 | None:intergenic |
| GATGAACGTGTTGACCATGT+TGG | 0.655419 | 4_3:-1101767 | Msa0623770:CDS |
| AAGTCAAAGAACAAATCCAA+AGG | 0.656581 | 4_3:-1101923 | Msa0623770:CDS |
| GCAAGCAACATGGTATGGTG+AGG | 0.664234 | 4_3:-1102120 | Msa0623770:CDS |
| AATTTACATTAAAACCAACA+TGG | 0.665222 | 4_3:+1101753 | None:intergenic |
| GCACTCTAGATGAAGAAGTG+GGG | 0.714162 | 4_3:-1101724 | Msa0623770:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTTACATTAAAACCAACA+TGG | + | chr4_3:1102032-1102051 | None:intergenic | 20.0% |
| !! | AAGAAAAATATGAAGATGAT+TGG | - | chr4_3:1102109-1102128 | Msa0623770:CDS | 20.0% |
| ! | TTTGGATTTGTTCTTTGACT+TGG | + | chr4_3:1101860-1101879 | None:intergenic | 30.0% |
| AAGTCAAAGAACAAATCCAA+AGG | - | chr4_3:1101859-1101878 | Msa0623770:CDS | 30.0% | |
| AAAATGCTTGTGATTACCTT+TGG | + | chr4_3:1101878-1101897 | None:intergenic | 30.0% | |
| ! | AAGGTAATCACAAGCATTTT+AGG | - | chr4_3:1101878-1101897 | Msa0623770:CDS | 30.0% |
| ! | AGGTAATCACAAGCATTTTA+GGG | - | chr4_3:1101879-1101898 | Msa0623770:CDS | 30.0% |
| ! | AGAAAGATTGTTTAAAGTCC+CGG | + | chr4_3:1101947-1101966 | None:intergenic | 30.0% |
| CAATCTTTCTGATTTCTACA+TGG | - | chr4_3:1101957-1101976 | Msa0623770:CDS | 30.0% | |
| ! | ATATGAAGATGATTGGTGTT+TGG | - | chr4_3:1102116-1102135 | Msa0623770:CDS | 30.0% |
| ! | GTGAATTTGGAATGATTGGT+GGG | + | chr4_3:1101787-1101806 | None:intergenic | 35.0% |
| ACCAATCATTCCAAATTCAC+CGG | - | chr4_3:1101787-1101806 | Msa0623770:CDS | 35.0% | |
| !! | GTAACTTGTTCTACTGTCAT+TGG | + | chr4_3:1102087-1102106 | None:intergenic | 35.0% |
| ATGGTATGGTGAGGACATAT+CGG | - | chr4_3:1101671-1101690 | Msa0623770:CDS | 40.0% | |
| ! | GGTGAATTTGGAATGATTGG+TGG | + | chr4_3:1101788-1101807 | None:intergenic | 40.0% |
| !! | TTGTTCTTTGACTTGGAGAC+CGG | + | chr4_3:1101853-1101872 | None:intergenic | 40.0% |
| !!! | TCACAAGCATTTTAGGGTCA+TGG | - | chr4_3:1101885-1101904 | Msa0623770:CDS | 40.0% |
| !!! | TTTTAGGGTCATGGAACAAC+CGG | - | chr4_3:1101894-1101913 | Msa0623770:CDS | 40.0% |
| ! | TGACGATGATGATGATGATG+TGG | - | chr4_3:1101990-1102009 | Msa0623770:CDS | 40.0% |
| TGCACTCTAGATGAAGAAGT+GGG | - | chr4_3:1102057-1102076 | Msa0623770:CDS | 40.0% | |
| TTTGTGAAGAGTCCAGCAGT+TGG | + | chr4_3:1101751-1101770 | None:intergenic | 45.0% | |
| !! | AATGATTGGTGGGCTTGGAA+GGG | + | chr4_3:1101777-1101796 | None:intergenic | 45.0% |
| !! | TTTGGAATGATTGGTGGGCT+TGG | + | chr4_3:1101782-1101801 | None:intergenic | 45.0% |
| ! | GCCGGTGAATTTGGAATGAT+TGG | + | chr4_3:1101791-1101810 | None:intergenic | 45.0% |
| TCCAAATTCACCGGCAAATG+CGG | - | chr4_3:1101796-1101815 | Msa0623770:CDS | 45.0% | |
| AACCGGACTCGAATCTTACT+GGG | - | chr4_3:1101911-1101930 | Msa0623770:CDS | 45.0% | |
| AACCCAGTAAGATTCGAGTC+CGG | + | chr4_3:1101916-1101935 | None:intergenic | 45.0% | |
| ! | ATTGTTTAAAGTCCCGGTCG+CGG | + | chr4_3:1101941-1101960 | None:intergenic | 45.0% |
| ! | GATGAACGTGTTGACCATGT+TGG | - | chr4_3:1102015-1102034 | Msa0623770:CDS | 45.0% |
| GTGCACTCTAGATGAAGAAG+TGG | - | chr4_3:1102056-1102075 | Msa0623770:CDS | 45.0% | |
| GCACTCTAGATGAAGAAGTG+GGG | - | chr4_3:1102058-1102077 | Msa0623770:CDS | 45.0% | |
| AAGAGAGAGGGCAAGCAACA+TGG | - | chr4_3:1101652-1101671 | Msa0623770:CDS | 50.0% | |
| AGAGGGCAAGCAACATGGTA+TGG | - | chr4_3:1101657-1101676 | Msa0623770:CDS | 50.0% | |
| GCAAGCAACATGGTATGGTG+AGG | - | chr4_3:1101662-1101681 | Msa0623770:CDS | 50.0% | |
| !! | ATGAATCGAGTACCGGGTGT+CGG | + | chr4_3:1101709-1101728 | None:intergenic | 50.0% |
| TGAAGAGTCCAGCAGTTGGA+GGG | + | chr4_3:1101747-1101766 | None:intergenic | 50.0% | |
| !! | GAATGATTGGTGGGCTTGGA+AGG | + | chr4_3:1101778-1101797 | None:intergenic | 50.0% |
| !! | TCTTTGACTTGGAGACCGGA+TGG | + | chr4_3:1101849-1101868 | None:intergenic | 50.0% |
| CAACCGGACTCGAATCTTAC+TGG | - | chr4_3:1101910-1101929 | Msa0623770:CDS | 50.0% | |
| ATCCTTCCTAACCCGACACC+CGG | - | chr4_3:1101694-1101713 | Msa0623770:CDS | 55.0% | |
| !! | TGAATCGAGTACCGGGTGTC+GGG | + | chr4_3:1101708-1101727 | None:intergenic | 55.0% |
| CGGGTGATGAATCGAGTACC+GGG | + | chr4_3:1101715-1101734 | None:intergenic | 55.0% | |
| CCGGGTGATGAATCGAGTAC+CGG | + | chr4_3:1101716-1101735 | None:intergenic | 55.0% | |
| CCGGTACTCGATTCATCACC+CGG | - | chr4_3:1101713-1101732 | Msa0623770:CDS | 55.0% | |
| AGTTGGAGGGGAATCGAACC+GGG | + | chr4_3:1101734-1101753 | None:intergenic | 55.0% | |
| CAGTTGGAGGGGAATCGAAC+CGG | + | chr4_3:1101735-1101754 | None:intergenic | 55.0% | |
| TTCGATTCCCCTCCAACTGC+TGG | - | chr4_3:1101736-1101755 | Msa0623770:CDS | 55.0% | |
| GAAGAGTCCAGCAGTTGGAG+GGG | + | chr4_3:1101746-1101765 | None:intergenic | 55.0% | |
| GTGAAGAGTCCAGCAGTTGG+AGG | + | chr4_3:1101748-1101767 | None:intergenic | 55.0% | |
| GCCGCATTTGCCGGTGAATT+TGG | + | chr4_3:1101800-1101819 | None:intergenic | 55.0% | |
| !! | TTGACTTGGAGACCGGATGG+AGG | + | chr4_3:1101846-1101865 | None:intergenic | 55.0% |
| !! | TACCGGGTGTCGGGTTAGGA+AGG | + | chr4_3:1101699-1101718 | None:intergenic | 60.0% |
| ACTTGGAGACCGGATGGAGG+CGG | + | chr4_3:1101843-1101862 | None:intergenic | 60.0% | |
| CTTACTGGGTTGTCCGCGAC+CGG | - | chr4_3:1101925-1101944 | Msa0623770:CDS | 60.0% | |
| TTACTGGGTTGTCCGCGACC+GGG | - | chr4_3:1101926-1101945 | Msa0623770:CDS | 60.0% | |
| !! | CGAGTACCGGGTGTCGGGTT+AGG | + | chr4_3:1101703-1101722 | None:intergenic | 65.0% |
| CTGTGGCGTGCCGCATTTGC+CGG | + | chr4_3:1101809-1101828 | None:intergenic | 65.0% | |
| TGCGGCACGCCACAGTGCTC+CGG | - | chr4_3:1101814-1101833 | Msa0623770:CDS | 70.0% | |
| !! | AGGCGGCAGCCGGAGCACTG+TGG | + | chr4_3:1101826-1101845 | None:intergenic | 75.0% |
| CTCCGGCTGCCGCCTCCATC+CGG | - | chr4_3:1101831-1101850 | Msa0623770:CDS | 75.0% | |
| GACCGGATGGAGGCGGCAGC+CGG | + | chr4_3:1101836-1101855 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 1101649 | 1102155 | 1101649 | ID=Msa0623770;Name=Msa0623770 |
| chr4_3 | mRNA | 1101649 | 1102155 | 1101649 | ID=Msa0623770-mRNA-1;Parent=Msa0623770;Name=Msa0623770-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|168 |
| chr4_3 | exon | 1101649 | 1102155 | 1101649 | ID=Msa0623770-mRNA-1:exon:370;Parent=Msa0623770-mRNA-1 |
| chr4_3 | CDS | 1101649 | 1102155 | 1101649 | ID=Msa0623770-mRNA-1:cds;Parent=Msa0623770-mRNA-1 |
| Gene Sequence |
| Protein sequence |
