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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1139510 | RHN71862.1 | 93.431 | 137 | 9 | 0 | 13 | 149 | 1 | 137 | 9.12e-72 | 222 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1139510 | A0A396J3D3 | 93.431 | 137 | 9 | 0 | 13 | 149 | 1 | 137 | 4.36e-72 | 222 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0444130 | Msa1139510 | 0.807863 | 4.106999e-50 | -8.615850e-47 |
| Msa1014990 | Msa1139510 | 0.817282 | 3.575377e-52 | -8.615850e-47 |
| Msa1139510 | Msa1284680 | 0.802513 | 5.414701e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1139510 | MtrunA17_Chr2g0281391 | 93.431 | 137 | 9 | 0 | 13 | 149 | 1 | 137 | 8.39e-76 | 222 |
| Msa1139510 | MtrunA17_Chr8g0362341 | 75.168 | 149 | 34 | 2 | 1 | 149 | 1 | 146 | 1.76e-70 | 208 |
| Msa1139510 | MtrunA17_Chr6g0460391 | 91.667 | 120 | 10 | 0 | 1 | 120 | 1 | 120 | 1.48e-69 | 206 |
| Msa1139510 | MtrunA17_Chr8g0356641 | 51.471 | 136 | 63 | 2 | 14 | 149 | 3 | 135 | 4.00e-42 | 136 |
| Msa1139510 | MtrunA17_Chr5g0423581 | 49.635 | 137 | 67 | 1 | 13 | 149 | 1 | 135 | 7.30e-42 | 135 |
| Msa1139510 | MtrunA17_Chr4g0027631 | 49.635 | 137 | 67 | 1 | 13 | 149 | 1 | 135 | 7.30e-42 | 135 |
| Msa1139510 | MtrunA17_Chr5g0424291 | 47.794 | 136 | 68 | 2 | 14 | 149 | 6 | 138 | 1.55e-40 | 132 |
| Msa1139510 | MtrunA17_Chr3g0101781 | 48.905 | 137 | 68 | 1 | 13 | 149 | 1 | 135 | 1.73e-40 | 132 |
| Msa1139510 | MtrunA17_Chr7g0256841 | 47.059 | 136 | 71 | 1 | 14 | 149 | 3 | 137 | 1.74e-40 | 132 |
| Msa1139510 | MtrunA17_Chr3g0081971 | 50.400 | 125 | 60 | 1 | 25 | 149 | 9 | 131 | 6.47e-40 | 130 |
| Msa1139510 | MtrunA17_Chr5g0436161 | 47.059 | 136 | 71 | 1 | 14 | 149 | 3 | 137 | 4.34e-39 | 129 |
| Msa1139510 | MtrunA17_Chr4g0032481 | 48.361 | 122 | 61 | 1 | 28 | 149 | 1 | 120 | 3.87e-37 | 123 |
| Msa1139510 | MtrunA17_Chr8g0362201 | 50.000 | 144 | 60 | 3 | 6 | 149 | 4 | 135 | 7.42e-37 | 123 |
| Msa1139510 | MtrunA17_Chr7g0235001 | 42.754 | 138 | 73 | 1 | 6 | 137 | 4 | 141 | 5.41e-35 | 119 |
| Msa1139510 | MtrunA17_Chr7g0221201 | 47.917 | 144 | 73 | 1 | 6 | 149 | 4 | 145 | 5.91e-35 | 119 |
| Msa1139510 | MtrunA17_Chr2g0303261 | 46.774 | 124 | 56 | 2 | 35 | 149 | 5 | 127 | 1.56e-29 | 104 |
| Msa1139510 | MtrunA17_Chr1g0156531 | 52.727 | 110 | 44 | 2 | 25 | 127 | 29 | 137 | 2.21e-29 | 104 |
| Msa1139510 | MtrunA17_Chr4g0012911 | 48.413 | 126 | 63 | 1 | 5 | 130 | 3 | 126 | 3.84e-29 | 103 |
| Msa1139510 | MtrunA17_Chr3g0107531 | 44.144 | 111 | 54 | 2 | 34 | 136 | 35 | 145 | 2.02e-27 | 99.8 |
| Msa1139510 | MtrunA17_Chr6g0482431 | 44.144 | 111 | 54 | 2 | 34 | 136 | 35 | 145 | 2.02e-27 | 99.8 |
| Msa1139510 | MtrunA17_Chr2g0329961 | 43.269 | 104 | 56 | 1 | 49 | 149 | 2 | 105 | 1.28e-18 | 75.9 |
| Msa1139510 | MtrunA17_Chr4g0062621 | 38.889 | 108 | 60 | 1 | 6 | 107 | 52 | 159 | 1.86e-18 | 77.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATGTAACCAATCCGAATTT+TGG | 0.245205 | 7_4:-9940815 | Msa1139510:CDS |
| AAGGTTGCAACTACTTTAAT+TGG | 0.258049 | 7_4:-9940748 | Msa1139510:CDS |
| AGTTGCAACCTTTATCAAAT+TGG | 0.267358 | 7_4:+9940759 | None:intergenic |
| GTGTAACAATAACAATCTTT+TGG | 0.280795 | 7_4:-9940552 | Msa1139510:CDS |
| TACAAGAACCAATTTGATAA+AGG | 0.312390 | 7_4:-9940767 | Msa1139510:CDS |
| GCATTTGGAATTGTAAGCTT+TGG | 0.321533 | 7_4:-9940605 | Msa1139510:CDS |
| TTGAAAATATCTATTGCATT+TGG | 0.335251 | 7_4:-9940620 | Msa1139510:CDS |
| CATTTGGAATTGTAAGCTTT+GGG | 0.340209 | 7_4:-9940604 | Msa1139510:CDS |
| AACTCATCAGCTTCGTGTTA+TGG | 0.342667 | 7_4:-9940908 | Msa1139510:CDS |
| CGTGTTATGGATCTATTCTC+AGG | 0.442786 | 7_4:-9940895 | Msa1139510:CDS |
| CTTTAATTGGTTTGATGCAA+GGG | 0.456776 | 7_4:-9940735 | Msa1139510:CDS |
| TCCACTTTGCTGCATTGAGT+TGG | 0.475534 | 7_4:+9940931 | None:intergenic |
| TATCATTGATGCAAAAGATC+AGG | 0.495338 | 7_4:-9940708 | Msa1139510:CDS |
| ACAATATTGTTAACAATACT+AGG | 0.500897 | 7_4:+9940576 | None:intergenic |
| ACTTTAATTGGTTTGATGCA+AGG | 0.501593 | 7_4:-9940736 | Msa1139510:CDS |
| ACCAACTCAATGCAGCAAAG+TGG | 0.595441 | 7_4:-9940932 | Msa1139510:CDS |
| TTTCGAATTCTGGGAAACAG+TGG | 0.608184 | 7_4:+9940955 | None:intergenic |
| TCATTCAGAGACTGTAGATG+TGG | 0.626019 | 7_4:-9940866 | Msa1139510:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAAAATTTTTTTCCAAAATT+CGG | + | chr7_4:9940691-9940710 | None:intergenic | 15.0% |
| !!! | GAATTTTGGAAAAAAATTTT+GGG | - | chr7_4:9940690-9940709 | Msa1139510:CDS | 15.0% |
| !!! | AATTTTGGAAAAAAATTTTG+GGG | - | chr7_4:9940691-9940710 | Msa1139510:CDS | 15.0% |
| !!! | CGAATTTTGGAAAAAAATTT+TGG | - | chr7_4:9940689-9940708 | Msa1139510:CDS | 20.0% |
| !! | TTGAAAATATCTATTGCATT+TGG | - | chr7_4:9940871-9940890 | Msa1139510:CDS | 20.0% |
| !! | ACAATATTGTTAACAATACT+AGG | + | chr7_4:9940918-9940937 | None:intergenic | 20.0% |
| !!! | TGTAACAATAACAATCTTTT+GGG | - | chr7_4:9940940-9940959 | Msa1139510:CDS | 20.0% |
| !!! | TTTTTTTCCAAAATTCGGAT+TGG | + | chr7_4:9940686-9940705 | None:intergenic | 25.0% |
| ! | TACAAGAACCAATTTGATAA+AGG | - | chr7_4:9940724-9940743 | Msa1139510:CDS | 25.0% |
| !! | GTGTAACAATAACAATCTTT+TGG | - | chr7_4:9940939-9940958 | Msa1139510:CDS | 25.0% |
| AGTTGCAACCTTTATCAAAT+TGG | + | chr7_4:9940735-9940754 | None:intergenic | 30.0% | |
| AAGGTTGCAACTACTTTAAT+TGG | - | chr7_4:9940743-9940762 | Msa1139510:CDS | 30.0% | |
| !! | ACTTTAATTGGTTTGATGCA+AGG | - | chr7_4:9940755-9940774 | Msa1139510:CDS | 30.0% |
| !! | CTTTAATTGGTTTGATGCAA+GGG | - | chr7_4:9940756-9940775 | Msa1139510:CDS | 30.0% |
| TATCATTGATGCAAAAGATC+AGG | - | chr7_4:9940783-9940802 | Msa1139510:CDS | 30.0% | |
| CATTAGCTAGATCACAAAAA+TGG | - | chr7_4:9940848-9940867 | Msa1139510:CDS | 30.0% | |
| ! | CATTTGGAATTGTAAGCTTT+GGG | - | chr7_4:9940887-9940906 | Msa1139510:CDS | 30.0% |
| !!! | TGAGTTGGTTTTCGAATTCT+GGG | + | chr7_4:9940548-9940567 | None:intergenic | 35.0% |
| !!! | TTGAGTTGGTTTTCGAATTC+TGG | + | chr7_4:9940549-9940568 | None:intergenic | 35.0% |
| ! | GATGTAACCAATCCGAATTT+TGG | - | chr7_4:9940676-9940695 | Msa1139510:CDS | 35.0% |
| ! | GCATTTGGAATTGTAAGCTT+TGG | - | chr7_4:9940886-9940905 | Msa1139510:CDS | 35.0% |
| ! | TTTCGAATTCTGGGAAACAG+TGG | + | chr7_4:9940539-9940558 | None:intergenic | 40.0% |
| AACTCATCAGCTTCGTGTTA+TGG | - | chr7_4:9940583-9940602 | Msa1139510:CDS | 40.0% | |
| CGTGTTATGGATCTATTCTC+AGG | - | chr7_4:9940596-9940615 | Msa1139510:CDS | 40.0% | |
| TCATTCAGAGACTGTAGATG+TGG | - | chr7_4:9940625-9940644 | Msa1139510:CDS | 40.0% | |
| ACCAACTCAATGCAGCAAAG+TGG | - | chr7_4:9940559-9940578 | Msa1139510:CDS | 45.0% | |
| TCCACTTTGCTGCATTGAGT+TGG | + | chr7_4:9940563-9940582 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 9940532 | 9940981 | 9940532 | ID=Msa1139510;Name=Msa1139510 |
| chr7_4 | mRNA | 9940532 | 9940981 | 9940532 | ID=Msa1139510-mRNA-1;Parent=Msa1139510;Name=Msa1139510-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|-1|0|1|-1|1|1|0|149 |
| chr7_4 | exon | 9940532 | 9940981 | 9940532 | ID=Msa1139510-mRNA-1:exon:2493;Parent=Msa1139510-mRNA-1 |
| chr7_4 | CDS | 9940532 | 9940981 | 9940532 | ID=Msa1139510-mRNA-1:cds;Parent=Msa1139510-mRNA-1 |
| Gene Sequence |
| Protein sequence |
