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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1176580 | KEH18628.1 | 97.414 | 116 | 2 | 1 | 1 | 115 | 1 | 116 | 3.79e-74 | 228 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1176580 | A0A072TP49 | 97.414 | 116 | 2 | 1 | 1 | 115 | 1 | 116 | 1.81e-74 | 228 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0669840 | Msa1176580 | 0.810285 | 1.243442e-50 | -8.615850e-47 |
| Msa0124130 | Msa1176580 | 0.838083 | 3.549401e-57 | -8.615850e-47 |
| Msa0373960 | Msa1176580 | 0.801734 | 7.827913e-49 | -8.615850e-47 |
| Msa0406000 | Msa1176580 | 0.818582 | 1.818100e-52 | -8.615850e-47 |
| Msa0451400 | Msa1176580 | 0.829032 | 6.458474e-55 | -8.615850e-47 |
| Msa0469260 | Msa1176580 | 0.802314 | 5.948941e-49 | -8.615850e-47 |
| Msa0999350 | Msa1176580 | 0.829919 | 3.930799e-55 | -8.615850e-47 |
| Msa0999390 | Msa1176580 | 0.804070 | 2.577013e-49 | -8.615850e-47 |
| Msa0999400 | Msa1176580 | 0.825453 | 4.649510e-54 | -8.615850e-47 |
| Msa0359250 | Msa1176580 | 0.803769 | 2.975573e-49 | -8.615850e-47 |
| Msa1176580 | Msa1228190 | 0.811489 | 6.822971e-51 | -8.615850e-47 |
| Msa1176580 | Msa1271260 | 0.802072 | 6.673946e-49 | -8.615850e-47 |
| Msa1176580 | Msa1316540 | 0.850570 | 1.558661e-60 | -8.615850e-47 |
| Msa1176580 | Msa1388770 | 0.988102 | 1.016862e-172 | -8.615850e-47 |
| Msa1176580 | Msa1406780 | 0.807013 | 6.219264e-50 | -8.615850e-47 |
| Msa1176580 | Msa1431850 | 0.816648 | 4.961616e-52 | -8.615850e-47 |
| Msa0492190 | Msa1176580 | 0.803142 | 4.014946e-49 | -8.615850e-47 |
| Msa0965310 | Msa1176580 | 0.806459 | 8.142782e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1176580 | MtrunA17_Chr8g0346691 | 97.414 | 116 | 2 | 1 | 1 | 115 | 1 | 116 | 7.09e-78 | 228 |
| Msa1176580 | MtrunA17_Chr7g0275851 | 44.444 | 135 | 50 | 4 | 4 | 116 | 79 | 210 | 1.62e-25 | 97.4 |
| Msa1176580 | MtrunA17_Chr3g0126981 | 63.158 | 57 | 17 | 3 | 42 | 95 | 15 | 70 | 9.35e-13 | 61.2 |
| Msa1176580 | MtrunA17_Chr1g0146921 | 39.604 | 101 | 39 | 3 | 35 | 113 | 44 | 144 | 3.45e-12 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1176580 | AT5G53030.1 | 48.864 | 88 | 39 | 3 | 14 | 95 | 18 | 105 | 9.11e-16 | 71.2 |
| Msa1176580 | AT5G53030.2 | 48.864 | 88 | 39 | 3 | 14 | 95 | 18 | 105 | 1.20e-15 | 70.5 |
| Msa1176580 | AT4G27810.1 | 46.667 | 105 | 45 | 4 | 1 | 95 | 3 | 106 | 3.11e-15 | 68.9 |
| Msa1176580 | AT4G00950.1 | 38.655 | 119 | 45 | 5 | 1 | 95 | 1 | 115 | 3.54e-11 | 58.9 |
Find 29 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCATCACCTACAACAGTTT+TGG | 0.286053 | 8_1:-8667701 | Msa1176580:CDS |
| CTCATGAATAATGGAAGTTT+TGG | 0.308636 | 8_1:+8667916 | None:intergenic |
| TTTGGATGGACCCTACAAAA+AGG | 0.345193 | 8_1:-8667683 | Msa1176580:CDS |
| GAAGCTTGTGAGGAAGAAAA+TGG | 0.395638 | 8_1:-8667949 | Msa1176580:CDS |
| AAGGATTGTTGTGATTCCTT+TGG | 0.404092 | 8_1:-8667664 | Msa1176580:CDS |
| GGTGGAGGGCTCATGAATAA+TGG | 0.418821 | 8_1:+8667907 | None:intergenic |
| TCCAACACTAGTCAAGTGTT+TGG | 0.431206 | 8_1:-8667758 | Msa1176580:CDS |
| ATCACAGCGTCAATACCATT+TGG | 0.439112 | 8_1:-8667838 | Msa1176580:CDS |
| ACAAGATCAGTACATGGTCT+TGG | 0.444506 | 8_1:+8667793 | None:intergenic |
| TCCAAACACTTGACTAGTGT+TGG | 0.454319 | 8_1:+8667757 | None:intergenic |
| CTCTCTGGTGAATGCATTGG+TGG | 0.455474 | 8_1:+8667889 | None:intergenic |
| AGCGTCAATACCATTTGGTT+GGG | 0.459092 | 8_1:-8667833 | Msa1176580:CDS |
| GGTCCATCCAAAACTGTTGT+AGG | 0.469058 | 8_1:+8667694 | None:intergenic |
| TTTGTATCAATGAACAACCT+TGG | 0.486786 | 8_1:+8667727 | None:intergenic |
| CAGCGTCAATACCATTTGGT+TGG | 0.495412 | 8_1:-8667834 | Msa1176580:CDS |
| TTTGGTTGGGAAGAAGAGCC+AGG | 0.497915 | 8_1:-8667820 | Msa1176580:CDS |
| GGCTCTTCTTCCCAACCAAA+TGG | 0.498578 | 8_1:+8667823 | None:intergenic |
| TCTGGTGAATGCATTGGTGG+AGG | 0.503654 | 8_1:+8667892 | None:intergenic |
| TCCAAAACTGTTGTAGGTGA+TGG | 0.506928 | 8_1:+8667700 | None:intergenic |
| GATCTCTCTGGTGAATGCAT+TGG | 0.516177 | 8_1:+8667886 | None:intergenic |
| CTGGTGAATGCATTGGTGGA+GGG | 0.527666 | 8_1:+8667893 | None:intergenic |
| TTTCCCACTTTCAAAACCAA+AGG | 0.551891 | 8_1:+8667648 | None:intergenic |
| ATGCATTCACCAGAGAGATC+AGG | 0.552291 | 8_1:-8667883 | Msa1176580:CDS |
| AGTGAAAATGGAAGCTTGTG+AGG | 0.556127 | 8_1:-8667959 | None:intergenic |
| GTATCAATGAACAACCTTGG+AGG | 0.583736 | 8_1:+8667730 | None:intergenic |
| AGTGTTTGGAACTTCCTCCA+AGG | 0.603766 | 8_1:-8667744 | Msa1176580:CDS |
| AATGTTACAAGATCAGTACA+TGG | 0.674281 | 8_1:+8667787 | None:intergenic |
| GACGCTGTGATATGAAGCGG+TGG | 0.706625 | 8_1:+8667850 | None:intergenic |
| ATTGACGCTGTGATATGAAG+CGG | 0.722076 | 8_1:+8667847 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CTCATGAATAATGGAAGTTT+TGG | + | chr8_1:8667642-8667661 | None:intergenic | 30.0% |
| AATGTTACAAGATCAGTACA+TGG | + | chr8_1:8667771-8667790 | None:intergenic | 30.0% | |
| TTTGTATCAATGAACAACCT+TGG | + | chr8_1:8667831-8667850 | None:intergenic | 30.0% | |
| ! | TCACAACAATCCTTTTTGTA+GGG | + | chr8_1:8667885-8667904 | None:intergenic | 30.0% |
| ! | ATCACAACAATCCTTTTTGT+AGG | + | chr8_1:8667886-8667905 | None:intergenic | 30.0% |
| !!! | ATTCCTTTGGTTTTGAAAGT+GGG | - | chr8_1:8667904-8667923 | Msa1176580:CDS | 30.0% |
| AAGGATTGTTGTGATTCCTT+TGG | - | chr8_1:8667891-8667910 | Msa1176580:CDS | 35.0% | |
| !!! | GATTCCTTTGGTTTTGAAAG+TGG | - | chr8_1:8667903-8667922 | Msa1176580:CDS | 35.0% |
| TTTCCCACTTTCAAAACCAA+AGG | + | chr8_1:8667910-8667929 | None:intergenic | 35.0% | |
| !!! | GTTTTGAAAGTGGGAAACTT+GGG | - | chr8_1:8667913-8667932 | Msa1176580:CDS | 35.0% |
| GAAGCTTGTGAGGAAGAAAA+TGG | - | chr8_1:8667606-8667625 | Msa1176580:CDS | 40.0% | |
| ! | GTTTTTGTTCCTGATCTCTC+TGG | + | chr8_1:8667684-8667703 | None:intergenic | 40.0% |
| ATTGACGCTGTGATATGAAG+CGG | + | chr8_1:8667711-8667730 | None:intergenic | 40.0% | |
| ATCACAGCGTCAATACCATT+TGG | - | chr8_1:8667717-8667736 | Msa1176580:CDS | 40.0% | |
| AGCGTCAATACCATTTGGTT+GGG | - | chr8_1:8667722-8667741 | Msa1176580:CDS | 40.0% | |
| ACAAGATCAGTACATGGTCT+TGG | + | chr8_1:8667765-8667784 | None:intergenic | 40.0% | |
| TCCAACACTAGTCAAGTGTT+TGG | - | chr8_1:8667797-8667816 | Msa1176580:CDS | 40.0% | |
| TCCAAACACTTGACTAGTGT+TGG | + | chr8_1:8667801-8667820 | None:intergenic | 40.0% | |
| GTATCAATGAACAACCTTGG+AGG | + | chr8_1:8667828-8667847 | None:intergenic | 40.0% | |
| ! | TCCATCACCTACAACAGTTT+TGG | - | chr8_1:8667854-8667873 | Msa1176580:CDS | 40.0% |
| TCCAAAACTGTTGTAGGTGA+TGG | + | chr8_1:8667858-8667877 | None:intergenic | 40.0% | |
| !!! | TCACCTACAACAGTTTTGGA+TGG | - | chr8_1:8667858-8667877 | Msa1176580:CDS | 40.0% |
| TTTGGATGGACCCTACAAAA+AGG | - | chr8_1:8667872-8667891 | Msa1176580:CDS | 40.0% | |
| !!! | GGTTTTGAAAGTGGGAAACT+TGG | - | chr8_1:8667912-8667931 | Msa1176580:CDS | 40.0% |
| GATCTCTCTGGTGAATGCAT+TGG | + | chr8_1:8667672-8667691 | None:intergenic | 45.0% | |
| ATGCATTCACCAGAGAGATC+AGG | - | chr8_1:8667672-8667691 | Msa1176580:CDS | 45.0% | |
| CAGCGTCAATACCATTTGGT+TGG | - | chr8_1:8667721-8667740 | Msa1176580:CDS | 45.0% | |
| !! | GTACATGGTCTTGGTTTTCC+TGG | + | chr8_1:8667756-8667775 | None:intergenic | 45.0% |
| ! | AGTGTTTGGAACTTCCTCCA+AGG | - | chr8_1:8667811-8667830 | Msa1176580:CDS | 45.0% |
| GGTCCATCCAAAACTGTTGT+AGG | + | chr8_1:8667864-8667883 | None:intergenic | 45.0% | |
| GGTGGAGGGCTCATGAATAA+TGG | + | chr8_1:8667651-8667670 | None:intergenic | 50.0% | |
| ! | CTGGTGAATGCATTGGTGGA+GGG | + | chr8_1:8667665-8667684 | None:intergenic | 50.0% |
| ! | TCTGGTGAATGCATTGGTGG+AGG | + | chr8_1:8667666-8667685 | None:intergenic | 50.0% |
| CTCTCTGGTGAATGCATTGG+TGG | + | chr8_1:8667669-8667688 | None:intergenic | 50.0% | |
| GGCTCTTCTTCCCAACCAAA+TGG | + | chr8_1:8667735-8667754 | None:intergenic | 50.0% | |
| TTTGGTTGGGAAGAAGAGCC+AGG | - | chr8_1:8667735-8667754 | Msa1176580:CDS | 50.0% | |
| GACGCTGTGATATGAAGCGG+TGG | + | chr8_1:8667708-8667727 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 8667603 | 8667974 | 8667603 | ID=Msa1176580;Name=Msa1176580 |
| chr8_1 | mRNA | 8667603 | 8667974 | 8667603 | ID=Msa1176580-mRNA-1;Parent=Msa1176580;Name=Msa1176580-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|-1|0|1|-1|1|1|0|123 |
| chr8_1 | exon | 8667603 | 8667974 | 8667603 | ID=Msa1176580-mRNA-1:exon:2947;Parent=Msa1176580-mRNA-1 |
| chr8_1 | CDS | 8667603 | 8667974 | 8667603 | ID=Msa1176580-mRNA-1:cds;Parent=Msa1176580-mRNA-1 |
| Gene Sequence |
| Protein sequence |
