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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1144880 | RHN56170.1 | 67.857 | 56 | 16 | 1 | 8 | 61 | 1 | 56 | 1.71e-18 | 81.3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1144880 | A0A396HS56 | 67.857 | 56 | 16 | 1 | 8 | 61 | 1 | 56 | 8.19e-19 | 81.3 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017390 | Msa1144880 | 0.805436 | 1.336251e-49 | -8.615850e-47 |
| Msa0024710 | Msa1144880 | 0.800309 | 1.531310e-48 | -8.615850e-47 |
| Msa0104700 | Msa1144880 | 0.802141 | 6.458289e-49 | -8.615850e-47 |
| Msa0619420 | Msa1144880 | 0.809148 | 2.183111e-50 | -8.615850e-47 |
| Msa0628420 | Msa1144880 | 0.816873 | 4.417101e-52 | -8.615850e-47 |
| Msa0647430 | Msa1144880 | 0.805692 | 1.180956e-49 | -8.615850e-47 |
| Msa0690310 | Msa1144880 | 0.804077 | 2.567798e-49 | -8.615850e-47 |
| Msa0780930 | Msa1144880 | 0.803339 | 3.654133e-49 | -8.615850e-47 |
| Msa0805450 | Msa1144880 | 0.803634 | 3.174537e-49 | -8.615850e-47 |
| Msa0138360 | Msa1144880 | 0.818524 | 1.873663e-52 | -8.615850e-47 |
| Msa0144360 | Msa1144880 | 0.800738 | 1.251634e-48 | -8.615850e-47 |
| Msa0147980 | Msa1144880 | 0.809476 | 1.856769e-50 | -8.615850e-47 |
| Msa0207350 | Msa1144880 | 0.806745 | 7.086334e-50 | -8.615850e-47 |
| Msa0214550 | Msa1144880 | 0.800867 | 1.178119e-48 | -8.615850e-47 |
| Msa0382370 | Msa1144880 | 0.814153 | 1.780787e-51 | -8.615850e-47 |
| Msa0432160 | Msa1144880 | 0.821026 | 5.023578e-53 | -8.615850e-47 |
| Msa0476680 | Msa1144880 | 0.822951 | 1.799505e-53 | -8.615850e-47 |
| Msa0479200 | Msa1144880 | 0.821714 | 3.486362e-53 | -8.615850e-47 |
| Msa1034500 | Msa1144880 | 0.812894 | 3.368774e-51 | -8.615850e-47 |
| Msa1039390 | Msa1144880 | 0.982788 | 5.286230e-156 | -8.615850e-47 |
| Msa1069820 | Msa1144880 | 0.800658 | 1.299818e-48 | -8.615850e-47 |
| Msa1089450 | Msa1144880 | 0.828073 | 1.100961e-54 | -8.615850e-47 |
| Msa0241830 | Msa1144880 | 0.807540 | 4.809487e-50 | -8.615850e-47 |
| Msa0259210 | Msa1144880 | 0.804510 | 2.086354e-49 | -8.615850e-47 |
| Msa0259220 | Msa1144880 | 0.810876 | 9.269332e-51 | -8.615850e-47 |
| Msa0279850 | Msa1144880 | 0.825622 | 4.238931e-54 | -8.615850e-47 |
| Msa0317970 | Msa1144880 | 0.828941 | 6.794421e-55 | -8.615850e-47 |
| Msa0320590 | Msa1144880 | 0.819986 | 8.707414e-53 | -8.615850e-47 |
| Msa0322900 | Msa1144880 | 0.822480 | 2.316466e-53 | -8.615850e-47 |
| Msa0336310 | Msa1144880 | 0.805967 | 1.033698e-49 | -8.615850e-47 |
| Msa1127590 | Msa1144880 | 0.805008 | 1.642315e-49 | -8.615850e-47 |
| Msa1144880 | Msa1189650 | 0.801581 | 8.416584e-49 | -8.615850e-47 |
| Msa1144880 | Msa1297170 | 0.808654 | 2.785570e-50 | -8.615850e-47 |
| Msa1144880 | Msa1303280 | 0.809022 | 2.323543e-50 | -8.615850e-47 |
| Msa1144880 | Msa1307600 | 0.800495 | 1.402965e-48 | -8.615850e-47 |
| Msa1144880 | Msa1369690 | 0.824555 | 7.577154e-54 | -8.615850e-47 |
| Msa1144880 | Msa1371520 | 0.807218 | 5.627299e-50 | -8.615850e-47 |
| Msa1144880 | Msa1411950 | 0.817055 | 4.020555e-52 | -8.615850e-47 |
| Msa1144880 | Msa1418240 | 0.829281 | 5.619549e-55 | -8.615850e-47 |
| Msa1144880 | Msa1452680 | 0.800389 | 1.474857e-48 | -8.615850e-47 |
| Msa0485240 | Msa1144880 | 0.826233 | 3.034862e-54 | -8.615850e-47 |
| Msa0511770 | Msa1144880 | 0.801741 | 7.805190e-49 | -8.615850e-47 |
| Msa0518030 | Msa1144880 | 0.817054 | 4.023298e-52 | -8.615850e-47 |
| Msa0521010 | Msa1144880 | 0.815694 | 8.109229e-52 | -8.615850e-47 |
| Msa0527190 | Msa1144880 | 0.804403 | 2.196699e-49 | -8.615850e-47 |
| Msa0531250 | Msa1144880 | 0.819121 | 1.371519e-52 | -8.615850e-47 |
| Msa0588090 | Msa1144880 | 0.804775 | 1.836879e-49 | -8.615850e-47 |
| Msa0588220 | Msa1144880 | 0.806878 | 6.640811e-50 | -8.615850e-47 |
| Msa0884290 | Msa1144880 | 0.801396 | 9.184585e-49 | -8.615850e-47 |
| Msa0903780 | Msa1144880 | 0.804121 | 2.515334e-49 | -8.615850e-47 |
| Msa0928490 | Msa1144880 | 0.995662 | 1.462145e-218 | -8.615850e-47 |
| Msa0937020 | Msa1144880 | 0.813576 | 2.387250e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1144880 | MtrunA17_Chr5g0426561 | 67.857 | 56 | 16 | 1 | 8 | 61 | 1 | 56 | 1.58e-22 | 81.3 |
| Msa1144880 | MtrunA17_Chr5g0420451 | 84.783 | 46 | 7 | 0 | 8 | 53 | 2 | 47 | 3.74e-22 | 84.7 |
| Msa1144880 | MtrunA17_Chr1g0172341 | 77.083 | 48 | 11 | 0 | 6 | 53 | 1 | 48 | 6.60e-22 | 81.3 |
| Msa1144880 | MtrunA17_Chr8g0372151 | 74.000 | 50 | 13 | 0 | 5 | 54 | 3 | 52 | 1.32e-20 | 80.5 |
| Msa1144880 | MtrunA17_Chr5g0393801 | 76.087 | 46 | 11 | 0 | 8 | 53 | 1 | 46 | 1.36e-20 | 77.8 |
| Msa1144880 | MtrunA17_Chr6g0453011 | 63.793 | 58 | 21 | 0 | 6 | 63 | 31 | 88 | 1.71e-20 | 78.2 |
| Msa1144880 | MtrunA17_Chr2g0304851 | 70.833 | 48 | 14 | 0 | 6 | 53 | 3 | 50 | 3.67e-19 | 79.0 |
| Msa1144880 | MtrunA17_Chr6g0481111 | 71.739 | 46 | 13 | 0 | 8 | 53 | 1 | 46 | 1.16e-18 | 73.9 |
| Msa1144880 | MtrunA17_Chr1g0167871 | 77.273 | 44 | 10 | 0 | 10 | 53 | 208 | 251 | 2.77e-18 | 76.6 |
| Msa1144880 | MtrunA17_Chr7g0223511 | 60.784 | 51 | 20 | 0 | 3 | 53 | 19 | 69 | 1.05e-17 | 73.6 |
| Msa1144880 | MtrunA17_Chr5g0393531 | 73.913 | 46 | 12 | 0 | 8 | 53 | 1 | 46 | 1.11e-17 | 73.2 |
| Msa1144880 | MtrunA17_Chr7g0231491 | 75.556 | 45 | 11 | 0 | 9 | 53 | 36 | 80 | 1.25e-17 | 73.6 |
| Msa1144880 | MtrunA17_Chr8g0347361 | 62.745 | 51 | 19 | 0 | 3 | 53 | 6 | 56 | 2.26e-17 | 72.0 |
| Msa1144880 | MtrunA17_Chr6g0464321 | 72.093 | 43 | 12 | 0 | 8 | 50 | 1 | 43 | 8.38e-17 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTAACCCAAAGAAGGATTTC+TGG | 0.203063 | 7_4:-21373350 | Msa1144880:CDS |
| AGCTTCCAGAAATCCTTCTT+TGG | 0.249300 | 7_4:+21373345 | None:intergenic |
| AACAATTCTTCATGGGAAAC+AGG | 0.366959 | 7_4:-21373950 | None:intergenic |
| GCAAGACCAGTTCAATTTAT+CGG | 0.369808 | 7_4:-21373378 | Msa1144880:CDS |
| AGACAAATGGGTTGTTGTTA+AGG | 0.378712 | 7_4:-21373307 | Msa1144880:CDS |
| GCTTCCAGAAATCCTTCTTT+GGG | 0.413903 | 7_4:+21373346 | None:intergenic |
| AATTGAACTGGTCTTGCCAT+TGG | 0.425041 | 7_4:+21373384 | None:intergenic |
| AAATGGGTTGTTGTTAAGGA+TGG | 0.435334 | 7_4:-21373303 | Msa1144880:CDS |
| ATTGAACTGGTCTTGCCATT+GGG | 0.450658 | 7_4:+21373385 | None:intergenic |
| CGGTGATATTAACCCAAAGA+AGG | 0.479855 | 7_4:-21373358 | Msa1144880:CDS |
| TAAGGATGGGAGGGAGCACT+TGG | 0.492942 | 7_4:-21373289 | Msa1144880:CDS |
| CTGTGAGGGTGAAAGACAAA+TGG | 0.494992 | 7_4:-21373320 | Msa1144880:CDS |
| ATATCACCGATAAATTGAAC+TGG | 0.497635 | 7_4:+21373372 | None:intergenic |
| GATGGTTATCGTTGATGCCA+AGG | 0.528606 | 7_4:-21373265 | Msa1144880:CDS |
| AATGGGTTGTTGTTAAGGAT+GGG | 0.540007 | 7_4:-21373302 | Msa1144880:CDS |
| TGGGAGGGAGCACTTGGAGA+TGG | 0.552726 | 7_4:-21373283 | Msa1144880:CDS |
| TAAAGATACACATAAAACCT+TGG | 0.574092 | 7_4:+21373248 | None:intergenic |
| GGTTGTTGTTAAGGATGGGA+GGG | 0.576229 | 7_4:-21373298 | Msa1144880:CDS |
| GGGTTGTTGTTAAGGATGGG+AGG | 0.583709 | 7_4:-21373299 | Msa1144880:CDS |
| TGTGAGGGTGAAAGACAAAT+GGG | 0.607479 | 7_4:-21373319 | Msa1144880:CDS |
| ATTTCTGGAAGCTGACTGTG+AGG | 0.675527 | 7_4:-21373335 | Msa1144880:CDS |
| TGTTCTCAGAGCAATCCCAA+TGG | 0.678231 | 7_4:-21373400 | Msa1144880:intron |
| TTTCTGGAAGCTGACTGTGA+GGG | 0.678677 | 7_4:-21373334 | Msa1144880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATATTTAAATATTAGTGA+TGG | + | chr7_4:21373332-21373351 | None:intergenic | 10.0% |
| !! | AAAAGATTTATAATGTTATA+GGG | + | chr7_4:21373363-21373382 | None:intergenic | 10.0% |
| !! | TAAAAGATTTATAATGTTAT+AGG | + | chr7_4:21373364-21373383 | None:intergenic | 10.0% |
| !!! | AATTTTTATCTTACTTTAAT+TGG | - | chr7_4:21373393-21373412 | Msa1144880:CDS | 10.0% |
| !! | AAAGATTTATAATGTTATAG+GGG | + | chr7_4:21373362-21373381 | None:intergenic | 15.0% |
| !! | AAGTAAGATAAAAATTGTTA+TGG | + | chr7_4:21373389-21373408 | None:intergenic | 15.0% |
| !!! | CTTTGCTACATAATTTTTAT+TGG | - | chr7_4:21373680-21373699 | Msa1144880:intron | 20.0% |
| !! | AAGTGTTATAAAAATCTTGT+AGG | + | chr7_4:21373725-21373744 | None:intergenic | 20.0% |
| ! | TGCAAAAGCAATAAGTTATA+TGG | + | chr7_4:21373485-21373504 | None:intergenic | 25.0% |
| ! | ATCTAGAAACAAAATTAGGA+TGG | + | chr7_4:21373608-21373627 | None:intergenic | 25.0% |
| ! | AAATTATGTAGCAAAGTGTA+AGG | + | chr7_4:21373676-21373695 | None:intergenic | 25.0% |
| ! | TAAAGATACACATAAAACCT+TGG | + | chr7_4:21373912-21373931 | None:intergenic | 25.0% |
| TATATTCACACTCATCTACA+TGG | - | chr7_4:21373288-21373307 | Msa1144880:CDS | 30.0% | |
| ATATTCACACTCATCTACAT+GGG | - | chr7_4:21373289-21373308 | Msa1144880:CDS | 30.0% | |
| !! | GGTATGGTACTATTTTAAGA+GGG | + | chr7_4:21373451-21373470 | None:intergenic | 30.0% |
| AGTTATATGGTGTACAATGT+GGG | + | chr7_4:21373472-21373491 | None:intergenic | 30.0% | |
| AAGTTATATGGTGTACAATG+TGG | + | chr7_4:21373473-21373492 | None:intergenic | 30.0% | |
| GCAGATCTAGAAACAAAATT+AGG | + | chr7_4:21373612-21373631 | None:intergenic | 30.0% | |
| AAGTGTAAGGACTTAAAAGA+AGG | + | chr7_4:21373663-21373682 | None:intergenic | 30.0% | |
| ATATCACCGATAAATTGAAC+TGG | + | chr7_4:21373788-21373807 | None:intergenic | 30.0% | |
| !! | GGGTATGGTACTATTTTAAG+AGG | + | chr7_4:21373452-21373471 | None:intergenic | 35.0% |
| !! | CCTTTTAGCTATTGTACGAA+GGG | + | chr7_4:21373535-21373554 | None:intergenic | 35.0% |
| !! | TCCTTTTAGCTATTGTACGA+AGG | + | chr7_4:21373536-21373555 | None:intergenic | 35.0% |
| ATGAGAGAAGTGGTTAGAAA+AGG | + | chr7_4:21373568-21373587 | None:intergenic | 35.0% | |
| GCAAGACCAGTTCAATTTAT+CGG | - | chr7_4:21373779-21373798 | Msa1144880:intron | 35.0% | |
| TTAACCCAAAGAAGGATTTC+TGG | - | chr7_4:21373807-21373826 | Msa1144880:intron | 35.0% | |
| !! | AGACAAATGGGTTGTTGTTA+AGG | - | chr7_4:21373850-21373869 | Msa1144880:intron | 35.0% |
| !! | AAATGGGTTGTTGTTAAGGA+TGG | - | chr7_4:21373854-21373873 | Msa1144880:intron | 35.0% |
| !! | AATGGGTTGTTGTTAAGGAT+GGG | - | chr7_4:21373855-21373874 | Msa1144880:intron | 35.0% |
| CATGCGCAATAACAGTGTTA+TGG | - | chr7_4:21373235-21373254 | Msa1144880:CDS | 40.0% | |
| GATAGTGTCAGAGAGAATGT+TGG | + | chr7_4:21373429-21373448 | None:intergenic | 40.0% | |
| TATGGTGTACAATGTGGGTA+TGG | + | chr7_4:21373467-21373486 | None:intergenic | 40.0% | |
| ! | AGCTATTGTACGAAGGGTAT+GGG | + | chr7_4:21373529-21373548 | None:intergenic | 40.0% |
| TAGCTATTGTACGAAGGGTA+TGG | + | chr7_4:21373530-21373549 | None:intergenic | 40.0% | |
| CCCTTCGTACAATAGCTAAA+AGG | - | chr7_4:21373532-21373551 | Msa1144880:intron | 40.0% | |
| TCTCATCCATTGAGCTCTTT+AGG | - | chr7_4:21373582-21373601 | Msa1144880:intron | 40.0% | |
| !! | ATTGAACTGGTCTTGCCATT+GGG | + | chr7_4:21373775-21373794 | None:intergenic | 40.0% |
| !! | AATTGAACTGGTCTTGCCAT+TGG | + | chr7_4:21373776-21373795 | None:intergenic | 40.0% |
| CGGTGATATTAACCCAAAGA+AGG | - | chr7_4:21373799-21373818 | Msa1144880:intron | 40.0% | |
| GCTTCCAGAAATCCTTCTTT+GGG | + | chr7_4:21373814-21373833 | None:intergenic | 40.0% | |
| AGCTTCCAGAAATCCTTCTT+TGG | + | chr7_4:21373815-21373834 | None:intergenic | 40.0% | |
| TGTGAGGGTGAAAGACAAAT+GGG | - | chr7_4:21373838-21373857 | Msa1144880:intron | 40.0% | |
| AGCTCAATGGATGAGAGAAG+TGG | + | chr7_4:21373578-21373597 | None:intergenic | 45.0% | |
| TGTTCTCAGAGCAATCCCAA+TGG | - | chr7_4:21373757-21373776 | Msa1144880:intron | 45.0% | |
| ! | ATTTCTGGAAGCTGACTGTG+AGG | - | chr7_4:21373822-21373841 | Msa1144880:intron | 45.0% |
| ! | TTTCTGGAAGCTGACTGTGA+GGG | - | chr7_4:21373823-21373842 | Msa1144880:intron | 45.0% |
| CTGTGAGGGTGAAAGACAAA+TGG | - | chr7_4:21373837-21373856 | Msa1144880:intron | 45.0% | |
| ! | GGTTGTTGTTAAGGATGGGA+GGG | - | chr7_4:21373859-21373878 | Msa1144880:intron | 45.0% |
| GATGGTTATCGTTGATGCCA+AGG | - | chr7_4:21373892-21373911 | Msa1144880:intron | 45.0% | |
| ! | GAAGGGTATGGGCAATGCAA+TGG | + | chr7_4:21373518-21373537 | None:intergenic | 50.0% |
| GGATGGCCTAAAGAGCTCAA+TGG | + | chr7_4:21373591-21373610 | None:intergenic | 50.0% | |
| ! | GGGTTGTTGTTAAGGATGGG+AGG | - | chr7_4:21373858-21373877 | Msa1144880:intron | 50.0% |
| !! | TAAGGATGGGAGGGAGCACT+TGG | - | chr7_4:21373868-21373887 | Msa1144880:intron | 55.0% |
| !! | TGGGAGGGAGCACTTGGAGA+TGG | - | chr7_4:21373874-21373893 | Msa1144880:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 21373218 | 21373961 | 21373218 | ID=Msa1144880;Name=Msa1144880 |
| chr7_4 | mRNA | 21373218 | 21373961 | 21373218 | ID=Msa1144880-mRNA-1;Parent=Msa1144880;Name=Msa1144880-mRNA-1;_AED=0.39;_eAED=0.41;_QI=0|0|0|1|0|0.5|2|0|68 |
| chr7_4 | exon | 21373951 | 21373961 | 21373951 | ID=Msa1144880-mRNA-1:exon:5131;Parent=Msa1144880-mRNA-1 |
| chr7_4 | exon | 21373218 | 21373413 | 21373218 | ID=Msa1144880-mRNA-1:exon:5130;Parent=Msa1144880-mRNA-1 |
| chr7_4 | CDS | 21373951 | 21373961 | 21373951 | ID=Msa1144880-mRNA-1:cds;Parent=Msa1144880-mRNA-1 |
| chr7_4 | CDS | 21373218 | 21373413 | 21373218 | ID=Msa1144880-mRNA-1:cds;Parent=Msa1144880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
