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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0928490 | 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017390 | Msa0928490 | 0.807604 | 4.660012e-50 | -8.615850e-47 |
| Msa0024710 | Msa0928490 | 0.806931 | 6.471216e-50 | -8.615850e-47 |
| Msa0098470 | Msa0928490 | 0.804201 | 2.419908e-49 | -8.615850e-47 |
| Msa0104700 | Msa0928490 | 0.810189 | 1.304612e-50 | -8.615850e-47 |
| Msa0619420 | Msa0928490 | 0.812298 | 4.549762e-51 | -8.615850e-47 |
| Msa0628420 | Msa0928490 | 0.814465 | 1.519581e-51 | -8.615850e-47 |
| Msa0638350 | Msa0928490 | 0.803061 | 4.172035e-49 | -8.615850e-47 |
| Msa0647430 | Msa0928490 | 0.805208 | 1.491651e-49 | -8.615850e-47 |
| Msa0690310 | Msa0928490 | 0.805042 | 1.615430e-49 | -8.615850e-47 |
| Msa0780930 | Msa0928490 | 0.804287 | 2.322401e-49 | -8.615850e-47 |
| Msa0805450 | Msa0928490 | 0.805545 | 1.267782e-49 | -8.615850e-47 |
| Msa0138360 | Msa0928490 | 0.820862 | 5.481976e-53 | -8.615850e-47 |
| Msa0144360 | Msa0928490 | 0.802956 | 4.386811e-49 | -8.615850e-47 |
| Msa0147980 | Msa0928490 | 0.811332 | 7.380976e-51 | -8.615850e-47 |
| Msa0168870 | Msa0928490 | 0.802679 | 5.002392e-49 | -8.615850e-47 |
| Msa0205010 | Msa0928490 | 0.801604 | 8.323578e-49 | -8.615850e-47 |
| Msa0207350 | Msa0928490 | 0.811395 | 7.151379e-51 | -8.615850e-47 |
| Msa0214550 | Msa0928490 | 0.805129 | 1.549423e-49 | -8.615850e-47 |
| Msa0382370 | Msa0928490 | 0.815213 | 1.037267e-51 | -8.615850e-47 |
| Msa0432160 | Msa0928490 | 0.821650 | 3.607073e-53 | -8.615850e-47 |
| Msa0476680 | Msa0928490 | 0.823464 | 1.365986e-53 | -8.615850e-47 |
| Msa0479200 | Msa0928490 | 0.824741 | 6.850449e-54 | -8.615850e-47 |
| Msa0241830 | Msa0928490 | 0.810342 | 1.208813e-50 | -8.615850e-47 |
| Msa0253290 | Msa0928490 | 0.802304 | 5.978795e-49 | -8.615850e-47 |
| Msa0259210 | Msa0928490 | 0.809682 | 1.677368e-50 | -8.615850e-47 |
| Msa0259220 | Msa0928490 | 0.816900 | 4.357496e-52 | -8.615850e-47 |
| Msa0279850 | Msa0928490 | 0.825725 | 4.007513e-54 | -8.615850e-47 |
| Msa0317970 | Msa0928490 | 0.833353 | 5.599470e-56 | -8.615850e-47 |
| Msa0320590 | Msa0928490 | 0.824598 | 7.400528e-54 | -8.615850e-47 |
| Msa0322900 | Msa0928490 | 0.823794 | 1.143286e-53 | -8.615850e-47 |
| Msa0336310 | Msa0928490 | 0.813280 | 2.773034e-51 | -8.615850e-47 |
| Msa0336320 | Msa0928490 | 0.804657 | 1.944475e-49 | -8.615850e-47 |
| Msa0341690 | Msa0928490 | 0.800795 | 1.218734e-48 | -8.615850e-47 |
| Msa0485240 | Msa0928490 | 0.831199 | 1.911081e-55 | -8.615850e-47 |
| Msa0518030 | Msa0928490 | 0.817478 | 3.229135e-52 | -8.615850e-47 |
| Msa0521010 | Msa0928490 | 0.816813 | 4.557685e-52 | -8.615850e-47 |
| Msa0527190 | Msa0928490 | 0.807817 | 4.199115e-50 | -8.615850e-47 |
| Msa0531250 | Msa0928490 | 0.817510 | 3.176571e-52 | -8.615850e-47 |
| Msa0588090 | Msa0928490 | 0.801153 | 1.029860e-48 | -8.615850e-47 |
| Msa0588220 | Msa0928490 | 0.804660 | 1.941988e-49 | -8.615850e-47 |
| Msa0903780 | Msa0928490 | 0.804101 | 2.539273e-49 | -8.615850e-47 |
| Msa0928490 | Msa0937020 | 0.815928 | 7.188087e-52 | -8.615850e-47 |
| Msa0928490 | Msa1034500 | 0.816320 | 5.875443e-52 | -8.615850e-47 |
| Msa0928490 | Msa1039390 | 0.985052 | 2.211655e-162 | -8.615850e-47 |
| Msa0928490 | Msa1069820 | 0.801322 | 9.508538e-49 | -8.615850e-47 |
| Msa0928490 | Msa1079230 | 0.805960 | 1.036984e-49 | -8.615850e-47 |
| Msa0928490 | Msa1089450 | 0.833969 | 3.928344e-56 | -8.615850e-47 |
| Msa0928490 | Msa1127590 | 0.805626 | 1.218798e-49 | -8.615850e-47 |
| Msa0928490 | Msa1144880 | 0.995662 | 1.462145e-218 | -8.615850e-47 |
| Msa0928490 | Msa1189650 | 0.801550 | 8.538779e-49 | -8.615850e-47 |
| Msa0928490 | Msa1262890 | 0.800636 | 1.313163e-48 | -8.615850e-47 |
| Msa0928490 | Msa1265590 | 0.802547 | 5.327251e-49 | -8.615850e-47 |
| Msa0928490 | Msa1297170 | 0.808727 | 2.687461e-50 | -8.615850e-47 |
| Msa0928490 | Msa1303280 | 0.812057 | 5.135018e-51 | -8.615850e-47 |
| Msa0928490 | Msa1307600 | 0.806732 | 7.132371e-50 | -8.615850e-47 |
| Msa0928490 | Msa1369690 | 0.825070 | 5.727369e-54 | -8.615850e-47 |
| Msa0928490 | Msa1371520 | 0.809899 | 1.505934e-50 | -8.615850e-47 |
| Msa0928490 | Msa1390690 | 0.800256 | 1.569264e-48 | -8.615850e-47 |
| Msa0928490 | Msa1390700 | 0.805964 | 1.035001e-49 | -8.615850e-47 |
| Msa0928490 | Msa1392900 | 0.800899 | 1.160578e-48 | -8.615850e-47 |
| Msa0928490 | Msa1392910 | 0.803125 | 4.047815e-49 | -8.615850e-47 |
| Msa0928490 | Msa1411950 | 0.815129 | 1.082639e-51 | -8.615850e-47 |
| Msa0928490 | Msa1418240 | 0.833530 | 5.059273e-56 | -8.615850e-47 |
| Msa0928490 | Msa1452680 | 0.805700 | 1.176068e-49 | -8.615850e-47 |
| Msa0928490 | Msa1465570 | 0.801659 | 8.113315e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0928490 | MtrunA17_Chr5g0426561 | 67.857 | 56 | 16 | 1 | 8 | 61 | 1 | 56 | 1.58e-22 | 81.3 |
| Msa0928490 | MtrunA17_Chr5g0420451 | 84.783 | 46 | 7 | 0 | 8 | 53 | 2 | 47 | 3.74e-22 | 84.7 |
| Msa0928490 | MtrunA17_Chr1g0172341 | 77.083 | 48 | 11 | 0 | 6 | 53 | 1 | 48 | 6.60e-22 | 81.3 |
| Msa0928490 | MtrunA17_Chr8g0372151 | 74.000 | 50 | 13 | 0 | 5 | 54 | 3 | 52 | 1.32e-20 | 80.5 |
| Msa0928490 | MtrunA17_Chr5g0393801 | 76.087 | 46 | 11 | 0 | 8 | 53 | 1 | 46 | 1.36e-20 | 77.8 |
| Msa0928490 | MtrunA17_Chr6g0453011 | 63.793 | 58 | 21 | 0 | 6 | 63 | 31 | 88 | 1.71e-20 | 78.2 |
| Msa0928490 | MtrunA17_Chr2g0304851 | 70.833 | 48 | 14 | 0 | 6 | 53 | 3 | 50 | 3.67e-19 | 79.0 |
| Msa0928490 | MtrunA17_Chr6g0481111 | 71.739 | 46 | 13 | 0 | 8 | 53 | 1 | 46 | 1.16e-18 | 73.9 |
| Msa0928490 | MtrunA17_Chr1g0167871 | 77.273 | 44 | 10 | 0 | 10 | 53 | 208 | 251 | 2.77e-18 | 76.6 |
| Msa0928490 | MtrunA17_Chr7g0223511 | 60.784 | 51 | 20 | 0 | 3 | 53 | 19 | 69 | 1.05e-17 | 73.6 |
| Msa0928490 | MtrunA17_Chr5g0393531 | 73.913 | 46 | 12 | 0 | 8 | 53 | 1 | 46 | 1.11e-17 | 73.2 |
| Msa0928490 | MtrunA17_Chr7g0231491 | 75.556 | 45 | 11 | 0 | 9 | 53 | 36 | 80 | 1.25e-17 | 73.6 |
| Msa0928490 | MtrunA17_Chr8g0347361 | 62.745 | 51 | 19 | 0 | 3 | 53 | 6 | 56 | 2.26e-17 | 72.0 |
| Msa0928490 | 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 | 6_2:-74021876 | Msa0928490:CDS |
| AGCTTCCAGAAATCCTTCTT+TGG | 0.249300 | 6_2:+74021871 | None:intergenic |
| AACAATTCTTCATGGGAAAC+AGG | 0.366959 | 6_2:-74022476 | None:intergenic |
| GCAAGACCAGTTCAATTTAT+CGG | 0.369808 | 6_2:-74021904 | Msa0928490:CDS |
| AGACAAATGGGTTGTTGTTA+AGG | 0.378712 | 6_2:-74021833 | Msa0928490:CDS |
| GCTTCCAGAAATCCTTCTTT+GGG | 0.413903 | 6_2:+74021872 | None:intergenic |
| AATTGAACTGGTCTTGCCAT+TGG | 0.425041 | 6_2:+74021910 | None:intergenic |
| AAATGGGTTGTTGTTAAGGA+TGG | 0.435334 | 6_2:-74021829 | Msa0928490:CDS |
| ATTGAACTGGTCTTGCCATT+GGG | 0.450658 | 6_2:+74021911 | None:intergenic |
| CGGTGATATTAACCCAAAGA+AGG | 0.479855 | 6_2:-74021884 | Msa0928490:CDS |
| TAAGGATGGGAGGGAGCACT+TGG | 0.492942 | 6_2:-74021815 | Msa0928490:CDS |
| CTGTGAGGGTGAAAGACAAA+TGG | 0.494992 | 6_2:-74021846 | Msa0928490:CDS |
| ATATCACCGATAAATTGAAC+TGG | 0.497635 | 6_2:+74021898 | None:intergenic |
| GATGGTTATCGTTGATGCCA+AGG | 0.528606 | 6_2:-74021791 | Msa0928490:CDS |
| AATGGGTTGTTGTTAAGGAT+GGG | 0.540007 | 6_2:-74021828 | Msa0928490:CDS |
| TGGGAGGGAGCACTTGGAGA+TGG | 0.552726 | 6_2:-74021809 | Msa0928490:CDS |
| TAAAGATACACATAAAACCT+TGG | 0.574092 | 6_2:+74021774 | None:intergenic |
| GGTTGTTGTTAAGGATGGGA+GGG | 0.576229 | 6_2:-74021824 | Msa0928490:CDS |
| GGGTTGTTGTTAAGGATGGG+AGG | 0.583709 | 6_2:-74021825 | Msa0928490:CDS |
| TGTGAGGGTGAAAGACAAAT+GGG | 0.607479 | 6_2:-74021845 | Msa0928490:CDS |
| ATTTCTGGAAGCTGACTGTG+AGG | 0.675527 | 6_2:-74021861 | Msa0928490:CDS |
| TGTTCTCAGAGCAATCCCAA+TGG | 0.678231 | 6_2:-74021926 | Msa0928490:intron |
| TTTCTGGAAGCTGACTGTGA+GGG | 0.678677 | 6_2:-74021860 | Msa0928490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATATTTAAATATTAGTGA+TGG | + | chr6_2:74021858-74021877 | None:intergenic | 10.0% |
| !! | AAAAGATTTATAATGTTATA+GGG | + | chr6_2:74021889-74021908 | None:intergenic | 10.0% |
| !! | TAAAAGATTTATAATGTTAT+AGG | + | chr6_2:74021890-74021909 | None:intergenic | 10.0% |
| !!! | AATTTTTATCTTACTTTAAT+TGG | - | chr6_2:74021919-74021938 | Msa0928490:CDS | 10.0% |
| !! | AAAGATTTATAATGTTATAG+GGG | + | chr6_2:74021888-74021907 | None:intergenic | 15.0% |
| !! | AAGTAAGATAAAAATTGTTA+TGG | + | chr6_2:74021915-74021934 | None:intergenic | 15.0% |
| !!! | CTTTGCTACATAATTTTTAT+TGG | - | chr6_2:74022206-74022225 | Msa0928490:intron | 20.0% |
| !! | AAGTGTTATAAAAATCTTGT+AGG | + | chr6_2:74022251-74022270 | None:intergenic | 20.0% |
| ! | TGCAAAAGCAATAAGTTATA+TGG | + | chr6_2:74022011-74022030 | None:intergenic | 25.0% |
| ! | ATCTAGAAACAAAATTAGGA+TGG | + | chr6_2:74022134-74022153 | None:intergenic | 25.0% |
| ! | AAATTATGTAGCAAAGTGTA+AGG | + | chr6_2:74022202-74022221 | None:intergenic | 25.0% |
| ! | TAAAGATACACATAAAACCT+TGG | + | chr6_2:74022438-74022457 | None:intergenic | 25.0% |
| TATATTCACACTCATCTACA+TGG | - | chr6_2:74021814-74021833 | Msa0928490:CDS | 30.0% | |
| ATATTCACACTCATCTACAT+GGG | - | chr6_2:74021815-74021834 | Msa0928490:CDS | 30.0% | |
| !! | GGTATGGTACTATTTTAAGA+GGG | + | chr6_2:74021977-74021996 | None:intergenic | 30.0% |
| AGTTATATGGTGTACAATGT+GGG | + | chr6_2:74021998-74022017 | None:intergenic | 30.0% | |
| AAGTTATATGGTGTACAATG+TGG | + | chr6_2:74021999-74022018 | None:intergenic | 30.0% | |
| GCAGATCTAGAAACAAAATT+AGG | + | chr6_2:74022138-74022157 | None:intergenic | 30.0% | |
| AAGTGTAAGGACTTAAAAGA+AGG | + | chr6_2:74022189-74022208 | None:intergenic | 30.0% | |
| ATATCACCGATAAATTGAAC+TGG | + | chr6_2:74022314-74022333 | None:intergenic | 30.0% | |
| !! | GGGTATGGTACTATTTTAAG+AGG | + | chr6_2:74021978-74021997 | None:intergenic | 35.0% |
| !! | CCTTTTAGCTATTGTACGAA+GGG | + | chr6_2:74022061-74022080 | None:intergenic | 35.0% |
| !! | TCCTTTTAGCTATTGTACGA+AGG | + | chr6_2:74022062-74022081 | None:intergenic | 35.0% |
| ATGAGAGAAGTGGTTAGAAA+AGG | + | chr6_2:74022094-74022113 | None:intergenic | 35.0% | |
| GCAAGACCAGTTCAATTTAT+CGG | - | chr6_2:74022305-74022324 | Msa0928490:intron | 35.0% | |
| TTAACCCAAAGAAGGATTTC+TGG | - | chr6_2:74022333-74022352 | Msa0928490:intron | 35.0% | |
| !! | AGACAAATGGGTTGTTGTTA+AGG | - | chr6_2:74022376-74022395 | Msa0928490:intron | 35.0% |
| !! | AAATGGGTTGTTGTTAAGGA+TGG | - | chr6_2:74022380-74022399 | Msa0928490:intron | 35.0% |
| !! | AATGGGTTGTTGTTAAGGAT+GGG | - | chr6_2:74022381-74022400 | Msa0928490:intron | 35.0% |
| CATGCGCAATAACAGTGTTA+TGG | - | chr6_2:74021761-74021780 | Msa0928490:CDS | 40.0% | |
| GATAGTGTCAGAGAGAATGT+TGG | + | chr6_2:74021955-74021974 | None:intergenic | 40.0% | |
| TATGGTGTACAATGTGGGTA+TGG | + | chr6_2:74021993-74022012 | None:intergenic | 40.0% | |
| ! | AGCTATTGTACGAAGGGTAT+GGG | + | chr6_2:74022055-74022074 | None:intergenic | 40.0% |
| TAGCTATTGTACGAAGGGTA+TGG | + | chr6_2:74022056-74022075 | None:intergenic | 40.0% | |
| CCCTTCGTACAATAGCTAAA+AGG | - | chr6_2:74022058-74022077 | Msa0928490:intron | 40.0% | |
| TCTCATCCATTGAGCTCTTT+AGG | - | chr6_2:74022108-74022127 | Msa0928490:intron | 40.0% | |
| !! | ATTGAACTGGTCTTGCCATT+GGG | + | chr6_2:74022301-74022320 | None:intergenic | 40.0% |
| !! | AATTGAACTGGTCTTGCCAT+TGG | + | chr6_2:74022302-74022321 | None:intergenic | 40.0% |
| CGGTGATATTAACCCAAAGA+AGG | - | chr6_2:74022325-74022344 | Msa0928490:intron | 40.0% | |
| GCTTCCAGAAATCCTTCTTT+GGG | + | chr6_2:74022340-74022359 | None:intergenic | 40.0% | |
| AGCTTCCAGAAATCCTTCTT+TGG | + | chr6_2:74022341-74022360 | None:intergenic | 40.0% | |
| TGTGAGGGTGAAAGACAAAT+GGG | - | chr6_2:74022364-74022383 | Msa0928490:intron | 40.0% | |
| AGCTCAATGGATGAGAGAAG+TGG | + | chr6_2:74022104-74022123 | None:intergenic | 45.0% | |
| TGTTCTCAGAGCAATCCCAA+TGG | - | chr6_2:74022283-74022302 | Msa0928490:intron | 45.0% | |
| ! | ATTTCTGGAAGCTGACTGTG+AGG | - | chr6_2:74022348-74022367 | Msa0928490:intron | 45.0% |
| ! | TTTCTGGAAGCTGACTGTGA+GGG | - | chr6_2:74022349-74022368 | Msa0928490:intron | 45.0% |
| CTGTGAGGGTGAAAGACAAA+TGG | - | chr6_2:74022363-74022382 | Msa0928490:intron | 45.0% | |
| ! | GGTTGTTGTTAAGGATGGGA+GGG | - | chr6_2:74022385-74022404 | Msa0928490:intron | 45.0% |
| GATGGTTATCGTTGATGCCA+AGG | - | chr6_2:74022418-74022437 | Msa0928490:intron | 45.0% | |
| ! | GAAGGGTATGGGCAATGCAA+TGG | + | chr6_2:74022044-74022063 | None:intergenic | 50.0% |
| GGATGGCCTAAAGAGCTCAA+TGG | + | chr6_2:74022117-74022136 | None:intergenic | 50.0% | |
| ! | GGGTTGTTGTTAAGGATGGG+AGG | - | chr6_2:74022384-74022403 | Msa0928490:intron | 50.0% |
| !! | TAAGGATGGGAGGGAGCACT+TGG | - | chr6_2:74022394-74022413 | Msa0928490:intron | 55.0% |
| !! | TGGGAGGGAGCACTTGGAGA+TGG | - | chr6_2:74022400-74022419 | Msa0928490:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 74021744 | 74022487 | 74021744 | ID=Msa0928490;Name=Msa0928490 |
| chr6_2 | mRNA | 74021744 | 74022487 | 74021744 | ID=Msa0928490-mRNA-1;Parent=Msa0928490;Name=Msa0928490-mRNA-1;_AED=0.39;_eAED=0.41;_QI=0|0|0|1|0|0.5|2|0|68 |
| chr6_2 | exon | 74022477 | 74022487 | 74022477 | ID=Msa0928490-mRNA-1:exon:12611;Parent=Msa0928490-mRNA-1 |
| chr6_2 | exon | 74021744 | 74021939 | 74021744 | ID=Msa0928490-mRNA-1:exon:12610;Parent=Msa0928490-mRNA-1 |
| chr6_2 | CDS | 74022477 | 74022487 | 74022477 | ID=Msa0928490-mRNA-1:cds;Parent=Msa0928490-mRNA-1 |
| chr6_2 | CDS | 74021744 | 74021939 | 74021744 | ID=Msa0928490-mRNA-1:cds;Parent=Msa0928490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
