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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871990 | XP_003618501.3 | 98.734 | 237 | 3 | 0 | 1 | 237 | 1 | 237 | 1.35e-171 | 482 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871990 | sp|P0C8Q9|Y5902_ARATH | 51.515 | 99 | 45 | 2 | 139 | 237 | 150 | 245 | 1.36e-21 | 93.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871990 | A0A396HGN1 | 98.734 | 237 | 3 | 0 | 1 | 237 | 1 | 237 | 6.43e-172 | 482 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0086420 | Msa0871990 | 0.822002 | 2.990635e-53 | -8.615850e-47 |
| Msa0608710 | Msa0871990 | 0.819299 | 1.249417e-52 | -8.615850e-47 |
| Msa0795080 | Msa0871990 | 0.818688 | 1.720340e-52 | -8.615850e-47 |
| Msa0165970 | Msa0871990 | 0.827712 | 1.344394e-54 | -8.615850e-47 |
| Msa0224320 | Msa0871990 | 0.817107 | 3.914089e-52 | -8.615850e-47 |
| Msa0394340 | Msa0871990 | 0.804400 | 2.200183e-49 | -8.615850e-47 |
| Msa0433530 | Msa0871990 | 0.810081 | 1.375966e-50 | -8.615850e-47 |
| Msa0442200 | Msa0871990 | 0.802527 | 5.377339e-49 | -8.615850e-47 |
| Msa0477260 | Msa0871990 | 0.807091 | 5.986342e-50 | -8.615850e-47 |
| Msa0284820 | Msa0871990 | 0.814167 | 1.768794e-51 | -8.615850e-47 |
| Msa0489610 | Msa0871990 | 0.827969 | 1.166055e-54 | -8.615850e-47 |
| Msa0575470 | Msa0871990 | 0.809172 | 2.158165e-50 | -8.615850e-47 |
| Msa0871990 | Msa0905380 | 0.919428 | 4.560679e-87 | -8.615850e-47 |
| Msa0871990 | Msa0960160 | 0.810449 | 1.146533e-50 | -8.615850e-47 |
| Msa0871990 | Msa1023180 | 0.804827 | 1.791970e-49 | -8.615850e-47 |
| Msa0871990 | Msa1043050 | 0.813502 | 2.477373e-51 | -8.615850e-47 |
| Msa0871990 | Msa1150710 | 0.817128 | 3.872712e-52 | -8.615850e-47 |
| Msa0871990 | Msa1151710 | 0.810222 | 1.283134e-50 | -8.615850e-47 |
| Msa0871990 | Msa1233500 | 0.806257 | 8.981457e-50 | -8.615850e-47 |
| Msa0871990 | Msa1444740 | 0.812694 | 3.727735e-51 | -8.615850e-47 |
| Msa0871990 | Msa1448630 | 0.814047 | 1.879732e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871990 | MtrunA17_Chr6g0453281 | 98.734 | 237 | 3 | 0 | 1 | 237 | 1 | 237 | 1.24e-175 | 482 |
| Msa0871990 | MtrunA17_Chr7g0217561 | 61.603 | 237 | 71 | 3 | 1 | 237 | 1 | 217 | 3.58e-87 | 257 |
| Msa0871990 | MtrunA17_Chr2g0287451 | 39.516 | 124 | 62 | 4 | 114 | 234 | 79 | 192 | 2.28e-14 | 69.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0871990 | AT3G01170.1 | 55.000 | 240 | 80 | 5 | 1 | 237 | 1 | 215 | 3.76e-83 | 247 |
| Msa0871990 | AT5G15260.2 | 55.691 | 246 | 88 | 9 | 1 | 237 | 1 | 234 | 4.38e-75 | 227 |
| Msa0871990 | AT5G15260.1 | 55.691 | 246 | 88 | 9 | 1 | 237 | 1 | 234 | 4.38e-75 | 227 |
| Msa0871990 | AT3G06180.1 | 40.000 | 165 | 94 | 3 | 75 | 237 | 66 | 227 | 5.85e-23 | 94.0 |
| Msa0871990 | AT5G19025.1 | 51.515 | 99 | 45 | 2 | 139 | 237 | 150 | 245 | 1.38e-22 | 93.2 |
| Msa0871990 | AT5G19025.2 | 50.526 | 95 | 45 | 1 | 139 | 233 | 150 | 242 | 2.74e-22 | 92.4 |
| Msa0871990 | AT3G01170.2 | 44.915 | 118 | 46 | 4 | 1 | 116 | 1 | 101 | 2.20e-21 | 87.4 |
Find 44 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTATATTTATATATCTAT+TGG | 0.238022 | 6_1:-7341722 | Msa0871990:CDS |
| GTCATTTCAGATTATGAGTA+TGG | 0.244984 | 6_1:-7341780 | Msa0871990:CDS |
| TAACAGAATTTGATAAACTA+TGG | 0.289659 | 6_1:+7341918 | None:intergenic |
| TGTTGGTAGGTTAGAAGTTC+CGG | 0.289963 | 6_1:-7341405 | Msa0871990:CDS |
| AAGAAGATGGCACCGATTAA+TGG | 0.325801 | 6_1:-7341467 | Msa0871990:CDS |
| CCAATAGATATATAAATATA+AGG | 0.341548 | 6_1:+7341722 | None:intergenic |
| ATGGCGAATTCGATCGAATT+CGG | 0.383006 | 6_1:-7341995 | Msa0871990:CDS |
| ACCTCCAGTTCAATCATCTA+TGG | 0.384799 | 6_1:-7342014 | Msa0871990:CDS |
| TTTGTGCTGCATTGGCTACA+TGG | 0.387252 | 6_1:-7341688 | Msa0871990:CDS |
| TTCTTCAAACCCTTACAATT+CGG | 0.389737 | 6_1:+7341629 | None:intergenic |
| CGAAGTTTCTTCGTCGGTCC+CGG | 0.401109 | 6_1:+7341386 | None:intergenic |
| GTTGGTAGGTTAGAAGTTCC+GGG | 0.404512 | 6_1:-7341404 | Msa0871990:CDS |
| ATCACTAAAAGTTCAACATA+AGG | 0.412821 | 6_1:+7341806 | None:intergenic |
| CTAATCAATTTCAAAGGAAT+AGG | 0.420647 | 6_1:-7341946 | Msa0871990:CDS |
| GATGGCGGTGTTTGTAAGAA+GGG | 0.429289 | 6_1:-7341539 | Msa0871990:CDS |
| AGCACAGCTCTTCCATTAAT+CGG | 0.433317 | 6_1:+7341455 | None:intergenic |
| ATTGCTGTTGTTATTGCTTG+TGG | 0.436635 | 6_1:-7341842 | Msa0871990:CDS |
| ATGCGGTAATCCGAATTGTA+AGG | 0.440528 | 6_1:-7341639 | Msa0871990:CDS |
| AGATGGCGGTGTTTGTAAGA+AGG | 0.445969 | 6_1:-7341540 | Msa0871990:CDS |
| CTGTGCTTGTGCTGAGAGCT+AGG | 0.461752 | 6_1:-7341439 | Msa0871990:CDS |
| GGTGTGGTTGTTCTGTTGGT+AGG | 0.475981 | 6_1:-7341418 | Msa0871990:CDS |
| GCTAGGTGTGGTTGTTCTGT+TGG | 0.477365 | 6_1:-7341422 | Msa0871990:CDS |
| ATCTTCCGAAGTTTCTTCGT+CGG | 0.488611 | 6_1:+7341380 | None:intergenic |
| TCACTAAAAGTTCAACATAA+GGG | 0.493997 | 6_1:+7341807 | None:intergenic |
| CCGCCATCTTTCACAAAAGA+TGG | 0.494467 | 6_1:+7341554 | None:intergenic |
| TTCGCCATAGATGATTGAAC+TGG | 0.505114 | 6_1:+7342010 | None:intergenic |
| TTGTGCTGCATTGGCTACAT+GGG | 0.507240 | 6_1:-7341687 | Msa0871990:CDS |
| ATCAATTTCAAAGGAATAGG+AGG | 0.510788 | 6_1:-7341943 | Msa0871990:CDS |
| AAGTGTTGTTTGTGCTGCAT+TGG | 0.523765 | 6_1:-7341696 | Msa0871990:CDS |
| ACTTCGGAAGATCAAGAAGT+AGG | 0.555452 | 6_1:-7341369 | None:intergenic |
| AGCAAACTAATCAATTTCAA+AGG | 0.564372 | 6_1:-7341952 | Msa0871990:CDS |
| TGCGGTAATCCGAATTGTAA+GGG | 0.568571 | 6_1:-7341638 | Msa0871990:CDS |
| TGAAGCGGAGCTTAAGAAGA+TGG | 0.571103 | 6_1:-7341480 | Msa0871990:CDS |
| TACAAAGAGAGATTGAGCTA+TGG | 0.571615 | 6_1:+7342050 | None:intergenic |
| ATTGCCGCGTGATCATCATA+AGG | 0.580739 | 6_1:-7341507 | Msa0871990:CDS |
| GCCATAGATGATTGAACTGG+AGG | 0.582996 | 6_1:+7342013 | None:intergenic |
| TCATCATAAGGAACTTGAAG+CGG | 0.636755 | 6_1:-7341495 | Msa0871990:CDS |
| CGGGACCGACGAAGAAACTT+CGG | 0.636873 | 6_1:-7341385 | Msa0871990:CDS |
| TGTGCTGCATTGGCTACATG+GGG | 0.654737 | 6_1:-7341686 | Msa0871990:CDS |
| GTTTGCACAAGTAACAAATG+CGG | 0.681482 | 6_1:-7341656 | Msa0871990:CDS |
| CTTGTGCTGAGAGCTAGGTG+TGG | 0.697858 | 6_1:-7341434 | Msa0871990:CDS |
| GCTGATCTAGATCGATCACA+AGG | 0.698983 | 6_1:+7341887 | None:intergenic |
| GATCTAGATCGATCACAAGG+TGG | 0.717259 | 6_1:+7341890 | None:intergenic |
| AGTTCCTTATGATGATCACG+CGG | 0.724998 | 6_1:+7341503 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CCAATAGATATATAAATATA+AGG | + | chr6_1:7341712-7341731 | None:intergenic | 15.0% |
| !! | CCTTATATTTATATATCTAT+TGG | - | chr6_1:7341709-7341728 | Msa0871990:CDS | 15.0% |
| !! | TAACAGAATTTGATAAACTA+TGG | + | chr6_1:7341516-7341535 | None:intergenic | 20.0% |
| ! | AGCAAACTAATCAATTTCAA+AGG | - | chr6_1:7341479-7341498 | Msa0871990:CDS | 25.0% |
| ! | CTAATCAATTTCAAAGGAAT+AGG | - | chr6_1:7341485-7341504 | Msa0871990:CDS | 25.0% |
| ! | TCACTAAAAGTTCAACATAA+GGG | + | chr6_1:7341627-7341646 | None:intergenic | 25.0% |
| ! | ATCACTAAAAGTTCAACATA+AGG | + | chr6_1:7341628-7341647 | None:intergenic | 25.0% |
| ATCAATTTCAAAGGAATAGG+AGG | - | chr6_1:7341488-7341507 | Msa0871990:CDS | 30.0% | |
| GTCATTTCAGATTATGAGTA+TGG | - | chr6_1:7341651-7341670 | Msa0871990:CDS | 30.0% | |
| ! | TATGGTGTGTTTTCTGATTA+TGG | - | chr6_1:7341669-7341688 | Msa0871990:CDS | 30.0% |
| TTCTTCAAACCCTTACAATT+CGG | + | chr6_1:7341805-7341824 | None:intergenic | 30.0% | |
| TACAAAGAGAGATTGAGCTA+TGG | + | chr6_1:7341384-7341403 | None:intergenic | 35.0% | |
| ! | ATTGCTGTTGTTATTGCTTG+TGG | - | chr6_1:7341589-7341608 | Msa0871990:CDS | 35.0% |
| GTTTGCACAAGTAACAAATG+CGG | - | chr6_1:7341775-7341794 | Msa0871990:CDS | 35.0% | |
| TCATCATAAGGAACTTGAAG+CGG | - | chr6_1:7341936-7341955 | Msa0871990:CDS | 35.0% | |
| ACCTCCAGTTCAATCATCTA+TGG | - | chr6_1:7341417-7341436 | Msa0871990:CDS | 40.0% | |
| TTCGCCATAGATGATTGAAC+TGG | + | chr6_1:7341424-7341443 | None:intergenic | 40.0% | |
| ATGGCGAATTCGATCGAATT+CGG | - | chr6_1:7341436-7341455 | Msa0871990:CDS | 40.0% | |
| !! | AAGTGTTGTTTGTGCTGCAT+TGG | - | chr6_1:7341735-7341754 | Msa0871990:CDS | 40.0% |
| ATGCGGTAATCCGAATTGTA+AGG | - | chr6_1:7341792-7341811 | Msa0871990:CDS | 40.0% | |
| TGCGGTAATCCGAATTGTAA+GGG | - | chr6_1:7341793-7341812 | Msa0871990:CDS | 40.0% | |
| ! | TCGCCATCTTTTGTGAAAGA+TGG | - | chr6_1:7341874-7341893 | Msa0871990:CDS | 40.0% |
| ! | CCATCTTTTGTGAAAGATGG+CGG | - | chr6_1:7341877-7341896 | Msa0871990:CDS | 40.0% |
| AGTTCCTTATGATGATCACG+CGG | + | chr6_1:7341931-7341950 | None:intergenic | 40.0% | |
| !! | AAGAAGATGGCACCGATTAA+TGG | - | chr6_1:7341964-7341983 | Msa0871990:CDS | 40.0% |
| AGCACAGCTCTTCCATTAAT+CGG | + | chr6_1:7341979-7341998 | None:intergenic | 40.0% | |
| ! | TGTTGGTAGGTTAGAAGTTC+CGG | - | chr6_1:7342026-7342045 | Msa0871990:CDS | 40.0% |
| ATCTTCCGAAGTTTCTTCGT+CGG | + | chr6_1:7342054-7342073 | None:intergenic | 40.0% | |
| GCCATAGATGATTGAACTGG+AGG | + | chr6_1:7341421-7341440 | None:intergenic | 45.0% | |
| GATCTAGATCGATCACAAGG+TGG | + | chr6_1:7341544-7341563 | None:intergenic | 45.0% | |
| GCTGATCTAGATCGATCACA+AGG | + | chr6_1:7341547-7341566 | None:intergenic | 45.0% | |
| !! | TTTGTGCTGCATTGGCTACA+TGG | - | chr6_1:7341743-7341762 | Msa0871990:CDS | 45.0% |
| !! | TTGTGCTGCATTGGCTACAT+GGG | - | chr6_1:7341744-7341763 | Msa0871990:CDS | 45.0% |
| CCGCCATCTTTCACAAAAGA+TGG | + | chr6_1:7341880-7341899 | None:intergenic | 45.0% | |
| ! | AGATGGCGGTGTTTGTAAGA+AGG | - | chr6_1:7341891-7341910 | Msa0871990:CDS | 45.0% |
| ! | GATGGCGGTGTTTGTAAGAA+GGG | - | chr6_1:7341892-7341911 | Msa0871990:CDS | 45.0% |
| ATTGCCGCGTGATCATCATA+AGG | - | chr6_1:7341924-7341943 | Msa0871990:CDS | 45.0% | |
| TGAAGCGGAGCTTAAGAAGA+TGG | - | chr6_1:7341951-7341970 | Msa0871990:CDS | 45.0% | |
| ! | GTTGGTAGGTTAGAAGTTCC+GGG | - | chr6_1:7342027-7342046 | Msa0871990:CDS | 45.0% |
| !! | TGTGCTGCATTGGCTACATG+GGG | - | chr6_1:7341745-7341764 | Msa0871990:CDS | 50.0% |
| GCTAGGTGTGGTTGTTCTGT+TGG | - | chr6_1:7342009-7342028 | Msa0871990:CDS | 50.0% | |
| GGTGTGGTTGTTCTGTTGGT+AGG | - | chr6_1:7342013-7342032 | Msa0871990:CDS | 50.0% | |
| CTGTGCTTGTGCTGAGAGCT+AGG | - | chr6_1:7341992-7342011 | Msa0871990:CDS | 55.0% | |
| CTTGTGCTGAGAGCTAGGTG+TGG | - | chr6_1:7341997-7342016 | Msa0871990:CDS | 55.0% | |
| CGAAGTTTCTTCGTCGGTCC+CGG | + | chr6_1:7342048-7342067 | None:intergenic | 55.0% | |
| CGGGACCGACGAAGAAACTT+CGG | - | chr6_1:7342046-7342065 | Msa0871990:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 7341370 | 7342083 | 7341370 | ID=Msa0871990;Name=Msa0871990 |
| chr6_1 | mRNA | 7341370 | 7342083 | 7341370 | ID=Msa0871990-mRNA-1;Parent=Msa0871990;Name=Msa0871990-mRNA-1;_AED=0.16;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|237 |
| chr6_1 | exon | 7341370 | 7342083 | 7341370 | ID=Msa0871990-mRNA-1:exon:2192;Parent=Msa0871990-mRNA-1 |
| chr6_1 | CDS | 7341370 | 7342083 | 7341370 | ID=Msa0871990-mRNA-1:cds;Parent=Msa0871990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
