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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0064970 | KEH15532.1 | 85.047 | 107 | 12 | 1 | 1 | 107 | 7 | 109 | 1.37e-55 | 185 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0064970 | A0A072TDQ4 | 85.047 | 107 | 12 | 1 | 1 | 107 | 7 | 109 | 6.52e-56 | 185 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015750 | Msa0064970 | 0.800677 | 1.288356e-48 | -8.615850e-47 |
| Msa0016570 | Msa0064970 | 0.867604 | 1.210468e-65 | -8.615850e-47 |
| Msa0016580 | Msa0064970 | 0.865732 | 4.769143e-65 | -8.615850e-47 |
| Msa0064970 | Msa0064980 | 0.814430 | 1.546941e-51 | -8.615850e-47 |
| Msa0064970 | Msa0110260 | 0.903891 | 2.168900e-79 | -8.615850e-47 |
| Msa0064970 | Msa0110270 | 0.878852 | 2.007467e-69 | -8.615850e-47 |
| Msa0064970 | Msa0117710 | 0.821631 | 3.643038e-53 | -8.615850e-47 |
| Msa0064970 | Msa0131770 | 0.810811 | 9.574873e-51 | -8.615850e-47 |
| Msa0064970 | Msa0142220 | 0.836086 | 1.150027e-56 | -8.615850e-47 |
| Msa0064970 | Msa0153910 | 0.800671 | 1.291925e-48 | -8.615850e-47 |
| Msa0064970 | Msa0201070 | 0.801617 | 8.273851e-49 | -8.615850e-47 |
| Msa0064970 | Msa0218240 | 0.822762 | 1.991817e-53 | -8.615850e-47 |
| Msa0064970 | Msa0219590 | 0.806851 | 6.729421e-50 | -8.615850e-47 |
| Msa0064970 | Msa0233300 | 0.800655 | 1.301931e-48 | -8.615850e-47 |
| Msa0064970 | Msa0237750 | 0.803577 | 3.261817e-49 | -8.615850e-47 |
| Msa0064970 | Msa0239240 | 0.813645 | 2.305228e-51 | -8.615850e-47 |
| Msa0064970 | Msa0251320 | 0.801184 | 1.014833e-48 | -8.615850e-47 |
| Msa0064970 | Msa0260780 | 0.805234 | 1.473071e-49 | -8.615850e-47 |
| Msa0064970 | Msa0270520 | 0.820464 | 6.764730e-53 | -8.615850e-47 |
| Msa0064970 | Msa0292930 | 0.821140 | 4.730025e-53 | -8.615850e-47 |
| Msa0064970 | Msa0305190 | 0.808833 | 2.549722e-50 | -8.615850e-47 |
| Msa0064970 | Msa0306460 | 0.808126 | 3.609042e-50 | -8.615850e-47 |
| Msa0064970 | Msa0309020 | 0.805079 | 1.587352e-49 | -8.615850e-47 |
| Msa0064970 | Msa0339620 | 0.814763 | 1.305460e-51 | -8.615850e-47 |
| Msa0064970 | Msa0342750 | 0.812464 | 4.185081e-51 | -8.615850e-47 |
| Msa0064970 | Msa0360510 | 0.823845 | 1.111981e-53 | -8.615850e-47 |
| Msa0064970 | Msa0362420 | 0.803504 | 3.378153e-49 | -8.615850e-47 |
| Msa0064970 | Msa0371730 | 0.803091 | 4.113876e-49 | -8.615850e-47 |
| Msa0064970 | Msa0394970 | 0.804089 | 2.553481e-49 | -8.615850e-47 |
| Msa0064970 | Msa0402290 | 0.802966 | 4.365722e-49 | -8.615850e-47 |
| Msa0064970 | Msa0411390 | 0.817113 | 3.901696e-52 | -8.615850e-47 |
| Msa0064970 | Msa0434200 | 0.802288 | 6.022516e-49 | -8.615850e-47 |
| Msa0064970 | Msa0440520 | 0.800807 | 1.211648e-48 | -8.615850e-47 |
| Msa0064970 | Msa0444130 | 0.816440 | 5.525037e-52 | -8.615850e-47 |
| Msa0064970 | Msa0455760 | 0.813475 | 2.512521e-51 | -8.615850e-47 |
| Msa0064970 | Msa0493000 | 0.813432 | 2.567112e-51 | -8.615850e-47 |
| Msa0064970 | Msa0502340 | 0.811048 | 8.507957e-51 | -8.615850e-47 |
| Msa0064970 | Msa0541130 | 0.804831 | 1.788216e-49 | -8.615850e-47 |
| Msa0064970 | Msa0598790 | 0.805525 | 1.279837e-49 | -8.615850e-47 |
| Msa0064970 | Msa0604350 | 0.802105 | 6.569510e-49 | -8.615850e-47 |
| Msa0064970 | Msa0649110 | 0.813120 | 3.006354e-51 | -8.615850e-47 |
| Msa0064970 | Msa0681250 | 0.839232 | 1.792288e-57 | -8.615850e-47 |
| Msa0064970 | Msa0681270 | 0.836422 | 9.447090e-57 | -8.615850e-47 |
| Msa0064970 | Msa0686270 | 0.811046 | 8.515507e-51 | -8.615850e-47 |
| Msa0064970 | Msa0688270 | 0.826902 | 2.101897e-54 | -8.615850e-47 |
| Msa0064970 | Msa0694370 | 0.822900 | 1.848955e-53 | -8.615850e-47 |
| Msa0064970 | Msa0729800 | 0.800585 | 1.345131e-48 | -8.615850e-47 |
| Msa0064970 | Msa0764960 | 0.827967 | 1.167578e-54 | -8.615850e-47 |
| Msa0064970 | Msa0766630 | 0.823787 | 1.147391e-53 | -8.615850e-47 |
| Msa0064970 | Msa0789250 | 0.841764 | 3.897663e-58 | -8.615850e-47 |
| Msa0064970 | Msa0800210 | 0.801804 | 7.576322e-49 | -8.615850e-47 |
| Msa0064970 | Msa0811080 | 0.802269 | 6.077785e-49 | -8.615850e-47 |
| Msa0064970 | Msa0813400 | 0.802371 | 5.792502e-49 | -8.615850e-47 |
| Msa0064970 | Msa0824390 | 0.805524 | 1.280304e-49 | -8.615850e-47 |
| Msa0064970 | Msa0832340 | 0.821170 | 4.654439e-53 | -8.615850e-47 |
| Msa0064970 | Msa0925290 | 0.820388 | 7.044430e-53 | -8.615850e-47 |
| Msa0064970 | Msa0927290 | 0.824737 | 6.862335e-54 | -8.615850e-47 |
| Msa0064970 | Msa0927380 | 0.814421 | 1.554374e-51 | -8.615850e-47 |
| Msa0064970 | Msa0933100 | 0.803205 | 3.895009e-49 | -8.615850e-47 |
| Msa0064970 | Msa0954910 | 0.828880 | 7.030603e-55 | -8.615850e-47 |
| Msa0064970 | Msa0967280 | 0.851330 | 9.520129e-61 | -8.615850e-47 |
| Msa0064970 | Msa0976670 | 0.834958 | 2.218354e-56 | -8.615850e-47 |
| Msa0064970 | Msa0998680 | 0.810730 | 9.967347e-51 | -8.615850e-47 |
| Msa0064970 | Msa0999220 | 0.808782 | 2.614579e-50 | -8.615850e-47 |
| Msa0064970 | Msa1014540 | 0.801947 | 7.078805e-49 | -8.615850e-47 |
| Msa0064970 | Msa1023050 | 0.817913 | 2.576486e-52 | -8.615850e-47 |
| Msa0064970 | Msa1023830 | 0.800878 | 1.172384e-48 | -8.615850e-47 |
| Msa0064970 | Msa1023950 | 0.813317 | 2.721312e-51 | -8.615850e-47 |
| Msa0064970 | Msa1065570 | 0.802154 | 6.417624e-49 | -8.615850e-47 |
| Msa0064970 | Msa1075650 | 0.823768 | 1.159517e-53 | -8.615850e-47 |
| Msa0064970 | Msa1111150 | 0.802537 | 5.353675e-49 | -8.615850e-47 |
| Msa0064970 | Msa1121490 | 0.811686 | 6.183847e-51 | -8.615850e-47 |
| Msa0064970 | Msa1135220 | 0.810714 | 1.004680e-50 | -8.615850e-47 |
| Msa0064970 | Msa1187950 | 0.822627 | 2.140793e-53 | -8.615850e-47 |
| Msa0064970 | Msa1248300 | 0.813552 | 2.415876e-51 | -8.615850e-47 |
| Msa0064970 | Msa1248310 | 0.805928 | 1.053246e-49 | -8.615850e-47 |
| Msa0064970 | Msa1248370 | 0.822194 | 2.698487e-53 | -8.615850e-47 |
| Msa0064970 | Msa1253000 | 0.810036 | 1.407145e-50 | -8.615850e-47 |
| Msa0064970 | Msa1263300 | 0.801593 | 8.370592e-49 | -8.615850e-47 |
| Msa0064970 | Msa1270230 | 0.801567 | 8.470348e-49 | -8.615850e-47 |
| Msa0064970 | Msa1283330 | 0.805320 | 1.413185e-49 | -8.615850e-47 |
| Msa0064970 | Msa1284680 | 0.848249 | 6.913318e-60 | -8.615850e-47 |
| Msa0064970 | Msa1285930 | 0.807735 | 4.372162e-50 | -8.615850e-47 |
| Msa0064970 | Msa1344520 | 0.825059 | 5.762134e-54 | -8.615850e-47 |
| Msa0064970 | Msa1362670 | 0.800202 | 1.609980e-48 | -8.615850e-47 |
| Msa0064970 | Msa1372760 | 0.807644 | 4.570487e-50 | -8.615850e-47 |
| Msa0064970 | Msa1373030 | 0.805852 | 1.092945e-49 | -8.615850e-47 |
| Msa0064970 | Msa1403480 | 0.804969 | 1.673506e-49 | -8.615850e-47 |
| Msa0064970 | Msa1420290 | 0.804203 | 2.418440e-49 | -8.615850e-47 |
| Msa0064970 | Msa1422180 | 0.807122 | 5.897876e-50 | -8.615850e-47 |
| Msa0064970 | Msa1466540 | 0.814668 | 1.370056e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0064970 | MtrunA17_Chr7g0255021 | 35.106 | 94 | 54 | 2 | 14 | 107 | 75 | 161 | 5.68e-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 |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTTCCAACTTCTTCATTA+AGG | 0.234873 | 1_2:-26459942 | None:intergenic |
| TTCACAAGTGATGTATGATA+TGG | 0.297312 | 1_2:-26459967 | None:intergenic |
| AGGAAACTAACGACACTAAA+AGG | 0.321682 | 1_2:+26460153 | Msa0064970:CDS |
| ATGAGAATTTCATCCTCCTT+TGG | 0.374944 | 1_2:-26460012 | None:intergenic |
| CTCTGATCAATCCCAACAAT+TGG | 0.395664 | 1_2:-26460063 | None:intergenic |
| ATTTCAAAGGATCCAATTGT+TGG | 0.406190 | 1_2:+26460051 | Msa0064970:CDS |
| ATTAACCTTAATGAAGAAGT+TGG | 0.447537 | 1_2:+26459937 | Msa0064970:CDS |
| TTTCAAAGGATCCAATTGTT+GGG | 0.456962 | 1_2:+26460052 | Msa0064970:CDS |
| ATGAAATTCTCATTCAATCA+TGG | 0.497742 | 1_2:+26460022 | Msa0064970:CDS |
| ACACCACAAGTTTGCACTCA+AGG | 0.503579 | 1_2:+26459901 | Msa0064970:CDS |
| AGTTTGCACTCAAGGTGGCT+TGG | 0.506608 | 1_2:+26459909 | Msa0064970:CDS |
| TCACAAGTGATGTATGATAT+GGG | 0.522775 | 1_2:-26459966 | None:intergenic |
| ATCATGGCTCAATATTTCAA+AGG | 0.547059 | 1_2:+26460038 | Msa0064970:CDS |
| GAAAGTAAAATTTCAGCCAA+AGG | 0.574785 | 1_2:+26459996 | Msa0064970:CDS |
| TGGGTTTAAATGGGTAGTAG+TGG | 0.580324 | 1_2:+26459850 | None:intergenic |
| AGTAAAATTTCAGCCAAAGG+AGG | 0.612051 | 1_2:+26459999 | Msa0064970:CDS |
| CCACAAGTTTGCACTCAAGG+TGG | 0.655877 | 1_2:+26459904 | Msa0064970:CDS |
| CCACCTTGAGTGCAAACTTG+TGG | 0.671803 | 1_2:-26459904 | None:intergenic |
| ATTGTTGGGATTGATCAGAG+AGG | 0.736327 | 1_2:+26460066 | Msa0064970:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATTAACCTTAATGAAGAAGT+TGG | + | chr1_2:26459937-26459956 | Msa0064970:CDS | 25.0% |
| ! | AATTTCCAACTTCTTCATTA+AGG | - | chr1_2:26459945-26459964 | None:intergenic | 25.0% |
| ! | ATGAAATTCTCATTCAATCA+TGG | + | chr1_2:26460022-26460041 | Msa0064970:CDS | 25.0% |
| TCACAAGTGATGTATGATAT+GGG | - | chr1_2:26459969-26459988 | None:intergenic | 30.0% | |
| TTCACAAGTGATGTATGATA+TGG | - | chr1_2:26459970-26459989 | None:intergenic | 30.0% | |
| GAAAGTAAAATTTCAGCCAA+AGG | + | chr1_2:26459996-26460015 | Msa0064970:CDS | 30.0% | |
| ATCATGGCTCAATATTTCAA+AGG | + | chr1_2:26460038-26460057 | Msa0064970:CDS | 30.0% | |
| ATTTCAAAGGATCCAATTGT+TGG | + | chr1_2:26460051-26460070 | Msa0064970:CDS | 30.0% | |
| TTTCAAAGGATCCAATTGTT+GGG | + | chr1_2:26460052-26460071 | Msa0064970:CDS | 30.0% | |
| AGTAAAATTTCAGCCAAAGG+AGG | + | chr1_2:26459999-26460018 | Msa0064970:CDS | 35.0% | |
| ATGAGAATTTCATCCTCCTT+TGG | - | chr1_2:26460015-26460034 | None:intergenic | 35.0% | |
| ! | ATCAGAGAGGAGATAGTTTT+TGG | + | chr1_2:26460079-26460098 | Msa0064970:CDS | 35.0% |
| !! | ACGACAAGAATTTTCAAGAG+AGG | + | chr1_2:26460133-26460152 | Msa0064970:CDS | 35.0% |
| AGGAAACTAACGACACTAAA+AGG | + | chr1_2:26460153-26460172 | Msa0064970:CDS | 35.0% | |
| CTCTGATCAATCCCAACAAT+TGG | - | chr1_2:26460066-26460085 | None:intergenic | 40.0% | |
| ATTGTTGGGATTGATCAGAG+AGG | + | chr1_2:26460066-26460085 | Msa0064970:CDS | 40.0% | |
| !! | GAGGAGATAGTTTTTGGAAG+AGG | + | chr1_2:26460085-26460104 | Msa0064970:CDS | 40.0% |
| ACACCACAAGTTTGCACTCA+AGG | + | chr1_2:26459901-26459920 | Msa0064970:CDS | 45.0% | |
| CCACCTTGAGTGCAAACTTG+TGG | - | chr1_2:26459907-26459926 | None:intergenic | 50.0% | |
| CCACAAGTTTGCACTCAAGG+TGG | + | chr1_2:26459904-26459923 | Msa0064970:CDS | 50.0% | |
| AGTTTGCACTCAAGGTGGCT+TGG | + | chr1_2:26459909-26459928 | Msa0064970:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 26459859 | 26460182 | 26459859 | ID=Msa0064970;Name=Msa0064970 |
| chr1_2 | mRNA | 26459859 | 26460182 | 26459859 | ID=Msa0064970-mRNA-1;Parent=Msa0064970;Name=Msa0064970-mRNA-1;_AED=0.36;_eAED=0.37;_QI=0|-1|0|1|-1|1|1|0|107 |
| chr1_2 | exon | 26459859 | 26460182 | 26459859 | ID=Msa0064970-mRNA-1:exon:9383;Parent=Msa0064970-mRNA-1 |
| chr1_2 | CDS | 26459859 | 26460182 | 26459859 | ID=Msa0064970-mRNA-1:cds;Parent=Msa0064970-mRNA-1 |
| Gene Sequence |
| Protein sequence |
