Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38601.t1 | XP_003602846.1 | 96.8 | 63 | 2 | 0 | 1 | 63 | 17 | 79 | 4.20E-28 | 133.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38601.t1 | Q41001 | 87.5 | 64 | 7 | 1 | 1 | 63 | 18 | 81 | 2.6e-26 | 118.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38601.t1 | B7FHG1 | 96.8 | 63 | 2 | 0 | 1 | 63 | 17 | 79 | 3.0e-28 | 133.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051719 | MS.gene38601 | 0.805445 | 1.33E-49 | -1.69E-46 |
| MS.gene051720 | MS.gene38601 | 0.802743 | 4.85E-49 | -1.69E-46 |
| MS.gene054584 | MS.gene38601 | 0.802548 | 5.32E-49 | -1.69E-46 |
| MS.gene054799 | MS.gene38601 | 0.844982 | 5.39E-59 | -1.69E-46 |
| MS.gene054801 | MS.gene38601 | 0.826373 | 2.81E-54 | -1.69E-46 |
| MS.gene054805 | MS.gene38601 | 0.813527 | 2.45E-51 | -1.69E-46 |
| MS.gene055465 | MS.gene38601 | 0.803405 | 3.54E-49 | -1.69E-46 |
| MS.gene055466 | MS.gene38601 | 0.815947 | 7.12E-52 | -1.69E-46 |
| MS.gene059272 | MS.gene38601 | 0.810017 | 1.42E-50 | -1.69E-46 |
| MS.gene060652 | MS.gene38601 | 0.819033 | 1.44E-52 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38601.t1 | MTR_3g099580 | 96.825 | 63 | 2 | 0 | 1 | 63 | 17 | 79 | 2.53e-39 | 127 |
| MS.gene38601.t1 | MTR_3g099570 | 84.127 | 63 | 10 | 0 | 1 | 63 | 17 | 79 | 2.31e-33 | 112 |
| MS.gene38601.t1 | MTR_3g099680 | 77.778 | 63 | 13 | 1 | 1 | 62 | 17 | 79 | 6.81e-28 | 99.8 |
| MS.gene38601.t1 | MTR_3g099540 | 73.016 | 63 | 17 | 0 | 1 | 63 | 18 | 80 | 1.56e-27 | 96.3 |
| MS.gene38601.t1 | MTR_3g099980 | 77.778 | 63 | 13 | 1 | 1 | 62 | 17 | 79 | 3.54e-27 | 97.8 |
| MS.gene38601.t1 | MTR_8g007035 | 63.492 | 63 | 22 | 1 | 1 | 62 | 14 | 76 | 1.45e-21 | 82.8 |
| MS.gene38601.t1 | MTR_8g007020 | 60.317 | 63 | 24 | 1 | 1 | 62 | 14 | 76 | 4.78e-19 | 76.3 |
| MS.gene38601.t1 | MTR_1g090190 | 46.429 | 56 | 30 | 0 | 7 | 62 | 20 | 75 | 2.18e-14 | 63.9 |
| MS.gene38601.t1 | MTR_7g086140 | 52.632 | 57 | 26 | 1 | 6 | 61 | 22 | 78 | 6.41e-14 | 62.4 |
| MS.gene38601.t1 | MTR_7g086190 | 52.632 | 57 | 26 | 1 | 6 | 61 | 22 | 78 | 6.41e-14 | 62.4 |
| MS.gene38601.t1 | MTR_6g023760 | 51.786 | 56 | 26 | 1 | 6 | 60 | 22 | 77 | 1.44e-12 | 58.9 |
| MS.gene38601.t1 | MTR_4g114870 | 51.724 | 58 | 23 | 2 | 8 | 60 | 27 | 84 | 2.58e-12 | 59.7 |
| MS.gene38601.t1 | MTR_1g105130 | 47.368 | 57 | 29 | 1 | 6 | 61 | 21 | 77 | 3.17e-12 | 57.8 |
| MS.gene38601.t1 | MTR_1g105120 | 47.368 | 57 | 29 | 1 | 6 | 61 | 21 | 77 | 3.17e-12 | 57.8 |
| MS.gene38601.t1 | MTR_7g086160 | 50.000 | 56 | 27 | 1 | 7 | 61 | 24 | 79 | 3.54e-12 | 57.8 |
| MS.gene38601.t1 | MTR_1g112700 | 44.068 | 59 | 32 | 1 | 5 | 62 | 28 | 86 | 2.16e-11 | 56.2 |
| MS.gene38601.t1 | MTR_7g086090 | 50.980 | 51 | 24 | 1 | 12 | 61 | 28 | 78 | 2.36e-11 | 56.6 |
| MS.gene38601.t1 | MTR_0334s0010 | 46.296 | 54 | 26 | 1 | 10 | 60 | 28 | 81 | 2.60e-11 | 56.2 |
| MS.gene38601.t1 | MTR_4g081100 | 50.877 | 57 | 23 | 2 | 12 | 63 | 34 | 90 | 4.53e-11 | 55.8 |
| MS.gene38601.t1 | MTR_7g086220 | 43.860 | 57 | 31 | 1 | 6 | 61 | 21 | 77 | 4.65e-11 | 54.7 |
| MS.gene38601.t1 | MTR_7g086280 | 46.296 | 54 | 28 | 1 | 12 | 64 | 28 | 81 | 8.97e-11 | 54.3 |
| MS.gene38601.t1 | MTR_7g086230 | 46.296 | 54 | 28 | 1 | 12 | 64 | 28 | 81 | 9.26e-11 | 54.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38601.t1 | AT1G72230 | 71.739 | 46 | 13 | 0 | 18 | 63 | 31 | 76 | 6.90e-20 | 78.2 |
| MS.gene38601.t1 | AT1G22480 | 67.391 | 46 | 15 | 0 | 18 | 63 | 27 | 72 | 2.63e-18 | 73.9 |
| MS.gene38601.t1 | AT2G32300 | 52.632 | 57 | 26 | 1 | 5 | 60 | 21 | 77 | 4.88e-15 | 67.0 |
| MS.gene38601.t1 | AT2G32300 | 52.632 | 57 | 26 | 1 | 5 | 60 | 51 | 107 | 8.94e-15 | 66.6 |
| MS.gene38601.t1 | AT3G60270 | 49.123 | 57 | 29 | 0 | 6 | 62 | 22 | 78 | 2.47e-14 | 63.9 |
| MS.gene38601.t1 | AT5G07475 | 48.214 | 56 | 29 | 0 | 7 | 62 | 27 | 82 | 8.20e-13 | 60.1 |
| MS.gene38601.t1 | AT2G31050 | 58.182 | 55 | 21 | 2 | 8 | 60 | 27 | 81 | 1.61e-12 | 59.3 |
| MS.gene38601.t1 | AT3G27200 | 44.068 | 59 | 32 | 1 | 6 | 63 | 22 | 80 | 5.67e-12 | 57.4 |
| MS.gene38601.t1 | AT2G26720 | 47.541 | 61 | 30 | 2 | 8 | 66 | 27 | 87 | 1.39e-11 | 57.0 |
Find 18 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATAAATCAGGTTGGGCAAT+TGG | 0.365257 | 3.3:-82011458 | MS.gene38601:CDS |
| GACTATAAATCATGCACAAC+TGG | 0.368543 | 3.3:-82011162 | MS.gene38601:CDS |
| ACTATGACAGTGTTCAACTA+TGG | 0.385966 | 3.3:-82011219 | MS.gene38601:intron |
| CACACCGTTGGAGATAAATC+AGG | 0.494660 | 3.3:-82011470 | MS.gene38601:CDS |
| GGCTAGTGACAAAACATTTG+CGG | 0.495560 | 3.3:-82011417 | MS.gene38601:CDS |
| TTTGCGGTTGGTGACAGTCT+TGG | 0.500707 | 3.3:-82011401 | MS.gene38601:intron |
| CGTTGGAGATAAATCAGGTT+GGG | 0.514147 | 3.3:-82011465 | MS.gene38601:CDS |
| CTTGCAACTGTCCACACCGT+TGG | 0.529565 | 3.3:-82011482 | MS.gene38601:CDS |
| CCAACCTGATTTATCTCCAA+CGG | 0.588831 | 3.3:+82011466 | None:intergenic |
| GTGTGGACAGTTGCAAGAGT+TGG | 0.591396 | 3.3:+82011488 | None:intergenic |
| AGTGACAAAACATTTGCGGT+TGG | 0.594495 | 3.3:-82011413 | MS.gene38601:CDS |
| CTTTAACTTCATCCACTGTG+TGG | 0.606822 | 3.3:+82011190 | None:intergenic |
| ACAGTGTTCAACTATGGTGC+TGG | 0.611527 | 3.3:-82011213 | MS.gene38601:intron |
| TTGGTTCTGATTATAACACA+TGG | 0.617869 | 3.3:-82011439 | MS.gene38601:CDS |
| CCGTTGGAGATAAATCAGGT+TGG | 0.633245 | 3.3:-82011466 | MS.gene38601:CDS |
| TGGTTCTGATTATAACACAT+GGG | 0.658992 | 3.3:-82011438 | MS.gene38601:CDS |
| CTGATTTATCTCCAACGGTG+TGG | 0.663800 | 3.3:+82011471 | None:intergenic |
| CTATGGTGCTGGCCACACAG+TGG | 0.772990 | 3.3:-82011202 | MS.gene38601:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATATTAGATTTGTAAATTG+TGG | + | chr3.3:82011401-82011420 | None:intergenic | 15.0% |
| !! | TGGTTCTGATTATAACACAT+GGG | - | chr3.3:82011211-82011230 | MS.gene38601:CDS | 30.0% |
| !! | TTGGTTCTGATTATAACACA+TGG | - | chr3.3:82011210-82011229 | MS.gene38601:CDS | 30.0% |
| ACTATGACAGTGTTCAACTA+TGG | - | chr3.3:82011430-82011449 | MS.gene38601:CDS | 35.0% | |
| GACTATAAATCATGCACAAC+TGG | - | chr3.3:82011487-82011506 | MS.gene38601:CDS | 35.0% | |
| AGTGACAAAACATTTGCGGT+TGG | - | chr3.3:82011236-82011255 | MS.gene38601:intron | 40.0% | |
| CCAACCTGATTTATCTCCAA+CGG | + | chr3.3:82011186-82011205 | None:intergenic | 40.0% | |
| CGTTGGAGATAAATCAGGTT+GGG | - | chr3.3:82011184-82011203 | MS.gene38601:CDS | 40.0% | |
| GGCTAGTGACAAAACATTTG+CGG | - | chr3.3:82011232-82011251 | MS.gene38601:intron | 40.0% | |
| ! | CTTTAACTTCATCCACTGTG+TGG | + | chr3.3:82011462-82011481 | None:intergenic | 40.0% |
| !! | GATAAATCAGGTTGGGCAAT+TGG | - | chr3.3:82011191-82011210 | MS.gene38601:CDS | 40.0% |
| ACAGTGTTCAACTATGGTGC+TGG | - | chr3.3:82011436-82011455 | MS.gene38601:CDS | 45.0% | |
| CACACCGTTGGAGATAAATC+AGG | - | chr3.3:82011179-82011198 | MS.gene38601:CDS | 45.0% | |
| CCGTTGGAGATAAATCAGGT+TGG | - | chr3.3:82011183-82011202 | MS.gene38601:CDS | 45.0% | |
| CTGATTTATCTCCAACGGTG+TGG | + | chr3.3:82011181-82011200 | None:intergenic | 45.0% | |
| GTGTGGACAGTTGCAAGAGT+TGG | + | chr3.3:82011164-82011183 | None:intergenic | 50.0% | |
| !! | TTTGCGGTTGGTGACAGTCT+TGG | - | chr3.3:82011248-82011267 | MS.gene38601:intron | 50.0% |
| CTTGCAACTGTCCACACCGT+TGG | - | chr3.3:82011167-82011186 | MS.gene38601:CDS | 55.0% | |
| !! | CTATGGTGCTGGCCACACAG+TGG | - | chr3.3:82011447-82011466 | MS.gene38601:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 82011152 | 82011519 | 82011152 | ID=MS.gene38601 |
| chr3.3 | mRNA | 82011152 | 82011519 | 82011152 | ID=MS.gene38601.t1;Parent=MS.gene38601 |
| chr3.3 | exon | 82011402 | 82011519 | 82011402 | ID=MS.gene38601.t1.exon1;Parent=MS.gene38601.t1 |
| chr3.3 | CDS | 82011402 | 82011519 | 82011402 | ID=cds.MS.gene38601.t1;Parent=MS.gene38601.t1 |
| chr3.3 | exon | 82011152 | 82011231 | 82011152 | ID=MS.gene38601.t1.exon2;Parent=MS.gene38601.t1 |
| chr3.3 | CDS | 82011152 | 82011231 | 82011152 | ID=cds.MS.gene38601.t1;Parent=MS.gene38601.t1 |
| Gene Sequence |
| Protein sequence |
