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.gene99942.t1 | XP_003614713.1 | 98.4 | 61 | 1 | 0 | 1 | 61 | 105 | 165 | 3.20E-25 | 123.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene99942.t1 | Q6IDL4 | 63.3 | 60 | 22 | 0 | 2 | 61 | 111 | 170 | 1.8e-16 | 85.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene99942.t1 | G7JXB5 | 98.4 | 61 | 1 | 0 | 1 | 61 | 105 | 165 | 2.3e-25 | 123.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04918 | MS.gene99942 | 0.823325 | 1.47E-53 | -1.69E-46 |
| MS.gene04920 | MS.gene99942 | 0.809256 | 2.07E-50 | -1.69E-46 |
| MS.gene050838 | MS.gene99942 | 0.810824 | 9.51E-51 | -1.69E-46 |
| MS.gene051003 | MS.gene99942 | 0.813304 | 2.74E-51 | -1.69E-46 |
| MS.gene051676 | MS.gene99942 | 0.80237 | 5.80E-49 | -1.69E-46 |
| MS.gene051902 | MS.gene99942 | 0.810011 | 1.42E-50 | -1.69E-46 |
| MS.gene052463 | MS.gene99942 | 0.80525 | 1.46E-49 | -1.69E-46 |
| MS.gene053564 | MS.gene99942 | 0.812699 | 3.72E-51 | -1.69E-46 |
| MS.gene053786 | MS.gene99942 | 0.832603 | 8.60E-56 | -1.69E-46 |
| MS.gene055513 | MS.gene99942 | 0.803606 | 3.22E-49 | -1.69E-46 |
| MS.gene056390 | MS.gene99942 | 0.807301 | 5.41E-50 | -1.69E-46 |
| MS.gene056986 | MS.gene99942 | 0.806081 | 9.78E-50 | -1.69E-46 |
| MS.gene058159 | MS.gene99942 | 0.828186 | 1.03E-54 | -1.69E-46 |
| MS.gene059170 | MS.gene99942 | 0.817846 | 2.67E-52 | -1.69E-46 |
| MS.gene06011 | MS.gene99942 | 0.806171 | 9.36E-50 | -1.69E-46 |
| MS.gene061100 | MS.gene99942 | 0.813675 | 2.27E-51 | -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.gene99942.t1 | MTR_5g058140 | 98.361 | 61 | 1 | 0 | 1 | 61 | 105 | 165 | 7.58e-37 | 122 |
| MS.gene99942.t1 | MTR_3g072600 | 72.131 | 61 | 16 | 1 | 1 | 61 | 111 | 170 | 3.24e-24 | 90.1 |
| MS.gene99942.t1 | MTR_8g088940 | 82.000 | 50 | 9 | 0 | 10 | 59 | 113 | 162 | 5.03e-23 | 86.7 |
| MS.gene99942.t1 | MTR_2g007210 | 70.175 | 57 | 17 | 0 | 5 | 61 | 103 | 159 | 5.87e-23 | 86.7 |
| MS.gene99942.t1 | MTR_8g088980 | 78.846 | 52 | 11 | 0 | 10 | 61 | 64 | 115 | 8.56e-23 | 85.1 |
| MS.gene99942.t1 | MTR_4g082315 | 46.429 | 56 | 30 | 0 | 6 | 61 | 114 | 169 | 9.02e-15 | 65.5 |
| MS.gene99942.t1 | MTR_6g012770 | 43.396 | 53 | 30 | 0 | 9 | 61 | 113 | 165 | 1.05e-12 | 60.1 |
| MS.gene99942.t1 | MTR_7g011490 | 39.286 | 56 | 34 | 0 | 4 | 59 | 108 | 163 | 2.70e-11 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene99942.t1 | AT1G09580 | 63.333 | 60 | 22 | 0 | 2 | 61 | 111 | 170 | 2.78e-22 | 85.1 |
| MS.gene99942.t1 | AT1G57620 | 64.912 | 57 | 20 | 0 | 5 | 61 | 109 | 165 | 1.26e-21 | 83.2 |
| MS.gene99942.t1 | AT1G21900 | 57.895 | 57 | 24 | 0 | 5 | 61 | 113 | 169 | 3.80e-18 | 74.3 |
| MS.gene99942.t1 | AT3G10780 | 66.038 | 53 | 18 | 0 | 7 | 59 | 116 | 168 | 3.94e-16 | 68.9 |
| MS.gene99942.t1 | AT1G14010 | 44.643 | 56 | 31 | 0 | 6 | 61 | 110 | 165 | 2.48e-14 | 64.3 |
| MS.gene99942.t1 | AT1G26690 | 41.071 | 56 | 33 | 0 | 6 | 61 | 112 | 167 | 2.33e-13 | 61.6 |
| MS.gene99942.t1 | AT1G69460 | 41.071 | 56 | 33 | 0 | 6 | 61 | 112 | 167 | 9.72e-12 | 57.4 |
| MS.gene99942.t1 | AT2G03040 | 37.500 | 56 | 35 | 0 | 6 | 61 | 111 | 166 | 1.15e-11 | 56.6 |
| MS.gene99942.t1 | AT2G03290 | 37.500 | 56 | 35 | 0 | 6 | 61 | 111 | 166 | 2.30e-11 | 56.2 |
Find 14 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCAGCCTTGATTGGAAAAC+TGG | 0.328485 | 5.3:-46305818 | MS.gene99942:CDS |
| CTGACACTTACACTACCTTC+TGG | 0.357413 | 5.3:+46305836 | None:intergenic |
| CGATTATCTAATTTATTTGA+AGG | 0.366207 | 5.3:-46305588 | MS.gene99942:CDS |
| TGGAATTTCAGCAAAGGATT+GGG | 0.395382 | 5.3:-46305798 | MS.gene99942:CDS |
| CTGGAATTTCAGCAAAGGAT+TGG | 0.405549 | 5.3:-46305799 | MS.gene99942:CDS |
| AGGGTGTTGAACTTGAAATC+AGG | 0.420862 | 5.3:-46305640 | MS.gene99942:CDS |
| GTGTAAGTGTCAGCCTTGAT+TGG | 0.480040 | 5.3:-46305826 | MS.gene99942:CDS |
| TGACACTTACACTACCTTCT+GGG | 0.510439 | 5.3:+46305837 | None:intergenic |
| GAAAACTGGAATTTCAGCAA+AGG | 0.546642 | 5.3:-46305804 | MS.gene99942:CDS |
| TCAAATAAATTAGATAATCG+TGG | 0.574741 | 5.3:+46305591 | None:intergenic |
| ATAAATTAGATAATCGTGGA+TGG | 0.583572 | 5.3:+46305595 | None:intergenic |
| CTTGAAATCAGGAAGCTCGA+AGG | 0.630601 | 5.3:-46305629 | MS.gene99942:CDS |
| TGCAAAGAAAGAAAAGATTG+AGG | 0.640940 | 5.3:-46305768 | MS.gene99942:intron |
| ATGGAAGGAAAACACCCAGA+AGG | 0.668528 | 5.3:-46305851 | MS.gene99942:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATAAGCAAAACATTAATA+TGG | + | chr5.3:46305690-46305709 | None:intergenic | 15.0% |
| !! | CGATTATCTAATTTATTTGA+AGG | - | chr5.3:46305782-46305801 | MS.gene99942:CDS | 20.0% |
| !! | TCAAATAAATTAGATAATCG+TGG | + | chr5.3:46305782-46305801 | None:intergenic | 20.0% |
| ! | ATAAATTAGATAATCGTGGA+TGG | + | chr5.3:46305778-46305797 | None:intergenic | 25.0% |
| ! | ATTTCAGTTTGATTAGATCA+GGG | - | chr5.3:46305840-46305859 | MS.gene99942:CDS | 25.0% |
| !!! | CTTATATGATTTGTTTGCTT+TGG | - | chr5.3:46305703-46305722 | MS.gene99942:intron | 25.0% |
| GATTTCAGTTTGATTAGATC+AGG | - | chr5.3:46305839-46305858 | MS.gene99942:CDS | 30.0% | |
| TGCAAAGAAAGAAAAGATTG+AGG | - | chr5.3:46305602-46305621 | MS.gene99942:CDS | 30.0% | |
| ! | AAATTCCAGTTTTCCAATCA+AGG | + | chr5.3:46305560-46305579 | None:intergenic | 30.0% |
| ! | ATTTGTTTGCTTTGGTTCAA+GGG | - | chr5.3:46305711-46305730 | MS.gene99942:intron | 30.0% |
| ! | TTCTTTTTGTGGCATATGAA+CGG | - | chr5.3:46305656-46305675 | MS.gene99942:intron | 30.0% |
| !!! | TGCTGTGTTTTTTCTTTTTG+TGG | - | chr5.3:46305645-46305664 | MS.gene99942:intron | 30.0% |
| GAAAACTGGAATTTCAGCAA+AGG | - | chr5.3:46305566-46305585 | MS.gene99942:intron | 35.0% | |
| TGGAATTTCAGCAAAGGATT+GGG | - | chr5.3:46305572-46305591 | MS.gene99942:intron | 35.0% | |
| ! | GATTTGTTTGCTTTGGTTCA+AGG | - | chr5.3:46305710-46305729 | MS.gene99942:intron | 35.0% |
| CTGGAATTTCAGCAAAGGAT+TGG | - | chr5.3:46305571-46305590 | MS.gene99942:intron | 40.0% | |
| TGACACTTACACTACCTTCT+GGG | + | chr5.3:46305536-46305555 | None:intergenic | 40.0% | |
| !! | AGGGTGTTGAACTTGAAATC+AGG | - | chr5.3:46305730-46305749 | MS.gene99942:intron | 40.0% |
| ATGGAAGGAAAACACCCAGA+AGG | - | chr5.3:46305519-46305538 | MS.gene99942:intron | 45.0% | |
| CTGACACTTACACTACCTTC+TGG | + | chr5.3:46305537-46305556 | None:intergenic | 45.0% | |
| CTTGAAATCAGGAAGCTCGA+AGG | - | chr5.3:46305741-46305760 | MS.gene99942:intron | 45.0% | |
| GTCAGCCTTGATTGGAAAAC+TGG | - | chr5.3:46305552-46305571 | MS.gene99942:intron | 45.0% | |
| GTGTAAGTGTCAGCCTTGAT+TGG | - | chr5.3:46305544-46305563 | MS.gene99942:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 46305519 | 46305873 | 46305519 | ID=MS.gene99942 |
| chr5.3 | mRNA | 46305519 | 46305873 | 46305519 | ID=MS.gene99942.t1;Parent=MS.gene99942 |
| chr5.3 | exon | 46305769 | 46305873 | 46305769 | ID=MS.gene99942.t1.exon1;Parent=MS.gene99942.t1 |
| chr5.3 | CDS | 46305769 | 46305873 | 46305769 | ID=cds.MS.gene99942.t1;Parent=MS.gene99942.t1 |
| chr5.3 | exon | 46305584 | 46305660 | 46305584 | ID=MS.gene99942.t1.exon2;Parent=MS.gene99942.t1 |
| chr5.3 | CDS | 46305584 | 46305660 | 46305584 | ID=cds.MS.gene99942.t1;Parent=MS.gene99942.t1 |
| chr5.3 | exon | 46305519 | 46305531 | 46305519 | ID=MS.gene99942.t1.exon3;Parent=MS.gene99942.t1 |
| chr5.3 | CDS | 46305519 | 46305531 | 46305519 | ID=cds.MS.gene99942.t1;Parent=MS.gene99942.t1 |
| Gene Sequence |
| Protein sequence |
