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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0682630 | XP_003606464.1 | 88.298 | 94 | 9 | 1 | 1 | 92 | 1 | 94 | 3.97e-43 | 145 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0682630 | G7JQH1 | 88.298 | 94 | 9 | 1 | 1 | 92 | 1 | 94 | 1.90e-43 | 145 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa0682630 | 0.841135 | 5.710593e-58 | -8.615850e-47 |
| Msa0028640 | Msa0682630 | 0.802942 | 4.415285e-49 | -8.615850e-47 |
| Msa0031340 | Msa0682630 | 0.812639 | 3.831025e-51 | -8.615850e-47 |
| Msa0040450 | Msa0682630 | 0.804740 | 1.868673e-49 | -8.615850e-47 |
| Msa0110970 | Msa0682630 | 0.801758 | 7.740993e-49 | -8.615850e-47 |
| Msa0112750 | Msa0682630 | 0.800043 | 1.734376e-48 | -8.615850e-47 |
| Msa0641360 | Msa0682630 | 0.811479 | 6.858810e-51 | -8.615850e-47 |
| Msa0657970 | Msa0682630 | 0.839954 | 1.163332e-57 | -8.615850e-47 |
| Msa0669440 | Msa0682630 | 0.812833 | 3.475109e-51 | -8.615850e-47 |
| Msa0682620 | Msa0682630 | 0.821303 | 4.336692e-53 | -8.615850e-47 |
| Msa0682630 | Msa0688770 | 0.822276 | 2.582599e-53 | -8.615850e-47 |
| Msa0682630 | Msa0696640 | 0.803737 | 3.021974e-49 | -8.615850e-47 |
| Msa0682630 | Msa0759410 | 0.808387 | 3.175437e-50 | -8.615850e-47 |
| Msa0682630 | Msa0838580 | 0.802644 | 5.086991e-49 | -8.615850e-47 |
| Msa0682630 | Msa0880140 | 0.837532 | 4.916673e-57 | -8.615850e-47 |
| Msa0682630 | Msa0909120 | 0.823377 | 1.431183e-53 | -8.615850e-47 |
| Msa0682630 | Msa0909140 | 0.807065 | 6.062698e-50 | -8.615850e-47 |
| Msa0682630 | Msa1075220 | -0.800080 | 1.704285e-48 | -8.615850e-47 |
| Msa0682630 | Msa1082500 | 0.819856 | 9.324996e-53 | -8.615850e-47 |
| Msa0682630 | Msa1085200 | 0.819500 | 1.124043e-52 | -8.615850e-47 |
| Msa0682630 | Msa1168160 | 0.803252 | 3.809596e-49 | -8.615850e-47 |
| Msa0682630 | Msa1172670 | 0.815892 | 7.324437e-52 | -8.615850e-47 |
| Msa0682630 | Msa1242220 | 0.809813 | 1.571870e-50 | -8.615850e-47 |
| Msa0682630 | Msa1242230 | 0.800156 | 1.645117e-48 | -8.615850e-47 |
| Msa0682630 | Msa1283860 | 0.828213 | 1.018801e-54 | -8.615850e-47 |
| Msa0682630 | Msa1305340 | 0.801295 | 9.631501e-49 | -8.615850e-47 |
| Msa0682630 | Msa1322890 | 0.812832 | 3.475823e-51 | -8.615850e-47 |
| Msa0682630 | Msa1324500 | 0.804269 | 2.343098e-49 | -8.615850e-47 |
| Msa0682630 | Msa1324550 | 0.804651 | 1.950170e-49 | -8.615850e-47 |
| Msa0682630 | Msa1374550 | 0.802444 | 5.593619e-49 | -8.615850e-47 |
| Msa0682630 | Msa1392260 | 0.814090 | 1.839095e-51 | -8.615850e-47 |
| Msa0682630 | Msa1409870 | 0.804266 | 2.346395e-49 | -8.615850e-47 |
| Msa0682630 | Msa1438250 | 0.823230 | 1.548842e-53 | -8.615850e-47 |
| Msa0682630 | Msa1464940 | 0.809490 | 1.844283e-50 | -8.615850e-47 |
| Msa0140780 | Msa0682630 | 0.827346 | 1.645887e-54 | -8.615850e-47 |
| Msa0157290 | Msa0682630 | 0.840918 | 6.510814e-58 | -8.615850e-47 |
| Msa0188830 | Msa0682630 | 0.805205 | 1.493783e-49 | -8.615850e-47 |
| Msa0200260 | Msa0682630 | 0.824039 | 1.001463e-53 | -8.615850e-47 |
| Msa0202950 | Msa0682630 | 0.811443 | 6.984482e-51 | -8.615850e-47 |
| Msa0220580 | Msa0682630 | 0.807350 | 5.275270e-50 | -8.615850e-47 |
| Msa0220740 | Msa0682630 | 0.800361 | 1.494135e-48 | -8.615850e-47 |
| Msa0221060 | Msa0682630 | 0.803448 | 3.469974e-49 | -8.615850e-47 |
| Msa0221290 | Msa0682630 | 0.814697 | 1.350075e-51 | -8.615850e-47 |
| Msa0373930 | Msa0682630 | 0.802541 | 5.343664e-49 | -8.615850e-47 |
| Msa0376350 | Msa0682630 | 0.806440 | 8.215876e-50 | -8.615850e-47 |
| Msa0410650 | Msa0682630 | 0.815879 | 7.373121e-52 | -8.615850e-47 |
| Msa0424790 | Msa0682630 | 0.801920 | 7.170017e-49 | -8.615850e-47 |
| Msa0243100 | Msa0682630 | 0.849619 | 2.879404e-60 | -8.615850e-47 |
| Msa0244860 | Msa0682630 | 0.817685 | 2.901178e-52 | -8.615850e-47 |
| Msa0283450 | Msa0682630 | 0.807657 | 4.541517e-50 | -8.615850e-47 |
| Msa0284420 | Msa0682630 | 0.819659 | 1.033877e-52 | -8.615850e-47 |
| Msa0287650 | Msa0682630 | 0.827707 | 1.348430e-54 | -8.615850e-47 |
| Msa0338110 | Msa0682630 | 0.807844 | 4.144662e-50 | -8.615850e-47 |
| Msa0357340 | Msa0682630 | 0.801950 | 7.068361e-49 | -8.615850e-47 |
| Msa0484780 | Msa0682630 | 0.805879 | 1.078706e-49 | -8.615850e-47 |
| Msa0507680 | Msa0682630 | 0.817525 | 3.152852e-52 | -8.615850e-47 |
| Msa0512900 | Msa0682630 | 0.804888 | 1.739986e-49 | -8.615850e-47 |
| Msa0516170 | Msa0682630 | 0.811557 | 6.596973e-51 | -8.615850e-47 |
| Msa0523460 | Msa0682630 | 0.802361 | 5.819579e-49 | -8.615850e-47 |
| Msa0602240 | Msa0682630 | 0.874123 | 8.633425e-68 | -8.615850e-47 |
| Msa0602250 | Msa0682630 | 0.875155 | 3.850354e-68 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0682630 | MtrunA17_Chr4g0029791 | 88.298 | 94 | 9 | 1 | 1 | 92 | 1 | 94 | 3.65e-47 | 145 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAGTTCCTCTCTGTCTTTC+TGG | 0.075036 | 4_4:+44505166 | Msa0682630:CDS |
| GTTTAACATGGACTGCATTT+TGG | 0.222924 | 4_4:-44505128 | None:intergenic |
| TGATGATGATCTTGAAGATC+TGG | 0.442771 | 4_4:+44505459 | Msa0682630:CDS |
| AGTGCATGCAAATCAAGAAA+AGG | 0.472454 | 4_4:+44505393 | Msa0682630:CDS |
| CTGTCTCTTACTTATCTCCC+AGG | 0.495221 | 4_4:+44505499 | Msa0682630:CDS |
| TTAAACCTTCGTGCTACTCA+TGG | 0.498021 | 4_4:+44505145 | Msa0682630:CDS |
| GTGCATGCAAATCAAGAAAA+GGG | 0.524986 | 4_4:+44505394 | Msa0682630:CDS |
| TACTCTTTGGAAAGAGCAAG+AGG | 0.575505 | 4_4:-44505199 | None:intergenic |
| TTTGGAAAGAGCAAGAGGGT+TGG | 0.601098 | 4_4:-44505194 | None:intergenic |
| AAAAGGATGGGAAATAAAGG+AGG | 0.624688 | 4_4:-44505077 | None:intergenic |
| ACTCTTTGGAAAGAGCAAGA+GGG | 0.667434 | 4_4:-44505198 | None:intergenic |
| AGTAGCACGAAGGTTTAACA+TGG | 0.672060 | 4_4:-44505140 | None:intergenic |
| GTGATTCCAGAAAGACAGAG+AGG | 0.712435 | 4_4:-44505172 | None:intergenic |
| GAACTCCATGAGTAGCACGA+AGG | 0.732005 | 4_4:-44505150 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAAATTAATTTACTCTT+TGG | - | chr4_4:44505215-44505234 | None:intergenic | 10.0% |
| !! | TGATATATGTTTGAATTTGA+TGG | + | chr4_4:44505315-44505334 | Msa0682630:intron | 20.0% |
| !! | TTTTCTAGGTAAAGGAAAAA+AGG | - | chr4_4:44505097-44505116 | None:intergenic | 25.0% |
| !!! | GTTTTGTTTTTTCTAGGTAA+AGG | - | chr4_4:44505105-44505124 | None:intergenic | 25.0% |
| !!! | TGGTTTGTTTTGTTTTTTCT+AGG | - | chr4_4:44505111-44505130 | None:intergenic | 25.0% |
| !! | CTCATATCTTTTTCTTTCTT+CGG | - | chr4_4:44505361-44505380 | None:intergenic | 25.0% |
| !! | TCAAAGAAACAATGATTTTG+TGG | + | chr4_4:44505426-44505445 | Msa0682630:CDS | 25.0% |
| GAAAAAAGGATGGGAAATAA+AGG | - | chr4_4:44505083-44505102 | None:intergenic | 30.0% | |
| TAGGTAAAGGAAAAAAGGAT+GGG | - | chr4_4:44505092-44505111 | None:intergenic | 30.0% | |
| CGAAGAAAGAAAAAGATATG+AGG | + | chr4_4:44505359-44505378 | Msa0682630:CDS | 30.0% | |
| ! | AATGATTTTGTGGAGATGAA+AGG | + | chr4_4:44505436-44505455 | Msa0682630:CDS | 30.0% |
| AAAAGGATGGGAAATAAAGG+AGG | - | chr4_4:44505080-44505099 | None:intergenic | 35.0% | |
| CTAGGTAAAGGAAAAAAGGA+TGG | - | chr4_4:44505093-44505112 | None:intergenic | 35.0% | |
| !! | GTTTAACATGGACTGCATTT+TGG | - | chr4_4:44505131-44505150 | None:intergenic | 35.0% |
| GTGAGATCATAGATCAAAAG+AGG | - | chr4_4:44505257-44505276 | None:intergenic | 35.0% | |
| !! | ATGTTTGAATTTGATGGTGC+AGG | + | chr4_4:44505321-44505340 | Msa0682630:intron | 35.0% |
| AGTGCATGCAAATCAAGAAA+AGG | + | chr4_4:44505393-44505412 | Msa0682630:CDS | 35.0% | |
| GTGCATGCAAATCAAGAAAA+GGG | + | chr4_4:44505394-44505413 | Msa0682630:CDS | 35.0% | |
| ! | TGATGATGATCTTGAAGATC+TGG | + | chr4_4:44505459-44505478 | Msa0682630:CDS | 35.0% |
| AGTAGCACGAAGGTTTAACA+TGG | - | chr4_4:44505143-44505162 | None:intergenic | 40.0% | |
| ! | TTAAACCTTCGTGCTACTCA+TGG | + | chr4_4:44505145-44505164 | Msa0682630:CDS | 40.0% |
| ! | ACTCTTTGGAAAGAGCAAGA+GGG | - | chr4_4:44505201-44505220 | None:intergenic | 40.0% |
| ! | TACTCTTTGGAAAGAGCAAG+AGG | - | chr4_4:44505202-44505221 | None:intergenic | 40.0% |
| !! | TTGAATTTGATGGTGCAGGA+TGG | + | chr4_4:44505325-44505344 | Msa0682630:intron | 40.0% |
| ! | CAGCTTTTGCTGATAAACCT+GGG | - | chr4_4:44505519-44505538 | None:intergenic | 40.0% |
| GTGATTCCAGAAAGACAGAG+AGG | - | chr4_4:44505175-44505194 | None:intergenic | 45.0% | |
| TTTGGAAAGAGCAAGAGGGT+TGG | - | chr4_4:44505197-44505216 | None:intergenic | 45.0% | |
| CTGTCTCTTACTTATCTCCC+AGG | + | chr4_4:44505499-44505518 | Msa0682630:CDS | 45.0% | |
| ! | GCAGCTTTTGCTGATAAACC+TGG | - | chr4_4:44505520-44505539 | None:intergenic | 45.0% |
| GAACTCCATGAGTAGCACGA+AGG | - | chr4_4:44505153-44505172 | None:intergenic | 50.0% | |
| GGAGTTCCTCTCTGTCTTTC+TGG | + | chr4_4:44505166-44505185 | Msa0682630:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 44505003 | 44505543 | 44505003 | ID=Msa0682630;Name=Msa0682630 |
| chr4_4 | mRNA | 44505003 | 44505543 | 44505003 | ID=Msa0682630-mRNA-1;Parent=Msa0682630;Name=Msa0682630-mRNA-1;_AED=0.24;_eAED=0.27;_QI=130|0|0.5|1|1|1|2|0|92 |
| chr4_4 | exon | 44505003 | 44505218 | 44505003 | ID=Msa0682630-mRNA-1:exon:10745;Parent=Msa0682630-mRNA-1 |
| chr4_4 | exon | 44505351 | 44505543 | 44505351 | ID=Msa0682630-mRNA-1:exon:10746;Parent=Msa0682630-mRNA-1 |
| chr4_4 | five_prime_UTR | 44505003 | 44505132 | 44505003 | ID=Msa0682630-mRNA-1:five_prime_utr;Parent=Msa0682630-mRNA-1 |
| chr4_4 | CDS | 44505133 | 44505218 | 44505133 | ID=Msa0682630-mRNA-1:cds;Parent=Msa0682630-mRNA-1 |
| chr4_4 | CDS | 44505351 | 44505543 | 44505351 | ID=Msa0682630-mRNA-1:cds;Parent=Msa0682630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
