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.gene76829.t1 | XP_013470003.1 | 98.9 | 90 | 1 | 0 | 1 | 90 | 1 | 90 | 1.20E-38 | 168.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76829.t1 | Q948Z4 | 55.6 | 90 | 38 | 1 | 1 | 90 | 1 | 88 | 7.6e-21 | 100.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76829.t1 | A0A072VQU0 | 98.9 | 90 | 1 | 0 | 1 | 90 | 1 | 90 | 8.9e-39 | 168.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene054018 | MS.gene76829 | 0.800055 | 1.72E-48 | -1.69E-46 |
| MS.gene054662 | MS.gene76829 | 0.832202 | 1.08E-55 | -1.69E-46 |
| MS.gene057367 | MS.gene76829 | 0.813739 | 2.20E-51 | -1.69E-46 |
| MS.gene060291 | MS.gene76829 | 0.985224 | 6.63E-163 | -1.69E-46 |
| MS.gene06093 | MS.gene76829 | 0.813569 | 2.40E-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.gene76829.t1 | MTR_1g106915 | 98.889 | 90 | 1 | 0 | 1 | 90 | 1 | 90 | 2.56e-60 | 179 |
| MS.gene76829.t1 | MTR_1g018640 | 64.835 | 91 | 31 | 1 | 1 | 90 | 1 | 91 | 3.47e-30 | 102 |
| MS.gene76829.t1 | MTR_3g102660 | 67.692 | 65 | 21 | 0 | 26 | 90 | 21 | 85 | 5.08e-26 | 92.0 |
| MS.gene76829.t1 | MTR_5g036860 | 46.237 | 93 | 46 | 2 | 1 | 90 | 1 | 92 | 1.62e-20 | 78.6 |
| MS.gene76829.t1 | MTR_5g036640 | 47.561 | 82 | 41 | 1 | 9 | 90 | 4 | 83 | 1.77e-20 | 78.2 |
| MS.gene76829.t1 | MTR_5g036720 | 40.860 | 93 | 51 | 2 | 1 | 90 | 1 | 92 | 3.30e-17 | 70.1 |
| MS.gene76829.t1 | MTR_5g036880 | 41.935 | 93 | 50 | 2 | 1 | 90 | 1 | 92 | 6.62e-17 | 69.3 |
| MS.gene76829.t1 | MTR_5g095990 | 52.459 | 61 | 29 | 0 | 30 | 90 | 89 | 149 | 3.73e-16 | 68.9 |
| MS.gene76829.t1 | MTR_3g007900 | 52.459 | 61 | 29 | 0 | 30 | 90 | 94 | 154 | 4.10e-16 | 68.9 |
| MS.gene76829.t1 | MTR_1g096370 | 39.362 | 94 | 50 | 1 | 4 | 90 | 2 | 95 | 2.26e-15 | 65.5 |
| MS.gene76829.t1 | MTR_6g012360 | 34.951 | 103 | 48 | 2 | 7 | 90 | 5 | 107 | 7.55e-15 | 64.3 |
| MS.gene76829.t1 | MTR_1g025220 | 35.354 | 99 | 51 | 1 | 5 | 90 | 3 | 101 | 2.28e-14 | 63.2 |
| MS.gene76829.t1 | MTR_7g010580 | 46.774 | 62 | 33 | 0 | 29 | 90 | 48 | 109 | 2.56e-14 | 63.2 |
| MS.gene76829.t1 | MTR_3g037750 | 33.696 | 92 | 46 | 1 | 14 | 90 | 12 | 103 | 4.21e-14 | 62.4 |
| MS.gene76829.t1 | MTR_3g113890 | 32.653 | 98 | 51 | 1 | 8 | 90 | 6 | 103 | 1.86e-13 | 60.8 |
| MS.gene76829.t1 | MTR_7g090590 | 42.857 | 63 | 36 | 0 | 28 | 90 | 58 | 120 | 2.12e-13 | 60.8 |
| MS.gene76829.t1 | MTR_8g062800 | 45.902 | 61 | 32 | 1 | 31 | 90 | 52 | 112 | 2.18e-12 | 58.2 |
| MS.gene76829.t1 | MTR_1g025250 | 40.000 | 75 | 40 | 1 | 21 | 90 | 26 | 100 | 3.61e-12 | 57.4 |
| MS.gene76829.t1 | MTR_8g085470 | 45.679 | 81 | 41 | 1 | 13 | 90 | 15 | 95 | 7.18e-12 | 56.6 |
| MS.gene76829.t1 | MTR_6g007897 | 47.541 | 61 | 31 | 1 | 31 | 90 | 188 | 248 | 7.90e-12 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76829.t1 | AT5G59845 | 60.440 | 91 | 33 | 2 | 1 | 90 | 1 | 89 | 3.81e-28 | 97.8 |
| MS.gene76829.t1 | AT2G39540 | 54.444 | 90 | 38 | 1 | 1 | 90 | 1 | 87 | 1.46e-26 | 93.6 |
| MS.gene76829.t1 | AT2G14900 | 69.492 | 59 | 18 | 0 | 32 | 90 | 50 | 108 | 4.29e-26 | 93.2 |
| MS.gene76829.t1 | AT1G10588 | 56.180 | 89 | 36 | 2 | 3 | 90 | 4 | 90 | 1.45e-25 | 91.3 |
| MS.gene76829.t1 | AT1G10588 | 53.933 | 89 | 37 | 2 | 3 | 90 | 4 | 89 | 3.37e-24 | 87.8 |
| MS.gene76829.t1 | AT1G74670 | 36.634 | 101 | 53 | 1 | 1 | 90 | 1 | 101 | 1.95e-16 | 68.2 |
| MS.gene76829.t1 | AT5G15230 | 30.189 | 106 | 58 | 1 | 1 | 90 | 1 | 106 | 2.51e-13 | 60.5 |
| MS.gene76829.t1 | AT4G09600 | 40.244 | 82 | 40 | 2 | 18 | 90 | 18 | 99 | 7.76e-13 | 58.9 |
| MS.gene76829.t1 | AT5G15230 | 44.262 | 61 | 34 | 0 | 30 | 90 | 23 | 83 | 4.46e-12 | 56.6 |
| MS.gene76829.t1 | AT1G22690 | 45.000 | 60 | 33 | 0 | 31 | 90 | 60 | 119 | 9.00e-11 | 54.3 |
| MS.gene76829.t1 | AT1G22690 | 45.000 | 60 | 33 | 0 | 31 | 90 | 60 | 119 | 9.00e-11 | 54.3 |
| MS.gene76829.t1 | AT1G22690 | 45.000 | 60 | 33 | 0 | 31 | 90 | 60 | 119 | 9.00e-11 | 54.3 |
Find 24 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTCTATGCTTCTCTTTCT+TGG | 0.113371 | 1.1:+76678625 | MS.gene76829:CDS |
| CAGAGACAAGGTTAACAATA+AGG | 0.287897 | 1.1:+76678934 | MS.gene76829:CDS |
| TGTGTTCCTTCTGGGACTTA+TGG | 0.316342 | 1.1:+76678887 | MS.gene76829:CDS |
| GTGTTCCTTCTGGGACTTAT+GGG | 0.319469 | 1.1:+76678888 | MS.gene76829:CDS |
| TAATTGACATCAAGGGCATT+TGG | 0.329972 | 1.1:-76678963 | None:intergenic |
| GAGTGCAAATGTGTTCCTTC+TGG | 0.347493 | 1.1:+76678878 | MS.gene76829:CDS |
| AATTGACATCAAGGGCATTT+GGG | 0.384143 | 1.1:-76678962 | None:intergenic |
| CGAACACTTGCTGCTACAAT+TGG | 0.398537 | 1.1:-76678792 | None:intergenic |
| CTAAAGCAGGGGTTCAAGAT+AGG | 0.424996 | 1.1:+76678825 | MS.gene76829:CDS |
| GGAGCTAGCCATTGCATATG+AGG | 0.425249 | 1.1:+76678646 | MS.gene76829:CDS |
| AGAGACAAGGTTAACAATAA+GGG | 0.465278 | 1.1:+76678935 | MS.gene76829:CDS |
| AGAAAGAGAAGCATAGAAGA+AGG | 0.472112 | 1.1:-76678622 | None:intergenic |
| AGTGCAAATGTGTTCCTTCT+GGG | 0.495711 | 1.1:+76678879 | MS.gene76829:CDS |
| GAAAGAGAAGCATAGAAGAA+GGG | 0.513355 | 1.1:-76678621 | None:intergenic |
| CAATTGTAGCAGCAAGTGTT+CGG | 0.519914 | 1.1:+76678793 | MS.gene76829:CDS |
| TCGGACAGATGCTCTAAAGC+AGG | 0.531159 | 1.1:+76678812 | MS.gene76829:CDS |
| CGGACAGATGCTCTAAAGCA+GGG | 0.574198 | 1.1:+76678813 | MS.gene76829:CDS |
| TTAACCTTGTCTCTGTAGCA+AGG | 0.582422 | 1.1:-76678926 | None:intergenic |
| ACATGAATCCTCATATGCAA+TGG | 0.604589 | 1.1:-76678654 | None:intergenic |
| AATAGCAACATGGTGAAGAG+AGG | 0.630987 | 1.1:-76678593 | None:intergenic |
| TTGTTCCCATAAGTCCCAGA+AGG | 0.664123 | 1.1:-76678893 | None:intergenic |
| ATGTCCTTGCTACAGAGACA+AGG | 0.668753 | 1.1:+76678922 | MS.gene76829:CDS |
| GGACAGATGCTCTAAAGCAG+GGG | 0.697192 | 1.1:+76678814 | MS.gene76829:CDS |
| AAGGGAACAGAATAGCAACA+TGG | 0.736288 | 1.1:-76678603 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATATTCTTTTACTTTTTT+TGG | + | chr1.1:76678728-76678747 | MS.gene76829:intron | 10.0% |
| !!! | TGCATTTCCACTTTTAATAA+TGG | + | chr1.1:76678766-76678785 | MS.gene76829:intron | 25.0% |
| AGAGACAAGGTTAACAATAA+GGG | + | chr1.1:76678935-76678954 | MS.gene76829:CDS | 30.0% | |
| GAATCCTCTCATTTCATAAT+AGG | - | chr1.1:76678693-76678712 | None:intergenic | 30.0% | |
| TTCACCTATTATGAAATGAG+AGG | + | chr1.1:76678686-76678705 | MS.gene76829:intron | 30.0% | |
| ACATGAATCCTCATATGCAA+TGG | - | chr1.1:76678657-76678676 | None:intergenic | 35.0% | |
| CAGAGACAAGGTTAACAATA+AGG | + | chr1.1:76678934-76678953 | MS.gene76829:CDS | 35.0% | |
| TCTTCTATGCTTCTCTTTCT+TGG | + | chr1.1:76678625-76678644 | MS.gene76829:CDS | 35.0% | |
| TTGGCTGCCATTATTAAAAG+TGG | - | chr1.1:76678776-76678795 | None:intergenic | 35.0% | |
| ! | AGAAAGAGAAGCATAGAAGA+AGG | - | chr1.1:76678625-76678644 | None:intergenic | 35.0% |
| ! | GAAAGAGAAGCATAGAAGAA+GGG | - | chr1.1:76678624-76678643 | None:intergenic | 35.0% |
| AAGGGAACAGAATAGCAACA+TGG | - | chr1.1:76678606-76678625 | None:intergenic | 40.0% | |
| AATAGCAACATGGTGAAGAG+AGG | - | chr1.1:76678596-76678615 | None:intergenic | 40.0% | |
| AGTGCAAATGTGTTCCTTCT+GGG | + | chr1.1:76678879-76678898 | MS.gene76829:CDS | 40.0% | |
| CAATTGTAGCAGCAAGTGTT+CGG | + | chr1.1:76678793-76678812 | MS.gene76829:CDS | 40.0% | |
| TTAACCTTGTCTCTGTAGCA+AGG | - | chr1.1:76678929-76678948 | None:intergenic | 40.0% | |
| ATGTCCTTGCTACAGAGACA+AGG | + | chr1.1:76678922-76678941 | MS.gene76829:CDS | 45.0% | |
| CTAAAGCAGGGGTTCAAGAT+AGG | + | chr1.1:76678825-76678844 | MS.gene76829:CDS | 45.0% | |
| GAGTGCAAATGTGTTCCTTC+TGG | + | chr1.1:76678878-76678897 | MS.gene76829:CDS | 45.0% | |
| TTGTTCCCATAAGTCCCAGA+AGG | - | chr1.1:76678896-76678915 | None:intergenic | 45.0% | |
| ! | CGAACACTTGCTGCTACAAT+TGG | - | chr1.1:76678795-76678814 | None:intergenic | 45.0% |
| !! | GTGTTCCTTCTGGGACTTAT+GGG | + | chr1.1:76678888-76678907 | MS.gene76829:CDS | 45.0% |
| !! | TGTGTTCCTTCTGGGACTTA+TGG | + | chr1.1:76678887-76678906 | MS.gene76829:CDS | 45.0% |
| GGAGCTAGCCATTGCATATG+AGG | + | chr1.1:76678646-76678665 | MS.gene76829:CDS | 50.0% | |
| !! | CGGACAGATGCTCTAAAGCA+GGG | + | chr1.1:76678813-76678832 | MS.gene76829:CDS | 50.0% |
| !! | GGACAGATGCTCTAAAGCAG+GGG | + | chr1.1:76678814-76678833 | MS.gene76829:CDS | 50.0% |
| !! | TCGGACAGATGCTCTAAAGC+AGG | + | chr1.1:76678812-76678831 | MS.gene76829:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.1 | gene | 76678587 | 76678976 | 76678587 | ID=MS.gene76829 |
| chr1.1 | mRNA | 76678587 | 76678976 | 76678587 | ID=MS.gene76829.t1;Parent=MS.gene76829 |
| chr1.1 | exon | 76678587 | 76678674 | 76678587 | ID=MS.gene76829.t1.exon1;Parent=MS.gene76829.t1 |
| chr1.1 | CDS | 76678587 | 76678674 | 76678587 | ID=cds.MS.gene76829.t1;Parent=MS.gene76829.t1 |
| chr1.1 | exon | 76678792 | 76678976 | 76678792 | ID=MS.gene76829.t1.exon2;Parent=MS.gene76829.t1 |
| chr1.1 | CDS | 76678792 | 76678976 | 76678792 | ID=cds.MS.gene76829.t1;Parent=MS.gene76829.t1 |
| Gene Sequence |
| Protein sequence |
