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.gene34949.t1 | RHN42358.1 | 98.2 | 217 | 4 | 0 | 1 | 217 | 1 | 217 | 3.90E-115 | 424.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34949.t1 | Q39263 | 46.2 | 182 | 68 | 7 | 62 | 217 | 83 | 260 | 5.7e-30 | 132.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34949.t1 | A0A396GPM5 | 98.2 | 217 | 4 | 0 | 1 | 217 | 1 | 217 | 2.8e-115 | 424.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene34949.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene34949.t1 | MTR_1g033340 | 51.765 | 255 | 80 | 8 | 1 | 217 | 2 | 251 | 4.07e-78 | 235 |
| MS.gene34949.t1 | MTR_3g065020 | 48.000 | 200 | 93 | 6 | 21 | 217 | 47 | 238 | 1.10e-56 | 180 |
| MS.gene34949.t1 | MTR_5g077370 | 45.588 | 204 | 92 | 6 | 23 | 217 | 44 | 237 | 6.76e-50 | 162 |
| MS.gene34949.t1 | MTR_2g104900 | 45.333 | 150 | 63 | 6 | 2 | 133 | 10 | 158 | 5.72e-30 | 111 |
| MS.gene34949.t1 | MTR_1g107055 | 45.763 | 118 | 58 | 3 | 62 | 179 | 64 | 175 | 7.46e-25 | 97.1 |
| MS.gene34949.t1 | MTR_1g013130 | 40.278 | 144 | 60 | 4 | 15 | 132 | 37 | 180 | 3.49e-24 | 96.7 |
| MS.gene34949.t1 | MTR_4g006575 | 40.876 | 137 | 63 | 4 | 2 | 132 | 6 | 130 | 2.16e-23 | 94.0 |
| MS.gene34949.t1 | MTR_4g006600 | 40.876 | 137 | 63 | 4 | 2 | 132 | 6 | 130 | 2.16e-23 | 94.0 |
| MS.gene34949.t1 | MTR_3g106230 | 50.562 | 89 | 26 | 4 | 61 | 132 | 71 | 158 | 1.08e-19 | 84.3 |
| MS.gene34949.t1 | MTR_4g128340 | 62.295 | 61 | 21 | 1 | 59 | 119 | 42 | 100 | 5.50e-18 | 78.2 |
| MS.gene34949.t1 | MTR_8g466760 | 43.038 | 79 | 36 | 3 | 62 | 134 | 98 | 173 | 4.44e-12 | 64.3 |
| MS.gene34949.t1 | MTR_7g083210 | 75.758 | 33 | 8 | 0 | 62 | 94 | 39 | 71 | 4.75e-12 | 62.8 |
| MS.gene34949.t1 | MTR_7g086860 | 61.905 | 42 | 16 | 0 | 57 | 98 | 25 | 66 | 5.02e-12 | 62.0 |
| MS.gene34949.t1 | MTR_3g011990 | 43.421 | 76 | 36 | 2 | 62 | 132 | 98 | 171 | 3.44e-11 | 61.6 |
| MS.gene34949.t1 | MTR_5g008280 | 46.753 | 77 | 35 | 4 | 62 | 132 | 46 | 122 | 5.68e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34949.t1 | AT1G66140 | 46.524 | 187 | 70 | 7 | 57 | 217 | 78 | 260 | 1.78e-44 | 149 |
| MS.gene34949.t1 | AT1G24625 | 45.029 | 171 | 67 | 7 | 59 | 217 | 54 | 209 | 3.69e-33 | 119 |
| MS.gene34949.t1 | AT1G80730 | 42.484 | 153 | 66 | 4 | 2 | 132 | 1 | 153 | 1.06e-25 | 100 |
| MS.gene34949.t1 | AT5G25160 | 46.226 | 106 | 49 | 3 | 32 | 132 | 32 | 134 | 1.13e-22 | 92.4 |
| MS.gene34949.t1 | AT5G10970 | 42.105 | 133 | 67 | 6 | 9 | 132 | 44 | 175 | 2.56e-22 | 92.0 |
| MS.gene34949.t1 | AT5G57520 | 76.923 | 39 | 9 | 0 | 61 | 99 | 49 | 87 | 1.12e-16 | 74.3 |
| MS.gene34949.t1 | AT5G14010 | 72.222 | 36 | 10 | 0 | 62 | 97 | 36 | 71 | 3.73e-13 | 65.1 |
| MS.gene34949.t1 | AT5G01860 | 57.500 | 40 | 17 | 0 | 62 | 101 | 65 | 104 | 2.31e-11 | 61.2 |
| MS.gene34949.t1 | AT5G27880 | 44.928 | 69 | 36 | 1 | 33 | 99 | 47 | 115 | 7.86e-11 | 60.5 |
Find 56 sgRNAs with CRISPR-Local
Find 65 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATTTGATAGAAACCATTT+TGG | 0.216847 | 4.4:+17657930 | MS.gene34949:CDS |
| TTCGAGTGAGGCCGAGTTAA+TGG | 0.228364 | 4.4:+17657575 | MS.gene34949:CDS |
| ATATCCTCAAACTTCAAATT+CGG | 0.284335 | 4.4:+17658043 | MS.gene34949:CDS |
| GTCCACCTGTCTAAAACTTC+CGG | 0.315216 | 4.4:-17657997 | None:intergenic |
| TTCGCAGCAGCTCTCATATC+TGG | 0.318459 | 4.4:-17657909 | None:intergenic |
| CTTGCATCTCTACCTCTTCA+TGG | 0.342785 | 4.4:+17657804 | MS.gene34949:CDS |
| TCAGGTTCCAAGTTCAAGTT+TGG | 0.345240 | 4.4:-17657489 | None:intergenic |
| CGAAAACTAGCGATCCAAAA+TGG | 0.355731 | 4.4:-17657944 | None:intergenic |
| TATCCTCAAACTTCAAATTC+GGG | 0.357303 | 4.4:+17658044 | MS.gene34949:CDS |
| ATGATGATGTAGGTAGCTTT+TGG | 0.366343 | 4.4:+17657973 | MS.gene34949:CDS |
| TGCAAGGCTTGTATACCTTT+CGG | 0.407124 | 4.4:-17657787 | None:intergenic |
| TCCACCTGTCTAAAACTTCC+GGG | 0.407344 | 4.4:-17657996 | None:intergenic |
| GATGCAGATGCTTGAGGTGG+AGG | 0.428693 | 4.4:-17658086 | None:intergenic |
| TCGAGTGAGGCCGAGTTAAT+GGG | 0.432246 | 4.4:+17657576 | MS.gene34949:CDS |
| GTCATCAGAACGCTCACAAA+AGG | 0.433204 | 4.4:+17657721 | MS.gene34949:CDS |
| GGTCATAGGATCTAGATCTT+GGG | 0.441405 | 4.4:-17657529 | None:intergenic |
| CTATATTAACACTTCCTCCT+TGG | 0.445595 | 4.4:-17658019 | None:intergenic |
| GGGTCATAGGATCTAGATCT+TGG | 0.448749 | 4.4:-17657530 | None:intergenic |
| AAACCCGAATTTGAAGTTTG+AGG | 0.449808 | 4.4:-17658047 | None:intergenic |
| GGCTAAACGTGCAATGCGAA+TGG | 0.452909 | 4.4:+17657755 | MS.gene34949:CDS |
| TTCTATAGCTCGCAAGCATT+AGG | 0.456033 | 4.4:+17657696 | MS.gene34949:CDS |
| CAAGGAGGAAGTGTTAATAT+AGG | 0.461179 | 4.4:+17658020 | MS.gene34949:CDS |
| GATGACTCCAAACTTGAACT+TGG | 0.465674 | 4.4:+17657482 | MS.gene34949:CDS |
| AGTGATGCTAGTAGTGAAGT+AGG | 0.485652 | 4.4:+17657603 | MS.gene34949:CDS |
| TAATTACAAGAGAATATCCT+TGG | 0.504702 | 4.4:-17657660 | None:intergenic |
| AGTGTCAAGTCAAGGGTCAT+AGG | 0.518887 | 4.4:-17657543 | None:intergenic |
| TGAGGTGGAGGAGGTGCCAT+TGG | 0.521384 | 4.4:-17658074 | None:intergenic |
| TATAGCTTCAGTGTAAGATC+AGG | 0.528823 | 4.4:-17658110 | None:intergenic |
| TCTCTTGTAATTACTGCAAG+AGG | 0.530679 | 4.4:+17657670 | MS.gene34949:CDS |
| GCTAAACGTGCAATGCGAAT+GGG | 0.536618 | 4.4:+17657756 | MS.gene34949:CDS |
| TGAAATTGAGTGTCAAGTCA+AGG | 0.555713 | 4.4:-17657551 | None:intergenic |
| TCATCAGAACGCTCACAAAA+GGG | 0.564572 | 4.4:+17657722 | MS.gene34949:CDS |
| TCAACACCAAGGGACCGAAA+AGG | 0.568839 | 4.4:-17657831 | None:intergenic |
| GCAGATGCTTGAGGTGGAGG+AGG | 0.582836 | 4.4:-17658083 | None:intergenic |
| GAAATTGAGTGTCAAGTCAA+GGG | 0.590766 | 4.4:-17657550 | None:intergenic |
| GTCATAGGATCTAGATCTTG+GGG | 0.590838 | 4.4:-17657528 | None:intergenic |
| CTTCGCCATCGGTAACTCCA+AGG | 0.598331 | 4.4:+17657643 | MS.gene34949:CDS |
| TGCAACCATCGTCAACAATG+AGG | 0.600965 | 4.4:+17657883 | MS.gene34949:CDS |
| TTCGTGGAAGATGATGATGT+AGG | 0.604810 | 4.4:+17657963 | MS.gene34949:CDS |
| GCAACCATCGTCAACAATGA+GGG | 0.605847 | 4.4:+17657884 | MS.gene34949:CDS |
| TCAGGAGATGCAGATGCTTG+AGG | 0.608142 | 4.4:-17658092 | None:intergenic |
| ACTCAATTTCAGTTCGAGTG+AGG | 0.611871 | 4.4:+17657563 | MS.gene34949:CDS |
| TGAAGTTCATGCTTCGCCAT+CGG | 0.612721 | 4.4:+17657632 | MS.gene34949:CDS |
| ATCACTTGAACCCATTAACT+CGG | 0.613671 | 4.4:-17657586 | None:intergenic |
| GGAGATGCAGATGCTTGAGG+TGG | 0.634898 | 4.4:-17658089 | None:intergenic |
| AGAACGCTCACAAAAGGGAG+AGG | 0.635123 | 4.4:+17657727 | MS.gene34949:CDS |
| CAGAATGAGCTTCAACACCA+AGG | 0.638470 | 4.4:-17657842 | None:intergenic |
| CATGAAGAGGTAGAGATGCA+AGG | 0.640521 | 4.4:-17657803 | None:intergenic |
| AATATCCTTGGAGTTACCGA+TGG | 0.642699 | 4.4:-17657648 | None:intergenic |
| GAATGGGAATGTTCACCGAA+AGG | 0.647190 | 4.4:+17657772 | MS.gene34949:CDS |
| CGAAAAGGCGAACCATGAAG+AGG | 0.651068 | 4.4:-17657816 | None:intergenic |
| AGAATGAGCTTCAACACCAA+GGG | 0.655962 | 4.4:-17657841 | None:intergenic |
| TATAGCTCGCAAGCATTAGG+CGG | 0.663928 | 4.4:+17657699 | MS.gene34949:CDS |
| GGAGCCCTCATTGTTGACGA+TGG | 0.667173 | 4.4:-17657888 | None:intergenic |
| TTTAGACAGGTGGACCAAGG+AGG | 0.688046 | 4.4:+17658005 | MS.gene34949:CDS |
| TCACAAAAGGGAGAGGACGA+TGG | 0.689083 | 4.4:+17657734 | MS.gene34949:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTTGATAGAAACCATTT+TGG | + | chr4.4:17657930-17657949 | MS.gene34949:CDS | 20.0% |
| ! | ATATCCTCAAACTTCAAATT+CGG | + | chr4.4:17658043-17658062 | MS.gene34949:CDS | 25.0% |
| ! | TAATTACAAGAGAATATCCT+TGG | - | chr4.4:17657663-17657682 | None:intergenic | 25.0% |
| TATCCTCAAACTTCAAATTC+GGG | + | chr4.4:17658044-17658063 | MS.gene34949:CDS | 30.0% | |
| ATCACTTGAACCCATTAACT+CGG | - | chr4.4:17657589-17657608 | None:intergenic | 35.0% | |
| CTATATTAACACTTCCTCCT+TGG | - | chr4.4:17658022-17658041 | None:intergenic | 35.0% | |
| GAAATTGAGTGTCAAGTCAA+GGG | - | chr4.4:17657553-17657572 | None:intergenic | 35.0% | |
| TATAGCTTCAGTGTAAGATC+AGG | - | chr4.4:17658113-17658132 | None:intergenic | 35.0% | |
| TCTCTTGTAATTACTGCAAG+AGG | + | chr4.4:17657670-17657689 | MS.gene34949:CDS | 35.0% | |
| TGAAATTGAGTGTCAAGTCA+AGG | - | chr4.4:17657554-17657573 | None:intergenic | 35.0% | |
| ! | AAACCCGAATTTGAAGTTTG+AGG | - | chr4.4:17658050-17658069 | None:intergenic | 35.0% |
| !! | ATGATGATGTAGGTAGCTTT+TGG | + | chr4.4:17657973-17657992 | MS.gene34949:CDS | 35.0% |
| !! | CAAGGAGGAAGTGTTAATAT+AGG | + | chr4.4:17658020-17658039 | MS.gene34949:CDS | 35.0% |
| !!! | AAATTCGGGTTTTGTTCCAA+TGG | + | chr4.4:17658058-17658077 | MS.gene34949:CDS | 35.0% |
| AATATCCTTGGAGTTACCGA+TGG | - | chr4.4:17657651-17657670 | None:intergenic | 40.0% | |
| ACTCAATTTCAGTTCGAGTG+AGG | + | chr4.4:17657563-17657582 | MS.gene34949:CDS | 40.0% | |
| AGAATGAGCTTCAACACCAA+GGG | - | chr4.4:17657844-17657863 | None:intergenic | 40.0% | |
| AGTGATGCTAGTAGTGAAGT+AGG | + | chr4.4:17657603-17657622 | MS.gene34949:CDS | 40.0% | |
| CGAAAACTAGCGATCCAAAA+TGG | - | chr4.4:17657947-17657966 | None:intergenic | 40.0% | |
| GATGACTCCAAACTTGAACT+TGG | + | chr4.4:17657482-17657501 | MS.gene34949:CDS | 40.0% | |
| GGTCATAGGATCTAGATCTT+GGG | - | chr4.4:17657532-17657551 | None:intergenic | 40.0% | |
| GTCATAGGATCTAGATCTTG+GGG | - | chr4.4:17657531-17657550 | None:intergenic | 40.0% | |
| TCATCAGAACGCTCACAAAA+GGG | + | chr4.4:17657722-17657741 | MS.gene34949:CDS | 40.0% | |
| TGCAAGGCTTGTATACCTTT+CGG | - | chr4.4:17657790-17657809 | None:intergenic | 40.0% | |
| TTCTATAGCTCGCAAGCATT+AGG | + | chr4.4:17657696-17657715 | MS.gene34949:CDS | 40.0% | |
| ! | TCAGGTTCCAAGTTCAAGTT+TGG | - | chr4.4:17657492-17657511 | None:intergenic | 40.0% |
| ! | TTCGTGGAAGATGATGATGT+AGG | + | chr4.4:17657963-17657982 | MS.gene34949:CDS | 40.0% |
| !!! | TTTTGGATCGCTAGTTTTCG+TGG | + | chr4.4:17657947-17657966 | MS.gene34949:CDS | 40.0% |
| AGTGTCAAGTCAAGGGTCAT+AGG | - | chr4.4:17657546-17657565 | None:intergenic | 45.0% | |
| CAGAATGAGCTTCAACACCA+AGG | - | chr4.4:17657845-17657864 | None:intergenic | 45.0% | |
| CATGAAGAGGTAGAGATGCA+AGG | - | chr4.4:17657806-17657825 | None:intergenic | 45.0% | |
| CTTGCATCTCTACCTCTTCA+TGG | + | chr4.4:17657804-17657823 | MS.gene34949:CDS | 45.0% | |
| GAATGGGAATGTTCACCGAA+AGG | + | chr4.4:17657772-17657791 | MS.gene34949:CDS | 45.0% | |
| GCAACCATCGTCAACAATGA+GGG | + | chr4.4:17657884-17657903 | MS.gene34949:CDS | 45.0% | |
| GCTAAACGTGCAATGCGAAT+GGG | + | chr4.4:17657756-17657775 | MS.gene34949:CDS | 45.0% | |
| GGGTCATAGGATCTAGATCT+TGG | - | chr4.4:17657533-17657552 | None:intergenic | 45.0% | |
| GTCATCAGAACGCTCACAAA+AGG | + | chr4.4:17657721-17657740 | MS.gene34949:CDS | 45.0% | |
| TATAGCTCGCAAGCATTAGG+CGG | + | chr4.4:17657699-17657718 | MS.gene34949:CDS | 45.0% | |
| TGAAGTTCATGCTTCGCCAT+CGG | + | chr4.4:17657632-17657651 | MS.gene34949:CDS | 45.0% | |
| TGCAACCATCGTCAACAATG+AGG | + | chr4.4:17657883-17657902 | MS.gene34949:CDS | 45.0% | |
| ! | CTCTTCATGGTTCGCCTTTT+CGG | + | chr4.4:17657817-17657836 | MS.gene34949:CDS | 45.0% |
| ! | GTCCACCTGTCTAAAACTTC+CGG | - | chr4.4:17658000-17658019 | None:intergenic | 45.0% |
| ! | TCCACCTGTCTAAAACTTCC+GGG | - | chr4.4:17657999-17658018 | None:intergenic | 45.0% |
| !! | GGTGCTTCTGACTGATTTTC+AGG | - | chr4.4:17657510-17657529 | None:intergenic | 45.0% |
| !!! | AGTTTTAGACAGGTGGACCA+AGG | + | chr4.4:17658002-17658021 | MS.gene34949:CDS | 45.0% |
| AGAACGCTCACAAAAGGGAG+AGG | + | chr4.4:17657727-17657746 | MS.gene34949:CDS | 50.0% | |
| CGAAAAGGCGAACCATGAAG+AGG | - | chr4.4:17657819-17657838 | None:intergenic | 50.0% | |
| GGCTAAACGTGCAATGCGAA+TGG | + | chr4.4:17657755-17657774 | MS.gene34949:CDS | 50.0% | |
| TCAACACCAAGGGACCGAAA+AGG | - | chr4.4:17657834-17657853 | None:intergenic | 50.0% | |
| TCACAAAAGGGAGAGGACGA+TGG | + | chr4.4:17657734-17657753 | MS.gene34949:CDS | 50.0% | |
| TCAGGAGATGCAGATGCTTG+AGG | - | chr4.4:17658095-17658114 | None:intergenic | 50.0% | |
| TCGAGTGAGGCCGAGTTAAT+GGG | + | chr4.4:17657576-17657595 | MS.gene34949:CDS | 50.0% | |
| TTCGAGTGAGGCCGAGTTAA+TGG | + | chr4.4:17657575-17657594 | MS.gene34949:CDS | 50.0% | |
| TTCGCAGCAGCTCTCATATC+TGG | - | chr4.4:17657912-17657931 | None:intergenic | 50.0% | |
| TTTAGACAGGTGGACCAAGG+AGG | + | chr4.4:17658005-17658024 | MS.gene34949:CDS | 50.0% | |
| ! | GATGTAGGTAGCTTTTGGCC+CGG | + | chr4.4:17657978-17657997 | MS.gene34949:CDS | 50.0% |
| !!! | TTGGCCCGGAAGTTTTAGAC+AGG | + | chr4.4:17657992-17658011 | MS.gene34949:CDS | 50.0% |
| CTTCGCCATCGGTAACTCCA+AGG | + | chr4.4:17657643-17657662 | MS.gene34949:CDS | 55.0% | |
| GATGCAGATGCTTGAGGTGG+AGG | - | chr4.4:17658089-17658108 | None:intergenic | 55.0% | |
| GGAGATGCAGATGCTTGAGG+TGG | - | chr4.4:17658092-17658111 | None:intergenic | 55.0% | |
| GGAGCCCTCATTGTTGACGA+TGG | - | chr4.4:17657891-17657910 | None:intergenic | 55.0% | |
| !!! | GCCCGGAAGTTTTAGACAGG+TGG | + | chr4.4:17657995-17658014 | MS.gene34949:CDS | 55.0% |
| GCAGATGCTTGAGGTGGAGG+AGG | - | chr4.4:17658086-17658105 | None:intergenic | 60.0% | |
| ! | GGTTCGCCTTTTCGGTCCCT+TGG | + | chr4.4:17657825-17657844 | MS.gene34949:CDS | 60.0% |
| !! | TGAGGTGGAGGAGGTGCCAT+TGG | - | chr4.4:17658077-17658096 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 17657480 | 17658133 | 17657480 | ID=MS.gene34949 |
| chr4.4 | mRNA | 17657480 | 17658133 | 17657480 | ID=MS.gene34949.t1;Parent=MS.gene34949 |
| chr4.4 | exon | 17657480 | 17658133 | 17657480 | ID=MS.gene34949.t1.exon1;Parent=MS.gene34949.t1 |
| chr4.4 | CDS | 17657480 | 17658133 | 17657480 | ID=cds.MS.gene34949.t1;Parent=MS.gene34949.t1 |
| Gene Sequence |
| Protein sequence |
