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.gene63583.t1 | XP_003612033.1 | 60.1 | 243 | 23 | 4 | 1 | 171 | 1 | 241 | 2.80E-63 | 251.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63583.t1 | Q6Z2G9 | 38.9 | 257 | 68 | 6 | 1 | 171 | 1 | 254 | 5.0e-37 | 155.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63583.t1 | G7KEX1 | 60.1 | 243 | 23 | 4 | 1 | 171 | 1 | 241 | 2.0e-63 | 251.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene63583.t1 | TF | TUB |
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.gene63583.t1 | MTR_5g020580 | 60.082 | 243 | 23 | 4 | 1 | 171 | 1 | 241 | 4.49e-86 | 259 |
| MS.gene63583.t1 | MTR_8g077195 | 45.228 | 241 | 60 | 4 | 1 | 171 | 1 | 239 | 9.78e-60 | 191 |
| MS.gene63583.t1 | MTR_8g077620 | 46.354 | 192 | 60 | 5 | 17 | 171 | 50 | 235 | 2.37e-46 | 156 |
| MS.gene63583.t1 | MTR_8g077675 | 44.271 | 192 | 65 | 5 | 17 | 171 | 46 | 232 | 2.21e-45 | 154 |
| MS.gene63583.t1 | MTR_1g022370 | 44.792 | 192 | 65 | 5 | 19 | 171 | 70 | 259 | 5.32e-44 | 150 |
| MS.gene63583.t1 | MTR_2g020280 | 39.683 | 189 | 76 | 3 | 19 | 171 | 39 | 225 | 3.66e-35 | 127 |
| MS.gene63583.t1 | MTR_1g098790 | 38.462 | 208 | 86 | 5 | 4 | 171 | 35 | 240 | 5.07e-35 | 127 |
| MS.gene63583.t1 | MTR_2g007930 | 41.969 | 193 | 69 | 7 | 19 | 171 | 54 | 243 | 1.50e-34 | 125 |
| MS.gene63583.t1 | MTR_2g076200 | 37.173 | 191 | 82 | 3 | 12 | 166 | 35 | 223 | 2.36e-32 | 119 |
| MS.gene63583.t1 | MTR_2g020280 | 50.806 | 124 | 59 | 1 | 48 | 171 | 5 | 126 | 5.55e-32 | 116 |
| MS.gene63583.t1 | MTR_8g077640 | 41.420 | 169 | 40 | 5 | 17 | 131 | 93 | 256 | 2.76e-28 | 108 |
| MS.gene63583.t1 | MTR_8g077650 | 44.172 | 163 | 60 | 9 | 17 | 159 | 17 | 168 | 8.93e-28 | 106 |
| MS.gene63583.t1 | MTR_1g088960 | 37.500 | 184 | 76 | 4 | 19 | 166 | 50 | 230 | 1.26e-27 | 107 |
| MS.gene63583.t1 | MTR_2g076210 | 34.555 | 191 | 82 | 4 | 12 | 165 | 30 | 214 | 1.40e-26 | 103 |
| MS.gene63583.t1 | MTR_0210s0010 | 66.667 | 75 | 19 | 1 | 47 | 121 | 30 | 98 | 1.97e-24 | 92.0 |
| MS.gene63583.t1 | MTR_0479s0040 | 70.149 | 67 | 14 | 1 | 45 | 111 | 15 | 75 | 1.51e-22 | 86.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63583.t1 | AT2G18280 | 40.678 | 236 | 70 | 5 | 1 | 171 | 1 | 231 | 3.64e-47 | 158 |
| MS.gene63583.t1 | AT2G18280 | 40.678 | 236 | 70 | 5 | 1 | 171 | 1 | 231 | 3.64e-47 | 158 |
| MS.gene63583.t1 | AT1G53320 | 41.538 | 195 | 76 | 3 | 13 | 171 | 38 | 230 | 2.36e-39 | 137 |
| MS.gene63583.t1 | AT1G76900 | 40.415 | 193 | 73 | 5 | 19 | 171 | 57 | 247 | 4.97e-35 | 127 |
| MS.gene63583.t1 | AT1G76900 | 40.415 | 193 | 73 | 5 | 19 | 171 | 57 | 247 | 4.97e-35 | 127 |
| MS.gene63583.t1 | AT1G76900 | 40.415 | 193 | 73 | 5 | 19 | 171 | 57 | 247 | 4.97e-35 | 127 |
| MS.gene63583.t1 | AT1G47270 | 39.881 | 168 | 63 | 4 | 19 | 149 | 44 | 210 | 4.64e-34 | 124 |
| MS.gene63583.t1 | AT1G47270 | 39.881 | 168 | 63 | 4 | 19 | 149 | 69 | 235 | 5.77e-34 | 124 |
| MS.gene63583.t1 | AT1G47270 | 39.881 | 168 | 63 | 4 | 19 | 149 | 68 | 234 | 6.59e-34 | 124 |
| MS.gene63583.t1 | AT1G25280 | 40.206 | 194 | 74 | 5 | 18 | 171 | 58 | 249 | 1.46e-32 | 120 |
| MS.gene63583.t1 | AT2G47900 | 38.220 | 191 | 78 | 4 | 19 | 171 | 52 | 240 | 9.23e-32 | 118 |
| MS.gene63583.t1 | AT2G47900 | 38.421 | 190 | 78 | 4 | 19 | 171 | 52 | 239 | 1.53e-31 | 117 |
| MS.gene63583.t1 | AT2G47900 | 38.421 | 190 | 78 | 4 | 19 | 171 | 52 | 239 | 1.53e-31 | 117 |
| MS.gene63583.t1 | AT1G43640 | 34.375 | 192 | 86 | 5 | 18 | 171 | 54 | 243 | 1.25e-28 | 110 |
| MS.gene63583.t1 | AT5G18680 | 37.173 | 191 | 80 | 4 | 18 | 171 | 38 | 225 | 5.78e-27 | 105 |
| MS.gene63583.t1 | AT5G18680 | 45.968 | 124 | 64 | 1 | 48 | 171 | 13 | 133 | 2.37e-26 | 102 |
| MS.gene63583.t1 | AT3G06380 | 35.533 | 197 | 78 | 5 | 15 | 171 | 29 | 216 | 6.57e-26 | 102 |
| MS.gene63583.t1 | AT3G06380 | 44.094 | 127 | 59 | 2 | 48 | 171 | 7 | 124 | 1.18e-25 | 99.8 |
| MS.gene63583.t1 | AT1G43640 | 43.651 | 126 | 67 | 3 | 48 | 171 | 54 | 177 | 2.56e-24 | 97.4 |
| MS.gene63583.t1 | AT1G25280 | 50.685 | 73 | 31 | 2 | 102 | 171 | 1 | 71 | 3.47e-13 | 65.9 |
| MS.gene63583.t1 | AT1G25280 | 50.685 | 73 | 31 | 2 | 102 | 171 | 1 | 71 | 3.47e-13 | 65.9 |
Find 42 sgRNAs with CRISPR-Local
Find 66 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTCAGGTCTAACATTT+TGG | 0.098131 | 3.2:-25172765 | MS.gene63583:CDS |
| CTCCTACTGGACTGGCTATT+TGG | 0.175637 | 3.2:+25172683 | None:intergenic |
| TCTGCGTATCTATTGTATTA+TGG | 0.232029 | 3.2:-25172920 | MS.gene63583:CDS |
| CCAGTAGGAGATTTCATTCT+AGG | 0.248434 | 3.2:-25172670 | MS.gene63583:CDS |
| CACAGACTTAATCATATCTA+TGG | 0.360821 | 3.2:-25172828 | MS.gene63583:CDS |
| TAGAAGAGACTGAGACTTCT+TGG | 0.372030 | 3.2:-25173097 | MS.gene63583:CDS |
| TAGTTATATGCTTGAACTCT+TGG | 0.377661 | 3.2:+25172638 | None:intergenic |
| CTCCGATACAATGCTTCATC+AGG | 0.436765 | 3.2:-25172958 | MS.gene63583:CDS |
| AGGCAACCTCCACATGGATC+TGG | 0.456221 | 3.2:-25172713 | MS.gene63583:CDS |
| ATATGAGCAATTCAGCTCAT+AGG | 0.461752 | 3.2:+25172599 | None:intergenic |
| ACCAATTTAGCAGGGACAAT+GGG | 0.465957 | 3.2:-25173162 | MS.gene63583:intron |
| AACTCAAGGAGATGAGGGAT+GGG | 0.472085 | 3.2:-25173280 | MS.gene63583:CDS |
| CGTTCCAGCAATGCGTATGT+TGG | 0.488866 | 3.2:-25172788 | MS.gene63583:CDS |
| CCTAGAATGAAATCTCCTAC+TGG | 0.506734 | 3.2:+25172670 | None:intergenic |
| TGTTGTTGAGAAGCATAGTA+CGG | 0.514474 | 3.2:-25173304 | MS.gene63583:CDS |
| GAACTCAAGGAGATGAGGGA+TGG | 0.515900 | 3.2:-25173281 | MS.gene63583:CDS |
| TCACTATATACGACATTGAC+AGG | 0.521151 | 3.2:-25172733 | MS.gene63583:CDS |
| TAGGAGATTTCATTCTAGGC+AGG | 0.541078 | 3.2:-25172666 | MS.gene63583:CDS |
| AATGAAATCTCCTACTGGAC+TGG | 0.545914 | 3.2:+25172675 | None:intergenic |
| GTATTATGGACTGGTGCCAT+TGG | 0.546205 | 3.2:-25172906 | MS.gene63583:CDS |
| AAGCATAGTACGGGAACTCA+AGG | 0.555180 | 3.2:-25173294 | MS.gene63583:CDS |
| TGCTACTTGATATAATTCGA+AGG | 0.558581 | 3.2:-25173121 | MS.gene63583:CDS |
| AACCAATTTAGCAGGGACAA+TGG | 0.568016 | 3.2:-25173163 | MS.gene63583:intron |
| AGATATGATTAAGTCTGTGC+CGG | 0.568041 | 3.2:+25172832 | None:intergenic |
| CGATACAATGCTTCATCAGG+AGG | 0.568935 | 3.2:-25172955 | MS.gene63583:CDS |
| GTATCTATTGTATTATGGAC+TGG | 0.570769 | 3.2:-25172915 | MS.gene63583:CDS |
| AATGTCGTATATAGTGAACT+TGG | 0.574240 | 3.2:+25172739 | None:intergenic |
| GCTACTTGATATAATTCGAA+GGG | 0.575810 | 3.2:-25173120 | MS.gene63583:CDS |
| GTTGTTGAGAAGCATAGTAC+GGG | 0.578798 | 3.2:-25173303 | MS.gene63583:CDS |
| ACTCAAGGAGATGAGGGATG+GGG | 0.587657 | 3.2:-25173279 | MS.gene63583:intron |
| TACGGGAACTCAAGGAGATG+AGG | 0.591073 | 3.2:-25173286 | MS.gene63583:CDS |
| CTCCTGATGAAGCATTGTAT+CGG | 0.592254 | 3.2:+25172956 | None:intergenic |
| ACGGGAACTCAAGGAGATGA+GGG | 0.594362 | 3.2:-25173285 | MS.gene63583:CDS |
| ATGCGTATGTTGGAAAACTC+AGG | 0.599772 | 3.2:-25172778 | MS.gene63583:CDS |
| AGCAATTCAGCTCATAGGAA+TGG | 0.600877 | 3.2:+25172604 | None:intergenic |
| TCACACACAGGAGCACAAGA+AGG | 0.618611 | 3.2:+25173074 | None:intergenic |
| CATTGTATCGGAGAATCACA+AGG | 0.642254 | 3.2:+25172968 | None:intergenic |
| ATTGACAGGCAACCTCCACA+TGG | 0.655106 | 3.2:-25172719 | MS.gene63583:CDS |
| AACCAAATAGCCAGTCCAGT+AGG | 0.666658 | 3.2:-25172685 | MS.gene63583:CDS |
| GATACAATGCTTCATCAGGA+GGG | 0.667883 | 3.2:-25172954 | MS.gene63583:CDS |
| TGAATTCCAGATCCATGTGG+AGG | 0.693280 | 3.2:+25172707 | None:intergenic |
| GGTTGAATTCCAGATCCATG+TGG | 0.703182 | 3.2:+25172704 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATGTCGTATATAGTGAACT+TGG | + | chr3.2:25173179-25173198 | None:intergenic | 30.0% | |
| CACAGACTTAATCATATCTA+TGG | - | chr3.2:25173087-25173106 | MS.gene63583:CDS | 30.0% | |
| GCTACTTGATATAATTCGAA+GGG | - | chr3.2:25172795-25172814 | MS.gene63583:CDS | 30.0% | |
| GTATCTATTGTATTATGGAC+TGG | - | chr3.2:25173000-25173019 | MS.gene63583:intron | 30.0% | |
| TAGTTATATGCTTGAACTCT+TGG | + | chr3.2:25173280-25173299 | None:intergenic | 30.0% | |
| TATTAGCTGCCAAAAAGATA+AGG | - | chr3.2:25173053-25173072 | MS.gene63583:intron | 30.0% | |
| TCTGCGTATCTATTGTATTA+TGG | - | chr3.2:25172995-25173014 | MS.gene63583:intron | 30.0% | |
| ! | AAAACTCAGGTCTAACATTT+TGG | - | chr3.2:25173150-25173169 | MS.gene63583:CDS | 30.0% |
| ! | AAACTCAGGTCTAACATTTT+GGG | - | chr3.2:25173151-25173170 | MS.gene63583:CDS | 30.0% |
| ! | TGCTACTTGATATAATTCGA+AGG | - | chr3.2:25172794-25172813 | MS.gene63583:CDS | 30.0% |
| ! | TTATCAGTCTCATTTTCCAA+TGG | + | chr3.2:25173028-25173047 | None:intergenic | 30.0% |
| AAAAAGATAAGGAAGACAGC+CGG | - | chr3.2:25173064-25173083 | MS.gene63583:intron | 35.0% | |
| AGATATGATTAAGTCTGTGC+CGG | + | chr3.2:25173086-25173105 | None:intergenic | 35.0% | |
| ATCACTTGAACCAATTTAGC+AGG | - | chr3.2:25172744-25172763 | MS.gene63583:CDS | 35.0% | |
| CCTATTTCGTTAAATCAGCT+GGG | - | chr3.2:25172923-25172942 | MS.gene63583:CDS | 35.0% | |
| TCACTATATACGACATTGAC+AGG | - | chr3.2:25173182-25173201 | MS.gene63583:intron | 35.0% | |
| TCACTTGAACCAATTTAGCA+GGG | - | chr3.2:25172745-25172764 | MS.gene63583:CDS | 35.0% | |
| TCCTATTTCGTTAAATCAGC+TGG | - | chr3.2:25172922-25172941 | MS.gene63583:CDS | 35.0% | |
| ! | TGTTGTTGAGAAGCATAGTA+CGG | - | chr3.2:25172611-25172630 | MS.gene63583:CDS | 35.0% |
| AACCAATTTAGCAGGGACAA+TGG | - | chr3.2:25172752-25172771 | MS.gene63583:CDS | 40.0% | |
| AATGAAATCTCCTACTGGAC+TGG | + | chr3.2:25173243-25173262 | None:intergenic | 40.0% | |
| ACCAATTTAGCAGGGACAAT+GGG | - | chr3.2:25172753-25172772 | MS.gene63583:CDS | 40.0% | |
| ATGCGTATGTTGGAAAACTC+AGG | - | chr3.2:25173137-25173156 | MS.gene63583:CDS | 40.0% | |
| CATTGTATCGGAGAATCACA+AGG | + | chr3.2:25172950-25172969 | None:intergenic | 40.0% | |
| CCAGTAGGAGATTTCATTCT+AGG | - | chr3.2:25173245-25173264 | MS.gene63583:intron | 40.0% | |
| CCTAGAATGAAATCTCCTAC+TGG | + | chr3.2:25173248-25173267 | None:intergenic | 40.0% | |
| GATACAATGCTTCATCAGGA+GGG | - | chr3.2:25172961-25172980 | MS.gene63583:CDS | 40.0% | |
| TAGAAGAGACTGAGACTTCT+TGG | - | chr3.2:25172818-25172837 | MS.gene63583:CDS | 40.0% | |
| TAGGAGATTTCATTCTAGGC+AGG | - | chr3.2:25173249-25173268 | MS.gene63583:intron | 40.0% | |
| ! | CCCAGCTGATTTAACGAAAT+AGG | + | chr3.2:25172926-25172945 | None:intergenic | 40.0% |
| ! | GGCTGTCTTCCTTATCTTTT+TGG | + | chr3.2:25173065-25173084 | None:intergenic | 40.0% |
| ! | GTTGTTGAGAAGCATAGTAC+GGG | - | chr3.2:25172612-25172631 | MS.gene63583:CDS | 40.0% |
| ! | TTTTCCAACATACGCATTGC+TGG | + | chr3.2:25173134-25173153 | None:intergenic | 40.0% |
| !! | CTCCTGATGAAGCATTGTAT+CGG | + | chr3.2:25172962-25172981 | None:intergenic | 40.0% |
| AACCAAATAGCCAGTCCAGT+AGG | - | chr3.2:25173230-25173249 | MS.gene63583:intron | 45.0% | |
| AACTCAAGGAGATGAGGGAT+GGG | - | chr3.2:25172635-25172654 | MS.gene63583:CDS | 45.0% | |
| AAGCATAGTACGGGAACTCA+AGG | - | chr3.2:25172621-25172640 | MS.gene63583:CDS | 45.0% | |
| ACCCATTGTCCCTGCTAAAT+TGG | + | chr3.2:25172757-25172776 | None:intergenic | 45.0% | |
| CGATACAATGCTTCATCAGG+AGG | - | chr3.2:25172960-25172979 | MS.gene63583:CDS | 45.0% | |
| CTCCGATACAATGCTTCATC+AGG | - | chr3.2:25172957-25172976 | MS.gene63583:CDS | 45.0% | |
| GGTTGAATTCCAGATCCATG+TGG | + | chr3.2:25173214-25173233 | None:intergenic | 45.0% | |
| TCCTGTGTGTGAATCATGGA+GGG | - | chr3.2:25172852-25172871 | MS.gene63583:CDS | 45.0% | |
| TGAATTCCAGATCCATGTGG+AGG | + | chr3.2:25173211-25173230 | None:intergenic | 45.0% | |
| !! | GTATTATGGACTGGTGCCAT+TGG | - | chr3.2:25173009-25173028 | MS.gene63583:intron | 45.0% |
| ACGGGAACTCAAGGAGATGA+GGG | - | chr3.2:25172630-25172649 | MS.gene63583:CDS | 50.0% | |
| ACTCAAGGAGATGAGGGATG+GGG | - | chr3.2:25172636-25172655 | MS.gene63583:CDS | 50.0% | |
| ATTGACAGGCAACCTCCACA+TGG | - | chr3.2:25173196-25173215 | MS.gene63583:intron | 50.0% | |
| CGTCAACCTTCCACACTCTT+CGG | + | chr3.2:25172900-25172919 | None:intergenic | 50.0% | |
| CGTTCCAGCAATGCGTATGT+TGG | - | chr3.2:25173127-25173146 | MS.gene63583:CDS | 50.0% | |
| CTCCTGTGTGTGAATCATGG+AGG | - | chr3.2:25172851-25172870 | MS.gene63583:CDS | 50.0% | |
| GAACTCAAGGAGATGAGGGA+TGG | - | chr3.2:25172634-25172653 | MS.gene63583:CDS | 50.0% | |
| GTCAACCTTCCACACTCTTC+GGG | + | chr3.2:25172899-25172918 | None:intergenic | 50.0% | |
| GTGCTCCTGTGTGTGAATCA+TGG | - | chr3.2:25172848-25172867 | MS.gene63583:CDS | 50.0% | |
| TAATACGTCGAGGAGAGGTG+TGG | - | chr3.2:25172663-25172682 | MS.gene63583:CDS | 50.0% | |
| TACGGGAACTCAAGGAGATG+AGG | - | chr3.2:25172629-25172648 | MS.gene63583:CDS | 50.0% | |
| TCCCTCCATGATTCACACAC+AGG | + | chr3.2:25172856-25172875 | None:intergenic | 50.0% | |
| ! | AATACGTCGAGGAGAGGTGT+GGG | - | chr3.2:25172664-25172683 | MS.gene63583:CDS | 50.0% |
| ! | TCACACACAGGAGCACAAGA+AGG | + | chr3.2:25172844-25172863 | None:intergenic | 50.0% |
| !! | ATGGGGTTGGTAATACGTCG+AGG | - | chr3.2:25172653-25172672 | MS.gene63583:CDS | 50.0% |
| !! | CTCCTACTGGACTGGCTATT+TGG | + | chr3.2:25173235-25173254 | None:intergenic | 50.0% |
| !! | GTTGGTAATACGTCGAGGAG+AGG | - | chr3.2:25172658-25172677 | MS.gene63583:CDS | 50.0% |
| AAGGAGATGAGGGATGGGGT+TGG | - | chr3.2:25172640-25172659 | MS.gene63583:CDS | 55.0% | |
| AGGCAACCTCCACATGGATC+TGG | - | chr3.2:25173202-25173221 | MS.gene63583:intron | 55.0% | |
| GTTCAGACTCCCGAAGAGTG+TGG | - | chr3.2:25172887-25172906 | MS.gene63583:CDS | 55.0% | |
| ! | AGACTCCCGAAGAGTGTGGA+AGG | - | chr3.2:25172891-25172910 | MS.gene63583:CDS | 55.0% |
| ! | CGAGGAGAGGTGTGGGTAGT+AGG | - | chr3.2:25172671-25172690 | MS.gene63583:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 25172610 | 25173327 | 25172610 | ID=MS.gene63583 |
| chr3.2 | mRNA | 25172610 | 25173327 | 25172610 | ID=MS.gene63583.t1;Parent=MS.gene63583 |
| chr3.2 | exon | 25173280 | 25173327 | 25173280 | ID=MS.gene63583.t1.exon1;Parent=MS.gene63583.t1 |
| chr3.2 | CDS | 25173280 | 25173327 | 25173280 | ID=cds.MS.gene63583.t1;Parent=MS.gene63583.t1 |
| chr3.2 | exon | 25173082 | 25173171 | 25173082 | ID=MS.gene63583.t1.exon2;Parent=MS.gene63583.t1 |
| chr3.2 | CDS | 25173082 | 25173171 | 25173082 | ID=cds.MS.gene63583.t1;Parent=MS.gene63583.t1 |
| chr3.2 | exon | 25172610 | 25172996 | 25172610 | ID=MS.gene63583.t1.exon3;Parent=MS.gene63583.t1 |
| chr3.2 | CDS | 25172610 | 25172996 | 25172610 | ID=cds.MS.gene63583.t1;Parent=MS.gene63583.t1 |
| Gene Sequence |
| Protein sequence |
