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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1235800 | XP_013444532.1 | 91.643 | 718 | 35 | 3 | 1 | 715 | 1 | 696 | 0.0 | 1343 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1235800 | sp|Q94C95|ATG1A_ARATH | 47.908 | 693 | 288 | 14 | 10 | 702 | 5 | 624 | 0.0 | 584 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1235800 | A0A072TMB4 | 91.643 | 718 | 35 | 3 | 1 | 715 | 1 | 696 | 0.0 | 1343 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1235800 | Msa1236050 | 0.987932 | 4.465193e-172 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1235800 | MtrunA17_Chr8g0345811 | 92.308 | 403 | 28 | 2 | 316 | 715 | 1 | 403 | 0.0 | 755 |
| Msa1235800 | MtrunA17_Chr8g0345801 | 90.714 | 280 | 4 | 1 | 1 | 280 | 1 | 258 | 0.0 | 521 |
| Msa1235800 | MtrunA17_Chr4g0008561 | 60.279 | 287 | 91 | 2 | 9 | 295 | 13 | 276 | 1.47e-111 | 354 |
| Msa1235800 | MtrunA17_Chr4g0008561 | 36.000 | 200 | 122 | 3 | 496 | 693 | 511 | 706 | 2.05e-26 | 115 |
| Msa1235800 | MtrunA17_Chr3g0129721 | 42.553 | 282 | 140 | 1 | 15 | 296 | 25 | 284 | 7.71e-81 | 259 |
| Msa1235800 | MtrunA17_Chr1g0203881 | 33.227 | 313 | 181 | 6 | 15 | 325 | 41 | 327 | 1.14e-46 | 173 |
| Msa1235800 | MtrunA17_Chr2g0284011 | 32.313 | 294 | 163 | 7 | 9 | 297 | 6 | 268 | 3.51e-44 | 165 |
| Msa1235800 | MtrunA17_Chr5g0441011 | 38.326 | 227 | 132 | 4 | 6 | 227 | 4 | 227 | 7.68e-44 | 164 |
| Msa1235800 | MtrunA17_Chr8g0346081 | 36.220 | 254 | 156 | 4 | 4 | 254 | 6 | 256 | 8.71e-44 | 163 |
| Msa1235800 | MtrunA17_Chr8g0346071 | 37.759 | 241 | 144 | 4 | 12 | 249 | 14 | 251 | 9.79e-44 | 163 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1235800 | AT3G61960.1 | 47.908 | 693 | 288 | 14 | 10 | 702 | 5 | 624 | 0.0 | 584 |
| Msa1235800 | AT3G61960.2 | 45.166 | 693 | 265 | 18 | 10 | 702 | 5 | 582 | 1.01e-174 | 512 |
| Msa1235800 | AT2G37840.1 | 58.966 | 290 | 96 | 2 | 10 | 299 | 7 | 273 | 1.98e-111 | 354 |
| Msa1235800 | AT2G37840.1 | 33.333 | 219 | 126 | 4 | 496 | 702 | 506 | 716 | 2.18e-23 | 106 |
| Msa1235800 | AT3G53930.1 | 57.986 | 288 | 98 | 2 | 10 | 297 | 15 | 279 | 6.54e-106 | 338 |
| Msa1235800 | AT3G53930.1 | 34.123 | 211 | 113 | 5 | 500 | 702 | 513 | 705 | 2.61e-25 | 112 |
| Msa1235800 | AT3G53930.2 | 57.986 | 288 | 98 | 2 | 10 | 297 | 15 | 279 | 6.64e-106 | 338 |
| Msa1235800 | AT3G53930.2 | 34.123 | 211 | 113 | 5 | 500 | 702 | 514 | 706 | 2.64e-25 | 112 |
| Msa1235800 | AT1G49180.2 | 40.199 | 301 | 158 | 1 | 11 | 311 | 3 | 281 | 1.27e-76 | 251 |
| Msa1235800 | AT1G49180.1 | 40.199 | 301 | 158 | 1 | 11 | 311 | 3 | 281 | 3.42e-76 | 251 |
Find 167 sgRNAs with CRISPR-Local
Find 416 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGAGGATTCAGTGGA+AGG | 0.601424 | 8_2:-14052385 | None:intergenic |
| AAACACTCAACTGAAATCCA+TGG | 0.596254 | 8_2:+14046575 | Msa1235800:five_prime_UTR |
| AAACATGCAGAACTTACTAT+TGG | 0.368405 | 8_2:+14049452 | Msa1235800:intron |
| AAAGTCCTTCTACAAAGTCC+TGG | 0.560819 | 8_2:-14052692 | None:intergenic |
| AAATGACTCAACATGATGCA+CGG | 0.603692 | 8_2:-14050639 | None:intergenic |
| AAATTCCCGGTCTTTCTTTA+AGG | 0.166657 | 8_2:-14051179 | None:intergenic |
| AACTAATGCACACGATAAGC+CGG | 0.514706 | 8_2:+14050769 | Msa1235800:CDS |
| AAGAAAGCTCTAGACATCTG+TGG | 0.690349 | 8_2:+14051456 | Msa1235800:CDS |
| AAGATAATGTCCATTGCATC+TGG | 0.479770 | 8_2:-14051797 | None:intergenic |
| AAGGGGACTAACCTAGACAT+TGG | 0.542108 | 8_2:+14051058 | Msa1235800:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAACTGATCAAAACTGTAGA+AGG | - | chr8_2:14046615-14046634 | None:intergenic | 30.0% | |
| ATAGACTCTGATACTATACT+AGG | + | chr8_2:14047518-14047537 | Msa1235800:intron | 30.0% | |
| TCTGATACTATACTAGGATT+TGG | + | chr8_2:14047524-14047543 | Msa1235800:intron | 30.0% | |
| CTGATACTATACTAGGATTT+GGG | + | chr8_2:14047525-14047544 | Msa1235800:intron | 30.0% | |
| TCTGATACGATACTAGAATT+TGG | + | chr8_2:14047692-14047711 | Msa1235800:intron | 30.0% | |
| CTGATACGATACTAGAATTT+GGG | + | chr8_2:14047693-14047712 | Msa1235800:intron | 30.0% | |
| CAATCTAACACTACAATTTC+AGG | + | chr8_2:14048360-14048379 | Msa1235800:intron | 30.0% | |
| GGGCAAAAAAATATCATGTT+TGG | - | chr8_2:14048515-14048534 | None:intergenic | 30.0% | |
| TATGCATTGCTTGTGTTAAT+TGG | + | chr8_2:14048548-14048567 | Msa1235800:intron | 30.0% | |
| CCAGTGTTATCAAATATGAA+CGG | - | chr8_2:14049248-14049267 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 14046441 | 14052898 | 14046441 | ID=Msa1235800;Name=Msa1235800 |
| chr8_2 | mRNA | 14046441 | 14052898 | 14046441 | ID=Msa1235800-mRNA-1;Parent=Msa1235800;Name=Msa1235800-mRNA-1;_AED=0.17;_eAED=0.17;_QI=193|0.91|0.92|1|1|1|13|381|715 |
| chr8_2 | exon | 14046441 | 14046879 | 14046441 | ID=Msa1235800-mRNA-1:exon:5370;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14046957 | 14047074 | 14046957 | ID=Msa1235800-mRNA-1:exon:5371;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14048612 | 14048670 | 14048612 | ID=Msa1235800-mRNA-1:exon:5372;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14049462 | 14049526 | 14049462 | ID=Msa1235800-mRNA-1:exon:5373;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14049640 | 14049733 | 14049640 | ID=Msa1235800-mRNA-1:exon:5374;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14049835 | 14049981 | 14049835 | ID=Msa1235800-mRNA-1:exon:5375;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14050077 | 14050188 | 14050077 | ID=Msa1235800-mRNA-1:exon:5376;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14050370 | 14050424 | 14050370 | ID=Msa1235800-mRNA-1:exon:5377;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14050538 | 14050836 | 14050538 | ID=Msa1235800-mRNA-1:exon:5378;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14050921 | 14051279 | 14050921 | ID=Msa1235800-mRNA-1:exon:5379;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14051396 | 14051693 | 14051396 | ID=Msa1235800-mRNA-1:exon:5380;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14051783 | 14051853 | 14051783 | ID=Msa1235800-mRNA-1:exon:5381;Parent=Msa1235800-mRNA-1 |
| chr8_2 | exon | 14052293 | 14052898 | 14052293 | ID=Msa1235800-mRNA-1:exon:5382;Parent=Msa1235800-mRNA-1 |
| chr8_2 | five_prime_UTR | 14046441 | 14046633 | 14046441 | ID=Msa1235800-mRNA-1:five_prime_utr;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14046634 | 14046879 | 14046634 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14046957 | 14047074 | 14046957 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14048612 | 14048670 | 14048612 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14049462 | 14049526 | 14049462 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14049640 | 14049733 | 14049640 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14049835 | 14049981 | 14049835 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14050077 | 14050188 | 14050077 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14050370 | 14050424 | 14050370 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14050538 | 14050836 | 14050538 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14050921 | 14051279 | 14050921 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14051396 | 14051693 | 14051396 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14051783 | 14051853 | 14051783 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | CDS | 14052293 | 14052517 | 14052293 | ID=Msa1235800-mRNA-1:cds;Parent=Msa1235800-mRNA-1 |
| chr8_2 | three_prime_UTR | 14052518 | 14052898 | 14052518 | ID=Msa1235800-mRNA-1:three_prime_utr;Parent=Msa1235800-mRNA-1 |
| Gene Sequence |
>Msa1235800 ATGGATTTGGTGGGACCCACAATGACCAGATTGGTCGGGGATTACATACTGGGTCCTCGTATCGGTTCAGGTTCATTTGCAGTGGTGTGGCGTTCACGTCATCGAAATTCAGGTTTGGAGGTAGCAATTAAGGAAATTGATAAGACCCAATTGAGTTCTAAAGTTAAAGATAATCTCATGAAAGAAATTTCTATTCTTAGTACTATTCATCATCCTAATATCATTCAACTCTTTGAAGCTATTCAGACGAATGATAGGATTTATCTTGTTTTGGAGTATTGTGGTGGAGGTGATCTTTCTGCTTATATTCAGCGATATGGGAGAGTTTCTGAATCTGTTGCTAGACATTTCATGAGGCAACTGGCTGCCGGTTTGCAGGTGCTTCAAGAAAAGAACCTCATACATAGAGATTTAAAACCACAGAACTTACTATTGGCAACTACTTCAGCTACACCACTTATGAAAATAGGAGATTTTGGTTTTGCACGGTCTCTCACACCTCTGCAGTTGGCAGATACATTATGTGGTTCACCTTATTACATGGCACCTGAGATAATTCAGAGTCAGAAGTATGATGCAAAGGCTGATTTATGGAGTGTTGGGGCAATATTGTATCAGCTAGTTGTCGGCAAACCGCCATTTGATGGAAATAGTCAATTGCAGGTTGTGAAGAGGCTAAACCGTGATATTTTGTTTCTTTTATCCATGTTTTTTAAAGATTCTGGTCAACTTTTTCAAAATATATTGGCATCTACTGAACTGCACTTTCCACCAACAATTTTAAAAGAGCTACATTCTGATTGTGTGGATCTTTGCAGAAGCCTTTTACGTCGAGATCCAGATGAGAGATTAACATTCAAGGCATTCTTCAGTCACAACTTCCTACAGGAACACAGGTGCATCGTGAATATTGAGCAGTTTTATTCACATCAATCAGAAAGCTCAATGGTTAATCAACTAGTTGGCTCTGCCTTTGAGGAGGTGTCTCAACCACATTCCGTGCATCATGTTGAGTCATTTGTAGATGATCCTGTGGCAGTCAGTTCAGCGGTCAATGAAACCATGCTTTTGCAAAGAAAAGGTGGCAAGATCACAACTGACACCCAGAGTGCTAAAGGATTGAATCCAACTAATGCACACGATAAGCCGGGGAAGTCCATTGATACTGATATTAATTTGTCAAACCAAGCTCGAGTTTCACATTTAATGGAGTCCATTGAGAAAGGTTATGTTCTCATCAATCCTCATTTTACATCATTGGAGGATTTCTCTGACTACTTTGAGGCGTCTGTGCTAGATAATCCCTCAAGTGGCGTTTCTCTCTGTCCTTTAAAGGGGACTAACCTAGACATTGGAAAACAAACTAAGGATCCGTCGTCTTCTTCAACTGATGGGTTAGACAATTTTAAAAGCAATGAACTCGAGGCATTTGTAGCATCCTGTGAATTTGCTACCTTAAAGAAAGACCGGGAATTTTCTTTCCTGCACCTTTCAAACAGGTTAGAGATGTTGGATCAGTATGCGCAAGTCCTTGGTGAACTTTCGCAAGAAAAGTATAACACAGGATTATATCTAGAATCGCTTGCGGTTGAGTTGGTGGTTTTGGCTATATGGAAGAAAGCTCTAGACATCTGTGGCACTTGGTCAGTCCCCATATCCGAGGGTGAGTTGAATGGAAGCAGTTCAATTAATGAGTCCATAATTGCTGGTGGAGATGCGAGCTTATCACAGACCATGGAACAGAAAATAAATTTTAGTGACCATTCCTCCATCTCTTTGTGGGCCAAGCATGGATTTGTCATTGCAGTTGATCGTGCTGAGAAACTATCATGTCATATTCAAAACATGGATGGTGCAGTTGAGATGCCAGATGCAATGGACATTATCTTCCAACAAGCACTCCTTGTTGGGACAAATGCTGCTGTAGATGAGTATATGAATAACAAAGATAAGTCTGCAGCATCTTACTCAAAAGCGATGCTTCTACTTTCATTTATTGTGGGAGAAGCAGAGAACCTTCCACTGAATCCTCCATTTTCACTTCTTGCTGATGATCATAAGCGAATCGTGCAATATATTCGCAACTTGCAGTTTCACAAAAAATCATTGACAGAATCTGCTTCAAGGGAATCCCATACTCTTCCGTGA |
| Protein sequence |
>Msa1235800 MDLVGPTMTRLVGDYILGPRIGSGSFAVVWRSRHRNSGLEVAIKEIDKTQLSSKVKDNLMKEISILSTIHHPNIIQLFEAIQTNDRIYLVLEYCGGGDLSAYIQRYGRVSESVARHFMRQLAAGLQVLQEKNLIHRDLKPQNLLLATTSATPLMKIGDFGFARSLTPLQLADTLCGSPYYMAPEIIQSQKYDAKADLWSVGAILYQLVVGKPPFDGNSQLQVVKRLNRDILFLLSMFFKDSGQLFQNILASTELHFPPTILKELHSDCVDLCRSLLRRDPDERLTFKAFFSHNFLQEHRCIVNIEQFYSHQSESSMVNQLVGSAFEEVSQPHSVHHVESFVDDPVAVSSAVNETMLLQRKGGKITTDTQSAKGLNPTNAHDKPGKSIDTDINLSNQARVSHLMESIEKGYVLINPHFTSLEDFSDYFEASVLDNPSSGVSLCPLKGTNLDIGKQTKDPSSSSTDGLDNFKSNELEAFVASCEFATLKKDREFSFLHLSNRLEMLDQYAQVLGELSQEKYNTGLYLESLAVELVVLAIWKKALDICGTWSVPISEGELNGSSSINESIIAGGDASLSQTMEQKINFSDHSSISLWAKHGFVIAVDRAEKLSCHIQNMDGAVEMPDAMDIIFQQALLVGTNAAVDEYMNNKDKSAASYSKAMLLLSFIVGEAENLPLNPPFSLLADDHKRIVQYIRNLQFHKKSLTESASRESHTLP* |
