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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475700 | XP_003602921.2 | 75.055 | 457 | 79 | 6 | 5 | 427 | 41 | 496 | 0.0 | 694 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475700 | sp|Q9C7Z9|SCP18_ARATH | 51.778 | 450 | 172 | 8 | 13 | 427 | 25 | 464 | 1.63e-156 | 453 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0475700 | 0.816005 | 6.910747e-52 | -8.615850e-47 |
| Msa0000610 | Msa0475700 | 0.885124 | 1.065835e-71 | -8.615850e-47 |
| Msa0000800 | Msa0475700 | -0.813790 | 2.141320e-51 | -8.615850e-47 |
| Msa0001040 | Msa0475700 | 0.827932 | 1.190736e-54 | -8.615850e-47 |
| Msa0001510 | Msa0475700 | 0.850254 | 1.912184e-60 | -8.615850e-47 |
| Msa0002110 | Msa0475700 | 0.865142 | 7.316047e-65 | -8.615850e-47 |
| Msa0002690 | Msa0475700 | 0.879215 | 1.494065e-69 | -8.615850e-47 |
| Msa0002700 | Msa0475700 | 0.877067 | 8.458908e-69 | -8.615850e-47 |
| Msa0003340 | Msa0475700 | 0.884602 | 1.666629e-71 | -8.615850e-47 |
| Msa0004180 | Msa0475700 | 0.888661 | 4.844392e-73 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475700 | MtrunA17_Chr3g0133011 | 75.055 | 457 | 79 | 6 | 5 | 427 | 41 | 496 | 0.0 | 694 |
| Msa0475700 | MtrunA17_Chr2g0285351 | 62.222 | 450 | 130 | 6 | 11 | 427 | 27 | 469 | 0.0 | 562 |
| Msa0475700 | MtrunA17_Chr2g0285371 | 62.138 | 449 | 131 | 6 | 11 | 427 | 28 | 469 | 0.0 | 561 |
| Msa0475700 | MtrunA17_Chr2g0285381 | 58.705 | 448 | 141 | 6 | 11 | 427 | 31 | 465 | 0.0 | 532 |
| Msa0475700 | MtrunA17_Chr4g0009701 | 58.784 | 444 | 141 | 7 | 15 | 427 | 38 | 470 | 0.0 | 521 |
| Msa0475700 | MtrunA17_Chr4g0009681 | 56.081 | 444 | 153 | 6 | 15 | 427 | 35 | 467 | 3.52e-177 | 503 |
| Msa0475700 | MtrunA17_Chr4g0009661 | 55.180 | 444 | 157 | 8 | 15 | 427 | 38 | 470 | 1.40e-174 | 496 |
| Msa0475700 | MtrunA17_Chr4g0009711 | 55.457 | 449 | 158 | 7 | 10 | 427 | 33 | 470 | 2.22e-174 | 496 |
| Msa0475700 | MtrunA17_Chr4g0009651 | 55.180 | 444 | 157 | 7 | 15 | 427 | 38 | 470 | 9.37e-174 | 494 |
| Msa0475700 | MtrunA17_Chr4g0009641 | 56.019 | 432 | 148 | 7 | 15 | 427 | 38 | 446 | 4.24e-168 | 479 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0475700 | AT1G33540.1 | 51.778 | 450 | 172 | 8 | 13 | 427 | 25 | 464 | 1.65e-157 | 453 |
| Msa0475700 | AT5G09640.1 | 50.446 | 448 | 178 | 10 | 16 | 427 | 26 | 465 | 6.51e-153 | 441 |
| Msa0475700 | AT2G22970.1 | 50.783 | 447 | 154 | 6 | 13 | 427 | 21 | 433 | 7.83e-153 | 440 |
| Msa0475700 | AT3G10450.1 | 50.559 | 447 | 155 | 6 | 13 | 427 | 25 | 437 | 1.03e-151 | 437 |
| Msa0475700 | AT1G73280.1 | 49.889 | 449 | 159 | 6 | 11 | 427 | 27 | 441 | 7.28e-151 | 435 |
| Msa0475700 | AT2G22920.2 | 51.236 | 445 | 149 | 7 | 13 | 423 | 21 | 431 | 1.18e-150 | 434 |
| Msa0475700 | AT1G73300.1 | 51.230 | 447 | 152 | 6 | 13 | 427 | 29 | 441 | 1.45e-150 | 434 |
| Msa0475700 | AT1G73300.2 | 51.230 | 447 | 152 | 6 | 13 | 427 | 29 | 441 | 1.45e-150 | 434 |
| Msa0475700 | AT1G73290.1 | 51.454 | 447 | 149 | 7 | 13 | 427 | 28 | 438 | 2.93e-150 | 434 |
| Msa0475700 | AT1G73310.1 | 51.230 | 447 | 152 | 6 | 13 | 427 | 29 | 441 | 3.35e-150 | 434 |
Find 250 sgRNAs with CRISPR-Local
Find 1531 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAGTAGAACAATTCCG+CGG | 0.712968 | 3_3:-79082404 | None:intergenic |
| AAATGGAAGCGTTGTGACTA+TGG | 0.369341 | 3_3:+79105405 | Msa0475700:CDS |
| AAATTTCTTGAACGATAATT+GGG | 0.406294 | 3_3:-79084089 | None:intergenic |
| AACAAGATCCTCTCTTGCTT+TGG | 0.366863 | 3_3:+79082449 | Msa0475700:five_prime_UTR |
| AACAGGGAAGAGAAGTGGTG+TGG | 0.668685 | 3_3:+79082116 | Msa0475700:five_prime_UTR |
| AAGAAGTCTCCTCCTACCAT+TGG | 0.539846 | 3_3:-79088467 | None:intergenic |
| AAGTGAAACAAATGAGAATG+CGG | 0.659616 | 3_3:+79096500 | Msa0475700:CDS |
| AATACCATTTAATCATGGCA+TGG | 0.632510 | 3_3:+79100623 | Msa0475700:CDS |
| AATAGCATTTAATCATGGCA+TGG | 0.545622 | 3_3:+79086850 | Msa0475700:five_prime_UTR |
| AATATAGGAGCAAGTTCATT+TGG | 0.380072 | 3_3:+79091714 | Msa0475700:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATTGAGATGTTGCAAAAACA+AGG | - | chr3_3:79082285-79082304 | None:intergenic | 30.0% | |
| AAAATAGTAGAACAATTCCG+CGG | - | chr3_3:79082407-79082426 | None:intergenic | 30.0% | |
| ACATTCGATGGAAAAACATT+GGG | - | chr3_3:79082555-79082574 | None:intergenic | 30.0% | |
| AACTTCTTGGAATATTTGGT+TGG | - | chr3_3:79083351-79083370 | None:intergenic | 30.0% | |
| CAGTAACTTCTTGGAATATT+TGG | - | chr3_3:79083355-79083374 | None:intergenic | 30.0% | |
| CAAATATTCCAAGAAGTTAC+TGG | + | chr3_3:79083353-79083372 | Msa0475700:intron | 30.0% | |
| AAATATGACCAGTAACTTCT+TGG | - | chr3_3:79083364-79083383 | None:intergenic | 30.0% | |
| GATATTTATCATGGCTCAAT+TGG | - | chr3_3:79083544-79083563 | None:intergenic | 30.0% | |
| GTGCTAAAGTTAAGGAAATT+TGG | - | chr3_3:79083570-79083589 | None:intergenic | 30.0% | |
| TTTCACTTGTGCTAAAGTTA+AGG | - | chr3_3:79083578-79083597 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 79082018 | 79106387 | 79082018 | ID=Msa0475700;Name=Msa0475700 |
| chr3_3 | mRNA | 79082018 | 79106387 | 79082018 | ID=Msa0475700-mRNA-1;Parent=Msa0475700;Name=Msa0475700-mRNA-1;_AED=0.28;_eAED=0.28;_QI=1948|0.75|0.72|1|0.87|0.84|25|203|427 |
| chr3_3 | exon | 79082018 | 79082523 | 79082018 | ID=Msa0475700-mRNA-1:exon:21418;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79083000 | 79083076 | 79083000 | ID=Msa0475700-mRNA-1:exon:21419;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79083781 | 79083903 | 79083781 | ID=Msa0475700-mRNA-1:exon:21420;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79084015 | 79084117 | 79084015 | ID=Msa0475700-mRNA-1:exon:21421;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79084418 | 79084455 | 79084418 | ID=Msa0475700-mRNA-1:exon:21422;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79086797 | 79086898 | 79086797 | ID=Msa0475700-mRNA-1:exon:21423;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79087043 | 79087129 | 79087043 | ID=Msa0475700-mRNA-1:exon:21424;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79088394 | 79088549 | 79088394 | ID=Msa0475700-mRNA-1:exon:21425;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79090249 | 79090320 | 79090249 | ID=Msa0475700-mRNA-1:exon:21426;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79090959 | 79091077 | 79090959 | ID=Msa0475700-mRNA-1:exon:21427;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79091217 | 79091330 | 79091217 | ID=Msa0475700-mRNA-1:exon:21428;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79091421 | 79091466 | 79091421 | ID=Msa0475700-mRNA-1:exon:21429;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79091566 | 79091976 | 79091566 | ID=Msa0475700-mRNA-1:exon:21430;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79096384 | 79096603 | 79096384 | ID=Msa0475700-mRNA-1:exon:21431;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79098244 | 79098320 | 79098244 | ID=Msa0475700-mRNA-1:exon:21432;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79098447 | 79098569 | 79098447 | ID=Msa0475700-mRNA-1:exon:21433;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79098670 | 79098753 | 79098670 | ID=Msa0475700-mRNA-1:exon:21434;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79100573 | 79100671 | 79100573 | ID=Msa0475700-mRNA-1:exon:21435;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79100770 | 79100856 | 79100770 | ID=Msa0475700-mRNA-1:exon:21436;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79104103 | 79104255 | 79104103 | ID=Msa0475700-mRNA-1:exon:21437;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79105207 | 79105278 | 79105207 | ID=Msa0475700-mRNA-1:exon:21438;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79105393 | 79105511 | 79105393 | ID=Msa0475700-mRNA-1:exon:21439;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79105622 | 79105735 | 79105622 | ID=Msa0475700-mRNA-1:exon:21440;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79105965 | 79106010 | 79105965 | ID=Msa0475700-mRNA-1:exon:21441;Parent=Msa0475700-mRNA-1 |
| chr3_3 | exon | 79106101 | 79106387 | 79106101 | ID=Msa0475700-mRNA-1:exon:21442;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79082018 | 79082523 | 79082018 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79083000 | 79083076 | 79083000 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79083781 | 79083903 | 79083781 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79084015 | 79084117 | 79084015 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79084418 | 79084455 | 79084418 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79086797 | 79086898 | 79086797 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79087043 | 79087129 | 79087043 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79088394 | 79088549 | 79088394 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79090249 | 79090320 | 79090249 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79090959 | 79091077 | 79090959 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79091217 | 79091330 | 79091217 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79091421 | 79091466 | 79091421 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | five_prime_UTR | 79091566 | 79091970 | 79091566 | ID=Msa0475700-mRNA-1:five_prime_utr;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79091971 | 79091976 | 79091971 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79096384 | 79096603 | 79096384 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79098244 | 79098320 | 79098244 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79098447 | 79098569 | 79098447 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79098670 | 79098753 | 79098670 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79100573 | 79100671 | 79100573 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79100770 | 79100856 | 79100770 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79104103 | 79104255 | 79104103 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79105207 | 79105278 | 79105207 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79105393 | 79105511 | 79105393 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79105622 | 79105735 | 79105622 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79105965 | 79106010 | 79105965 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | CDS | 79106101 | 79106184 | 79106101 | ID=Msa0475700-mRNA-1:cds;Parent=Msa0475700-mRNA-1 |
| chr3_3 | three_prime_UTR | 79106185 | 79106387 | 79106185 | ID=Msa0475700-mRNA-1:three_prime_utr;Parent=Msa0475700-mRNA-1 |
| Gene Sequence |
>Msa0475700 ATGTGTTGTCCCTCTTCCTATCTTGTCTTTGCAACATCACACTCCATTGTGCAGTTCCTTCCTGGTTTTGAAGGCCCTCTTCCTTTTCTACTCGAAACTGGGTACGTCGGAGTAAGTGATCAAAGTGAAACAAATGAGAATGCGGCGGAACTGTTCTACTATTTTATAGAGTCAGAAAACAATCCTAACGAAGATCCTCTCTTGCTTTGGCTAACCGGTGGTCCTGGTCCACTATCATTTAATAAAGAGGAATACAACGGAAGTTTACCAAATTTGCTATTGAGGCCACATTCGTGGACTAAGGTAAGTAATATTATATTTTTGGATTTGCCTGTGGGTACTGGATTCTCTTATCCCAAAACAGAAAGTGCTGTTCAGCAAAGCACCTTGAAGCTAGCTCACAATGCTCATCAATTTCTTAGGAAGTGGTTGATTGATCATCCAAAATTCATCTCAAATGAAGTGTACATTGCTGGTGACTCATACTCGGGTATTACAGTTCCAATTATTGGATACATACTTGGAAATCCCATAACAGCACCAAGTGACGATAATTACAGAATACCATTTAATCATGGCATGGCACTAATTTCTGATGAACGTTACGAGTCACTGCAAAAAAATTGTAGAGGCGAGTATAAAAATATGGATCCCCAAAACACATTTTGTCTGAAAGTCTTCCAATCCTACGAGGAGGCTATTTCAGGAGTTAATATGGCTCATGTTTTGGAACCGAATTGCGAGTTTCGTTTGCCAAATCCAACGGAAGTCCTTGGGAGGAGACTCCTTATTCATAAGGCCAACACCATTTTTAGTTCTTCTCTTACATTGCCACATTTGACCTGTCGGAGTTATGCATATTTCCTTTCTGCCTATTGGGCCAACGACGACAATGTTCGCAAAGCACTGCACATTCAAAAGGGAAGTATAGGAAAATGGAAGCGTTGTGACTATGGCATACCTTTCAAGTACGAACCCCTTAGCAGTTTTGAGTATCATGTAAATCTTAGCAGAAAAGGCTATCGTTCATTAATATACAGCGGGGATCATGATATGTTAGTTCCATTCATGGCGACTCAAGCTTGGATAAGGTCGTTAAACTATTCTATCATCGATGATTGGAGGCAATGGTATTCTAATGCCCAAGTTGCAGGATACACGAGGACTTACTCAAATTTGATGACATTTGCAACTGTGAAGGGGGGAGGACATACTGCTCCAGAGTACAAACCTGAAGAATGTTTTTCCATGTTCAGTAGGTGGATATCTTATAAGCCACTCTAG |
| Protein sequence |
>Msa0475700 MCCPSSYLVFATSHSIVQFLPGFEGPLPFLLETGYVGVSDQSETNENAAELFYYFIESENNPNEDPLLLWLTGGPGPLSFNKEEYNGSLPNLLLRPHSWTKVSNIIFLDLPVGTGFSYPKTESAVQQSTLKLAHNAHQFLRKWLIDHPKFISNEVYIAGDSYSGITVPIIGYILGNPITAPSDDNYRIPFNHGMALISDERYESLQKNCRGEYKNMDPQNTFCLKVFQSYEEAISGVNMAHVLEPNCEFRLPNPTEVLGRRLLIHKANTIFSSSLTLPHLTCRSYAYFLSAYWANDDNVRKALHIQKGSIGKWKRCDYGIPFKYEPLSSFEYHVNLSRKGYRSLIYSGDHDMLVPFMATQAWIRSLNYSIIDDWRQWYSNAQVAGYTRTYSNLMTFATVKGGGHTAPEYKPEECFSMFSRWISYKPL* |
