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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0629530 | XP_003604614.2 | 77.150 | 407 | 72 | 2 | 82 | 467 | 23 | 429 | 0.0 | 634 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0629530 | sp|V9M398|RUN1_VITRO | 48.593 | 391 | 189 | 8 | 86 | 472 | 27 | 409 | 8.34e-99 | 326 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0128120 | Msa0629530 | 0.808666 | 2.768973e-50 | -8.615850e-47 |
| Msa0290870 | Msa0629530 | 0.811582 | 6.514896e-51 | -8.615850e-47 |
| Msa0411390 | Msa0629530 | 0.818938 | 1.509259e-52 | -8.615850e-47 |
| Msa0455760 | Msa0629530 | 0.809104 | 2.231162e-50 | -8.615850e-47 |
| Msa0589320 | Msa0629530 | 0.850534 | 1.595389e-60 | -8.615850e-47 |
| Msa0615010 | Msa0629530 | 0.826475 | 2.658942e-54 | -8.615850e-47 |
| Msa0629530 | Msa0723570 | 0.800897 | 1.161888e-48 | -8.615850e-47 |
| Msa0629530 | Msa0927310 | 0.807406 | 5.134096e-50 | -8.615850e-47 |
| Msa0629530 | Msa0936060 | 0.803130 | 4.037250e-49 | -8.615850e-47 |
| Msa0629530 | Msa0999290 | 0.804746 | 1.863155e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0629530 | MtrunA17_Chr4g0005891 | 77.150 | 407 | 72 | 2 | 82 | 467 | 23 | 429 | 0.0 | 634 |
| Msa0629530 | MtrunA17_Chr4g0005871 | 80.990 | 384 | 73 | 0 | 84 | 467 | 131 | 514 | 0.0 | 632 |
| Msa0629530 | MtrunA17_Chr4g0005851 | 77.865 | 384 | 85 | 0 | 84 | 467 | 35 | 418 | 0.0 | 617 |
| Msa0629530 | MtrunA17_Chr4g0005591 | 73.924 | 395 | 93 | 6 | 77 | 467 | 70 | 458 | 0.0 | 576 |
| Msa0629530 | MtrunA17_Chr6g0455211 | 72.544 | 397 | 96 | 2 | 84 | 467 | 37 | 433 | 0.0 | 575 |
| Msa0629530 | MtrunA17_Chr6g0455131 | 70.408 | 392 | 111 | 1 | 81 | 467 | 82 | 473 | 0.0 | 575 |
| Msa0629530 | MtrunA17_Chr6g0454971 | 71.282 | 390 | 111 | 1 | 78 | 467 | 41 | 429 | 0.0 | 564 |
| Msa0629530 | MtrunA17_Chr6g0455191 | 65.899 | 434 | 140 | 3 | 41 | 467 | 265 | 697 | 0.0 | 560 |
| Msa0629530 | MtrunA17_Chr6g0455191 | 56.364 | 165 | 71 | 1 | 88 | 252 | 66 | 229 | 1.18e-46 | 174 |
| Msa0629530 | MtrunA17_Chr6g0454951 | 68.939 | 396 | 111 | 2 | 84 | 467 | 80 | 475 | 0.0 | 556 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0629530 | AT5G17680.2 | 41.602 | 387 | 208 | 6 | 85 | 467 | 17 | 389 | 7.42e-87 | 290 |
| Msa0629530 | AT1G27170.1 | 39.535 | 387 | 231 | 3 | 85 | 471 | 13 | 396 | 6.59e-86 | 288 |
| Msa0629530 | AT1G17600.1 | 40.852 | 399 | 221 | 7 | 78 | 471 | 4 | 392 | 1.23e-85 | 284 |
| Msa0629530 | AT5G17680.1 | 41.645 | 389 | 204 | 8 | 85 | 467 | 17 | 388 | 2.14e-85 | 286 |
| Msa0629530 | AT5G36930.3 | 43.003 | 393 | 205 | 6 | 86 | 472 | 14 | 393 | 2.78e-85 | 284 |
| Msa0629530 | AT5G36930.4 | 43.003 | 393 | 205 | 6 | 86 | 472 | 14 | 393 | 4.24e-85 | 284 |
| Msa0629530 | AT5G36930.1 | 43.003 | 393 | 205 | 6 | 86 | 472 | 14 | 393 | 4.24e-85 | 284 |
| Msa0629530 | AT5G36930.2 | 43.003 | 393 | 205 | 6 | 86 | 472 | 17 | 396 | 4.30e-85 | 284 |
| Msa0629530 | AT5G49140.1 | 39.231 | 390 | 219 | 7 | 85 | 467 | 14 | 392 | 2.36e-84 | 280 |
| Msa0629530 | AT5G41750.1 | 40.052 | 387 | 220 | 6 | 84 | 467 | 11 | 388 | 1.91e-83 | 278 |
Find 284 sgRNAs with CRISPR-Local
Find 576 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCTTGGTCAGATTATA+AGG | 0.252586 | 4_3:-10395440 | None:intergenic |
| AAAATGAATGCTCTTCCAAG+AGG | 0.621913 | 4_3:+10394467 | Msa0629530:three_prime_UTR |
| AAACGTTGTGCACTACGACC+TGG | 0.558081 | 4_3:-10389958 | None:intergenic |
| AAAGACACTGGCAATATACA+AGG | 0.598016 | 4_3:-10395603 | None:intergenic |
| AAAGATACAAAACATTGAGT+CGG | 0.560307 | 4_3:+10388839 | Msa0629530:CDS |
| AAAGATGAGGTTAACTCTGA+TGG | 0.521024 | 4_3:-10394579 | None:intergenic |
| AAAGCCATTTACAATAAAAT+TGG | 0.228268 | 4_3:+10388699 | Msa0629530:CDS |
| AAATGCAGTTGTCCAGAAAC+TGG | 0.417341 | 4_3:-10388774 | None:intergenic |
| AAATGTAGTTAAGTACTCTG+GGG | 0.691155 | 4_3:+10389145 | Msa0629530:CDS |
| AAATTCTTCTAGAAGCGTAC+TGG | 0.446989 | 4_3:-10394869 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTGAAAGAAAAGAATGGTAT+AGG | - | chr4_3:10386457-10386476 | None:intergenic | 30.0% | |
| GAATGGTAAAGAATTGAAAG+TGG | - | chr4_3:10386491-10386510 | None:intergenic | 30.0% | |
| TTCTTTACCATTCTTTATCG+AGG | + | chr4_3:10386498-10386517 | Msa0629530:five_prime_UTR | 30.0% | |
| TCTTTACCATTCTTTATCGA+GGG | + | chr4_3:10386499-10386518 | Msa0629530:five_prime_UTR | 30.0% | |
| TCTCTAAATTTCTCAAGTGA+GGG | - | chr4_3:10386580-10386599 | None:intergenic | 30.0% | |
| TCAGAAATTGATGCATCTAT+AGG | + | chr4_3:10387059-10387078 | Msa0629530:intron | 30.0% | |
| CAGAAATTGATGCATCTATA+GGG | + | chr4_3:10387060-10387079 | Msa0629530:intron | 30.0% | |
| AAGTTATAGGCTACAAAGTT+TGG | + | chr4_3:10387190-10387209 | Msa0629530:five_prime_UTR | 30.0% | |
| AGTTATAGGCTACAAAGTTT+GGG | + | chr4_3:10387191-10387210 | Msa0629530:five_prime_UTR | 30.0% | |
| ATCAATACCTTTCCTACATA+TGG | - | chr4_3:10387353-10387372 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 10386439 | 10395798 | 10386439 | ID=Msa0629530;Name=Msa0629530 |
| chr4_3 | mRNA | 10386439 | 10395798 | 10386439 | ID=Msa0629530-mRNA-1;Parent=Msa0629530;Name=Msa0629530-mRNA-1;_AED=0.12;_eAED=0.12;_QI=391|1|1|1|0.4|0.18|11|2896|472 |
| chr4_3 | exon | 10386439 | 10386647 | 10386439 | ID=Msa0629530-mRNA-1:exon:3210;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10387063 | 10387230 | 10387063 | ID=Msa0629530-mRNA-1:exon:3211;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10387360 | 10388077 | 10387360 | ID=Msa0629530-mRNA-1:exon:3212;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10388497 | 10389602 | 10388497 | ID=Msa0629530-mRNA-1:exon:3213;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10389922 | 10390197 | 10389922 | ID=Msa0629530-mRNA-1:exon:3214;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10391234 | 10392055 | 10391234 | ID=Msa0629530-mRNA-1:exon:3215;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10394022 | 10394652 | 10394022 | ID=Msa0629530-mRNA-1:exon:3216;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10394678 | 10394731 | 10394678 | ID=Msa0629530-mRNA-1:exon:3217;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10394760 | 10394903 | 10394760 | ID=Msa0629530-mRNA-1:exon:3218;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10395165 | 10395332 | 10395165 | ID=Msa0629530-mRNA-1:exon:3219;Parent=Msa0629530-mRNA-1 |
| chr4_3 | exon | 10395389 | 10395798 | 10395389 | ID=Msa0629530-mRNA-1:exon:3220;Parent=Msa0629530-mRNA-1 |
| chr4_3 | five_prime_UTR | 10386439 | 10386647 | 10386439 | ID=Msa0629530-mRNA-1:five_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | five_prime_UTR | 10387063 | 10387230 | 10387063 | ID=Msa0629530-mRNA-1:five_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | five_prime_UTR | 10387360 | 10387373 | 10387360 | ID=Msa0629530-mRNA-1:five_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | CDS | 10387374 | 10388077 | 10387374 | ID=Msa0629530-mRNA-1:cds;Parent=Msa0629530-mRNA-1 |
| chr4_3 | CDS | 10388497 | 10389211 | 10388497 | ID=Msa0629530-mRNA-1:cds;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10389212 | 10389602 | 10389212 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10389922 | 10390197 | 10389922 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10391234 | 10392055 | 10391234 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10394022 | 10394652 | 10394022 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10394678 | 10394731 | 10394678 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10394760 | 10394903 | 10394760 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10395165 | 10395332 | 10395165 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| chr4_3 | three_prime_UTR | 10395389 | 10395798 | 10395389 | ID=Msa0629530-mRNA-1:three_prime_utr;Parent=Msa0629530-mRNA-1 |
| Gene Sequence |
>Msa0629530 ATGGGTAGGAGAAGAAACGACCTCTGGAAACATGCTACAAGCGTAGAAAATGGTCGTAAATGGATATGCAATTATTGCCATGATCAGTTTAGTGGAGGACCTTCAAAAATTGCAGCACACCTGAGGTTGGATGGCAAAAGCGGAGGCATTAAGCGATGCTCCAATTATCACGTGGTTGGTAATGAAGGAGTTCACAATATCAACAATATGGCATCTACTGACGACGACGACAGTAGAGGAAGAAGAGGAAGAAAGTACGATGTGTTTTTGAGTTTTAGAGGAGAAGACACTCGCGCATCCTTCACTTCTCATCTCTATGCTTCTCTTCAAAACTCCGGAATTATCGTCTTTAAGGACGATCAATCACTTCAAAGAGGAGACCACATCTCGTTATCGCTAATACAAGAGATTAAAGAATCTCAAATTTCTGTTATTGTCTTCTCCAAGAATTACGCTGATTCACCATGGTGTCTTCGAGAGTTGATTAATATAATGGAGTGTCACAGAACCATAGGTCAGGCGGTTCTTCCTGTATTCTATGATATATATCCATCCGATGTTCGTCATCAAACAGGTGAGTTTGGTGAAGCTTTTCAAAAAGTATTGAACAAAGTTTTAAAAGGAGATGAATTCATGGTACCAAAGTGGAGAGACGCACTTCATGATGCTGCTGGCCTTGCAGGATTTGTTGTCCTGAATTCCAGGAATGAAAGTGAGGTTATCAAGGATATTGTTGAAAATGTTACACGCTTGCTTGACAAGACAGACTTGTTCATTGCTGATAATCCGGTGGGAGTCGAATCTCGGGTGCAAGATATGATTCAACTTCTAGACACTCACCAATCAAATGATGTTCTACTAATAGGGATGTGGGGGATGGGTGGAATCGGCAAATCCACCATTGCAAAAGCCATTTACAATAAAATTGGCCGCAATTTTGAAGGTAGGAGCTTTCTTGCAAATATTAGGGAGGTTGGGGAGCCAGTTTCTGGACAACTGCATTTACAAAAACAATTTATAGATGATATTTTCAAAGAAACCACAACAAAGATACAAAACATTGAGTCGGGAAAATCTATATTAAAAGAAAGACTTTGTCATAAAAGAGTTCTTCTTGTACTTGATGATGTGAATAGATTGGACCAACTAAATGCTTTGTGTGGAAGTTGTAAATGGTTTTCTCCTGGGAGTAGAATAATCATCACAACCAGGGATATGGATATACTTAGAGCGAAAAAAGTTGACAAGATATACTCAATGAAAGAAATGAATGAAAGTGAATCTCTTGAGCTTTTTAGTTGGCATGCATTCAAGCAAAAGAGTCCCAAAGAAGATTTTTCTGAAATTTCCATAAATGTAGTTAAGTACTCTGGGGGGTTGCCGCTAGCTCTTGAAGTCCTTTGGGTCCTACTTGTTTGA |
| Protein sequence |
>Msa0629530 MGRRRNDLWKHATSVENGRKWICNYCHDQFSGGPSKIAAHLRLDGKSGGIKRCSNYHVVGNEGVHNINNMASTDDDDSRGRRGRKYDVFLSFRGEDTRASFTSHLYASLQNSGIIVFKDDQSLQRGDHISLSLIQEIKESQISVIVFSKNYADSPWCLRELINIMECHRTIGQAVLPVFYDIYPSDVRHQTGEFGEAFQKVLNKVLKGDEFMVPKWRDALHDAAGLAGFVVLNSRNESEVIKDIVENVTRLLDKTDLFIADNPVGVESRVQDMIQLLDTHQSNDVLLIGMWGMGGIGKSTIAKAIYNKIGRNFEGRSFLANIREVGEPVSGQLHLQKQFIDDIFKETTTKIQNIESGKSILKERLCHKRVLLVLDDVNRLDQLNALCGSCKWFSPGSRIIITTRDMDILRAKKVDKIYSMKEMNESESLELFSWHAFKQKSPKEDFSEISINVVKYSGGLPLALEVLWVLLV* |
