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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0838160 | XP_024640978.1 | 78.302 | 106 | 23 | 0 | 614 | 719 | 181 | 286 | 6.34e-38 | 160 |
| Msa0838160 | XP_024640978.1 | 97.500 | 520 | 13 | 0 | 1 | 520 | 1 | 520 | 0.0 | 1034 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0838160 | sp|F4I9E1|NFD4_ARATH | 31.698 | 530 | 327 | 14 | 12 | 518 | 42 | 559 | 1.71e-64 | 228 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0398770 | Msa0838160 | 0.801035 | 1.088900e-48 | -8.615850e-47 |
| Msa0631700 | Msa0838160 | 0.812398 | 4.325776e-51 | -8.615850e-47 |
| Msa0685390 | Msa0838160 | -0.812031 | 5.200457e-51 | -8.615850e-47 |
| Msa0758930 | Msa0838160 | 0.838608 | 2.599409e-57 | -8.615850e-47 |
| Msa0838160 | Msa1146980 | 0.809675 | 1.682724e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0838160 | MtrunA17_Chr5g0405621 | 97.500 | 520 | 13 | 0 | 1 | 520 | 1 | 520 | 0.0 | 1034 |
| Msa0838160 | MtrunA17_Chr5g0405621 | 78.302 | 106 | 23 | 0 | 614 | 719 | 181 | 286 | 5.83e-42 | 160 |
| Msa0838160 | MtrunA17_Chr4g0037301 | 63.340 | 521 | 179 | 4 | 11 | 520 | 13 | 532 | 0.0 | 659 |
| Msa0838160 | MtrunA17_Chr2g0304561 | 36.667 | 540 | 304 | 7 | 14 | 518 | 13 | 549 | 1.63e-106 | 337 |
| Msa0838160 | MtrunA17_Chr4g0064981 | 35.165 | 546 | 311 | 7 | 14 | 518 | 12 | 555 | 7.47e-103 | 327 |
| Msa0838160 | MtrunA17_Chr7g0225191 | 33.805 | 565 | 311 | 7 | 12 | 518 | 14 | 573 | 2.25e-100 | 321 |
| Msa0838160 | MtrunA17_Chr3g0132161 | 34.909 | 550 | 308 | 12 | 9 | 518 | 11 | 550 | 2.56e-96 | 310 |
| Msa0838160 | MtrunA17_Chr5g0442481 | 34.808 | 520 | 319 | 7 | 12 | 519 | 10 | 521 | 1.75e-93 | 301 |
| Msa0838160 | MtrunA17_Chr2g0330551 | 32.413 | 543 | 320 | 10 | 8 | 520 | 2 | 527 | 2.32e-87 | 285 |
| Msa0838160 | MtrunA17_Chr1g0210284 | 32.532 | 541 | 331 | 9 | 8 | 520 | 21 | 555 | 9.31e-84 | 277 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0838160 | AT4G34950.1 | 62.873 | 536 | 173 | 3 | 11 | 520 | 14 | 549 | 0.0 | 694 |
| Msa0838160 | AT4G34950.1 | 40.000 | 110 | 65 | 1 | 614 | 722 | 184 | 293 | 2.46e-15 | 80.1 |
| Msa0838160 | AT2G16660.1 | 64.286 | 518 | 178 | 2 | 10 | 520 | 11 | 528 | 0.0 | 672 |
| Msa0838160 | AT2G16660.1 | 41.121 | 107 | 61 | 1 | 614 | 718 | 182 | 288 | 4.35e-16 | 82.4 |
| Msa0838160 | AT2G16660.2 | 62.368 | 380 | 136 | 2 | 10 | 382 | 11 | 390 | 2.35e-159 | 467 |
| Msa0838160 | AT2G16660.2 | 41.121 | 107 | 61 | 1 | 614 | 718 | 182 | 288 | 1.98e-16 | 82.4 |
| Msa0838160 | AT1G80530.1 | 35.526 | 532 | 311 | 9 | 14 | 518 | 14 | 540 | 1.42e-104 | 332 |
| Msa0838160 | AT5G14120.1 | 36.655 | 562 | 304 | 6 | 8 | 520 | 11 | 569 | 3.04e-103 | 328 |
| Msa0838160 | AT3G01930.2 | 35.552 | 571 | 301 | 7 | 7 | 518 | 10 | 572 | 4.65e-102 | 325 |
| Msa0838160 | AT5G50630.1 | 34.924 | 524 | 325 | 7 | 12 | 524 | 15 | 533 | 2.53e-100 | 320 |
Find 160 sgRNAs with CRISPR-Local
Find 616 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCCACCAGCGCCGTTTC+CGG | 0.294550 | 5_4:+12510640 | Msa0838160:intron |
| AAAGATGTTGGTAAAGCTTT+TGG | 0.279837 | 5_4:+12503623 | Msa0838160:CDS |
| AAAGGTTATGCCACATAAGA+TGG | 0.471657 | 5_4:+12507216 | Msa0838160:CDS |
| AAATATAAAGGAACAAGAAG+CGG | 0.616401 | 5_4:-12512748 | None:intergenic |
| AAATATAAAGGAACAAGAAG+TGG | 0.584319 | 5_4:-12504897 | None:intergenic |
| AAATGAACAAAGAAACATCA+TGG | 0.557965 | 5_4:-12505193 | None:intergenic |
| AACTCACCCGTCTCCGGTGA+AGG | 0.501044 | 5_4:-12510763 | None:intergenic |
| AAGAACAAGCAGTTCGCCAG+AGG | 0.524494 | 5_4:-12510728 | None:intergenic |
| AAGCAAGTCTTGCAACAAGG+TGG | 0.651866 | 5_4:+12512847 | Msa0838160:CDS |
| AAGCTGGTGAAGTTTCATGA+AGG | 0.667820 | 5_4:-12512564 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGATGTGTTAAAGTCTCTAA+TGG | + | chr5_4:12503562-12503581 | Msa0838160:CDS | 30.0% | |
| ATCATAGGAATAACTGAAGT+TGG | - | chr5_4:12503680-12503699 | None:intergenic | 30.0% | |
| ACTTCAGTTATTCCTATGAT+TGG | + | chr5_4:12503680-12503699 | Msa0838160:CDS | 30.0% | |
| GATGTGTATATTCTTGTGTA+TGG | + | chr5_4:12504467-12504486 | Msa0838160:intron | 30.0% | |
| ACAAAAGGTTTCAGAAGAAA+AGG | + | chr5_4:12504983-12505002 | Msa0838160:CDS | 30.0% | |
| ATTAAAAGAAAACCGGTGAT+AGG | + | chr5_4:12505038-12505057 | Msa0838160:CDS | 30.0% | |
| AGAGCATACTATCATTGAAA+TGG | + | chr5_4:12505064-12505083 | Msa0838160:CDS | 30.0% | |
| ACTATGTGTGATGAATAACT+TGG | + | chr5_4:12505145-12505164 | Msa0838160:CDS | 30.0% | |
| CTATGTGTGATGAATAACTT+GGG | + | chr5_4:12505146-12505165 | Msa0838160:CDS | 30.0% | |
| ATGAATAACTTGGGACAAAT+GGG | + | chr5_4:12505155-12505174 | Msa0838160:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 12503452 | 12512924 | 12503452 | ID=Msa0838160;Name=Msa0838160 |
| chr5_4 | mRNA | 12503452 | 12512924 | 12503452 | ID=Msa0838160-mRNA-1;Parent=Msa0838160;Name=Msa0838160-mRNA-1;_AED=0.28;_eAED=0.29;_QI=0|0|0|0.71|1|1|7|0|744 |
| chr5_4 | exon | 12503452 | 12503781 | 12503452 | ID=Msa0838160-mRNA-1:exon:5506;Parent=Msa0838160-mRNA-1 |
| chr5_4 | exon | 12504468 | 12505282 | 12504468 | ID=Msa0838160-mRNA-1:exon:5507;Parent=Msa0838160-mRNA-1 |
| chr5_4 | exon | 12505996 | 12506407 | 12505996 | ID=Msa0838160-mRNA-1:exon:5508;Parent=Msa0838160-mRNA-1 |
| chr5_4 | exon | 12506566 | 12506651 | 12506566 | ID=Msa0838160-mRNA-1:exon:5509;Parent=Msa0838160-mRNA-1 |
| chr5_4 | exon | 12507213 | 12507270 | 12507213 | ID=Msa0838160-mRNA-1:exon:5510;Parent=Msa0838160-mRNA-1 |
| chr5_4 | exon | 12510651 | 12510778 | 12510651 | ID=Msa0838160-mRNA-1:exon:5511;Parent=Msa0838160-mRNA-1 |
| chr5_4 | exon | 12512519 | 12512924 | 12512519 | ID=Msa0838160-mRNA-1:exon:5512;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12503452 | 12503781 | 12503452 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12504468 | 12505282 | 12504468 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12505996 | 12506407 | 12505996 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12506566 | 12506651 | 12506566 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12507213 | 12507270 | 12507213 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12510651 | 12510778 | 12510651 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| chr5_4 | CDS | 12512519 | 12512924 | 12512519 | ID=Msa0838160-mRNA-1:cds;Parent=Msa0838160-mRNA-1 |
| Gene Sequence |
>Msa0838160 ATGTTGTTATTCTCTAATAATAATTTTGCAGCTGAAAAATGGCTAGGATTTGTGACAGCCATATGGGTACAAGCAATATGTGGAAACAATTATACATTTGCAAACTATTCAGATGTGTTAAAGTCTCTAATGGCTTTGACTCAGATGCAGCTTAATGATCTCTCTGTTGCTAAAGATGTTGGTAAAGCTTTTGGTATTTTATCAGGTCTTGTTTCTGATCGTTGGCCAACTTCAGTTATTCCTATGATTGGTGCTATTATGGGATTCATTGGTTATGGAGCTCAATGGCTTGTTGTTAGCCAAAGAATAGCCCCTCTTCCTTATTGGCTGATGTGTATATTCTTGTGTATGGGTGGAAACAGCACAACATGGATGAACACAGCAGTACTTGTAACTTGCATGAGAAACTTTCCAAAAAACCGTGGTCCAATTTCCGGCATTCTAAAGGGTTATGTAGGACTCAGCACAGCAATCTTCACTGACATATGCACAGCTTTATTTTCCTCAGACCCATCCAAGTTTCTACTAATGCTCACAATTGTTCCTGCTGTCATTTGTCTCATTGCTGCTATTTTCCTTCATGAAACTCCACCAGCTTCAACTTCCACAGAAGAAAATAAAGAGACGCAGTTCTTCAATGTGTTTAACTTGATTGCAGTTACAGTAGCTGTTTATCTCTTGGCATTTGATATCTCTGGACCTCATAAACATGTTATTTCATTGGTTTTCACAGTAGGACTTTTGATCCTATTAGCTATGCCACTTCTTGTTCCTTTATATTTGGTCGTATTCAAAACTAGTCCTAGTGTTGACAAAGAAAAACAGGTTCATGAACCTTTGTTGGCACAAAAGGTTTCAGAAGAAAAGGAAGAGACATGCACCAACGTAGAAGAAGTTGAGATTAAAAGAAAACCGGTGATAGGTGAAGAGCATACTATCATTGAAATGGTGAAAACTGTTGATTTTTGGGTTTTGTTTGTGTCATTTCTCTGTGGTGTTGGAACAGGACTATGTGTGATGAATAACTTGGGACAAATGGGACAGGCACTTGGTTACCATGATGTTTCTTTGTTCATTTCATTCATAAGCATTTGGGGTTTCTTTGGACGCATTCTTTCTGGATCACTCTCTGAATACTACATCAGAAAATCAGGCATGCCAAGGTTAGTTTGGAATGCAGCATCTCAGATTCTGATGTTCTTTGGTTACATTGCATTGGCAATGGCCTTACCAGGATCACTATATATTGGTTCAATCTTAGTAGGAATATGTTATGGAGTTCGTCTTACAATAACACCAGCAGCAGCTTCAGAACTATTTGGTCTCAAATACTATGGTTTATTATACAACATCCTCATTCTTAACCTTCCTATTGGTTCATTCATCTTTTCTGGTCTCATTGCCGGATACCTTTATGATATTGAAGCCACTAGTGTACCAGGAGGCGGAAACACTTGCACTGGAGCACATTGTTTCATGCTTGTGTATGTGATTATGGCTTTCGCTTGTGTATTGGGGTGTGGATTGGACCTGTTTCTTGCATTTAGAACAAAGAATCTCACGCTTGAGTTTGCAATGGCAAACGTAGTTTCACCAGGGCCGTCCCTAAGAATTCAGAGGCTCGGCTCTGGGAATGAAAAGAGGGGAAAGGTTATGCCACATAAGATGGAGAGAGAGCTGGAGTGTGATCTTGCAACGAAGCGCCGTTTCCGGCAACCTTGTACTTATCTCGAGGAAAACAAACACCAGAGCTGTGGAATGTTATTCTTTGGGAGCTCCCTCTGGCGAACTGCTTGTTCTTTCATTCCAAGCACCTTCACCGGAGACGGACCCATCTATGTTCCTGCTATAATTTGCCTCTTTGCTGCTACTTTCCTTCATGAAACTTCACCAGCTTCCACTTCTACAAAAGAAAATCTAGAGACACAGTTTTTCAATGTGTTCAACGTGAGTGCAGTTACAATAGTTGTTTATCTCTTGGCATTTGATATCTCTGGACCACATAAACATGTTCTTTCATTGGTTTTCACAATAGGACTTTTGATGCTATTAGTTGCGCCGCTTCTTGTTCCTTTATATTTCTTCATGTTCAAAACTAGACCTAGTCTTGATAATGAAAAACAGATTCATGAACCTTTGTTGGCACAAAAGATTGAAAAGCAAGTCTTGCAACAAGGTGGAAGATGTTGGGTTGAAGTGAAGACCAATGATAGGGGAAGAGCATACTACCATTGA |
| Protein sequence |
>Msa0838160 MLLFSNNNFAAEKWLGFVTAIWVQAICGNNYTFANYSDVLKSLMALTQMQLNDLSVAKDVGKAFGILSGLVSDRWPTSVIPMIGAIMGFIGYGAQWLVVSQRIAPLPYWLMCIFLCMGGNSTTWMNTAVLVTCMRNFPKNRGPISGILKGYVGLSTAIFTDICTALFSSDPSKFLLMLTIVPAVICLIAAIFLHETPPASTSTEENKETQFFNVFNLIAVTVAVYLLAFDISGPHKHVISLVFTVGLLILLAMPLLVPLYLVVFKTSPSVDKEKQVHEPLLAQKVSEEKEETCTNVEEVEIKRKPVIGEEHTIIEMVKTVDFWVLFVSFLCGVGTGLCVMNNLGQMGQALGYHDVSLFISFISIWGFFGRILSGSLSEYYIRKSGMPRLVWNAASQILMFFGYIALAMALPGSLYIGSILVGICYGVRLTITPAAASELFGLKYYGLLYNILILNLPIGSFIFSGLIAGYLYDIEATSVPGGGNTCTGAHCFMLVYVIMAFACVLGCGLDLFLAFRTKNLTLEFAMANVVSPGPSLRIQRLGSGNEKRGKVMPHKMERELECDLATKRRFRQPCTYLEENKHQSCGMLFFGSSLWRTACSFIPSTFTGDGPIYVPAIICLFAATFLHETSPASTSTKENLETQFFNVFNVSAVTIVVYLLAFDISGPHKHVLSLVFTIGLLMLLVAPLLVPLYFFMFKTRPSLDNEKQIHEPLLAQKIEKQVLQQGGRCWVEVKTNDRGRAYYH* |
