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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0488140 | XP_039688272.1 | 75.325 | 77 | 18 | 1 | 1 | 77 | 347 | 422 | 3.85e-25 | 121 |
| Msa0488140 | XP_039688272.1 | 86.825 | 463 | 29 | 3 | 79 | 509 | 1 | 463 | 0.0 | 783 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0488140 | sp|O04539|SNL4_ARATH | 50.000 | 86 | 39 | 2 | 80 | 165 | 8 | 89 | 2.88e-14 | 80.5 |
| Msa0488140 | sp|O04539|SNL4_ARATH | 46.667 | 90 | 44 | 2 | 535 | 621 | 8 | 96 | 1.93e-12 | 74.3 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0345270 | Msa0488140 | 0.858164 | 9.943216e-63 | -8.615850e-47 |
| Msa0488140 | Msa0804410 | 0.823708 | 1.197760e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0488140 | MtrunA17_Chr3g0077801 | 85.260 | 346 | 19 | 3 | 196 | 509 | 1 | 346 | 0.0 | 594 |
| Msa0488140 | MtrunA17_Chr3g0077801 | 75.325 | 77 | 18 | 1 | 1 | 77 | 230 | 305 | 9.62e-30 | 120 |
| Msa0488140 | MtrunA17_Chr3g0077901 | 62.286 | 350 | 100 | 3 | 192 | 509 | 17 | 366 | 1.33e-150 | 439 |
| Msa0488140 | MtrunA17_Chr3g0077901 | 87.342 | 79 | 9 | 1 | 1 | 79 | 250 | 327 | 3.62e-35 | 136 |
| Msa0488140 | MtrunA17_Chr3g0077851 | 66.364 | 330 | 79 | 3 | 212 | 509 | 1 | 330 | 9.28e-149 | 433 |
| Msa0488140 | MtrunA17_Chr3g0077851 | 86.076 | 79 | 10 | 1 | 1 | 79 | 214 | 291 | 3.11e-36 | 139 |
| Msa0488140 | MtrunA17_Chr4g0075971 | 54.525 | 442 | 139 | 7 | 100 | 509 | 185 | 596 | 7.52e-142 | 425 |
| Msa0488140 | MtrunA17_Chr4g0075971 | 57.143 | 77 | 32 | 1 | 1 | 77 | 482 | 557 | 7.33e-20 | 93.6 |
| Msa0488140 | MtrunA17_Chr4g0075971 | 34.815 | 135 | 78 | 3 | 84 | 218 | 10 | 134 | 2.11e-12 | 70.1 |
| Msa0488140 | MtrunA17_Chr6g0488101 | 42.105 | 475 | 205 | 12 | 79 | 509 | 1 | 449 | 1.07e-110 | 340 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0488140 | AT5G15025.1 | 48.235 | 85 | 39 | 2 | 82 | 166 | 43 | 122 | 1.24e-15 | 73.9 |
| Msa0488140 | AT1G70060.2 | 50.000 | 86 | 39 | 2 | 80 | 165 | 8 | 89 | 2.93e-15 | 80.5 |
| Msa0488140 | AT1G70060.2 | 46.667 | 90 | 44 | 2 | 535 | 621 | 8 | 96 | 1.96e-13 | 74.3 |
| Msa0488140 | AT1G70060.1 | 50.000 | 86 | 39 | 2 | 80 | 165 | 8 | 89 | 2.93e-15 | 80.5 |
| Msa0488140 | AT1G70060.1 | 46.667 | 90 | 44 | 2 | 535 | 621 | 8 | 96 | 1.96e-13 | 74.3 |
| Msa0488140 | AT1G24190.3 | 48.052 | 77 | 39 | 1 | 80 | 156 | 8 | 83 | 8.18e-14 | 75.5 |
| Msa0488140 | AT1G24190.3 | 49.351 | 77 | 35 | 2 | 535 | 608 | 8 | 83 | 2.53e-12 | 70.9 |
| Msa0488140 | AT1G24190.1 | 48.052 | 77 | 39 | 1 | 80 | 156 | 8 | 83 | 9.05e-14 | 75.5 |
| Msa0488140 | AT1G24190.1 | 49.351 | 77 | 35 | 2 | 535 | 608 | 8 | 83 | 2.64e-12 | 70.9 |
| Msa0488140 | AT1G24190.2 | 48.052 | 77 | 39 | 1 | 80 | 156 | 8 | 83 | 9.12e-14 | 75.5 |
Find 101 sgRNAs with CRISPR-Local
Find 932 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGATGAGTTTCAAGATA+AGG | 0.489302 | 3_4:-7396789 | Msa0488140:CDS |
| AAAGCACCAATCCAGCAAGT+AGG | 0.620337 | 3_4:+7398185 | None:intergenic |
| AAAGGAGAATGCCTACTTGC+TGG | 0.396598 | 3_4:-7398196 | Msa0488140:CDS |
| AAATTAAATGAGCTGTTTCA+AGG | 0.447498 | 3_4:-7396681 | Msa0488140:CDS |
| AACAGTGGGAAATCCATGGA+AGG | 0.604878 | 3_4:-7398658 | Msa0488140:intron |
| AACATGTAAAGTGTGTTTAG+GGG | 0.701783 | 3_4:-7398271 | Msa0488140:CDS |
| AAGTAGGCATTCTCCTTTGG+AGG | 0.471286 | 3_4:+7398201 | None:intergenic |
| AATCACACCTTCAGTTCAGC+TGG | 0.522086 | 3_4:-7401302 | Msa0488140:CDS |
| AATGACATCAAGAATATCCC+AGG | 0.580022 | 3_4:+7399148 | None:intergenic |
| AATTAAATGAGCTGTTTCAA+GGG | 0.549600 | 3_4:-7396680 | Msa0488140:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCAAATGCATAGTATGTTTG+GGG | - | chr3_4:7396753-7396772 | Msa0488140:CDS | 30.0% | |
| ACAAACTGCCAAAATACATT+CGG | - | chr3_4:7396783-7396802 | Msa0488140:CDS | 30.0% | |
| TAGAAAAAGACCATACTTGT+TGG | - | chr3_4:7396829-7396848 | Msa0488140:CDS | 30.0% | |
| GGAAAATAAAAGGGAAACAT+GGG | + | chr3_4:7396961-7396980 | None:intergenic | 30.0% | |
| TGGAAAATAAAAGGGAAACA+TGG | + | chr3_4:7396962-7396981 | None:intergenic | 30.0% | |
| TGGTTTATAGAAAAGATGGA+GGG | + | chr3_4:7397086-7397105 | None:intergenic | 30.0% | |
| CTATAAACCACGCAAATATT+AGG | - | chr3_4:7397096-7397115 | Msa0488140:intron | 30.0% | |
| CAAATATTAGGAAGTCATTG+TGG | - | chr3_4:7397108-7397127 | Msa0488140:intron | 30.0% | |
| GCATAATATATGCAAAGGTA+CGG | + | chr3_4:7397378-7397397 | None:intergenic | 30.0% | |
| GTGACAATAATAAATCAGGT+AGG | + | chr3_4:7397898-7397917 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 7396530 | 7410859 | 7396530 | ID=Msa0488140;Name=Msa0488140 |
| chr3_4 | mRNA | 7396530 | 7410859 | 7396530 | ID=Msa0488140-mRNA-1;Parent=Msa0488140;Name=Msa0488140-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|0|0|1|0.12|0.11|9|0|621 |
| chr3_4 | exon | 7410626 | 7410859 | 7410626 | ID=Msa0488140-mRNA-1:exon:2619;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7401296 | 7401638 | 7401296 | ID=Msa0488140-mRNA-1:exon:2618;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7398974 | 7399209 | 7398974 | ID=Msa0488140-mRNA-1:exon:2617;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7398727 | 7398958 | 7398727 | ID=Msa0488140-mRNA-1:exon:2616;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7398446 | 7398675 | 7398446 | ID=Msa0488140-mRNA-1:exon:2615;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7398167 | 7398415 | 7398167 | ID=Msa0488140-mRNA-1:exon:2614;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7396721 | 7396933 | 7396721 | ID=Msa0488140-mRNA-1:exon:2613;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7396601 | 7396706 | 7396601 | ID=Msa0488140-mRNA-1:exon:2612;Parent=Msa0488140-mRNA-1 |
| chr3_4 | exon | 7396530 | 7396552 | 7396530 | ID=Msa0488140-mRNA-1:exon:2611;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7410626 | 7410859 | 7410626 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7401296 | 7401638 | 7401296 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7398974 | 7399209 | 7398974 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7398727 | 7398958 | 7398727 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7398446 | 7398675 | 7398446 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7398167 | 7398415 | 7398167 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7396721 | 7396933 | 7396721 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7396601 | 7396706 | 7396601 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| chr3_4 | CDS | 7396530 | 7396552 | 7396530 | ID=Msa0488140-mRNA-1:cds;Parent=Msa0488140-mRNA-1 |
| Gene Sequence |
>Msa0488140 ATGATTAGTTGTGATGGACAACTTTTAGTGATTCATATTACATCTCAAGAAATATTAAATAATGTGTACAAGATTGACTTCTCAATCAAGAATTTTGTCAAGTTGGAAAGTTTGGGTGACATTGCATTATTATATGCTTCTAGTGAATACTTCTATGCATTGATAAACCCTGAAAGGTGGAGTTTTGAAAGCAACTCTCTGTATGCCATGAATCTTTCATCTATCAAATGCATAATGAAGAATCTCTCCCTTGACGATGCATTAGGGTTAATCTCAGCATTAAAATGTAAGTTTGGATATGAGAAAAGGGAAAAATATGAATCTTTTCTACAAATTATGAAGGATTACAAGGCTGAAAGAATTGATGCTAGGGTTGTCAAATTAAGAGTGTACGAGTTGTTGGACGGCCATGAAGATTTAATTTTGAGATTCAACACCTTCTTGCCAACTAAATATGAAATCAAACTTCCATTGGATCGTGATGACGATGATGAAGAACAAGATGGTCGAATGACAAAGACAAATATCAAAGTGCTAAAGAAATATCGAATCACACCTTCAGTTCAGCTGGACACTGGGGAAGCCATGAATAACATAGAAGATAATTGTCCATTTTCCTGGGATATTCTTGATGTCATTTCCAGAGATCTAGATTTCGATGACCTCTTTCAATTTTCTTGCGTGTGCAAGAATTGGAGGGAGTTTCATAAAACTTACTGGAAAAAATTCTTGGCATCCCAAGAACCATTAGTTATTAAAAAGTCTTACCATGATAAGAAATTCTTTTCCTTCATCAGCATAGCTGACCGAAAAACCATCAATCAATTCTGGTACTTAGCCTATTTTGGATGTTCTAGCGGATATTTGATCATGAAAGGGGACAATAATTCTTTTCTGCTATTAAATCCATTTACAAGAAGAAAGAAGGTAATCAATACATCAACCTTTAAAGTCAATTCTACATATTTTGCTTACCATGTCTTACTTGCTTTTGGCAAAGGCTCGGAGGAATTTGTCTTAGTCGCTTCATGTAAAAGTTCTGGCATGGGAAATCCATGGAAGGTTGTTGACTTTGTTGTGTTGCATAATACTATATATGTTGTCACCAACGAGGCCATCATAGGTGTACTCGACTTGAATTCCTCAAATATAAATTTTTTAGAAATGAAGAGTATGCCCGATGTAACATCTACTTCACACCTAAGGTTAGTTTGCTGTGATGGACAACTTTTAGTGGTTCATATTGAGTCCGAGGAAATATTGAATGTTTACAAGCTGGAAACTTTGGGTGACATTGCCTTATTTTATGCTTCGGGGGAATACTTCTATGCATTGAGCAACCTGAGGAGGTGGGGTTTTGAAAGCAACTCTTTGTATGCCATCAATCTTTCATCCACAACATGTAAAGTGTGTTTAGGGGATGATAACAGACTGCCAAAATACATTAAGCATGATAGAACTGGAGTTCCTCCAAAGGAGAATGCCTACTTGCTGGATTGGTGCTTTAGACATCAACGATATGAGATGATGAACTCCTTTGAGAATGCATTAGCATTAATCACAATAATAGATGAATTTCAAGATGACAATAGAGAAAAGTATGAATCCTTTTTAACAAAAGATGCATCAGAGTTTCTCAAGACAGTAAAAGATGAGTTTCAAGATAAGGATAGGGAAAAGTATGACGAGTTTTTAGAAATTGTTAAGGATTTCTTGGCTGCTGGAATTGATAGAAATAGCAAATTAAATGAGCTGTTTCAAGGGCATACAAATTTAATTTTGGAGTTCAACGACTTCTTGACAAAGAAATATCGAATAACACTTCCACTTCAAATTGACACCGTATTTTGCTATAATCTACCATAA |
| Protein sequence |
>Msa0488140 MISCDGQLLVIHITSQEILNNVYKIDFSIKNFVKLESLGDIALLYASSEYFYALINPERWSFESNSLYAMNLSSIKCIMKNLSLDDALGLISALKCKFGYEKREKYESFLQIMKDYKAERIDARVVKLRVYELLDGHEDLILRFNTFLPTKYEIKLPLDRDDDDEEQDGRMTKTNIKVLKKYRITPSVQLDTGEAMNNIEDNCPFSWDILDVISRDLDFDDLFQFSCVCKNWREFHKTYWKKFLASQEPLVIKKSYHDKKFFSFISIADRKTINQFWYLAYFGCSSGYLIMKGDNNSFLLLNPFTRRKKVINTSTFKVNSTYFAYHVLLAFGKGSEEFVLVASCKSSGMGNPWKVVDFVVLHNTIYVVTNEAIIGVLDLNSSNINFLEMKSMPDVTSTSHLRLVCCDGQLLVVHIESEEILNVYKLETLGDIALFYASGEYFYALSNLRRWGFESNSLYAINLSSTTCKVCLGDDNRLPKYIKHDRTGVPPKENAYLLDWCFRHQRYEMMNSFENALALITIIDEFQDDNREKYESFLTKDASEFLKTVKDEFQDKDREKYDEFLEIVKDFLAAGIDRNSKLNELFQGHTNLILEFNDFLTKKYRITLPLQIDTVFCYNLP* |
