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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660260 | XP_003630536.2 | 95.137 | 658 | 22 | 1 | 1 | 648 | 1 | 658 | 0.0 | 1281 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660260 | sp|C0LGH8|Y1634_ARATH | 64.072 | 668 | 209 | 9 | 3 | 648 | 6 | 664 | 0.0 | 862 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0006840 | Msa0660260 | 0.838608 | 2.598745e-57 | -8.615850e-47 |
| Msa0015570 | Msa0660260 | 0.809486 | 1.847383e-50 | -8.615850e-47 |
| Msa0026250 | Msa0660260 | 0.834511 | 2.873313e-56 | -8.615850e-47 |
| Msa0030070 | Msa0660260 | 0.836478 | 9.140611e-57 | -8.615850e-47 |
| Msa0035740 | Msa0660260 | 0.823093 | 1.667522e-53 | -8.615850e-47 |
| Msa0044440 | Msa0660260 | 0.807292 | 5.428287e-50 | -8.615850e-47 |
| Msa0045620 | Msa0660260 | 0.831011 | 2.125810e-55 | -8.615850e-47 |
| Msa0050530 | Msa0660260 | 0.844262 | 8.427799e-59 | -8.615850e-47 |
| Msa0061130 | Msa0660260 | -0.816508 | 5.332726e-52 | -8.615850e-47 |
| Msa0063190 | Msa0660260 | 0.837577 | 4.788246e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660260 | MtrunA17_Chr8g0386631 | 95.137 | 658 | 22 | 1 | 1 | 648 | 1 | 658 | 0.0 | 1281 |
| Msa0660260 | MtrunA17_Chr5g0397651 | 72.965 | 651 | 162 | 3 | 1 | 637 | 1 | 651 | 0.0 | 966 |
| Msa0660260 | MtrunA17_Chr8g0379101 | 29.125 | 697 | 386 | 18 | 31 | 648 | 36 | 703 | 2.06e-79 | 266 |
| Msa0660260 | MtrunA17_Chr1g0193121 | 30.303 | 693 | 367 | 25 | 1 | 648 | 5 | 626 | 1.05e-75 | 254 |
| Msa0660260 | MtrunA17_Chr2g0283991 | 37.941 | 340 | 185 | 7 | 321 | 648 | 116 | 441 | 7.02e-64 | 218 |
| Msa0660260 | MtrunA17_Chr3g0113951 | 33.333 | 372 | 209 | 10 | 294 | 648 | 403 | 752 | 1.56e-54 | 199 |
| Msa0660260 | MtrunA17_Chr3g0113951 | 36.774 | 155 | 94 | 2 | 26 | 178 | 140 | 292 | 4.71e-22 | 101 |
| Msa0660260 | MtrunA17_Chr2g0284101 | 28.728 | 637 | 330 | 23 | 28 | 633 | 39 | 582 | 2.40e-54 | 196 |
| Msa0660260 | MtrunA17_Chr4g0060011 | 26.625 | 646 | 386 | 18 | 4 | 626 | 8 | 588 | 3.31e-53 | 192 |
| Msa0660260 | MtrunA17_Chr4g0073471 | 28.803 | 618 | 337 | 26 | 28 | 623 | 29 | 565 | 3.74e-51 | 187 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0660260 | AT1G63430.3 | 64.072 | 668 | 209 | 9 | 3 | 648 | 6 | 664 | 0.0 | 862 |
| Msa0660260 | AT1G63430.1 | 64.072 | 668 | 209 | 9 | 3 | 648 | 6 | 664 | 0.0 | 862 |
| Msa0660260 | AT1G63430.2 | 61.850 | 692 | 209 | 10 | 3 | 648 | 6 | 688 | 0.0 | 850 |
| Msa0660260 | AT5G41180.1 | 57.228 | 671 | 238 | 11 | 1 | 648 | 9 | 653 | 0.0 | 734 |
| Msa0660260 | AT5G41180.2 | 57.522 | 565 | 195 | 10 | 107 | 648 | 1 | 543 | 0.0 | 613 |
| Msa0660260 | AT5G45840.2 | 30.547 | 658 | 388 | 17 | 31 | 648 | 36 | 664 | 6.40e-77 | 259 |
| Msa0660260 | AT4G18640.1 | 34.456 | 386 | 218 | 10 | 278 | 648 | 309 | 674 | 1.72e-58 | 209 |
| Msa0660260 | AT4G18640.1 | 36.601 | 153 | 94 | 2 | 31 | 182 | 32 | 182 | 5.25e-21 | 98.2 |
| Msa0660260 | AT1G31420.1 | 27.778 | 630 | 358 | 20 | 31 | 638 | 36 | 590 | 1.75e-52 | 191 |
| Msa0660260 | AT1G31420.3 | 27.778 | 630 | 358 | 20 | 31 | 638 | 36 | 590 | 1.75e-52 | 191 |
Find 168 sgRNAs with CRISPR-Local
Find 298 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAGATAGATACAAATT+AGG | 0.354950 | 4_3:-70936557 | None:intergenic |
| AAAACCAGCATCCTTGTAAA+TGG | 0.279164 | 4_3:-70939316 | None:intergenic |
| AAAAGCATAAATGTTTCCTT+CGG | 0.492864 | 4_3:-70939863 | None:intergenic |
| AAACAGAAAATCGTAGAATT+TGG | 0.291235 | 4_3:-70936598 | None:intergenic |
| AAAGAGAGTTTATCCAAGAT+TGG | 0.355862 | 4_3:-70936318 | None:intergenic |
| AAATTATTATAGGCATTGCG+CGG | 0.628597 | 4_3:+70939510 | Msa0660260:CDS |
| AAATTTGAAGTGCTAGCAGC+AGG | 0.541164 | 4_3:-70937923 | None:intergenic |
| AACTCTGATATAGTAAAAGG+AGG | 0.580646 | 4_3:-70939563 | None:intergenic |
| AAGAAGGGTTCCGGCTATCT+TGG | 0.374192 | 4_3:+70939474 | Msa0660260:CDS |
| AAGGAGGTTCAAAACCTGCT+TGG | 0.532588 | 4_3:+70938673 | Msa0660260:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAGAGAGTTTATCCAAGAT+TGG | - | chr4_3:70936321-70936340 | None:intergenic | 30.0% | |
| TTGAAGTAGCTGAATTAACA+AGG | + | chr4_3:70936657-70936676 | Msa0660260:five_prime_UTR | 30.0% | |
| TTATGTTTCTTGTGTGAACT+TGG | + | chr4_3:70936970-70936989 | Msa0660260:intron | 30.0% | |
| ATAATTCCCAATTTCCATTC+TGG | - | chr4_3:70937054-70937073 | None:intergenic | 30.0% | |
| AGAATGGAAATTGGGAATTA+TGG | + | chr4_3:70937053-70937072 | Msa0660260:intron | 30.0% | |
| TTCATAAACAGCTTCTTTGA+AGG | - | chr4_3:70937172-70937191 | None:intergenic | 30.0% | |
| TGTTTATGAAGATCCACATA+TGG | + | chr4_3:70937182-70937201 | Msa0660260:CDS | 30.0% | |
| CAATTTGACAAAACCATATG+TGG | - | chr4_3:70937198-70937217 | None:intergenic | 30.0% | |
| GGATGTAATTAGACTTTCTT+TGG | + | chr4_3:70937330-70937349 | Msa0660260:intron | 30.0% | |
| ACAGTTTATTTAAGCGTTCA+TGG | + | chr4_3:70937357-70937376 | Msa0660260:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 70936303 | 70940966 | 70936303 | ID=Msa0660260;Name=Msa0660260 |
| chr4_3 | mRNA | 70936303 | 70940966 | 70936303 | ID=Msa0660260-mRNA-1;Parent=Msa0660260;Name=Msa0660260-mRNA-1;_AED=0.07;_eAED=0.07;_QI=408|0.91|0.84|1|1|1|13|250|648 |
| chr4_3 | exon | 70936303 | 70936795 | 70936303 | ID=Msa0660260-mRNA-1:exon:21134;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70937154 | 70937292 | 70937154 | ID=Msa0660260-mRNA-1:exon:21135;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70937440 | 70937511 | 70937440 | ID=Msa0660260-mRNA-1:exon:21136;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70937591 | 70937734 | 70937591 | ID=Msa0660260-mRNA-1:exon:21137;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70937817 | 70937966 | 70937817 | ID=Msa0660260-mRNA-1:exon:21138;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70938158 | 70938271 | 70938158 | ID=Msa0660260-mRNA-1:exon:21139;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70938352 | 70938416 | 70938352 | ID=Msa0660260-mRNA-1:exon:21140;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70938595 | 70938849 | 70938595 | ID=Msa0660260-mRNA-1:exon:21141;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70938946 | 70939151 | 70938946 | ID=Msa0660260-mRNA-1:exon:21142;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70939247 | 70939333 | 70939247 | ID=Msa0660260-mRNA-1:exon:21143;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70939452 | 70939628 | 70939452 | ID=Msa0660260-mRNA-1:exon:21144;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70939751 | 70939957 | 70939751 | ID=Msa0660260-mRNA-1:exon:21145;Parent=Msa0660260-mRNA-1 |
| chr4_3 | exon | 70940471 | 70940966 | 70940471 | ID=Msa0660260-mRNA-1:exon:21146;Parent=Msa0660260-mRNA-1 |
| chr4_3 | five_prime_UTR | 70936303 | 70936710 | 70936303 | ID=Msa0660260-mRNA-1:five_prime_utr;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70936711 | 70936795 | 70936711 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70937154 | 70937292 | 70937154 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70937440 | 70937511 | 70937440 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70937591 | 70937734 | 70937591 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70937817 | 70937966 | 70937817 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70938158 | 70938271 | 70938158 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70938352 | 70938416 | 70938352 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70938595 | 70938849 | 70938595 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70938946 | 70939151 | 70938946 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70939247 | 70939333 | 70939247 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70939452 | 70939628 | 70939452 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70939751 | 70939957 | 70939751 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | CDS | 70940471 | 70940716 | 70940471 | ID=Msa0660260-mRNA-1:cds;Parent=Msa0660260-mRNA-1 |
| chr4_3 | three_prime_UTR | 70940717 | 70940966 | 70940717 | ID=Msa0660260-mRNA-1:three_prime_utr;Parent=Msa0660260-mRNA-1 |
| Gene Sequence |
>Msa0660260 ATGAAGTTGTGTACTTCATTGTTGTTTCTGGGTTTTGTTTCTATGCTTTCTTTTGTGGCTTCTGCTATGGTGGCATCAAATGAAGTCGGGGCGCTTACAACCTTCAAAGAAGCTGTTTATGAAGATCCACATATGGTTTTGTCAAATTGGAATACTTTGGATTCAGATCCTTGTGACTGGAATGGAGTTTCATGCACCGGCACTCGAGATCATGTCATCAAGCTAAACATATCAGGGGCATTACTAAGAGGGTTTCTTGCTCCAGAAATCGGGAAAATAACCTACTTGCAAGAACTAATATTGCATGGCAACAATCTCATTGGAACAATACCGAAAGAATTGAGCGCGTTAAAATCTCTGAAGGTGTTAGATTTGGGAAAGAATCAGTTATCTGGACCAATTCCTCGGGAGATTGGAAATTTGACACAAATTGTAAAAATAAATCTGCAGTCCAATGGTTTGACTGGTAGGTTGCCTTCAGAGCTTGCAAATTTGAAATATCTTCAAGAACTTCGGCTTGATAGGAATAAGCTTGAAGGGCCTGTTCCTGCTGCTAGCACTTCAAATTTTCCTTCAAATATGCATGAATTGTATGCCTCAAATGCAAATTCGACTGGTTTATGTCGTTCGTCGCTTAAAGTTGCAGATTTTTCATATAACTTTTTGGTTGGTAGCATACCAAAATGCTTGGAGTATCTTCCAAGAACTAGCTTTCAAGGGAATTGCCTCCGTGTCAAAGTTGTAAAACAGCGGACTAAAGTTCAATGTGCTGGAGCTTCACCTGCTCAAGGTCATCCAGTAGTGAAACCAAAACACCTGTCTAAAGCTGAACATGAATCAAAGCATAAAGGAGGTTCAAAACCTGCTTGGCTTTTGGCTCTAGAAATAGCAACCGGAACCATGGTTGGTTCTCTCTTTCTGATTGGTATTTTCACTGCTATCCAAAGGTTTAACAACAAATCATCCATCATTATTCCTTGGAAGAAATCCTCAAGTGAGAAAGAGCAAATCTCTGTATATATAGATTCTGAGATGTTGAAAGATGTGACAAGGTATAGCAGACAAGAGCTTGAGGTGGCTTGTGAAGATTTCAGTAACATAATCGGATCTTCACCGGATAGTGTGGTCTACAAAGGTACAATGAAAGGTGGACCTGAGATTGCTGCAATTTCCCTCTGCATCAAGGAAGAGAATTGGACTGGACACCTTGAACTTTATTTTCAGAGAGAGGTGGCAGACTTGGCAAGGATAAATCATGAGAATACAGGAAAGCTACTAGGCTATTGCAGAGAGAGCAGTCCATTTACAAGGATGCTGCGTGAAGTTATGACTACAGATGAAGAAGGGTTCCGGCTATCTTGGACGCGGCGCATGAAAATTATTATAGGCATTGCGCGGGGACTTAAGTATTTGCACAATGAAATTGACCCTCCTTTTACTATATCAGAGTTGAATTCAAATGCTATATACCTTACAGAAGATTTTTCCCCCAAGTTGGTTGATTTTGAAAGTTGGAAGACGATTCTTGAAAGATCAGAAAAAAATTCTGGTTCTGTTAGCAGCCAAGGTGCTGTTCCAAACTCCCTTCAAGCCCGCCATCTTGATACCGAAGGAAACATTTATGCTTTTGCAGTACTTCTACTTGAGATTATCAGTGGGAGATCTCCATACTGCAAGGACAAAGGTTACTTGGTGGATTGGGCCAAGGATTATCTTGAATTGCCAGAAGTAATGTCATATTTGGTGGATCCTGAGTTGAAACATTTCGGATATGATGAGCTCAAAGTAATATGTGAGGTGATAACACTTTGTATTAGTCCTGACTCCAATGGATGTCCATCAATGCAAGAGTTGTGCAGCATGCTGGAAAGCAGAATCGACACATCGATAAGTGTGGAGCTCAAGTCATCATCTTTAGCTTGGGCTGAACTAGCACTTTCATCATAA |
| Protein sequence |
>Msa0660260 MKLCTSLLFLGFVSMLSFVASAMVASNEVGALTTFKEAVYEDPHMVLSNWNTLDSDPCDWNGVSCTGTRDHVIKLNISGALLRGFLAPEIGKITYLQELILHGNNLIGTIPKELSALKSLKVLDLGKNQLSGPIPREIGNLTQIVKINLQSNGLTGRLPSELANLKYLQELRLDRNKLEGPVPAASTSNFPSNMHELYASNANSTGLCRSSLKVADFSYNFLVGSIPKCLEYLPRTSFQGNCLRVKVVKQRTKVQCAGASPAQGHPVVKPKHLSKAEHESKHKGGSKPAWLLALEIATGTMVGSLFLIGIFTAIQRFNNKSSIIIPWKKSSSEKEQISVYIDSEMLKDVTRYSRQELEVACEDFSNIIGSSPDSVVYKGTMKGGPEIAAISLCIKEENWTGHLELYFQREVADLARINHENTGKLLGYCRESSPFTRMLREVMTTDEEGFRLSWTRRMKIIIGIARGLKYLHNEIDPPFTISELNSNAIYLTEDFSPKLVDFESWKTILERSEKNSGSVSSQGAVPNSLQARHLDTEGNIYAFAVLLLEIISGRSPYCKDKGYLVDWAKDYLELPEVMSYLVDPELKHFGYDELKVICEVITLCISPDSNGCPSMQELCSMLESRIDTSISVELKSSSLAWAELALSS* |
