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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395690 | XP_013458946.1 | 91.473 | 774 | 36 | 1 | 1 | 744 | 621 | 1394 | 0.0 | 1447 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395690 | sp|Q40392|TMVRN_NICGU | 35.036 | 274 | 134 | 4 | 1 | 231 | 624 | 896 | 2.28e-29 | 129 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395690 | A0A072UVA4 | 91.473 | 774 | 36 | 1 | 1 | 744 | 621 | 1394 | 0.0 | 1447 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0395690 | Msa0915840 | 0.808449 | 3.079633e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395690 | MtrunA17_Chr3g0081531 | 91.473 | 774 | 36 | 1 | 1 | 744 | 621 | 1394 | 0.0 | 1447 |
| Msa0395690 | MtrunA17_Chr6g0482111 | 34.316 | 848 | 446 | 15 | 1 | 744 | 631 | 1471 | 5.44e-138 | 442 |
| Msa0395690 | MtrunA17_Chr6g0482091 | 43.902 | 369 | 154 | 6 | 423 | 744 | 49 | 411 | 1.17e-78 | 259 |
| Msa0395690 | MtrunA17_Chr3g0084151 | 35.225 | 423 | 225 | 8 | 1 | 379 | 615 | 1032 | 2.54e-63 | 229 |
| Msa0395690 | MtrunA17_Chr6g0481011 | 35.096 | 416 | 220 | 11 | 1 | 382 | 648 | 1047 | 3.05e-56 | 208 |
| Msa0395690 | MtrunA17_Chr6g0480911 | 34.689 | 418 | 224 | 10 | 3 | 382 | 646 | 1052 | 2.84e-54 | 202 |
| Msa0395690 | MtrunA17_Chr5g0442761 | 35.320 | 453 | 207 | 14 | 1 | 384 | 630 | 1065 | 3.67e-54 | 202 |
| Msa0395690 | MtrunA17_Chr8g0371711 | 34.033 | 429 | 210 | 13 | 1 | 382 | 637 | 1039 | 1.87e-51 | 194 |
| Msa0395690 | MtrunA17_Chr6g0480981 | 33.810 | 420 | 220 | 13 | 1 | 382 | 375 | 774 | 2.88e-51 | 191 |
| Msa0395690 | MtrunA17_Chr4g0010521 | 31.279 | 438 | 243 | 9 | 1 | 388 | 622 | 1051 | 2.00e-50 | 191 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395690 | AT5G17680.2 | 33.955 | 268 | 151 | 6 | 1 | 253 | 631 | 887 | 2.42e-27 | 119 |
| Msa0395690 | AT5G17680.2 | 29.286 | 280 | 140 | 7 | 1 | 230 | 745 | 1016 | 3.70e-16 | 83.6 |
| Msa0395690 | AT5G17680.1 | 33.955 | 268 | 151 | 6 | 1 | 253 | 630 | 886 | 2.55e-27 | 119 |
| Msa0395690 | AT5G17680.1 | 29.286 | 280 | 140 | 7 | 1 | 230 | 744 | 1015 | 3.83e-16 | 83.6 |
| Msa0395690 | AT4G16890.1 | 35.931 | 231 | 130 | 6 | 1 | 230 | 787 | 1000 | 6.86e-26 | 115 |
| Msa0395690 | AT4G16890.1 | 29.508 | 305 | 189 | 8 | 11 | 311 | 954 | 1236 | 8.37e-23 | 105 |
| Msa0395690 | AT4G16890.1 | 28.253 | 269 | 155 | 8 | 1 | 265 | 1014 | 1248 | 4.69e-15 | 80.1 |
| Msa0395690 | AT4G16890.3 | 35.931 | 231 | 130 | 6 | 1 | 230 | 778 | 991 | 6.91e-26 | 115 |
| Msa0395690 | AT4G16890.3 | 28.185 | 259 | 151 | 5 | 11 | 265 | 945 | 1172 | 3.64e-16 | 83.6 |
| Msa0395690 | AT4G16890.5 | 35.931 | 231 | 130 | 6 | 1 | 230 | 778 | 991 | 7.79e-26 | 115 |
Find 113 sgRNAs with CRISPR-Local
Find 193 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTGATGAACTTGAAAA+GGG | 0.502760 | 3_2:+12507427 | Msa0395690:CDS |
| AAAGGTCATATATTCTCCTT+TGG | 0.404840 | 3_2:-12505724 | None:intergenic |
| AAATGAGTTGTTCAATGAGT+TGG | 0.462270 | 3_2:+12507495 | Msa0395690:CDS |
| AAATGGTGACAGATCACGTA+TGG | 0.599241 | 3_2:+12505892 | Msa0395690:CDS |
| AAGAACTAATAAATGGTGTT+AGG | 0.296835 | 3_2:+12507548 | Msa0395690:CDS |
| AAGAGCAATGAGATTTCCAA+TGG | 0.548665 | 3_2:-12504802 | None:intergenic |
| AAGCGTCTTCAAAGCTTTCT+TGG | 0.274005 | 3_2:-12507185 | None:intergenic |
| AAGGAGAATATATGACCTTT+TGG | 0.280455 | 3_2:+12505727 | Msa0395690:CDS |
| AAGTTCAAAGAGATGAGTTA+AGG | 0.426649 | 3_2:+12507653 | Msa0395690:CDS |
| AATCATATTTAGTTGATGAT+TGG | 0.344669 | 3_2:+12505961 | Msa0395690:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTTAGAAACCTTGATATTGA+AGG | + | chr3_2:12504894-12504913 | Msa0395690:CDS | 30.0% | |
| GTCAAAAAACTTCTTAGTTG+TGG | - | chr3_2:12504924-12504943 | None:intergenic | 30.0% | |
| TAACGTTCAATCATTGAATC+TGG | + | chr3_2:12504983-12505002 | Msa0395690:CDS | 30.0% | |
| TCATTGAATCTGGAAAATTG+TGG | + | chr3_2:12504993-12505012 | Msa0395690:CDS | 30.0% | |
| GGGAAACAGTTGAAAATTAT+CGG | - | chr3_2:12505038-12505057 | None:intergenic | 30.0% | |
| GGACTAATGATGCTAAATTT+GGG | - | chr3_2:12505058-12505077 | None:intergenic | 30.0% | |
| AGGACTAATGATGCTAAATT+TGG | - | chr3_2:12505059-12505078 | None:intergenic | 30.0% | |
| ATCAAACTTATTACTAAGCC+AGG | + | chr3_2:12505220-12505239 | Msa0395690:intron | 30.0% | |
| GAATGTAAGTTTATAAGTGG+GGG | - | chr3_2:12505400-12505419 | None:intergenic | 30.0% | |
| AAAGGTCATATATTCTCCTT+TGG | - | chr3_2:12505727-12505746 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 12504480 | 12507821 | 12504480 | ID=Msa0395690;Name=Msa0395690 |
| chr3_2 | mRNA | 12504480 | 12507821 | 12504480 | ID=Msa0395690-mRNA-1;Parent=Msa0395690;Name=Msa0395690-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|0.5|0.33|1|0.5|0.66|3|35|744 |
| chr3_2 | exon | 12504480 | 12505172 | 12504480 | ID=Msa0395690-mRNA-1:exon:2970;Parent=Msa0395690-mRNA-1 |
| chr3_2 | exon | 12505651 | 12506380 | 12505651 | ID=Msa0395690-mRNA-1:exon:2971;Parent=Msa0395690-mRNA-1 |
| chr3_2 | exon | 12506975 | 12507821 | 12506975 | ID=Msa0395690-mRNA-1:exon:2972;Parent=Msa0395690-mRNA-1 |
| chr3_2 | CDS | 12504480 | 12505172 | 12504480 | ID=Msa0395690-mRNA-1:cds;Parent=Msa0395690-mRNA-1 |
| chr3_2 | CDS | 12505651 | 12506380 | 12505651 | ID=Msa0395690-mRNA-1:cds;Parent=Msa0395690-mRNA-1 |
| chr3_2 | CDS | 12506975 | 12507786 | 12506975 | ID=Msa0395690-mRNA-1:cds;Parent=Msa0395690-mRNA-1 |
| chr3_2 | three_prime_UTR | 12507787 | 12507821 | 12507787 | ID=Msa0395690-mRNA-1:three_prime_utr;Parent=Msa0395690-mRNA-1 |
| Gene Sequence |
>Msa0395690 ATGGATTTGAGTCACTGTGAATTCTTAACAAAGCTACCTGACGTTTCTGGTGTGCCGAATTTAACAGAACTAAATCTTGACTATTGTACAAATCTAGAACAAGTTCATGATTCAGTTGGATTTCTTGAGAAACTTATTGAGTTGAGGGCTTATGGATGCACTAAGCTTAAGGATTTTCCAAATGCCATCAAATTGTCATCATTGAAAAGTCTAATTCTTAATTGGTGCTCAAGTCTTCAAACATTCCCAACAATTTTAGGCAAAATGGATAATCTCATATCTATTTCTATTGAAGGGACTGGCATTGAAGAATTGCCTCCTTCCATTGGAAATCTCATTGCTCTTCAAGAATTAAGCATGACATCTTGCTTGAGTCTCAAGGAACTTCCTGAAAACATTGATATGTTGCATAATCTTAGAAACCTTGATATTGAAGGTTGTCCACAACTAAGAAGTTTTTTGACAAAATTGAGAGAATTAGGACAATCTACTCTTACCTTCGGTAACGTTCAATCATTGAATCTGGAAAATTGTGGTCTTATAGATGAAGATCTTCCGATAATTTTCAACTGTTTCCCAAATTTAGCATCATTAGTCCTTTCAGGAAATAATTTTGTAACTCTTCCAAGGGGCATTCATGAATATCATGCCTTGGAATTGCTTCACTTAGACAACTGCAAACAGCTCCAAGAAGAAACTTTTGAGGCATGTGAGTTACAAGTTATGCTTCCTGGAACAAGTATTCCAGAATGGTTTGACCACATCACCAAAGGAGAATATATGACCTTTTGGGTAAGAGAAAAATTTCCCGCAATTATTTTATGTTTTGCTCTTGCAGTAGAGAGTGAAATGAAGAAGAGTTTCAACTGCGAAATCCGATTCTATATAAACAGTGAGGAAGTTTATGAATTGGAAATACCAAGATGCTTTACAGAAATGGTGACAGATCACGTATGGCTTTATGATTTGAGGACTCATCCATCCATCAGAATGAATGATCTTGAATCATATTTAGTTGATGATTGGAATCAGATTGAGATTTCATGTGACAAAATAATTGGACCATCAAATGTAAATATAAGCTGGTGTGGAGTTCATATATGTAGGGAAGAAGCTAACATGGAGGACATTCTATTCAAAGATCCTGATCTTGATTCAGATTCAAGCAGAGAAACTGAGAAGATTGATTCTGGTTTGGATAAAAACAATGATGGAAGAATAAAGTCAATTGGAGATTTCAAAAATAGCCAAAAAGATGATGATTTCTACTGTTTCAAGAACTTGGAAGATTATAATAATGCTGCAAGTCACACTGAGATGGATCATAATCAAGATAAACTTTTATTGCATCCAAAAACATTGGATAGTGTTACTGATGATTCAATGCCTTTTGTATGTTTTGGAGGAAACAATGTTGTCGAAGGATCAAACATGATAGCTTCTGATCATCAAGCAAAAGCTCGGGAAAAATCCAACGTCACGAGTTTTATACAAACACCAATTGCTAATCCGGATGATGCAGACATGGAAGCATTTTATGCTATTCTTGATGCTGAGACCTCAGTTCTTTCACTTTCCAATGACAACGACATAATTTCTGAATCATCCAACAGCAAAATTCCAAGTGAAGAAACCAAGAAAGCTTTGAAGACGCTTCAAGATTTTCTCACCAAAGACTTTTCTGTTCTTTTAAGGCCTAATGAGTACAATACCATGAAATCTACCTTAGATTACCTCACAAATGTACCAACAGAAGATGGAATATCTGTTGATATAAGATCATTGGTTAAAGAAATTTCAAGACAATTCACTTGTTGGAGTAATGATTACACAAATGAAGGCAAGAAAATAGAGTATACAAAAGCCAAATTGTTGAAAAGTGATGAACTTGAAAAGGGCCTTGAAGCTAACAAAACTCTTTTTAGAGAAGTGAAGTATTTGGAAAATGAGTTGTTCAATGAGTTGGAATATTTGGAGGAAAGAAAAAAGGAGCTAGAAGAACTAATAAATGGTGTTAGGGCTAATATAGCTGCTTCACAAGAAGCCAAGAACATGGTTGTTCATACAAAGAGAGAAATCTTTGAGAATGCAAAGATTCTAAAAGTTCAAAGAGATGAGTTAAGGGAACAAGTACATTGTTTGAGAGATGAGCATGAATTGGCTAAGAAAATTCAGGCAAATATTAGAGATGAATGGTCAAAGCTAGGTGAAAAATTTAGCAAGGCTGCCAACTAA |
| Protein sequence |
>Msa0395690 MDLSHCEFLTKLPDVSGVPNLTELNLDYCTNLEQVHDSVGFLEKLIELRAYGCTKLKDFPNAIKLSSLKSLILNWCSSLQTFPTILGKMDNLISISIEGTGIEELPPSIGNLIALQELSMTSCLSLKELPENIDMLHNLRNLDIEGCPQLRSFLTKLRELGQSTLTFGNVQSLNLENCGLIDEDLPIIFNCFPNLASLVLSGNNFVTLPRGIHEYHALELLHLDNCKQLQEETFEACELQVMLPGTSIPEWFDHITKGEYMTFWVREKFPAIILCFALAVESEMKKSFNCEIRFYINSEEVYELEIPRCFTEMVTDHVWLYDLRTHPSIRMNDLESYLVDDWNQIEISCDKIIGPSNVNISWCGVHICREEANMEDILFKDPDLDSDSSRETEKIDSGLDKNNDGRIKSIGDFKNSQKDDDFYCFKNLEDYNNAASHTEMDHNQDKLLLHPKTLDSVTDDSMPFVCFGGNNVVEGSNMIASDHQAKAREKSNVTSFIQTPIANPDDADMEAFYAILDAETSVLSLSNDNDIISESSNSKIPSEETKKALKTLQDFLTKDFSVLLRPNEYNTMKSTLDYLTNVPTEDGISVDIRSLVKEISRQFTCWSNDYTNEGKKIEYTKAKLLKSDELEKGLEANKTLFREVKYLENELFNELEYLEERKKELEELINGVRANIAASQEAKNMVVHTKREIFENAKILKVQRDELREQVHCLRDEHELAKKIQANIRDEWSKLGEKFSKAAN* |
