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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0972810 | XP_013450874.1 | 88.428 | 579 | 62 | 3 | 1 | 576 | 1 | 577 | 0.0 | 1047 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0972810 | sp|Q4F883|SG101_ARATH | 39.405 | 538 | 257 | 19 | 44 | 569 | 54 | 534 | 1.55e-100 | 318 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0972810 | A0A072U5B0 | 88.428 | 579 | 62 | 3 | 1 | 576 | 1 | 577 | 0.0 | 1047 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0007990 | Msa0972810 | 0.819790 | 9.650760e-53 | -8.615850e-47 |
| Msa0012710 | Msa0972810 | 0.824673 | 7.104297e-54 | -8.615850e-47 |
| Msa0032080 | Msa0972810 | 0.805835 | 1.101929e-49 | -8.615850e-47 |
| Msa0033850 | Msa0972810 | 0.824817 | 6.570506e-54 | -8.615850e-47 |
| Msa0038720 | Msa0972810 | 0.805478 | 1.309103e-49 | -8.615850e-47 |
| Msa0042550 | Msa0972810 | 0.833506 | 5.128301e-56 | -8.615850e-47 |
| Msa0055070 | Msa0972810 | 0.810156 | 1.325954e-50 | -8.615850e-47 |
| Msa0060070 | Msa0972810 | 0.805875 | 1.080802e-49 | -8.615850e-47 |
| Msa0061500 | Msa0972810 | 0.841841 | 3.720748e-58 | -8.615850e-47 |
| Msa0071250 | Msa0972810 | 0.809159 | 2.171488e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0972810 | MtrunA17_Chr6g0451531 | 88.428 | 579 | 62 | 3 | 1 | 576 | 1 | 577 | 0.0 | 1047 |
| Msa0972810 | MtrunA17_Chr6g0451541 | 84.429 | 578 | 88 | 1 | 1 | 576 | 1 | 578 | 0.0 | 1003 |
| Msa0972810 | MtrunA17_Chr6g0451561 | 74.658 | 584 | 131 | 5 | 1 | 576 | 1 | 575 | 0.0 | 855 |
| Msa0972810 | MtrunA17_Chr3g0107671 | 64.433 | 582 | 194 | 6 | 1 | 576 | 1 | 575 | 0.0 | 730 |
| Msa0972810 | MtrunA17_Chr6g0451511 | 56.388 | 587 | 233 | 11 | 1 | 575 | 1 | 576 | 0.0 | 598 |
| Msa0972810 | MtrunA17_Chr3g0107661 | 63.725 | 204 | 70 | 3 | 1 | 203 | 1 | 201 | 2.28e-73 | 235 |
| Msa0972810 | MtrunA17_Chr3g0107651 | 67.883 | 137 | 42 | 1 | 280 | 416 | 2 | 136 | 6.58e-58 | 190 |
| Msa0972810 | MtrunA17_Chr8g0384621 | 26.901 | 513 | 295 | 17 | 108 | 547 | 106 | 611 | 1.28e-34 | 138 |
| Msa0972810 | MtrunA17_Chr3g0118251 | 24.654 | 361 | 210 | 14 | 208 | 541 | 275 | 600 | 1.70e-18 | 89.4 |
| Msa0972810 | MtrunA17_Chr3g0118541 | 24.931 | 361 | 206 | 14 | 208 | 541 | 286 | 608 | 3.56e-18 | 88.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0972810 | AT5G14930.2 | 39.405 | 538 | 257 | 19 | 44 | 569 | 54 | 534 | 1.58e-101 | 318 |
| Msa0972810 | AT3G52430.1 | 27.804 | 428 | 276 | 11 | 134 | 547 | 112 | 520 | 4.43e-41 | 156 |
| Msa0972810 | AT5G14930.3 | 44.149 | 188 | 95 | 5 | 44 | 230 | 54 | 232 | 3.04e-36 | 135 |
| Msa0972810 | AT3G48080.1 | 26.772 | 381 | 190 | 18 | 208 | 540 | 264 | 603 | 5.35e-13 | 72.4 |
| Msa0972810 | AT3G48090.2 | 23.197 | 513 | 258 | 19 | 134 | 540 | 9 | 491 | 2.11e-12 | 70.1 |
Find 105 sgRNAs with CRISPR-Local
Find 209 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGCATGGTCAAAATCA+AGG | 0.483065 | 6_4:+5092954 | Msa0972810:CDS |
| AAAGACATAGTTACAAATGA+TGG | 0.503356 | 6_4:+5091335 | Msa0972810:CDS |
| AAAGATTAAGCTGTATGGTT+TGG | 0.357357 | 6_4:+5094556 | Msa0972810:CDS |
| AAAGTAGCTATATGAGTTGG+TGG | 0.616200 | 6_4:+5094465 | Msa0972810:CDS |
| AACCAAACCACTTTGAAGAT+TGG | 0.395980 | 6_4:-5091438 | None:intergenic |
| AACTAGTAAGTGTTTATATA+TGG | 0.253639 | 6_4:+5094762 | Msa0972810:three_prime_UTR |
| AACTTTGGAGGAATGGTTAG+AGG | 0.385579 | 6_4:+5094208 | Msa0972810:CDS |
| AAGATTAAGCTGTATGGTTT+GGG | 0.377569 | 6_4:+5094557 | Msa0972810:CDS |
| AAGGATGTTTCTATTCTGGC+TGG | 0.477821 | 6_4:+5093035 | Msa0972810:CDS |
| AAGGATTACAAAGCTATTAA+GGG | 0.468996 | 6_4:+5094488 | Msa0972810:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTGAGTTATTGGGAAATAT+GGG | - | chr6_4:5091044-5091063 | None:intergenic | 30.0% | |
| AAGTGAGTTATTGGGAAATA+TGG | - | chr6_4:5091045-5091064 | None:intergenic | 30.0% | |
| TAGAAGCTTATGTTATGTGA+TGG | - | chr6_4:5091068-5091087 | None:intergenic | 30.0% | |
| AAGGCTATAATAGTCAAATC+AGG | - | chr6_4:5091398-5091417 | None:intergenic | 30.0% | |
| TTGAAGATTGGAAGAATCTA+TGG | - | chr6_4:5091429-5091448 | None:intergenic | 30.0% | |
| GTTTCATCTACTGATCTTAA+AGG | + | chr6_4:5091458-5091477 | Msa0972810:CDS | 30.0% | |
| GTAAAATGATCAAGGATTCA+TGG | + | chr6_4:5091718-5091737 | Msa0972810:intron | 30.0% | |
| AGCACCAAAAACTCAAAATT+TGG | + | chr6_4:5091916-5091935 | Msa0972810:intron | 30.0% | |
| GCACCAAAAACTCAAAATTT+GGG | + | chr6_4:5091917-5091936 | Msa0972810:intron | 30.0% | |
| TTTGTCTGATCTTAATCCAA+TGG | + | chr6_4:5092078-5092097 | Msa0972810:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 5090969 | 5094785 | 5090969 | ID=Msa0972810;Name=Msa0972810 |
| chr6_4 | mRNA | 5090969 | 5094785 | 5090969 | ID=Msa0972810-mRNA-1;Parent=Msa0972810;Name=Msa0972810-mRNA-1;_AED=0.06;_eAED=0.06;_QI=129|1|1|1|0.75|0.6|5|187|576 |
| chr6_4 | exon | 5090969 | 5091010 | 5090969 | ID=Msa0972810-mRNA-1:exon:2207;Parent=Msa0972810-mRNA-1 |
| chr6_4 | exon | 5091033 | 5091136 | 5091033 | ID=Msa0972810-mRNA-1:exon:2208;Parent=Msa0972810-mRNA-1 |
| chr6_4 | exon | 5091250 | 5091604 | 5091250 | ID=Msa0972810-mRNA-1:exon:2209;Parent=Msa0972810-mRNA-1 |
| chr6_4 | exon | 5092600 | 5093136 | 5092600 | ID=Msa0972810-mRNA-1:exon:2210;Parent=Msa0972810-mRNA-1 |
| chr6_4 | exon | 5093777 | 5094785 | 5093777 | ID=Msa0972810-mRNA-1:exon:2211;Parent=Msa0972810-mRNA-1 |
| chr6_4 | five_prime_UTR | 5090969 | 5091010 | 5090969 | ID=Msa0972810-mRNA-1:five_prime_utr;Parent=Msa0972810-mRNA-1 |
| chr6_4 | five_prime_UTR | 5091033 | 5091119 | 5091033 | ID=Msa0972810-mRNA-1:five_prime_utr;Parent=Msa0972810-mRNA-1 |
| chr6_4 | CDS | 5091120 | 5091136 | 5091120 | ID=Msa0972810-mRNA-1:cds;Parent=Msa0972810-mRNA-1 |
| chr6_4 | CDS | 5091250 | 5091604 | 5091250 | ID=Msa0972810-mRNA-1:cds;Parent=Msa0972810-mRNA-1 |
| chr6_4 | CDS | 5092600 | 5093136 | 5092600 | ID=Msa0972810-mRNA-1:cds;Parent=Msa0972810-mRNA-1 |
| chr6_4 | CDS | 5093777 | 5094598 | 5093777 | ID=Msa0972810-mRNA-1:cds;Parent=Msa0972810-mRNA-1 |
| chr6_4 | three_prime_UTR | 5094599 | 5094785 | 5094599 | ID=Msa0972810-mRNA-1:three_prime_utr;Parent=Msa0972810-mRNA-1 |
| Gene Sequence |
>Msa0972810 ATGGCACAACCTAAATTATTTAGCAGTGGAATTGAACATGCATCATTTGTGACAAGCTATCAAATCCTTAAAAAAGCATGGAATGTTATCTCATCTAGTTCTAAAGACATAGTTACAAATGATGGTGTTGGATTGTGTTGGAAAGAGTACAAAGAACAAAGTCCTGATTTGACTATTATAGCCTTTGAAGCTACCATAGATTCTTCCAATCTTCAAAGTGGTTTGGTTTCATCTACTGATCTTAAAGGGAAGAAGAATTTTCATCAGTTTGACTTTTTATGCTCTAAGAAGAATCCTTCTTTCTCTCTTAATGACACTGCTGTTTCACTCTTTTGTGATAATTTTCAGAAGCTTGATGAGTTGAAATCTAAGATTTTAGGTACAAATCCGGTAACTCCATTGATTGTTACTGGAAAAGGCCTCGGAGGATCAATAGCTTCACTCTTCACAATATCACTATTAGATAACATTGGTTCAACAAAGAATCGACCACTATGCATCACATTTGGTTCACCTCTTGTTGGTGACAAGAAATTGCAACAAGCCATATCACGTAGTTCTAATTGGAATTCTTGCTTTATTCATGTTGTTTCATGCAAAGACCCTTTTCCAAGGCTATTCATCACAAATCACATGCCTTTTGGAACATTTATCTTTTGTTCTGATTCAGATTCTACTTGTTTTGAAAATCCCGAATCAAATTTGGAAATAATAATGACATTAAGCAAAATGCATGGTCAAAATCAAGGATTCAAATTAGATGAGTACGGAAATATAGTCGACAATCTCAGGCGTAAAGCATTTTTTAAGGATGTTTCTATTCTGGCTGGAGACGGGACTCATTCAGATTCACTTGTGATTGGTATCAGTTTGCAGTTGCAAGCACTAGGATTGACACCAAACATTCTGAAAAAGAATGACATTGATATCAATGTTCTTGAAACAAAGATAAAAAGACTAGAAGAACTATCCATCCGTCAAAAGAAGACATCATTTGATCCATCCAAGAAACTGAATGAAATGAAGCGACATATGGCGCAACTTGAATGGTACAAAATGAAAACAAAAAATCTTCACATAGGGTACTATGACAGCTACAAAAACAAGAACGCACAATTTGATCATGATGTTGTTGTATTTCATAAAATACTCGCAAATTATTGGGAAAAGATGGTTGAAGAAGCTGAACTGAAGCCTCAAAGAGAAGGCGCTGCATTTCGTAATCGCTGGCTCTTCGGTGGAACTACATATAGAAGAATGGTTGAACCACTAGCTATTGCTCAGTACTATAGAGACGGTGGTAAAGATTATGTCAATAAACAAAGATCCAAACACTTCAAAACTTTGGAGGAATGGTTAGAGGAAGACTCGACAAAGACTAAAACTGAATTAAACAGTACAAGTAAGAAGAAAGTGGAAGTGATTTTGACTATAGATTCTTGCTTTTGGGCACATGTTGAAGAGGCTATACTTGCATGCAATGAGTTGAACGAAGTGAAAGACAAAGAAGAGGTATTGAATAAATTGGTTGAATTTGAGGACTATGTTTATGGTTTGCTTAAGGATTATGCAGTGTCCCCTGAGATTTTCTTGAGGCAAAGTAGCTATATGAGTTGGTGGAAGGATTACAAAGCTATTAAGGGATCTTCATACACTTCAAAACTTGCTAATTTCATGAATGATGCTGGAAAGATTAAGCTGTATGGTTTGGGAGCTTATGATTTTCCTTGA |
| Protein sequence |
>Msa0972810 MAQPKLFSSGIEHASFVTSYQILKKAWNVISSSSKDIVTNDGVGLCWKEYKEQSPDLTIIAFEATIDSSNLQSGLVSSTDLKGKKNFHQFDFLCSKKNPSFSLNDTAVSLFCDNFQKLDELKSKILGTNPVTPLIVTGKGLGGSIASLFTISLLDNIGSTKNRPLCITFGSPLVGDKKLQQAISRSSNWNSCFIHVVSCKDPFPRLFITNHMPFGTFIFCSDSDSTCFENPESNLEIIMTLSKMHGQNQGFKLDEYGNIVDNLRRKAFFKDVSILAGDGTHSDSLVIGISLQLQALGLTPNILKKNDIDINVLETKIKRLEELSIRQKKTSFDPSKKLNEMKRHMAQLEWYKMKTKNLHIGYYDSYKNKNAQFDHDVVVFHKILANYWEKMVEEAELKPQREGAAFRNRWLFGGTTYRRMVEPLAIAQYYRDGGKDYVNKQRSKHFKTLEEWLEEDSTKTKTELNSTSKKKVEVILTIDSCFWAHVEEAILACNELNEVKDKEEVLNKLVEFEDYVYGLLKDYAVSPEIFLRQSSYMSWWKDYKAIKGSSYTSKLANFMNDAGKIKLYGLGAYDFP* |
