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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549360 | XP_003606816.1 | 96.011 | 727 | 27 | 1 | 1 | 725 | 1 | 727 | 0.0 | 1424 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001960 | Msa0549360 | 0.817668 | 2.926543e-52 | -8.615850e-47 |
| Msa0030990 | Msa0549360 | 0.823738 | 1.178405e-53 | -8.615850e-47 |
| Msa0035120 | Msa0549360 | 0.800198 | 1.612913e-48 | -8.615850e-47 |
| Msa0036890 | Msa0549360 | 0.811973 | 5.353894e-51 | -8.615850e-47 |
| Msa0051020 | Msa0549360 | 0.801991 | 6.935201e-49 | -8.615850e-47 |
| Msa0052870 | Msa0549360 | 0.811014 | 8.653316e-51 | -8.615850e-47 |
| Msa0060760 | Msa0549360 | 0.803236 | 3.838267e-49 | -8.615850e-47 |
| Msa0061340 | Msa0549360 | 0.811521 | 6.715996e-51 | -8.615850e-47 |
| Msa0074600 | Msa0549360 | 0.833455 | 5.280794e-56 | -8.615850e-47 |
| Msa0084970 | Msa0549360 | 0.817130 | 3.868154e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549360 | MtrunA17_Chr4g0033751 | 96.011 | 727 | 27 | 1 | 1 | 725 | 1 | 727 | 0.0 | 1424 |
| Msa0549360 | MtrunA17_Chr2g0329581 | 62.681 | 761 | 209 | 17 | 1 | 718 | 1 | 729 | 0.0 | 817 |
| Msa0549360 | MtrunA17_Chr6g0475401 | 63.025 | 119 | 44 | 0 | 1 | 119 | 1 | 119 | 8.89e-48 | 177 |
| Msa0549360 | MtrunA17_Chr6g0475401 | 35.833 | 120 | 60 | 3 | 608 | 712 | 412 | 529 | 3.08e-12 | 69.7 |
| Msa0549360 | MtrunA17_Chr5g0413621 | 57.025 | 121 | 51 | 1 | 1 | 120 | 1 | 121 | 1.52e-41 | 160 |
| Msa0549360 | MtrunA17_Chr4g0062781 | 56.667 | 120 | 52 | 0 | 1 | 120 | 1 | 120 | 3.61e-40 | 157 |
| Msa0549360 | MtrunA17_Chr2g0309091 | 31.680 | 363 | 196 | 13 | 369 | 711 | 254 | 584 | 7.57e-37 | 146 |
| Msa0549360 | MtrunA17_Chr2g0309091 | 46.825 | 126 | 61 | 2 | 1 | 124 | 1 | 122 | 1.33e-26 | 115 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0549360 | AT1G08760.1 | 51.747 | 744 | 298 | 17 | 1 | 706 | 1 | 721 | 0.0 | 677 |
| Msa0549360 | AT3G14170.1 | 61.345 | 119 | 46 | 0 | 1 | 119 | 1 | 119 | 2.81e-45 | 170 |
| Msa0549360 | AT3G14170.1 | 35.338 | 133 | 69 | 3 | 594 | 712 | 374 | 503 | 4.95e-13 | 72.8 |
| Msa0549360 | AT3G14170.1 | 34.831 | 89 | 58 | 0 | 384 | 472 | 250 | 338 | 1.67e-12 | 70.9 |
| Msa0549360 | AT3G14170.2 | 61.345 | 119 | 46 | 0 | 1 | 119 | 1 | 119 | 2.94e-45 | 169 |
| Msa0549360 | AT3G14170.2 | 35.338 | 133 | 69 | 3 | 594 | 712 | 375 | 504 | 5.32e-13 | 72.4 |
| Msa0549360 | AT3G14170.2 | 34.831 | 89 | 58 | 0 | 384 | 472 | 251 | 339 | 1.82e-12 | 70.9 |
| Msa0549360 | AT4G13370.1 | 58.400 | 125 | 52 | 0 | 1 | 125 | 1 | 125 | 3.07e-42 | 164 |
| Msa0549360 | AT4G13370.1 | 28.135 | 327 | 160 | 6 | 382 | 707 | 413 | 665 | 2.24e-23 | 105 |
| Msa0549360 | AT1G23790.1 | 57.377 | 122 | 51 | 1 | 1 | 121 | 1 | 122 | 3.53e-41 | 158 |
Find 162 sgRNAs with CRISPR-Local
Find 261 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGCAAATCTAGTTCC+TGG | 0.348238 | 4_1:+44459623 | Msa0549360:exon |
| AAATCATCCGCGCACTATTC+AGG | 0.311812 | 4_1:-44462545 | None:intergenic |
| AAATCTATAAAGAAAGTTAA+CGG | 0.457905 | 4_1:+44461101 | Msa0549360:CDS |
| AAATCTCCACCTGCTAGTGC+TGG | 0.505213 | 4_1:-44459737 | None:intergenic |
| AAATGGCAAATCTAGTTCCT+GGG | 0.508006 | 4_1:+44459624 | Msa0549360:exon |
| AACAATAAATGTGAAATGTG+AGG | 0.588377 | 4_1:+44463529 | Msa0549360:three_prime_UTR |
| AACACAGACATAAAAGTTGG+TGG | 0.601218 | 4_1:+44459674 | Msa0549360:CDS |
| AACACCAACCAAGTCCTCTA+AGG | 0.411554 | 4_1:+44461061 | Msa0549360:CDS |
| AACAGAAAAGGATGAGAGAT+TGG | 0.439259 | 4_1:-44462700 | None:intergenic |
| AACGATTGGTTGGATGAGAT+AGG | 0.546451 | 4_1:+44463146 | Msa0549360:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGGTAGACTATGATAATCA+TGG | - | chr4_1:44459146-44459165 | None:intergenic | 30.0% | |
| AACTAGAAACTAGAAACTGA+TGG | - | chr4_1:44459462-44459481 | None:intergenic | 30.0% | |
| ACTCTTCTAATACTCAAATG+GGG | - | chr4_1:44459574-44459593 | None:intergenic | 30.0% | |
| ATGAACACAGACATAAAAGT+TGG | + | chr4_1:44459671-44459690 | Msa0549360:CDS | 30.0% | |
| TTAGATCATCATGTTCATCA+GGG | - | chr4_1:44459826-44459845 | None:intergenic | 30.0% | |
| ATTAGATCATCATGTTCATC+AGG | - | chr4_1:44459827-44459846 | None:intergenic | 30.0% | |
| TTAGTTGCAACAATATCTTC+AGG | - | chr4_1:44459971-44459990 | None:intergenic | 30.0% | |
| GAGAATTTCTCAAAAGAAGT+AGG | - | chr4_1:44460250-44460269 | None:intergenic | 30.0% | |
| AAGCAACAAGGAAATATCAA+TGG | + | chr4_1:44460280-44460299 | Msa0549360:CDS | 30.0% | |
| TTAGTTCAAGGAATTGAACT+TGG | + | chr4_1:44460409-44460428 | Msa0549360:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 44459133 | 44463611 | 44459133 | ID=Msa0549360;Name=Msa0549360 |
| chr4_1 | mRNA | 44459133 | 44463611 | 44459133 | ID=Msa0549360-mRNA-1;Parent=Msa0549360;Name=Msa0549360-mRNA-1;_AED=0.10;_eAED=0.10;_QI=493|1|1|1|1|1|4|286|725 |
| chr4_1 | exon | 44459133 | 44460546 | 44459133 | ID=Msa0549360-mRNA-1:exon:11510;Parent=Msa0549360-mRNA-1 |
| chr4_1 | exon | 44460999 | 44461301 | 44460999 | ID=Msa0549360-mRNA-1:exon:11511;Parent=Msa0549360-mRNA-1 |
| chr4_1 | exon | 44461789 | 44461880 | 44461789 | ID=Msa0549360-mRNA-1:exon:11512;Parent=Msa0549360-mRNA-1 |
| chr4_1 | exon | 44462464 | 44463611 | 44462464 | ID=Msa0549360-mRNA-1:exon:11513;Parent=Msa0549360-mRNA-1 |
| chr4_1 | five_prime_UTR | 44459133 | 44459625 | 44459133 | ID=Msa0549360-mRNA-1:five_prime_utr;Parent=Msa0549360-mRNA-1 |
| chr4_1 | CDS | 44459626 | 44460546 | 44459626 | ID=Msa0549360-mRNA-1:cds;Parent=Msa0549360-mRNA-1 |
| chr4_1 | CDS | 44460999 | 44461301 | 44460999 | ID=Msa0549360-mRNA-1:cds;Parent=Msa0549360-mRNA-1 |
| chr4_1 | CDS | 44461789 | 44461880 | 44461789 | ID=Msa0549360-mRNA-1:cds;Parent=Msa0549360-mRNA-1 |
| chr4_1 | CDS | 44462464 | 44463325 | 44462464 | ID=Msa0549360-mRNA-1:cds;Parent=Msa0549360-mRNA-1 |
| chr4_1 | three_prime_UTR | 44463326 | 44463611 | 44463326 | ID=Msa0549360-mRNA-1:three_prime_utr;Parent=Msa0549360-mRNA-1 |
| Gene Sequence |
>Msa0549360 ATGGCAAATCTAGTTCCTGGGGTGCTACTAAAGTTAATGCAGCACATGAACACAGACATAAAAGTTGGTGGTGAACATAGATCATCATTGTTACAAGTTGTGAGCATTGTTCCAGCACTAGCAGGTGGAGATTTGTTTACAAATCAAGGCTTTTATGTTAAGGTTTCTGATTCATCACATGCTACTTATGTCTCTCTCCCTGATGAACATGATGATCTAATCCTTAGTGACAAGATTCAGTTAGGCCAGTTTGTTTTTGTTGATCGGTTTGAAGCTGCTTCGCCTGTTCCGATTCTTCGTGGTGTTAGGCCTGTTCCTGGGAGACATGCTTGTGTTGGAACACCTGAAGATATTGTTGCAACTAACTCACTTGGTTTTCTTAGCAATGCTTCTGAGGTTAAGGTTAAGAGGAATAGTGTTTGTTCCAAGTCCTCTCCAATGAAAGTGTTGGAGAATCATCAAGAACAAGTAGATAAGAAATCAATGGTTTTAGGTAGATGTAAATCTCAGACAGCAAAAGATTCTGTTGTTGATTTTGTGAAGAAGGAAAAGTTAACAAGATTAAAGTCATTGAATTCAAGAGCTATTGTTCCTTCTTCACCTACTAGTTGCTATTCTTTGCCTACTTCTTTTGAGAAATTCTCTAATGGAGTTAAGCAACAAGGAAATATCAATGGAGTGGATAGGCTGATTGCTAAGGTGGGGGTGGTGGAGACGGGAAAGGGTGTTCGCGGAGTTAGTCCTCTCGGGAAGAGAATTGCAGTTGGAAATTCAATCAGAAATTTAGTTCAAGGAATTGAACTTGGTGCTAAGGCGTTGCGGAAAAGCTGGGAAGGGAACATGGAAGTTAAGAATAATAAAGAGACATCCAAATCAAGGGCATCTTCTAAGTGTGATTCTAAGCCTGAATTTCGTAGCACAACTCCTAGGAAAAGTACATCGAGTGAGAAGTTTCCTTCTAAAGATTACGAGAGTAAGACACAAACACCAACCAAGTCCTCTAAGGAAGAAAACAAGATTCAAAAATCTATAAAGAAAGTTAACGGTGATGGAACTATGGAAGAACAAGAAAAGACAACGAAGCAAAGGAACTCTTTTGGAAAGAAATCTTCAGAAGCCGGACTTCCCGGAAACTTTGTCAAGGTTTCAGTAAATAGTAAAAAAGTGACAGAAGCAAGTGTTCAATGGACTTCACTCCCTTCATCTATTGCGAAGCTTGGGAGGGAAGTAATGAAGCACAGAGATGCAGCACAGATGGCAGCAACTGAGGCTATGCAAGAGGCTGCTACTGCTGATAGTTTGCTACAATGTCTTAGTGTGTATGCAGAGCTAAGTAATTCTGCCAAGGAACATAACCCTCAGAATACAATTGATCAGTTTTTAACGCTTCACACTAGCCTGAATAGTGCGCGGATGATTTCAGATTCCCTTTCTAAAACCATTCCAGATGGTTCATCTCCAGATAATGAAAGAATCACAACAGAAGAAGCACTAAAACTCAAATCAGATAGACAAAAACTTGCAGCTTCTTGGGTCCAAGCTGCCTTATCCACCAATCTCTCATCCTTTTCTGTTTATAACCGAGAGCCTCAATTGTCCAAGCTTCCTGTTTCAACTACAAGTAATTCTCAAAATCAAAAGATTGTTCTTGGAAGTAAACCAATTTTAGTCCTCGAAAATTCAAGAGAAGACGCTTCATTGAAAGCTCATGGAAAAACTCGTCCAGCAGTAGCTAATTCCAAACAAGCCTTACAAGGAACTCCGCGCAAACAAGGTGATGCAATATCAAATCCAAAAAAGCAACTAGTCCAACAACCACTCCAAGAGTGGATTAAAGGAAATGACCTTGATGCGGCGGTTAATTTAGCCGACATGCTGCAATTGCGATCGCGAGACTGGTTTTTATTGTTTGTTGAGAAATTTTTGGACAGTGATGGAGACATTGGTTTGTCAAACAATGGTCAAATAGCAGGCATGCTCACTCAACTTAAAAGCGTCAACGATTGGTTGGATGAGATAGGATCGAGTAAAAATGAGGGGGAATCATGTCAGATACCGGTAGAGACAATTGATAGACTCAGGAAGAAGATATATGAATATCTTCTTACACATGTTGAATCTGCTGCTGCTGCCCTTACTTCTGACTCACAATCATCAGAGATCAAAGGCAAAAAGTGA |
| Protein sequence |
>Msa0549360 MANLVPGVLLKLMQHMNTDIKVGGEHRSSLLQVVSIVPALAGGDLFTNQGFYVKVSDSSHATYVSLPDEHDDLILSDKIQLGQFVFVDRFEAASPVPILRGVRPVPGRHACVGTPEDIVATNSLGFLSNASEVKVKRNSVCSKSSPMKVLENHQEQVDKKSMVLGRCKSQTAKDSVVDFVKKEKLTRLKSLNSRAIVPSSPTSCYSLPTSFEKFSNGVKQQGNINGVDRLIAKVGVVETGKGVRGVSPLGKRIAVGNSIRNLVQGIELGAKALRKSWEGNMEVKNNKETSKSRASSKCDSKPEFRSTTPRKSTSSEKFPSKDYESKTQTPTKSSKEENKIQKSIKKVNGDGTMEEQEKTTKQRNSFGKKSSEAGLPGNFVKVSVNSKKVTEASVQWTSLPSSIAKLGREVMKHRDAAQMAATEAMQEAATADSLLQCLSVYAELSNSAKEHNPQNTIDQFLTLHTSLNSARMISDSLSKTIPDGSSPDNERITTEEALKLKSDRQKLAASWVQAALSTNLSSFSVYNREPQLSKLPVSTTSNSQNQKIVLGSKPILVLENSREDASLKAHGKTRPAVANSKQALQGTPRKQGDAISNPKKQLVQQPLQEWIKGNDLDAAVNLADMLQLRSRDWFLLFVEKFLDSDGDIGLSNNGQIAGMLTQLKSVNDWLDEIGSSKNEGESCQIPVETIDRLRKKIYEYLLTHVESAAAALTSDSQSSEIKGKK* |
