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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0341990 | XP_003597736.1 | 97.859 | 794 | 13 | 1 | 1 | 790 | 1 | 794 | 0.0 | 1615 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0341990 | sp|P46607|HGL2_ARATH | 62.532 | 774 | 257 | 10 | 21 | 789 | 1 | 746 | 0.0 | 964 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0225230 | Msa0341990 | 0.905639 | 3.470951e-80 | -8.615850e-47 |
| Msa0266280 | Msa0341990 | 0.887462 | 1.396788e-72 | -8.615850e-47 |
| Msa0305310 | Msa0341990 | 0.899086 | 2.805749e-77 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0341990 | MtrunA17_Chr2g0331581 | 97.859 | 794 | 13 | 1 | 1 | 790 | 1 | 794 | 0.0 | 1615 |
| Msa0341990 | MtrunA17_Chr8g0350321 | 43.446 | 801 | 373 | 15 | 34 | 788 | 43 | 809 | 0.0 | 644 |
| Msa0341990 | MtrunA17_Chr2g0322731 | 44.382 | 712 | 353 | 10 | 106 | 788 | 71 | 768 | 0.0 | 625 |
| Msa0341990 | MtrunA17_Chr4g0024351 | 42.933 | 750 | 376 | 13 | 66 | 788 | 8 | 732 | 0.0 | 619 |
| Msa0341990 | MtrunA17_Chr7g0246631 | 41.593 | 791 | 390 | 14 | 39 | 788 | 18 | 777 | 0.0 | 619 |
| Msa0341990 | MtrunA17_Chr1g0203671 | 42.593 | 702 | 349 | 13 | 133 | 785 | 93 | 789 | 0.0 | 578 |
| Msa0341990 | MtrunA17_Chr6g0481041 | 40.225 | 711 | 357 | 12 | 133 | 787 | 27 | 725 | 0.0 | 561 |
| Msa0341990 | MtrunA17_Chr5g0410711 | 37.388 | 781 | 401 | 16 | 82 | 785 | 9 | 778 | 5.26e-169 | 508 |
| Msa0341990 | MtrunA17_Chr6g0472471 | 38.615 | 751 | 376 | 13 | 95 | 785 | 40 | 765 | 1.01e-166 | 501 |
| Msa0341990 | MtrunA17_Chr5g0394111 | 38.484 | 673 | 351 | 13 | 126 | 785 | 24 | 646 | 5.81e-153 | 461 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0341990 | AT1G79840.1 | 62.532 | 774 | 257 | 10 | 21 | 789 | 1 | 746 | 0.0 | 964 |
| Msa0341990 | AT1G79840.2 | 62.532 | 774 | 257 | 10 | 21 | 789 | 30 | 775 | 0.0 | 960 |
| Msa0341990 | AT1G79840.3 | 64.723 | 703 | 228 | 7 | 92 | 789 | 1 | 688 | 0.0 | 928 |
| Msa0341990 | AT1G79840.6 | 64.723 | 703 | 228 | 7 | 92 | 789 | 1 | 688 | 0.0 | 928 |
| Msa0341990 | AT1G79840.4 | 62.558 | 649 | 210 | 10 | 21 | 664 | 1 | 621 | 0.0 | 802 |
| Msa0341990 | AT4G04890.2 | 43.315 | 718 | 364 | 10 | 106 | 790 | 33 | 740 | 0.0 | 623 |
| Msa0341990 | AT4G04890.1 | 43.315 | 718 | 364 | 10 | 106 | 790 | 33 | 740 | 0.0 | 623 |
| Msa0341990 | AT4G00730.1 | 44.444 | 702 | 350 | 11 | 111 | 788 | 116 | 801 | 0.0 | 612 |
| Msa0341990 | AT1G79840.5 | 60.377 | 530 | 177 | 10 | 21 | 545 | 1 | 502 | 0.0 | 612 |
| Msa0341990 | AT4G21750.2 | 43.198 | 713 | 346 | 9 | 128 | 788 | 55 | 760 | 0.0 | 612 |
Find 182 sgRNAs with CRISPR-Local
Find 1149 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCAATGGATGAATTTGA+AGG | 0.515118 | 2_4:-63906774 | Msa0341990:CDS |
| AAATCGTCGTACCCAAATCA+AGG | 0.531425 | 2_4:-63905463 | Msa0341990:intron |
| AAATGCAGAAAACGCCCATC+TGG | 0.466193 | 2_4:-63902114 | Msa0341990:CDS |
| AAATGCCAAACTCAAAGCTG+AGG | 0.643784 | 2_4:-63905161 | Msa0341990:intron |
| AAATGGTAATTACTTCGAGG+CGG | 0.664685 | 2_4:-63900827 | Msa0341990:CDS |
| AAATTCTTACGAATCAATGG+TGG | 0.698012 | 2_4:-63900967 | Msa0341990:CDS |
| AACAAAACATTCGGAGATAT+AGG | 0.395045 | 2_4:+63901371 | None:intergenic |
| AACCAAAATTTGACTTGCCT+TGG | 0.392620 | 2_4:+63905489 | None:intergenic |
| AAGAAATCAAACAAAACATT+CGG | 0.470977 | 2_4:+63901362 | None:intergenic |
| AAGCTTCCATACATGGACTA+AGG | 0.539054 | 2_4:-63901501 | Msa0341990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTTATAGTTAGGACTTACA+AGG | + | chr2_4:63891155-63891174 | None:intergenic | 30.0% | |
| GAAGAGAGTTAGTTATAGTT+AGG | + | chr2_4:63891165-63891184 | None:intergenic | 30.0% | |
| AGCAAATGAAACATAAAACG+AGG | + | chr2_4:63891349-63891368 | None:intergenic | 30.0% | |
| AAGTGACACTTATGTCATTA+GGG | - | chr2_4:63891419-63891438 | Msa0341990:intron | 30.0% | |
| TCCAACTAAATCCAAATCAA+TGG | - | chr2_4:63891705-63891724 | Msa0341990:intron | 30.0% | |
| AGAAAAGGAAGAAATATCAC+AGG | - | chr2_4:63891812-63891831 | Msa0341990:intron | 30.0% | |
| CAGTGAGCATGTATTATTAT+TGG | - | chr2_4:63892671-63892690 | Msa0341990:intron | 30.0% | |
| TAATACGACATGAGAAATTG+TGG | + | chr2_4:63893501-63893520 | None:intergenic | 30.0% | |
| TACACATTATAGCATCTGAT+TGG | + | chr2_4:63893711-63893730 | None:intergenic | 30.0% | |
| CTCTTGATTAATACATGTGT+AGG | - | chr2_4:63894040-63894059 | Msa0341990:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 63890842 | 63907672 | 63890842 | ID=Msa0341990;Name=Msa0341990 |
| chr2_4 | mRNA | 63890842 | 63907672 | 63890842 | ID=Msa0341990-mRNA-1;Parent=Msa0341990;Name=Msa0341990-mRNA-1;_AED=0.12;_eAED=0.12;_QI=161|1|1|1|0.90|0.83|12|154|790 |
| chr2_4 | exon | 63890842 | 63890922 | 63890842 | ID=Msa0341990-mRNA-1:exon:20535;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63900586 | 63901039 | 63900586 | ID=Msa0341990-mRNA-1:exon:20534;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63901151 | 63901237 | 63901151 | ID=Msa0341990-mRNA-1:exon:20533;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63901337 | 63901608 | 63901337 | ID=Msa0341990-mRNA-1:exon:20532;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63901719 | 63901893 | 63901719 | ID=Msa0341990-mRNA-1:exon:20531;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63902077 | 63902286 | 63902077 | ID=Msa0341990-mRNA-1:exon:20530;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63903827 | 63903928 | 63903827 | ID=Msa0341990-mRNA-1:exon:20529;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63904075 | 63904452 | 63904075 | ID=Msa0341990-mRNA-1:exon:20528;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63905162 | 63905356 | 63905162 | ID=Msa0341990-mRNA-1:exon:20527;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63905464 | 63905581 | 63905464 | ID=Msa0341990-mRNA-1:exon:20526;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63906648 | 63906949 | 63906648 | ID=Msa0341990-mRNA-1:exon:20525;Parent=Msa0341990-mRNA-1 |
| chr2_4 | exon | 63907359 | 63907672 | 63907359 | ID=Msa0341990-mRNA-1:exon:20524;Parent=Msa0341990-mRNA-1 |
| chr2_4 | five_prime_UTR | 63907512 | 63907672 | 63907512 | ID=Msa0341990-mRNA-1:five_prime_utr;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63907359 | 63907511 | 63907359 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63906648 | 63906949 | 63906648 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63905464 | 63905581 | 63905464 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63905162 | 63905356 | 63905162 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63904075 | 63904452 | 63904075 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63903827 | 63903928 | 63903827 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63902077 | 63902286 | 63902077 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63901719 | 63901893 | 63901719 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63901337 | 63901608 | 63901337 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63901151 | 63901237 | 63901151 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | CDS | 63900659 | 63901039 | 63900659 | ID=Msa0341990-mRNA-1:cds;Parent=Msa0341990-mRNA-1 |
| chr2_4 | three_prime_UTR | 63900586 | 63900658 | 63900586 | ID=Msa0341990-mRNA-1:three_prime_utr;Parent=Msa0341990-mRNA-1 |
| chr2_4 | three_prime_UTR | 63890842 | 63890922 | 63890842 | ID=Msa0341990-mRNA-1:three_prime_utr;Parent=Msa0341990-mRNA-1 |
| Gene Sequence |
>Msa0341990 ATGACACAACCATTGCTTTTGCTCCTTAAAAAACACAACACACTTCTTTCTTCACCAACGTTGTCAATGTGTGCAGACATGTCTAATAATAATCCTCCTTCTACTTCTAAAGCCAAAGACTTCTTTCCCTCTCCAGCTCTCTCTCTTAGCCTTGCGGGGATTTTTCGGCATGGCGGTGCGGCGGCGGGGGAGGGTGAAGGAGGGAGTTTTAGTAATATGGAGGTGGAAGAAGGGGAGGAAGGGAGTACAATAGGAGGTGAGCGTGTGGAGGAAATAAGCAGCGAGTATTCAGGTCCAACTAAATCCAAATCAATGGATGAATTTGAAGGAGATGAACTTGAAGATGATGAAGGTGAAGATGATGAAGGTGATGGTGATGGTGATAATAAGAACAAGAAGAAGAAAAGGAAGAAATATCACAGGCACACTTCTGAACAGATCAGAGTCATGGAAGCGCTTTTCAAAGAGTCACCACATCCTGATGAAAAGCAGAGGCAACAACTTAGCAAGCAATTAGGTCTTGCTCCAAGGCAAGTCAAATTTTGGTTCCAAAATCGTCGTACCCAAATCAAGGCAATACAAGAGCGACATGAAAATTCATTGTTGAAATCAGAAATAGAGAAACTAAGGGAGAAAAATAAGACCCTACGAGAGACCATAAATAAGGCTTGTTGCCCCAACTGTGGGGTCCCCACCACAAACAGAGATGGTGCAATGGCAACTGAAGAACAACAACTACGTATTGAAAATGCCAAACTCAAAGCTGAGGTAGAGAGGCTGAGAGCAGCTTTAGGGAAATATGCATCAGGGACAATGTCACCTTCATGTTCCACTAGTCATGACCAAGAGAATATTAAAAGCTCTTTGGATTTTTATACTGGAATTTTTGGTCTTGATGAGTCAAGAATAATGGATGTAGTAAACCAAGCAATGGAGGAGCTTATAAAGATGGCAACAATGGGTGAACCAATGTGGTTACGTAGCTTAGAGACCGGTCGTGAAATACTTAACTATGATGAATATATGAAGGAGTTTGCCGTTGAAAATTCAGACCATGGAAGACCAAAGAGATCCATTGAAGCTTCAAGAGATACAGGAGTTGTTTTTGCAGATCTTCCTCGGATCGTCCAATGTTTTCTTGATGCTAATCAATGGAAGGAAATGTTTCCATGTTTAATATCTAAGGCAGCAACAGTTGACACTATATGCAAAGGAGAAGGTTCTAACAAGAATGGTGCAGTGCAACTGATGTTTGCTGAGTTGCAAATGTTAACACCAATGGTTCCAACTAGAGAAGTGTATTTTGTCAGATACTGCAAGCAGTTGAGTGGTGAAAAATGGGCTATTGTTGATGTGTCCATAGACAAAGTAGAAGACAACATTGACAAGTCCCTAGTGAAATGCAGAAAACGCCCATCTGGTTGCATTATTGAGGATAAGTCAAATGGACATTGCAAAGTAGTATGGGTGGAGCATTTGGAGTGTCAAAAGAGTGTAGTTCATTCAATGTATCGCACCATTGTCAACAGTGGCCTAGCTTTTGGGGCAAGGCATTGGATTGCGACCCTTCAACTTCAATGCGAACGTCTAGTTTTCTTCATGGCAACAAACGTTCCCATGAAGGATTCAACTGGTGTTGCCACATTGGCTGGAAGAAAAAGCATTTTGAAGTTGGCACAAAGAATGACATGGAGTTTCTGTCAAGCAATTAGTGCATCAAGCTTCCATACATGGACTAAGGTTACTAGTAAAACTGGAGAAGACATAAGGATTAGTTCCAGAAAGAACTTGAATGATCCTAGTGAACCTCTTGGATTGATAGTTTGTGCAGTTTCTTCTATATGGTTGCCTATATCTCCGAATGTTTTGTTTGATTTCTTGAGGGACGAAACTCGTCGAACTGAGTGGGATATAATGTCTAATGGTGGGACAGTGCAATCCATTGCAAATTTAGCCAAAGGACAAGACAGAGGCAATGCAGTAACTATCCAAACAATTAAATCAAAAGAAAACAATATGTGGATACTGCAAGATAGCTGCACAAATTCTTACGAATCAATGGTGGTATACGCACCTGTGGATATTACCGGTATTCAATCCGTGATGACCGGATGTGATTCGAGCAATCTAGCCATACTGCCCTCAGGATTTTCAATTGTTTCTGATGGTTTGGAGTCAAGGCAAATGGTAATTACTTCGAGGCGGGAAGAGAAAAATACAGAAGGAGGATCTTTGTTTACAATAGCATTCCAAATCCTTACAAATGCTTCTCCTACAGCCAAATTAACAATGGAGTCTGTGGACTCTGTCAACTCTCTTGTATCGTGTACATTGAGACACATCAAAACAAGTCTAAATTGTGAAGATGGTTAG |
| Protein sequence |
>Msa0341990 MTQPLLLLLKKHNTLLSSPTLSMCADMSNNNPPSTSKAKDFFPSPALSLSLAGIFRHGGAAAGEGEGGSFSNMEVEEGEEGSTIGGERVEEISSEYSGPTKSKSMDEFEGDELEDDEGEDDEGDGDGDNKNKKKKRKKYHRHTSEQIRVMEALFKESPHPDEKQRQQLSKQLGLAPRQVKFWFQNRRTQIKAIQERHENSLLKSEIEKLREKNKTLRETINKACCPNCGVPTTNRDGAMATEEQQLRIENAKLKAEVERLRAALGKYASGTMSPSCSTSHDQENIKSSLDFYTGIFGLDESRIMDVVNQAMEELIKMATMGEPMWLRSLETGREILNYDEYMKEFAVENSDHGRPKRSIEASRDTGVVFADLPRIVQCFLDANQWKEMFPCLISKAATVDTICKGEGSNKNGAVQLMFAELQMLTPMVPTREVYFVRYCKQLSGEKWAIVDVSIDKVEDNIDKSLVKCRKRPSGCIIEDKSNGHCKVVWVEHLECQKSVVHSMYRTIVNSGLAFGARHWIATLQLQCERLVFFMATNVPMKDSTGVATLAGRKSILKLAQRMTWSFCQAISASSFHTWTKVTSKTGEDIRISSRKNLNDPSEPLGLIVCAVSSIWLPISPNVLFDFLRDETRRTEWDIMSNGGTVQSIANLAKGQDRGNAVTIQTIKSKENNMWILQDSCTNSYESMVVYAPVDITGIQSVMTGCDSSNLAILPSGFSIVSDGLESRQMVITSRREEKNTEGGSLFTIAFQILTNASPTAKLTMESVDSVNSLVSCTLRHIKTSLNCEDG* |
