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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231540 | XP_013448711.1 | 88.863 | 844 | 55 | 2 | 1 | 806 | 7 | 849 | 0.0 | 1541 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231540 | sp|Q9SXB8|Y1133_ARATH | 49.153 | 826 | 365 | 14 | 25 | 806 | 28 | 842 | 0.0 | 792 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231540 | A0A396GXR8 | 79.599 | 799 | 153 | 3 | 9 | 806 | 7 | 796 | 0.0 | 1298 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0231540 | Msa0351030 | 0.800479 | 1.413865e-48 | -8.615850e-47 |
| Msa0231540 | Msa0351080 | 0.803477 | 3.422225e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231540 | MtrunA17_Chr7g0236561 | 88.564 | 822 | 55 | 2 | 23 | 806 | 3 | 823 | 0.0 | 1493 |
| Msa0231540 | MtrunA17_Chr7g0236651 | 79.599 | 799 | 153 | 3 | 9 | 806 | 7 | 796 | 0.0 | 1298 |
| Msa0231540 | MtrunA17_Chr7g0236551 | 73.645 | 812 | 203 | 4 | 1 | 806 | 1 | 807 | 0.0 | 1233 |
| Msa0231540 | MtrunA17_Chr7g0236691 | 73.703 | 829 | 185 | 3 | 1 | 806 | 1 | 819 | 0.0 | 1222 |
| Msa0231540 | MtrunA17_Chr7g0236341 | 72.716 | 843 | 182 | 6 | 1 | 806 | 1 | 832 | 0.0 | 1216 |
| Msa0231540 | MtrunA17_Chr7g0236641 | 68.639 | 845 | 225 | 4 | 1 | 806 | 1 | 844 | 0.0 | 1185 |
| Msa0231540 | MtrunA17_Chr7g0236511 | 72.000 | 825 | 180 | 6 | 1 | 806 | 7 | 799 | 0.0 | 1182 |
| Msa0231540 | MtrunA17_Chr7g0236571 | 80.521 | 652 | 121 | 3 | 156 | 806 | 8 | 654 | 0.0 | 1058 |
| Msa0231540 | MtrunA17_Chr7g0236471 | 77.677 | 663 | 131 | 5 | 157 | 806 | 1 | 659 | 0.0 | 1046 |
| Msa0231540 | MtrunA17_Chr7g0236201 | 62.990 | 816 | 265 | 10 | 1 | 806 | 1 | 789 | 0.0 | 1030 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0231540 | AT1G11300.2 | 49.638 | 828 | 372 | 12 | 1 | 806 | 1 | 805 | 0.0 | 794 |
| Msa0231540 | AT1G11330.1 | 49.272 | 824 | 365 | 14 | 25 | 806 | 28 | 840 | 0.0 | 793 |
| Msa0231540 | AT1G11330.2 | 49.153 | 826 | 365 | 14 | 25 | 806 | 28 | 842 | 0.0 | 792 |
| Msa0231540 | AT1G11300.1 | 48.992 | 843 | 370 | 13 | 1 | 806 | 1 | 820 | 0.0 | 789 |
| Msa0231540 | AT1G11303.1 | 48.068 | 828 | 370 | 13 | 16 | 806 | 16 | 820 | 0.0 | 756 |
| Msa0231540 | AT1G11350.1 | 47.515 | 825 | 390 | 12 | 18 | 806 | 13 | 830 | 0.0 | 735 |
| Msa0231540 | AT1G11330.3 | 50.345 | 725 | 306 | 13 | 25 | 706 | 28 | 741 | 0.0 | 716 |
| Msa0231540 | AT4G21390.1 | 44.316 | 862 | 406 | 21 | 3 | 806 | 4 | 849 | 0.0 | 700 |
| Msa0231540 | AT1G61610.1 | 44.325 | 837 | 415 | 16 | 12 | 806 | 15 | 842 | 0.0 | 676 |
| Msa0231540 | AT4G21390.2 | 45.078 | 772 | 353 | 19 | 3 | 719 | 4 | 759 | 0.0 | 643 |
Find 175 sgRNAs with CRISPR-Local
Find 236 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTGAGTTTCTTCTTC+CGG | 0.328326 | 2_2:+3806290 | None:intergenic |
| AAAAGAAACAACTGGTCTGG+TGG | 0.642824 | 2_2:-3807971 | Msa0231540:CDS |
| AAAAGACTTTCTAGAGCATC+TGG | 0.413825 | 2_2:-3807021 | Msa0231540:CDS |
| AAAATAAACTCCTAGATTGG+AGG | 0.513577 | 2_2:-3806682 | Msa0231540:CDS |
| AAAATGCAACGATGATGACT+AGG | 0.591489 | 2_2:+3806062 | None:intergenic |
| AAACATCACACTCTGAATCT+CGG | 0.571565 | 2_2:+3808089 | None:intergenic |
| AAACTTGGACATGGTGGTTT+TGG | 0.266506 | 2_2:-3807169 | Msa0231540:CDS |
| AAAGAAACAACTGGTCTGGT+GGG | 0.672634 | 2_2:-3807970 | Msa0231540:CDS |
| AAAGGTGAAGTTACCGTCTT+GGG | 0.428678 | 2_2:+3808807 | None:intergenic |
| AAATTTATATCCCACGTAGG+TGG | 0.632539 | 2_2:-3805712 | Msa0231540:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GATAAATTGAGATGATGTGA+TGG | + | chr2_2:3805741-3805760 | None:intergenic | 30.0% | |
| CACATCATCTCAATTTATCA+AGG | - | chr2_2:3805742-3805761 | Msa0231540:three_prime_UTR | 30.0% | |
| AATTCTACAAATCGCTATGT+TGG | - | chr2_2:3805824-3805843 | Msa0231540:exon | 30.0% | |
| AACCACTGAATGATTCTAAT+GGG | - | chr2_2:3805897-3805916 | Msa0231540:CDS | 30.0% | |
| ATTGTCACAATATCTGAAGA+TGG | - | chr2_2:3805920-3805939 | Msa0231540:CDS | 30.0% | |
| CTTTCAATCAACAAAAGAAC+AGG | - | chr2_2:3806127-3806146 | Msa0231540:intron | 30.0% | |
| TTACACAATACGAAATGATG+TGG | - | chr2_2:3806387-3806406 | Msa0231540:intron | 30.0% | |
| TACACAATACGAAATGATGT+GGG | - | chr2_2:3806388-3806407 | Msa0231540:intron | 30.0% | |
| ATCTATCAGTTGAATTCACA+AGG | - | chr2_2:3806418-3806437 | Msa0231540:intron | 30.0% | |
| AGTATTAGTAGAAAAACGGT+GGG | - | chr2_2:3806441-3806460 | Msa0231540:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 3805653 | 3808959 | 3805653 | ID=Msa0231540;Name=Msa0231540 |
| chr2_2 | mRNA | 3805653 | 3808959 | 3805653 | ID=Msa0231540-mRNA-1;Parent=Msa0231540;Name=Msa0231540-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|0.8|0.83|1|0.8|0.66|6|186|806 |
| chr2_2 | exon | 3805653 | 3806144 | 3805653 | ID=Msa0231540-mRNA-1:exon:1557;Parent=Msa0231540-mRNA-1 |
| chr2_2 | exon | 3806254 | 3806404 | 3806254 | ID=Msa0231540-mRNA-1:exon:1556;Parent=Msa0231540-mRNA-1 |
| chr2_2 | exon | 3806476 | 3806713 | 3806476 | ID=Msa0231540-mRNA-1:exon:1555;Parent=Msa0231540-mRNA-1 |
| chr2_2 | exon | 3806866 | 3807076 | 3806866 | ID=Msa0231540-mRNA-1:exon:1554;Parent=Msa0231540-mRNA-1 |
| chr2_2 | exon | 3807156 | 3807391 | 3807156 | ID=Msa0231540-mRNA-1:exon:1553;Parent=Msa0231540-mRNA-1 |
| chr2_2 | exon | 3807681 | 3808959 | 3807681 | ID=Msa0231540-mRNA-1:exon:1552;Parent=Msa0231540-mRNA-1 |
| chr2_2 | CDS | 3807681 | 3808959 | 3807681 | ID=Msa0231540-mRNA-1:cds;Parent=Msa0231540-mRNA-1 |
| chr2_2 | CDS | 3807156 | 3807391 | 3807156 | ID=Msa0231540-mRNA-1:cds;Parent=Msa0231540-mRNA-1 |
| chr2_2 | CDS | 3806866 | 3807076 | 3806866 | ID=Msa0231540-mRNA-1:cds;Parent=Msa0231540-mRNA-1 |
| chr2_2 | CDS | 3806476 | 3806713 | 3806476 | ID=Msa0231540-mRNA-1:cds;Parent=Msa0231540-mRNA-1 |
| chr2_2 | CDS | 3806254 | 3806404 | 3806254 | ID=Msa0231540-mRNA-1:cds;Parent=Msa0231540-mRNA-1 |
| chr2_2 | CDS | 3805839 | 3806144 | 3805839 | ID=Msa0231540-mRNA-1:cds;Parent=Msa0231540-mRNA-1 |
| chr2_2 | three_prime_UTR | 3805653 | 3805838 | 3805653 | ID=Msa0231540-mRNA-1:three_prime_utr;Parent=Msa0231540-mRNA-1 |
| Gene Sequence |
>Msa0231540 ATGAATTTCCGCAACTGTGCATATTTGTTCTCTGTTTTGTTCATTTTGTTTTGCTATTTTCTAAATGCTAGTATTGGTATAAACACCATCACATCATCTCAATTTATCAAGGATCCTGAAACTCTAATCTCCCAAGACGGTAACTTCACCTTTGGATTCTTTAGTCCTAAAAATTCTACAAATCGCTATGTTGGAATTTGGTGGAAGTCACAGTCTACAATCATATGGGTGGCAGACAGAAACCAACCACTGAATGATTCTAATGGGATTGTCACAATATCTGAAGATGGAAATCTTGTGGTATTGAATGGACAGAAACGAGTCTATTGGTCGTCAAATGTTTCCAACATAGCATCCAATACCACTTCCCAGTTTTCAGACTATGGCAACCTTGTCCTTTTGGAGAGCACAACAGGAAATATGTTATGGCAGAGTATTCAGCAACCTACAGATACATTACTGCCTGGCATGAAACTTTCAATCAACAAAAGAACAGGTAAGACTGTAAAAATGAAATCATGGAAAAGCTCTTCTGACCCATCCATTGGCAACTTCTCTTCTAGTACAATTGAACGCCAACATATATATGAAGTCTTCATTTGGAATGAAACTCGACCATCTTGGCGCAGTGGTCCCTGGAATGGTGGTGTCTTCACTGGGATACAAGCAATGGCAATGGCATATTTTTTTGATTTTCAAGTTGGAGATGATGGAGAAGGAAGTACTAGTATATATTACACAATACGAAATGATGTGGGATTAGTGATCTATCAGTTGAATTCACAAGGAGTATTAGTAGAAAAACGGTGGGATGATGAGAAGAAAGAAGTTCATGTTACATGGACAAGCCGAGATTCAGAGTGTGATGTTTATGGTACATGTGGGGCATTTGCGATCTGTAGTTCATCGACCTCACCAATATGCAGCTGTTTGAAAGGATTTGAACCTAGGAGCATACAGGAATGGAAAAGAAACAACTGGTCTGGTGGGTGTGTTAGGAAGACACCTTTGCAGTGCGAAAGGGTCAACAATAAAACCACAAGTACAAAGGAAGATGGGATTTTGAAACTACAGACGATTAAAGTTCCAGATTTTGCTGAAGGTTTAATCGTTACACCTGACATATGCAGAAGCCTATGCTTGGAGAATTGCTCTTGCCTTGCATATTCTCATGATGATGGGATTGGCTGTATGCTGTGGACCGGAAATTTACTTGACATACAACAGCTTGAAATGGGAGGACTTGATCTATATGTTCGTATAGCCCATGAAGCACCTGCTAAACTGTGGCTTTTCACTAAATCAGCAAGGAAAAAGAACAACAAAGCTTTCCAACAATTTAATACAGGTGGATCACCAAATGTTTATTCTAGTGGTGACAACGTAATCGGAGAAATGTCCCAAGTTAAACTGCAAGAGCTATTAATATTTGATTTTGAGAAGCTTGCAACTGCCACTAACAACTTCCACTTGTCTAACAAACTTGGACATGGTGGTTTTGGTATAGTATACAAGGGAAAACTGCAAGATGGTCAGGAAATAGCAGTTAAAAGACTTTCTAGAGCATCTGGACAAGGGTTGGAGGAATTCATGAATGAAGTAGTGGTTCTTTGTAAGCTTCAACACCGCAATCTTGTTAAACTTCTTGGTTGTTGTATTGAAGGTGACGAAAAGATGCTGATGTATGAGTACATGCCAAACAAAAGTTTGGATGCATTCATCTTTGATCCATCAAAAAATAAACTCCTAGATTGGAGGACACGGTATAACATTATAGAAGGAATAGCTCGAGGGTTGTTATATCTTCACAGAGATTCCAGGCTAAGAATTATTCATAGAGATTTGAAGGCAAGTAATGTCTTGTTAGATGAAGAACTGAATCCAAAAATATCAGACTTTGGTATGGCTAGAATCTTTGGAGGGGGAGATGATCAAGTCAATACTTCAAGAATTGTCGGAACTTATGGCTATATGTCTCCTGAATATGCAATGCAAGGATTGTTTTCTGAGAAAACAGATGTTTTTAGCTTTGGTGTTTTGATCCTAGAGATTGTTACCGGAAGAAGAAACTCAAGTTTTTACAAGGATGAGCATAATCTGAGCCTTTTAGGATATGCTTGGATACAATGGAGGGAAGACAATATTTTGTCTCTAATAGATCAAGGAATAGATGATCCTAGTCATCATCGTTGCATTTTAAGGTACATACACATAGGACTTTTGTGTGTACAAGAAATTGCTGTAGATAGACCCACTATGGCTGCAGTAATTTCTATGCTTACCAGTGAAGGTGTATTACTTGCTCCCAGTAAACCTGCATTCATCTTGAAGCAGAATATGTTGAATTCAAACTGGCGTGAAGAATGTCAAAGTGTTAGTTCTATCAATAATGTTACTATGACAGAAACATGTGGCAGATAG |
| Protein sequence |
>Msa0231540 MNFRNCAYLFSVLFILFCYFLNASIGINTITSSQFIKDPETLISQDGNFTFGFFSPKNSTNRYVGIWWKSQSTIIWVADRNQPLNDSNGIVTISEDGNLVVLNGQKRVYWSSNVSNIASNTTSQFSDYGNLVLLESTTGNMLWQSIQQPTDTLLPGMKLSINKRTGKTVKMKSWKSSSDPSIGNFSSSTIERQHIYEVFIWNETRPSWRSGPWNGGVFTGIQAMAMAYFFDFQVGDDGEGSTSIYYTIRNDVGLVIYQLNSQGVLVEKRWDDEKKEVHVTWTSRDSECDVYGTCGAFAICSSSTSPICSCLKGFEPRSIQEWKRNNWSGGCVRKTPLQCERVNNKTTSTKEDGILKLQTIKVPDFAEGLIVTPDICRSLCLENCSCLAYSHDDGIGCMLWTGNLLDIQQLEMGGLDLYVRIAHEAPAKLWLFTKSARKKNNKAFQQFNTGGSPNVYSSGDNVIGEMSQVKLQELLIFDFEKLATATNNFHLSNKLGHGGFGIVYKGKLQDGQEIAVKRLSRASGQGLEEFMNEVVVLCKLQHRNLVKLLGCCIEGDEKMLMYEYMPNKSLDAFIFDPSKNKLLDWRTRYNIIEGIARGLLYLHRDSRLRIIHRDLKASNVLLDEELNPKISDFGMARIFGGGDDQVNTSRIVGTYGYMSPEYAMQGLFSEKTDVFSFGVLILEIVTGRRNSSFYKDEHNLSLLGYAWIQWREDNILSLIDQGIDDPSHHRCILRYIHIGLLCVQEIAVDRPTMAAVISMLTSEGVLLAPSKPAFILKQNMLNSNWREECQSVSSINNVTMTETCGR* |
