AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046546


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046546 MtrunA17_Chr4g0076771 99.611 257 0 1 1 257 1 256 0.0 532
MsaG046546 MtrunA17_Chr8g0343441 71.311 244 70 0 10 253 9 252 3.42e-111 320
MsaG046546 MtrunA17_Chr1g0150821 67.589 253 75 2 10 255 10 262 2.98e-105 305
MsaG046546 MtrunA17_Chr2g0300241 68.548 248 69 4 10 255 12 252 1.77e-104 303
MsaG046546 MtrunA17_Chr2g0329821 67.194 253 77 2 1 253 1 247 2.56e-103 300
MsaG046546 MtrunA17_Chr7g0242511 62.302 252 84 5 4 255 1 241 1.36e-93 275
MsaG046546 MtrunA17_Chr4g0006381 61.508 252 86 5 4 255 1 241 2.78e-90 267
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046546 AT2G02470.1 79.151 259 46 5 1 255 1 255 3.52e-130 369
MsaG046546 AT1G14510.1 78.656 253 49 3 1 253 1 248 5.26e-128 363
MsaG046546 AT2G02470.2 76.744 258 45 5 1 255 1 246 4.40e-124 353
MsaG046546 AT5G20510.1 67.568 259 80 3 1 255 1 259 8.81e-112 322
MsaG046546 AT3G42790.1 66.275 255 80 3 1 255 1 249 1.06e-108 314
MsaG046546 AT5G05610.2 63.347 251 79 5 5 255 3 240 1.73e-95 280
MsaG046546 AT5G05610.1 63.347 251 79 5 5 255 3 240 1.73e-95 280
MsaG046546 AT5G26210.1 67.331 251 72 3 10 255 9 254 5.23e-93 275
MsaG046546 AT3G11200.1 63.137 255 84 4 1 255 1 245 7.65e-89 263
MsaG046546 AT5G20510.2 66.512 215 68 3 45 255 4 218 5.70e-86 255
MsaG046546 AT2G02470.3 82.927 164 24 3 1 164 1 160 2.71e-85 255
MsaG046546 AT5G20510.3 73.171 164 42 2 1 162 1 164 2.97e-75 227
MsaG046546 AT3G11200.2 62.844 218 71 4 38 255 25 232 6.78e-75 228

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCGCTGTTGCTTTCTATTT+TGG 0.091188 8:+85697666 MsaT046546.1:CDS
AAGGAGAATTTGTGCCTCTA+TGG 0.272744 8:+85697492 MsaT046546.1:CDS
GTTCAGAGCTATCCAATTCT+TGG 0.273239 8:-85699953 None:intergenic
ATTATGGCACCGATGAATTC+TGG 0.291624 8:+85699819 MsaT046546.1:CDS
TTCACTTCCCATGTTTCATT+TGG 0.302703 8:-85697519 None:intergenic
TTTGGTGCCCGCTTTGGATT+TGG 0.319624 8:+85697684 MsaT046546.1:CDS
TTGGATTTGGTAAGAATGAT+AGG 0.350809 8:+85697697 MsaT046546.1:CDS
TCTTCAACAGTTCGAGGTAC+TGG 0.366061 8:-85696574 None:intergenic
ACATCTTCACACCCTTGGTC+TGG 0.386000 8:-85699706 None:intergenic
TCAGGAGGCACTTCCTCAAC+AGG 0.419078 8:-85697546 None:intergenic
ACAGTCTTTGAGCTTGCAAC+AGG 0.426181 8:+85699489 MsaT046546.1:CDS
GGTGCTTGTGGTGATAATTA+TGG 0.428882 8:+85699803 MsaT046546.1:CDS
CATTGGGTATAAACTTTGCT+CGG 0.446703 8:+85697583 MsaT046546.1:CDS
AGTATCAAGAAGCCAAGAAT+TGG 0.452358 8:+85699941 MsaT046546.1:CDS
AAAACTTCTTCAACAGTTCG+AGG 0.455840 8:-85696580 None:intergenic
AATGCTGGCTCGGGAAGTTC+AGG 0.456279 8:-85697564 None:intergenic
CTGTCAACCTCTTCTTTGAC+CGG 0.460633 8:-85699734 None:intergenic
GGCTTCTTGATACTGCAGCC+AGG 0.465655 8:-85699932 None:intergenic
TGAACTTCCCGAGCCAGCAT+TGG 0.471886 8:+85697566 MsaT046546.1:CDS
GTTTATACCCAATGCTGGCT+CGG 0.475497 8:-85697574 None:intergenic
CTTTGCTCGGGATGGAATGC+AGG 0.478727 8:+85697596 MsaT046546.1:CDS
GGTTGACAGTGGAGAAGAAG+AGG 0.483798 8:+85699748 MsaT046546.1:CDS
TGCAGACATCTTCACACCCT+TGG 0.486335 8:-85699711 None:intergenic
CATCTTCACACCCTTGGTCT+GGG 0.494259 8:-85699705 None:intergenic
AGGAGAATTTGTGCCTCTAT+GGG 0.495200 8:+85697493 MsaT046546.1:CDS
GAACTTCCCGAGCCAGCATT+GGG 0.495975 8:+85697567 MsaT046546.1:CDS
TTGATGTGTTCAGCCTTGGC+AGG 0.497341 8:-85699896 None:intergenic
CTTCAACAGTTCGAGGTACT+GGG 0.497593 8:-85696573 None:intergenic
TTGATCAAAGCTCTCACTAC+TGG 0.498155 8:+85696631 MsaT046546.1:CDS
GGTATAAACTTTGCTCGGGA+TGG 0.501826 8:+85697588 MsaT046546.1:CDS
TTGCTTGATGTGTTCAGCCT+TGG 0.502589 8:-85699900 None:intergenic
TTTATACCCAATGCTGGCTC+GGG 0.504159 8:-85697573 None:intergenic
ATTGGGTATAAACTTTGCTC+GGG 0.520391 8:+85697584 MsaT046546.1:CDS
AGTGAGAGCTTTGATCAAAC+CGG 0.520678 8:-85696626 None:intergenic
CATTGTTGTGAGCAGTCAGT+TGG 0.529254 8:-85699533 None:intergenic
GCTTCTTGATACTGCAGCCA+GGG 0.530817 8:-85699931 None:intergenic
ACTAACCGGGATCGCAGAGC+TGG 0.531212 8:-85696767 None:intergenic
AAATTGAAATTGAGGATGGA+AGG 0.531943 8:+85696538 None:intergenic
GAAATTGAGGATGGAAGGAA+TGG 0.537738 8:+85696543 None:intergenic
CCTTGGTCTGGGATTCAGAC+TGG 0.538724 8:-85699694 None:intergenic
TTGCAGTTCACAGTGACTCA+TGG 0.543636 8:+85697640 MsaT046546.1:CDS
GTTGTGATATGTGCGAGAAA+TGG 0.560529 8:+85699846 MsaT046546.1:CDS
TTTCATTTGGAAACCCATAG+AGG 0.561848 8:-85697506 None:intergenic
GCAAAGTTTATACCCAATGC+TGG 0.563847 8:-85697579 None:intergenic
GGAGAAGGACTGGTTATCAC+TGG 0.565404 8:+85697617 MsaT046546.1:CDS
TCGGGATGGAATGCAGGAGA+AGG 0.567649 8:+85697602 MsaT046546.1:CDS
ATGGGTTTCCAAATGAAACA+TGG 0.572525 8:+85697511 MsaT046546.1:CDS
ATTATCACCACAAGCACCAC+AGG 0.573675 8:-85699798 None:intergenic
ATCAAGCAATACAAGTGCCC+TGG 0.578416 8:+85699914 MsaT046546.1:CDS
GGTCTGGGATTCAGACTGGC+GGG 0.580455 8:-85699690 None:intergenic
TGTTAAAATTACTCCTGCCA+AGG 0.581201 8:+85699883 MsaT046546.1:CDS
ATGGAATGCAGGAGAAGGAC+TGG 0.581252 8:+85697607 MsaT046546.1:CDS
CAAATACAAATCAAGTGGAA+AGG 0.584281 8:+85699566 MsaT046546.1:CDS
TGTTGCAAGCTCAAAGACTG+TGG 0.590482 8:-85699487 None:intergenic
ATTCTTACCAAATCCAAAGC+GGG 0.591224 8:-85697691 None:intergenic
AATAGCAAATACAAATCAAG+TGG 0.591787 8:+85699561 MsaT046546.1:CDS
GTCTGCACCGGTCAAAGAAG+AGG 0.597402 8:+85699727 MsaT046546.1:CDS
TGGTCTGGGATTCAGACTGG+CGG 0.601563 8:-85699691 None:intergenic
GGGTGTGAAGATGTCTGCAC+CGG 0.601595 8:+85699715 MsaT046546.1:CDS
TGGGTTTCCAAATGAAACAT+GGG 0.604798 8:+85697512 MsaT046546.1:CDS
GATTACAAAGGCAGACGCGC+CGG 0.610248 8:+85696607 MsaT046546.1:CDS
GGTGCAACCTGTGGTGCTTG+TGG 0.611921 8:+85699791 MsaT046546.1:CDS
GTTGCAAGCTCAAAGACTGT+GGG 0.616342 8:-85699486 None:intergenic
GGAAGTGAACTTGCCTGTTG+AGG 0.623158 8:+85697533 MsaT046546.1:CDS
AGGAACTGCTAAGCAATCAA+AGG 0.625294 8:+85699509 MsaT046546.1:CDS
ATGTGCGAGAAATGGTTCCA+TGG 0.628526 8:+85699854 MsaT046546.1:CDS
CAGTCTGAATCCCAGACCAA+GGG 0.635249 8:+85699695 MsaT046546.1:CDS
ACAACAGATCCAGAATTCAT+CGG 0.639218 8:-85699828 None:intergenic
CCAGTCTGAATCCCAGACCA+AGG 0.643258 8:+85699694 MsaT046546.1:CDS
CAACTGACTGCTCACAACAA+TGG 0.646947 8:+85699534 MsaT046546.1:CDS
GCTGGCTCGGGAAGTTCAGG+AGG 0.654216 8:-85697561 None:intergenic
GTCAAAGAAGAGGTTGACAG+TGG 0.669063 8:+85699737 MsaT046546.1:CDS
GAAGAAGATGATGATGAACA+AGG 0.695245 8:+85699770 MsaT046546.1:CDS
GATGAACAAGGTGCAACCTG+TGG 0.715909 8:+85699782 MsaT046546.1:CDS
CATTCTTACCAAATCCAAAG+CGG 0.722080 8:-85697692 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 85696553 85699967 85696553 ID=MsaG046546
Chr8 mRNA 85696553 85699967 85696553 ID=MsaT046546.1;Parent=MsaG046546
Chr8 exon 85696553 85696652 85696553 ID=MsaT046546.1.exon1;Parent=MsaT046546.1
Chr8 CDS 85696553 85696652 85696553 ID=cds.MsaT046546.1;Parent=MsaT046546.1
Chr8 exon 85696751 85696783 85696751 ID=MsaT046546.1.exon2;Parent=MsaT046546.1
Chr8 CDS 85696751 85696783 85696751 ID=cds.MsaT046546.1;Parent=MsaT046546.1
Chr8 exon 85697490 85697718 85697490 ID=MsaT046546.1.exon3;Parent=MsaT046546.1
Chr8 CDS 85697490 85697718 85697490 ID=cds.MsaT046546.1;Parent=MsaT046546.1
Chr8 exon 85699455 85699587 85699455 ID=MsaT046546.1.exon4;Parent=MsaT046546.1
Chr8 CDS 85699455 85699587 85699455 ID=cds.MsaT046546.1;Parent=MsaT046546.1
Chr8 exon 85699689 85699967 85699689 ID=MsaT046546.1.exon5;Parent=MsaT046546.1
Chr8 CDS 85699689 85699967 85699689 ID=cds.MsaT046546.1;Parent=MsaT046546.1
Gene Sequence

>MsaT046546.1

ATGGAAGGAATGGCACAGCACCCAGTACCTCGAACTGTTGAAGAAGTTTTTAGCGATTACAAAGGCAGACGCGCCGGTTTGATCAAAGCTCTCACTACTGACGTTGAAAAGTTTTACCAGCTCTGCGATCCCGAAAAGGAGAATTTGTGCCTCTATGGGTTTCCAAATGAAACATGGGAAGTGAACTTGCCTGTTGAGGAAGTGCCTCCTGAACTTCCCGAGCCAGCATTGGGTATAAACTTTGCTCGGGATGGAATGCAGGAGAAGGACTGGTTATCACTGGTTGCAGTTCACAGTGACTCATGGCTGCTCGCTGTTGCTTTCTATTTTGGTGCCCGCTTTGGATTTGGTAAGAATGATAGGAAAAGGCTTTTTCAGATGATAAATGATCTGCCCACAGTCTTTGAGCTTGCAACAGGAACTGCTAAGCAATCAAAGGACCAACTGACTGCTCACAACAATGGTAGCAATAGCAAATACAAATCAAGTGGAAAGTCCCGCCAGTCTGAATCCCAGACCAAGGGTGTGAAGATGTCTGCACCGGTCAAAGAAGAGGTTGACAGTGGAGAAGAAGAGGAAGAAGATGATGATGAACAAGGTGCAACCTGTGGTGCTTGTGGTGATAATTATGGCACCGATGAATTCTGGATCTGTTGTGATATGTGCGAGAAATGGTTCCATGGTAAATGTGTTAAAATTACTCCTGCCAAGGCTGAACACATCAAGCAATACAAGTGCCCTGGCTGCAGTATCAAGAAGCCAAGAATTGGATAG

Protein sequence

>MsaT046546.1

MEGMAQHPVPRTVEEVFSDYKGRRAGLIKALTTDVEKFYQLCDPEKENLCLYGFPNETWEVNLPVEEVPPELPEPALGINFARDGMQEKDWLSLVAVHSDSWLLAVAFYFGARFGFGKNDRKRLFQMINDLPTVFELATGTAKQSKDQLTAHNNGSNSKYKSSGKSRQSESQTKGVKMSAPVKEEVDSGEEEEEDDDEQGATCGACGDNYGTDEFWICCDMCEKWFHGKCVKITPAKAEHIKQYKCPGCSIKKPRIG*