AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043734

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043734 MtrunA17_Chr5g0393501 25.962 208 146 4 23 223 38 244 7.26e-19 82.0
MsaG043734 MtrunA17_Chr4g0044671 25.128 195 145 1 30 224 28 221 2.16e-16 75.1
MsaG043734 MtrunA17_Chr4g0034781 24.615 195 146 1 30 224 22 215 4.31e-16 74.3
MsaG043734 MtrunA17_Chr1g0175581 28.431 102 73 0 109 210 5 106 9.34e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAATGTGATGTACTAATA+AGG 0.256110 8:-50394432 MsaT043734.1:CDS
AATGATCTTTATGAAGTTCT+TGG 0.265359 8:-50394766 MsaT043734.1:CDS
CAGATGTAATGAAGGTTTAT+AGG 0.278389 8:-50394297 MsaT043734.1:CDS
AATGACCTTAACTCCTTATA+TGG 0.283413 8:-50394637 MsaT043734.1:CDS
TGATAACCTGCAACCATATA+AGG 0.309352 8:+50394624 None:intergenic
TTCCAATTCACTGCATTTCA+TGG 0.313981 8:-50394732 MsaT043734.1:CDS
ATGATCTTTATGAAGTTCTT+GGG 0.324200 8:-50394765 MsaT043734.1:CDS
TTAACTCCTTATATGGTTGC+AGG 0.327304 8:-50394630 MsaT043734.1:CDS
ATCCATCCCTCAGTTAGAAT+TGG 0.346776 8:+50394825 None:intergenic
CTGAGGGATGGATCAACTTA+AGG 0.360735 8:-50394815 MsaT043734.1:CDS
AGGACTAAACATATGGATAA+TGG 0.373363 8:-50395081 MsaT043734.1:CDS
GTCCATGAAATGCAGTGAAT+TGG 0.385634 8:+50394730 None:intergenic
TAAGCTTAAGTTTAAGTTTG+TGG 0.399998 8:-50394332 MsaT043734.1:CDS
GGTGATTACATTAGAAGCTC+AGG 0.426576 8:-50394496 MsaT043734.1:CDS
CAGACACTGAACAATGACTT+TGG 0.433491 8:-50394517 MsaT043734.1:CDS
TGCAACCATATAAGGAGTTA+AGG 0.434020 8:+50394632 None:intergenic
TATGGTTGCAGGTTATCAAT+TGG 0.441303 8:-50394619 MsaT043734.1:intron
CAAATGTGATGTACTAATAA+GGG 0.442101 8:-50394431 MsaT043734.1:CDS
AACTTCAAGGACTAAACATA+TGG 0.444379 8:-50395088 MsaT043734.1:CDS
TGAGGGATGGATCAACTTAA+GGG 0.444993 8:-50394814 MsaT043734.1:CDS
GTTGTTATCAATACAATGTA+TGG 0.445781 8:-50395120 None:intergenic
GAGTTAAGGTCATTTCATAA+TGG 0.446526 8:+50394646 None:intergenic
TACTCTGCTATTAATATGTA+TGG 0.453609 8:-50394472 MsaT043734.1:CDS
ATTAATATGTATGGACCTAC+AGG 0.484413 8:-50394463 MsaT043734.1:CDS
TGTAAAGACAATGGATTCCA+TGG 0.503947 8:-50394361 MsaT043734.1:CDS
ATGTTAACTCATTGCCATCA+TGG 0.509173 8:-50394701 MsaT043734.1:CDS
CACTTACAAGCAAGGAATTG+AGG 0.515012 8:-50394676 MsaT043734.1:CDS
ATGGTGGTGGATCAACTTCA+AGG 0.519769 8:-50395101 MsaT043734.1:CDS
ATAAAATTCTCAACAAAGGA+AGG 0.549693 8:+50394930 None:intergenic
ATATCTCATTTACAGCCGTA+TGG 0.553596 8:-50394963 MsaT043734.1:intron
AAGACAATGGATTCCATGGT+GGG 0.554852 8:-50394357 MsaT043734.1:CDS
AAGTACATCAGATGTAATGA+AGG 0.558515 8:-50394305 MsaT043734.1:CDS
ATCAATACAATGTATGGTGG+TGG 0.560856 8:-50395114 None:intergenic
TGATCTTTATGAAGTTCTTG+GGG 0.561506 8:-50394764 MsaT043734.1:CDS
TGCTTGTAAGTGTGCCATGA+TGG 0.567390 8:+50394687 None:intergenic
GTGGATAAAATTCTCAACAA+AGG 0.569248 8:+50394926 None:intergenic
ATCCAATTCTAACTGAGGGA+TGG 0.574044 8:-50394827 MsaT043734.1:CDS
AAGGCAACAAAGATTGGCAG+TGG 0.574230 8:-50394397 MsaT043734.1:CDS
CATTTGTACTCGGTGCCTGT+AGG 0.588159 8:+50394448 None:intergenic
TAGTACATCACATTTGTACT+CGG 0.590498 8:+50394438 None:intergenic
TGTGATGTACTAATAAGGGA+TGG 0.597036 8:-50394427 MsaT043734.1:CDS
CAACAAAGATTGGCAGTGGG+TGG 0.601376 8:-50394393 MsaT043734.1:CDS
GACCATCCAATTCTAACTGA+GGG 0.603778 8:-50394831 MsaT043734.1:CDS
ATCCCTCAGTTAGAATTGGA+TGG 0.606617 8:+50394829 None:intergenic
TACTGCTTATATCATCAATG+AGG 0.608119 8:-50395049 MsaT043734.1:intron
GAAGGTCTAATCTCTCCATA+CGG 0.613102 8:+50394948 None:intergenic
ACTTAAGCTTATCCCCACCA+TGG 0.632346 8:+50394344 None:intergenic
TGACCATCCAATTCTAACTG+AGG 0.632361 8:-50394832 MsaT043734.1:CDS
AAAGACAATGGATTCCATGG+TGG 0.635851 8:-50394358 MsaT043734.1:CDS
AGACAATGGATTCCATGGTG+GGG 0.640570 8:-50394356 MsaT043734.1:CDS
TCATGGCACACTTACAAGCA+AGG 0.641070 8:-50394684 MsaT043734.1:CDS
AGGCAACAAAGATTGGCAGT+GGG 0.670518 8:-50394396 MsaT043734.1:CDS
GTTATCAATACAATGTATGG+TGG 0.698554 8:-50395117 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 50394291 50395127 50394291 ID=MsaG043734
Chr8 mRNA 50394291 50395127 50394291 ID=MsaT043734.1;Parent=MsaG043734
Chr8 exon 50394291 50394536 50394291 ID=MsaT043734.1.exon3;Parent=MsaT043734.1
Chr8 CDS 50394291 50394536 50394291 ID=cds.MsaT043734.1;Parent=MsaT043734.1
Chr8 exon 50394620 50394970 50394620 ID=MsaT043734.1.exon2;Parent=MsaT043734.1
Chr8 CDS 50394620 50394970 50394620 ID=cds.MsaT043734.1;Parent=MsaT043734.1
Chr8 exon 50395050 50395127 50395050 ID=MsaT043734.1.exon1;Parent=MsaT043734.1
Chr8 CDS 50395050 50395127 50395050 ID=cds.MsaT043734.1;Parent=MsaT043734.1
Gene Sequence

>MsaT043734.1

ATGTATGGTGGTGGATCAACTTCAAGGACTAAACATATGGATAATGGAGAAATACTTACTGCTTATATCATCAATGAGCCGTATGGAGAGATTAGACCTTCCTTTGTTGAGAATTTTATCCACAAACTTGGAAGAAAATTTATATTGATTGATGCAAAATTCAATAGACACAAAGTTAAGTTCAATCAAAACATTGACCATCCAATTCTAACTGAGGGATGGATCAACTTAAGGGAGTTTTATGGTTGGAATGAAAATAAAATGATCTTTATGAAGTTCTTGGGGAATGATTGTTTCCAATTCACTGCATTTCATGGACATTTGAATGTTAACTCATTGCCATCATGGCACACTTACAAGCAAGGAATTGAGGATCTCAACCATTATGAAATGACCTTAACTCCTTATATGGTTGCAGGTTATCAATTGACACTGAACAATGACTTTGGTGATTACATTAGAAGCTCAGGCTACTCTGCTATTAATATGTATGGACCTACAGGCACCGAGTACAAATGTGATGTACTAATAAGGGATGGAAAAAAGAAGGCAACAAAGATTGGCAGTGGGTGGAACAAATTTTGTAAAGACAATGGATTCCATGGTGGGGATAAGCTTAAGTTTAAGTTTGTGGATATAAGTACATCAGATGTAATGAAGGTTTATAGGATTTAA
Protein sequence

>MsaT043734.1

MYGGGSTSRTKHMDNGEILTAYIINEPYGEIRPSFVENFIHKLGRKFILIDAKFNRHKVKFNQNIDHPILTEGWINLREFYGWNENKMIFMKFLGNDCFQFTAFHGHLNVNSLPSWHTYKQGIEDLNHYEMTLTPYMVAGYQLTLNNDFGDYIRSSGYSAINMYGPTGTEYKCDVLIRDGKKKATKIGSGWNKFCKDNGFHGGDKLKFKFVDISTSDVMKVYRI*