AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010843

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010843 MtrunA17_Chr5g0393501 23.618 199 147 3 55 249 45 242 7.15e-15 72.0
MsaG010843 MtrunA17_Chr4g0044671 23.618 199 151 1 51 249 24 221 8.19e-12 63.2
MsaG010843 MtrunA17_Chr4g0034781 23.000 200 153 1 50 249 17 215 2.47e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGACACTGAACATTGAATT+TGG 0.191641 2:-78437356 MsaT010843.1:CDS
ACAAATGTGATGTACTAATA+AGG 0.256110 2:-78437271 MsaT010843.1:CDS
AATGATCTTTATGAAGTTCT+TGG 0.265359 2:-78437603 MsaT010843.1:CDS
CAAATGTAATGAAGGTTTCT+AGG 0.290265 2:-78437136 MsaT010843.1:CDS
ATTGCTAAACATAAAATAAT+AGG 0.310278 2:+78437854 None:intergenic
ATGATCTTTATGAAGTTCTT+GGG 0.324200 2:-78437602 MsaT010843.1:CDS
TGATAACCTGCAGCCATATA+AGG 0.324757 2:+78437461 None:intergenic
AATGATCTTAACTCCTTATA+TGG 0.327626 2:-78437474 MsaT010843.1:CDS
TAAATTCTCTTCCAAGTTTG+TGG 0.333428 2:+78437744 None:intergenic
GAACTTAACTTTGTGTCTAT+AGG 0.374145 2:+78437703 None:intergenic
GTCCACGAAATGCAGTGAAT+TGG 0.385092 2:+78437567 None:intergenic
TCAAGGACTCATAGGGATAA+TGG 0.395623 2:-78437917 MsaT010843.1:CDS
GATCAACTTCAAGGACTCAT+AGG 0.397052 2:-78437925 MsaT010843.1:CDS
TAAGCTTAAGTTTAAGTTTG+TGG 0.399998 2:-78437171 MsaT010843.1:CDS
GAGTTAAGATCATTTCATAA+TGG 0.420070 2:+78437483 None:intergenic
GGTGATTACATTAGAAGCTC+AGG 0.428748 2:-78437335 MsaT010843.1:CDS
TTCTCTGCTATTAATATGTA+TGG 0.435001 2:-78437311 MsaT010843.1:CDS
TTCCAATTCACTGCATTTCG+TGG 0.438395 2:-78437569 MsaT010843.1:CDS
CAAATGTGATGTACTAATAA+GGG 0.442101 2:-78437270 MsaT010843.1:CDS
TATGGCTGCAGGTTATCAAT+TGG 0.445570 2:-78437456 MsaT010843.1:intron
CTGAGGGACGGATCAACTTA+AGG 0.448111 2:-78437652 MsaT010843.1:CDS
GTTGTTATCAATACAATGTC+TGG 0.455307 2:-78437953 None:intergenic
TTAACTCCTTATATGGCTGC+AGG 0.483063 2:-78437467 MsaT010843.1:CDS
ATTAATATGTATGGACCTAC+AGG 0.484413 2:-78437302 MsaT010843.1:CDS
CTGGTGGTGGATCAACTTCA+AGG 0.486585 2:-78437934 MsaT010843.1:CDS
TGTAAAGACAATGGATTCCA+TGG 0.503947 2:-78437200 MsaT010843.1:CDS
CACTTACAAGCAAGGAATTG+AGG 0.515012 2:-78437513 MsaT010843.1:CDS
AAGTACATCAAATGTAATGA+AGG 0.524181 2:-78437144 MsaT010843.1:CDS
ATGTCAACTCATTGCCATCA+TGG 0.539340 2:-78437538 MsaT010843.1:CDS
ATATCTCATTTACAACCGTA+TGG 0.539468 2:-78437800 MsaT010843.1:CDS
ATCCGTCCCTCAGTCAGAAG+TGG 0.551673 2:+78437662 None:intergenic
AAGACAATGGATTCCATGGT+GGG 0.554852 2:-78437196 MsaT010843.1:CDS
ATCAATACAATGTCTGGTGG+TGG 0.560856 2:-78437947 None:intergenic
TGATCTTTATGAAGTTCTTG+GGG 0.561506 2:-78437601 MsaT010843.1:CDS
TGCTTGTAAGTGTGCCATGA+TGG 0.567390 2:+78437524 None:intergenic
ATAAAATGCTCAACAAAGGA+AGG 0.574317 2:+78437767 None:intergenic
CAACAAAGATTGACAGTGGG+TGG 0.577374 2:-78437232 MsaT010843.1:CDS
CATTTGTACTCGGTGCCTGT+AGG 0.588159 2:+78437287 None:intergenic
TAGTACATCACATTTGTACT+CGG 0.590498 2:+78437277 None:intergenic
TGTGATGTACTAATAAGGGA+TGG 0.597036 2:-78437266 MsaT010843.1:CDS
TGAACATCCACTTCTGACTG+AGG 0.599795 2:-78437669 MsaT010843.1:CDS
ATCAACTTCAAGGACTCATA+GGG 0.600193 2:-78437924 MsaT010843.1:CDS
ATCCACTTCTGACTGAGGGA+CGG 0.606860 2:-78437664 MsaT010843.1:CDS
GAAGGTCTAATCTCTCCATA+CGG 0.615379 2:+78437785 None:intergenic
GTGGATAAAATGCTCAACAA+AGG 0.618303 2:+78437763 None:intergenic
ACTTAAGCTTATCCCCACCA+TGG 0.632346 2:+78437183 None:intergenic
AAAGACAATGGATTCCATGG+TGG 0.635851 2:-78437197 MsaT010843.1:CDS
AGACAATGGATTCCATGGTG+GGG 0.640570 2:-78437195 MsaT010843.1:CDS
TCATGGCACACTTACAAGCA+AGG 0.641070 2:-78437521 MsaT010843.1:CDS
GAACATCCACTTCTGACTGA+GGG 0.646274 2:-78437668 MsaT010843.1:CDS
AAGGCAACAAAGATTGACAG+TGG 0.667273 2:-78437236 MsaT010843.1:CDS
TACTGCTTATATCATCAATG+AGG 0.679458 2:-78437885 MsaT010843.1:CDS
AGGCAACAAAGATTGACAGT+GGG 0.681607 2:-78437235 MsaT010843.1:CDS
GTTATCAATACAATGTCTGG+TGG 0.684260 2:-78437950 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78437130 78437960 78437130 ID=MsaG010843
Chr2 mRNA 78437130 78437960 78437130 ID=MsaT010843.1;Parent=MsaG010843
Chr2 exon 78437130 78437375 78437130 ID=MsaT010843.1.exon2;Parent=MsaT010843.1
Chr2 CDS 78437130 78437375 78437130 ID=cds.MsaT010843.1;Parent=MsaT010843.1
Chr2 exon 78437457 78437960 78437457 ID=MsaT010843.1.exon1;Parent=MsaT010843.1
Chr2 CDS 78437457 78437960 78437457 ID=cds.MsaT010843.1;Parent=MsaT010843.1
Gene Sequence

>MsaT010843.1

ATGTCTGGTGGTGGATCAACTTCAAGGACTCATAGGGATAATGGAGAAATACTTACTGCTTATATCATCAATGAGGTAGAACTTCCTATTATTTTATGTTTAGCAATTGAATATTGTTTAGTGAATCATCTAAACTATATATCTCATTTACAACCGTATGGAGAGATTAGACCTTCCTTTGTTGAGCATTTTATCCACAAACTTGGAAGAGAATTTATATTGATTGATGCAAAATCCTATAGACACAAAGTTAAGTTCAATCAAAACATTGAACATCCACTTCTGACTGAGGGACGGATCAACTTAAGGAAGTTTTATGGTTGGAATGAAGATAAAATGATCTTTATGAAGTTCTTGGGGAATGATTGTTTCCAATTCACTGCATTTCGTGGACATTTGAATGTCAACTCATTGCCATCATGGCACACTTACAAGCAAGGAATTGAGGATCTCAACCATTATGAAATGATCTTAACTCCTTATATGGCTGCAGGTTATCAATTGACACTGAACATTGAATTTGGTGATTACATTAGAAGCTCAGGCTTCTCTGCTATTAATATGTATGGACCTACAGGCACCGAGTACAAATGTGATGTACTAATAAGGGATGGAAAAAAGAAGGCAACAAAGATTGACAGTGGGTGGAACAAATTTTGTAAAGACAATGGATTCCATGGTGGGGATAAGCTTAAGTTTAAGTTTGTGGATATAAGTACATCAAATGTAATGAAGGTTTCTAGGATTTAA
Protein sequence

>MsaT010843.1

MSGGGSTSRTHRDNGEILTAYIINEVELPIILCLAIEYCLVNHLNYISHLQPYGEIRPSFVEHFIHKLGREFILIDAKSYRHKVKFNQNIEHPLLTEGRINLRKFYGWNEDKMIFMKFLGNDCFQFTAFRGHLNVNSLPSWHTYKQGIEDLNHYEMILTPYMAAGYQLTLNIEFGDYIRSSGFSAINMYGPTGTEYKCDVLIRDGKKKATKIDSGWNKFCKDNGFHGGDKLKFKFVDISTSNVMKVSRI*