AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005842

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005842 MtrunA17_Chr1g0212471 85.106 188 26 1 1 186 1 188 1.13e-117 332
MsaG005842 MtrunA17_Chr4g0022641 62.736 212 71 3 1 204 1 212 2.18e-90 270
MsaG005842 MtrunA17_Chr4g0059631 54.955 222 82 4 1 204 1 222 2.54e-77 232
MsaG005842 MtrunA17_Chr2g0303981 45.026 191 96 3 3 192 5 187 5.31e-54 171
MsaG005842 MtrunA17_Chr6g0457851 37.975 158 95 1 1 155 11 168 2.52e-37 132
MsaG005842 MtrunA17_Chr1g0212151 38.608 158 94 1 1 155 1 158 8.58e-36 128
MsaG005842 MtrunA17_Chr6g0449851 36.842 171 105 1 1 168 1 171 5.92e-35 125
MsaG005842 MtrunA17_Chr6g0449861 33.520 179 116 1 1 176 9 187 1.70e-33 122
MsaG005842 MtrunA17_Chr3g0107381 28.000 175 111 5 1 165 1 170 1.45e-13 67.0
MsaG005842 MtrunA17_Chr3g0107461 29.448 163 103 4 1 154 1 160 8.25e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005842 AT5G55690.1 35.570 149 79 4 1 142 1 139 4.31e-16 75.1
MsaG005842 AT5G55690.2 35.570 149 79 4 1 142 1 139 4.31e-16 75.1
MsaG005842 AT1G22590.2 30.625 160 99 6 1 153 1 155 1.74e-11 60.5
MsaG005842 AT3G05860.2 41.429 70 39 1 1 70 1 68 4.94e-11 60.1
MsaG005842 AT2G28700.1 37.333 75 44 2 1 75 1 72 5.70e-11 61.2
MsaG005842 AT3G05860.1 41.429 70 39 1 1 70 1 68 7.41e-11 60.5
MsaG005842 AT3G05860.3 41.429 70 39 1 1 70 1 68 7.90e-11 60.1

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTCCATGTTAACCAAATT+TGG 0.129467 1:-85804068 None:intergenic
TCCAACCTGGCATCCAAATT+TGG 0.186789 1:+85804055 MsaT005842.1:CDS
CGGTCTTCGGGCCATGTTAT+TGG 0.257464 1:-85803879 None:intergenic
TTTACCATTGTACGGTCTTC+GGG 0.322440 1:-85803891 None:intergenic
GTTTACCATTGTACGGTCTT+CGG 0.346180 1:-85803892 None:intergenic
GTCGTTGACATCAAATATCT+TGG 0.367645 1:-85803958 None:intergenic
ACCGGACTTGACAGTGTATT+GGG 0.378449 1:-85803808 None:intergenic
CACCGGACTTGACAGTGTAT+TGG 0.384830 1:-85803809 None:intergenic
GTGATTACAAGCTTGAATCT+TGG 0.389216 1:-85804126 None:intergenic
ATGAGGCAAAACAGCATGAT+TGG 0.423445 1:-85804279 None:intergenic
TGTATGACACTGAGTGGGCT+TGG 0.425893 1:-85804200 None:intergenic
ATCATATGTTTAAATCAAGT+TGG 0.436280 1:-85804316 None:intergenic
TGATGTGTTGTTGCATTTGA+GGG 0.441139 1:-85804229 None:intergenic
GATGATATCTTTATGCACTT+TGG 0.458740 1:-85804021 None:intergenic
GTTAACCAAATTTGGATGCC+AGG 0.463541 1:-85804060 None:intergenic
ACCAAATTTGGATGCCAGGT+TGG 0.474376 1:-85804056 None:intergenic
TTGATGTGTTGTTGCATTTG+AGG 0.494636 1:-85804230 None:intergenic
TCCCAATACACTGTCAAGTC+CGG 0.494797 1:+85803807 MsaT005842.1:CDS
ACTTTCAAGCAAAGAAAAGC+TGG 0.495334 1:+85803768 MsaT005842.1:CDS
TGGTTTGTTGATGAATTATG+AGG 0.510382 1:-85804296 None:intergenic
GCATCCAAATTTGGTTAACA+TGG 0.520385 1:+85804064 MsaT005842.1:CDS
CTTTGAAATTAAGAAAGCTA+AGG 0.524267 1:+85803983 MsaT005842.1:CDS
TTTGTTTGTAGAATGGGTCG+TGG 0.527118 1:+85803699 None:intergenic
TTGATTGTGTATGATGATGA+TGG 0.527956 1:+85803843 MsaT005842.1:CDS
TCGTTGACATCAAATATCTT+GGG 0.530959 1:-85803957 None:intergenic
GCATGGAGTTTACCATTGTA+CGG 0.551323 1:-85803899 None:intergenic
ATGCTCATACTCTTGAAGCA+TGG 0.571710 1:-85803916 None:intergenic
CAATCATGTTAGTGAGATGG+TGG 0.574738 1:+85804250 MsaT005842.1:CDS
CATCAATCATGTTAGTGAGA+TGG 0.579763 1:+85804247 MsaT005842.1:CDS
CATGTTGAAAAGTGAGATGG+TGG 0.605793 1:+85804157 MsaT005842.1:CDS
CAACATGTTGAAAAGTGAGA+TGG 0.617799 1:+85804154 MsaT005842.1:CDS
TGATGATGATGGCAATAATG+TGG 0.626471 1:+85803854 MsaT005842.1:CDS
CAGCACTTAAGTCTCTGAGC+TGG 0.631241 1:-85804094 None:intergenic
TCAATATCAAATATCCAACC+TGG 0.635175 1:+85804042 MsaT005842.1:CDS
ATAATGTGGGACCAATAACA+TGG 0.642393 1:+85803868 MsaT005842.1:CDS
GATGATGATGGCAATAATGT+GGG 0.653668 1:+85803855 MsaT005842.1:CDS
TGCTATGTATGACACTGAGT+GGG 0.671421 1:-85804205 None:intergenic
ATGCTATGTATGACACTGAG+TGG 0.718974 1:-85804206 None:intergenic
ATGGCCCGAAGACCGTACAA+TGG 0.720674 1:+85803887 MsaT005842.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 85803711 85804337 85803711 ID=MsaG005842
Chr1 mRNA 85803711 85804337 85803711 ID=MsaT005842.1;Parent=MsaG005842
Chr1 exon 85803711 85804337 85803711 ID=MsaT005842.1.exon1;Parent=MsaT005842.1
Chr1 CDS 85803711 85804337 85803711 ID=cds.MsaT005842.1;Parent=MsaT005842.1
Gene Sequence

>MsaT005842.1

ATGGGTCGTGGAAAAATAAATATGAAATACATCAAAAATGCGAAAGTACGCAAACAAACTTTCAAGCAAAGAAAAGCTGGACTAATGAAAAAAATTTCCCAATACACTGTCAAGTCCGGTGCAAAAGCTTGTTTGATTGTGTATGATGATGATGGCAATAATGTGGGACCAATAACATGGCCCGAAGACCGTACAATGGTAAACTCCATGCTTCAAGAGTATGAGCATCAAAAGATTGAGAATACACCCAAGATATTTGATGTCAACGACTACTTTGAAATTAAGAAAGCTAAGGTTAAAGCTGAAATTACCAAAGTGCATAAAGATATCATCAATATCAAATATCCAACCTGGCATCCAAATTTGGTTAACATGGAAGCGAGCCAGCTCAGAGACTTAAGTGCTGTTGTAGATGCCAAGATTCAAGCTTGTAATCACAAAATCAACATGTTGAAAAGTGAGATGGTGGAAGAGAATGTTGTTTTGAATCCAAGCCCACTCAGTGTCATACATAGCATCCCTCAAATGCAACAACACATCAATCATGTTAGTGAGATGGTGGATATGACCAATCATGCTGTTTTGCCTCATAATTCATCAACAAACCAACTTGATTTAAACATATGA
Protein sequence

>MsaT005842.1

MGRGKINMKYIKNAKVRKQTFKQRKAGLMKKISQYTVKSGAKACLIVYDDDGNNVGPITWPEDRTMVNSMLQEYEHQKIENTPKIFDVNDYFEIKKAKVKAEITKVHKDIINIKYPTWHPNLVNMEASQLRDLSAVVDAKIQACNHKINMLKSEMVEENVVLNPSPLSVIHSIPQMQQHINHVSEMVDMTNHAVLPHNSSTNQLDLNI*