AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033213

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033213 MtrunA17_Chr2g0329421 95.294 85 4 0 27 111 1 85 1.67e-53 168
MsaG033213 MtrunA17_Chr4g0033611 53.030 132 41 1 1 111 3 134 3.56e-38 130
MsaG033213 MtrunA17_Chr2g0287061 48.485 66 34 0 52 117 182 247 9.40e-16 73.2
MsaG033213 MtrunA17_Chr2g0287061 46.774 62 33 0 52 113 28 89 6.56e-13 65.1
MsaG033213 MtrunA17_Chr3g0078041 50.000 70 33 1 49 116 46 115 8.77e-15 68.9
MsaG033213 MtrunA17_Chr7g0233911 43.529 85 44 1 22 106 7 87 9.70e-15 68.6
MsaG033213 MtrunA17_Chr2g0329361 48.214 56 29 0 52 107 60 115 3.75e-13 64.7
MsaG033213 MtrunA17_Chr6g0458391 45.763 59 32 0 53 111 225 283 5.86e-12 62.4
MsaG033213 MtrunA17_Chr6g0458391 34.454 119 58 3 8 107 28 145 3.19e-11 60.1
MsaG033213 MtrunA17_Chr5g0448761 66.071 56 19 0 52 107 59 114 2.02e-11 60.8
MsaG033213 MtrunA17_Chr1g0202341 44.643 56 31 0 52 107 50 105 3.96e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033213 AT3G59470.3 55.963 109 39 4 3 111 29 128 5.90e-30 109
MsaG033213 AT3G59470.1 55.963 109 39 4 3 111 29 128 5.90e-30 109
MsaG033213 AT3G59470.2 55.963 109 39 4 3 111 41 140 1.06e-29 108
MsaG033213 AT3G07500.1 52.857 70 26 1 44 106 17 86 5.32e-18 77.4
MsaG033213 AT3G06250.2 53.226 62 29 0 52 113 27 88 4.09e-16 74.7
MsaG033213 AT3G06250.2 50.000 62 31 0 52 113 189 250 8.99e-14 67.8
MsaG033213 AT3G06250.1 53.226 62 29 0 52 113 27 88 4.09e-16 74.7
MsaG033213 AT3G06250.1 50.000 62 31 0 52 113 189 250 8.99e-14 67.8
MsaG033213 AT3G06250.3 53.226 62 29 0 52 113 27 88 4.09e-16 74.7
MsaG033213 AT3G06250.3 50.000 62 31 0 52 113 189 250 8.99e-14 67.8
MsaG033213 AT5G18960.2 51.613 62 30 0 52 113 42 103 1.05e-15 73.6
MsaG033213 AT5G18960.2 48.387 62 32 0 52 113 210 271 2.56e-13 66.6
MsaG033213 AT5G18960.1 51.613 62 30 0 52 113 42 103 1.05e-15 73.6
MsaG033213 AT5G18960.1 48.387 62 32 0 52 113 210 271 2.56e-13 66.6
MsaG033213 AT4G12850.4 50.877 57 28 0 50 106 8 64 5.27e-14 65.5
MsaG033213 AT4G12850.2 50.877 57 28 0 50 106 8 64 1.10e-13 64.3
MsaG033213 AT4G12850.1 50.877 57 28 0 50 106 8 64 1.20e-13 65.5
MsaG033213 AT4G38180.1 66.071 56 19 0 52 107 72 127 2.79e-12 63.5
MsaG033213 AT2G43280.1 38.824 85 40 1 21 105 2 74 4.70e-11 58.9

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGAATGCTATGCTCTATT+TGG 0.257202 6:-79728544 None:intergenic
TCTTACTGCCTCACCATTAC+TGG 0.269187 6:-79723709 None:intergenic
AGGCGTGATGGATCTGTTAT+TGG 0.315014 6:+79724015 MsaT033213.1:CDS
AATATGACTCTAGATTCTTC+TGG 0.343799 6:+79723826 MsaT033213.1:CDS
CAGGAACTATTGAGGTGATT+TGG 0.354845 6:-79723855 None:intergenic
GGCAGTAAGAAATGCTACTA+TGG 0.392986 6:+79723722 MsaT033213.1:CDS
TTTATCATGGAGATTGAGAT+TGG 0.399260 6:+79723681 None:intergenic
AAACTCCAGGGACTCCAGTA+TGG 0.400875 6:-79728252 None:intergenic
GGCTTGGAGGGTTCAGATAC+TGG 0.409651 6:+79728221 MsaT033213.1:intron
GTTCTCATAACCGATGTAAC+AGG 0.417715 6:-79723874 None:intergenic
AAATGCATGTGCTTCGGCTT+CGG 0.418504 6:-79723932 None:intergenic
TTCTTAATGCACAGGCTTGG+AGG 0.435371 6:+79728208 MsaT033213.1:intron
TACTGGTCTAGCATCCATAC+TGG 0.453565 6:+79728238 MsaT033213.1:CDS
ATTATAAAATGCATGTGCTT+CGG 0.458961 6:-79723938 None:intergenic
AATTCATATGCTACACGTGT+TGG 0.492545 6:+79723958 MsaT033213.1:CDS
GCTCTAGTTTGTAACAAAGA+AGG 0.497287 6:+79724042 MsaT033213.1:CDS
CTCAATAGTTCCTGTTACAT+CGG 0.498504 6:+79723864 MsaT033213.1:CDS
AGCATCCATACTGGAGTCCC+TGG 0.508504 6:+79728247 MsaT033213.1:CDS
TGATGGATCTGTTATTGGAC+GGG 0.518141 6:+79724020 MsaT033213.1:CDS
TACAAACTCCTGGCCGATGT+AGG 0.525221 6:-79723908 None:intergenic
CTCTCAAGATCAAGGCGTGA+TGG 0.535255 6:+79724003 MsaT033213.1:CDS
ACAAACTCCTGGCCGATGTA+GGG 0.537780 6:-79723907 None:intergenic
TCTTAATGCACAGGCTTGGA+GGG 0.540578 6:+79728209 MsaT033213.1:intron
TTGAGTTCAAGCAAAACTCC+AGG 0.546107 6:-79728265 None:intergenic
GACTCTAGATTCTTCTGGAG+TGG 0.549951 6:+79723831 MsaT033213.1:CDS
GTGATGGATCTGTTATTGGA+CGG 0.553335 6:+79724019 MsaT033213.1:CDS
TAAGTAAGCTCTCAAGATCA+AGG 0.559347 6:+79723995 MsaT033213.1:CDS
TGATGAACCCTACATCGGCC+AGG 0.568038 6:+79723900 MsaT033213.1:CDS
CGGCTTCGGATACAAACTCC+TGG 0.570578 6:-79723918 None:intergenic
GCAGTAAGAAATGCTACTAT+GGG 0.576914 6:+79723723 MsaT033213.1:CDS
AAGAAATGCTACTATGGGAG+AGG 0.584865 6:+79723728 MsaT033213.1:CDS
CGATGTAACAGGAACTATTG+AGG 0.587098 6:-79723863 None:intergenic
GAGATTGGTGACTCCAGTAA+TGG 0.635105 6:+79723696 MsaT033213.1:CDS
ACAATTGATGAACCCTACAT+CGG 0.643960 6:+79723895 MsaT033213.1:CDS
TGAGTTCAAGCAAAACTCCA+GGG 0.647245 6:-79728264 None:intergenic
TGGTGACTCCAGTAATGGTG+AGG 0.657202 6:+79723701 MsaT033213.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 79723687 79728558 79723687 ID=MsaG033213
Chr6 mRNA 79723687 79728558 79723687 ID=MsaT033213.1;Parent=MsaG033213
Chr6 exon 79723687 79723749 79723687 ID=MsaT033213.1.exon1;Parent=MsaT033213.1
Chr6 CDS 79723687 79723749 79723687 ID=cds.MsaT033213.1;Parent=MsaT033213.1
Chr6 exon 79723814 79724082 79723814 ID=MsaT033213.1.exon2;Parent=MsaT033213.1
Chr6 CDS 79723814 79724082 79723814 ID=cds.MsaT033213.1;Parent=MsaT033213.1
Chr6 exon 79728222 79728309 79728222 ID=MsaT033213.1.exon3;Parent=MsaT033213.1
Chr6 CDS 79728222 79728309 79728222 ID=cds.MsaT033213.1;Parent=MsaT033213.1
Chr6 exon 79728526 79728558 79728526 ID=MsaT033213.1.exon4;Parent=MsaT033213.1
Chr6 CDS 79728526 79728558 79728526 ID=cds.MsaT033213.1;Parent=MsaT033213.1
Gene Sequence

>MsaT033213.1

ATGGAGATTGAGATTGGTGACTCCAGTAATGGTGAGGCAGTAAGAAATGCTACTATGGGAGAGGATCAAGATGATAATATGACTCTAGATTCTTCTGGAGTGGACCAAATCACCTCAATAGTTCCTGTTACATCGGTTATGAGAACAATTGATGAACCCTACATCGGCCAGGAGTTTGTATCCGAAGCCGAAGCACATGCATTTTATAATTCATATGCTACACGTGTTGGATTCGTCATACGTGTAAGTAAGCTCTCAAGATCAAGGCGTGATGGATCTGTTATTGGACGGGCTCTAGTTTGTAACAAAGAAGGTTTCAGAATGACCGACAAGCTTGGAGGGTTCAGATACTGGTCTAGCATCCATACTGGAGTCCCTGGAGTTTTGCTTGAACTCAAGACTGGTGTTTTGAATGAAAGGGCGGAAGACTTAGAATCACCAAATAGAGCATAG
Protein sequence

>MsaT033213.1

MEIEIGDSSNGEAVRNATMGEDQDDNMTLDSSGVDQITSIVPVTSVMRTIDEPYIGQEFVSEAEAHAFYNSYATRVGFVIRVSKLSRSRRDGSVIGRALVCNKEGFRMTDKLGGFRYWSSIHTGVPGVLLELKTGVLNERAEDLESPNRA*