AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045970

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045970 MtrunA17_Chr4g0069721 96.067 178 7 0 1 178 1 178 3.43e-125 349
MsaG045970 MtrunA17_Chr2g0302041 55.782 147 60 3 25 168 38 182 1.33e-46 151
MsaG045970 MtrunA17_Chr5g0399851 34.848 132 69 2 41 168 17 135 6.17e-17 73.6
MsaG045970 MtrunA17_Chr5g0399861 30.328 122 70 2 41 162 40 146 3.42e-13 64.3
MsaG045970 MtrunA17_Chr5g0399881 30.081 123 71 2 41 163 40 147 4.09e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045970 AT5G20900.1 41.732 127 54 6 45 162 57 172 3.22e-18 78.2
MsaG045970 AT3G43440.1 36.667 120 58 3 44 163 130 231 1.49e-16 75.1
MsaG045970 AT3G43440.2 34.426 122 62 3 42 163 42 145 5.03e-16 71.6
MsaG045970 AT1G19180.2 35.135 111 64 1 43 153 58 160 1.07e-12 63.5
MsaG045970 AT1G19180.1 35.135 111 64 1 43 153 124 226 3.89e-12 63.2
MsaG045970 AT1G19180.3 35.135 111 64 1 43 153 124 226 3.89e-12 63.2

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTCAAGTGGCATCATTAC+TGG 0.158225 8:+78999808 None:intergenic
CTGAGAAGAGTTCCATTTGC+AGG 0.345657 8:-79000417 MsaT045970.1:CDS
TTCTTGAGAAGAGGAGAATC+AGG 0.349802 8:-79000006 MsaT045970.1:intron
AGTGACTGTCTGCGTGCTAA+TGG 0.374634 8:+79000037 None:intergenic
TGGAGAAGAAGGGGTGATAC+TGG 0.385179 8:+79000492 None:intergenic
TTTGATGATGAAGAGGTATA+AGG 0.389455 8:+78999862 None:intergenic
TTCAGGCCATTGTCAACATC+TGG 0.403016 8:-79000765 MsaT045970.1:intron
AGCATTTCTCTGCTGCTAAC+TGG 0.409603 8:-79002081 MsaT045970.1:intron
CCTCAAGTGGCATCATTACT+GGG 0.449490 8:+78999809 None:intergenic
GAGTTTCCTTGTGGAGAAGA+AGG 0.454205 8:+79000481 None:intergenic
AACACCTTGCATCCTGCAAA+TGG 0.468674 8:+79000405 None:intergenic
TGATGGAATTCCTGCAGAAA+AGG 0.473301 8:-79000676 MsaT045970.1:intron
ACTGGAAAAGAGTGAATTGA+AGG 0.475980 8:+79000510 None:intergenic
ATGGAACTCTTCTCAGCAGC+AGG 0.483824 8:+79000424 None:intergenic
CCAGTAATGATGCCACTTGA+GGG 0.495749 8:-78999808 MsaT045970.1:CDS
CATTTCAGATGACTTGGCAT+TGG 0.507246 8:+79000546 None:intergenic
ATGGCAAACTGAGTTGTACC+AGG 0.519158 8:+79000726 None:intergenic
TTCAAAGGTTTCTTGAGAAG+AGG 0.521134 8:-79000015 MsaT045970.1:CDS
AGTTTCCTTGTGGAGAAGAA+GGG 0.523527 8:+79000482 None:intergenic
AAGTCATCTGAAATGAAAAG+TGG 0.529700 8:-79000538 MsaT045970.1:CDS
CACGCAGACAGTCACTTCAA+AGG 0.541667 8:-79000030 MsaT045970.1:CDS
CCCAGTAATGATGCCACTTG+AGG 0.545434 8:-78999809 MsaT045970.1:CDS
GAGTACTATTTGCCCTCAAG+TGG 0.556021 8:+78999796 None:intergenic
CAGCAGGAAAACCAACTGAT+GGG 0.556381 8:+79000440 None:intergenic
AGTTCCATTTGCAGGATGCA+AGG 0.556537 8:-79000409 MsaT045970.1:intron
GCAGCAGGAAAACCAACTGA+TGG 0.557635 8:+79000439 None:intergenic
GCATCATTACTGGGCTGAAG+TGG 0.565521 8:+78999818 None:intergenic
GGTGCATGAGATAATGATGA+TGG 0.567231 8:-79000575 MsaT045970.1:CDS
GGAAGCATGTGTGTATATGA+TGG 0.578130 8:-79000693 MsaT045970.1:CDS
GGACTAAATGCAATGACCCC+TGG 0.578930 8:-79000744 MsaT045970.1:CDS
CATGCTTCCATTGTAGAGGA+TGG 0.585189 8:+79000707 None:intergenic
GATACTATTAGAAGTAGTCA+TGG 0.588033 8:+79002147 None:intergenic
CAGTTTGCCATCCTCTACAA+TGG 0.597338 8:-79000714 MsaT045970.1:CDS
CTGGAAAAGAGTGAATTGAA+GGG 0.599191 8:+79000511 None:intergenic
CACACATGCTTCCATTGTAG+AGG 0.599209 8:+79000703 None:intergenic
GTTTCCTTGTGGAGAAGAAG+GGG 0.603228 8:+79000483 None:intergenic
AGCAGGAAAACCAACTGATG+GGG 0.615564 8:+79000441 None:intergenic
TTTAGTCCAGATGTTGACAA+TGG 0.630788 8:+79000759 None:intergenic
GCAGGAAAACCAACTGATGG+GGG 0.646756 8:+79000442 None:intergenic
AAATTGTCAGAGTTTCCTTG+TGG 0.648404 8:+79000472 None:intergenic
TGGCAAACTGAGTTGTACCA+GGG 0.668253 8:+79000727 None:intergenic
ATCACCCCTTCTTCTCCACA+AGG 0.677373 8:-79000487 MsaT045970.1:CDS
GGCAAACTGAGTTGTACCAG+GGG 0.692504 8:+79000728 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 78999801 79002167 78999801 ID=MsaG045970
Chr8 mRNA 78999801 79002167 78999801 ID=MsaT045970.1;Parent=MsaG045970
Chr8 exon 78999801 78999900 78999801 ID=MsaT045970.1.exon5;Parent=MsaT045970.1
Chr8 CDS 78999801 78999900 78999801 ID=cds.MsaT045970.1;Parent=MsaT045970.1
Chr8 exon 79000007 79000064 79000007 ID=MsaT045970.1.exon4;Parent=MsaT045970.1
Chr8 CDS 79000007 79000064 79000007 ID=cds.MsaT045970.1;Parent=MsaT045970.1
Chr8 exon 79000410 79000596 79000410 ID=MsaT045970.1.exon3;Parent=MsaT045970.1
Chr8 CDS 79000410 79000596 79000410 ID=cds.MsaT045970.1;Parent=MsaT045970.1
Chr8 exon 79000677 79000782 79000677 ID=MsaT045970.1.exon2;Parent=MsaT045970.1
Chr8 CDS 79000677 79000782 79000677 ID=cds.MsaT045970.1;Parent=MsaT045970.1
Chr8 exon 79002082 79002167 79002082 ID=MsaT045970.1.exon1;Parent=MsaT045970.1
Chr8 CDS 79002082 79002167 79002082 ID=cds.MsaT045970.1;Parent=MsaT045970.1
Gene Sequence

>MsaT045970.1

ATGACTACTTCTAATAGTATCAATAATGTTGACATTAACAGCATCAGTGATCAAGAGTCAGTGAAGCATTTCTCTGCTGCTAACTGGCCATTGTCAACATCTGGACTAAATGCAATGACCCCTGGTACAACTCAGTTTGCCATCCTCTACAATGGAAGCATGTGTGTATATGATGGAATTCCTGCAGAAAAGGTGCATGAGATAATGATGATGGCTTCTGCCAATGCCAAGTCATCTGAAATGAAAAGTGGAATTCCCTTCAATTCACTCTTTTCCAGTATCACCCCTTCTTCTCCACAAGGAAACTCTGACAATTTGCCTTCTCCCCCATCAGTTGGTTTTCCTGCTGCTGAGAAGAGTTCCATTTGCAGGATGCAAGAATTTCCATTAGCACGCAGACAGTCACTTCAAAGGTTTCTTGAGAAGAGGAGAATCAGGGTACGTAGCAAAGCACCTTATACCTCTTCATCATCAAAAGCAGCTAACAACATTGATAACCACTTCAGCCCAGTAATGATGCCACTTGAGGGCAAATAG
Protein sequence

>MsaT045970.1

MTTSNSINNVDINSISDQESVKHFSAANWPLSTSGLNAMTPGTTQFAILYNGSMCVYDGIPAEKVHEIMMMASANAKSSEMKSGIPFNSLFSSITPSSPQGNSDNLPSPPSVGFPAAEKSSICRMQEFPLARRQSLQRFLEKRRIRVRSKAPYTSSSSKAANNIDNHFSPVMMPLEGK*