AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009984

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009984 MtrunA17_Chr2g0319301 98.696 230 2 1 1 229 1 230 3.47e-168 462
MsaG009984 MtrunA17_Chr4g0042041 78.571 238 41 4 1 229 1 237 2.13e-125 354
MsaG009984 MtrunA17_Chr2g0323031 50.195 257 84 8 9 229 12 260 9.91e-73 222
MsaG009984 MtrunA17_Chr1g0167821 52.273 176 80 1 54 229 75 246 4.86e-58 184
MsaG009984 MtrunA17_Chr4g0038511 51.515 99 47 1 69 167 6 103 3.85e-23 94.4
MsaG009984 MtrunA17_Chr1g0161461 36.806 144 78 3 32 167 36 174 1.55e-19 85.9
MsaG009984 MtrunA17_Chr4g0060591 33.898 118 74 2 51 168 13 126 2.12e-13 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009984 AT5G54680.1 69.787 235 64 5 1 229 1 234 2.27e-108 311
MsaG009984 AT1G51070.1 62.343 239 67 6 1 229 1 226 6.23e-95 277
MsaG009984 AT1G51070.2 65.829 199 57 4 36 229 100 292 3.20e-84 252
MsaG009984 AT4G14410.2 52.041 196 77 6 37 229 96 277 2.87e-55 178
MsaG009984 AT4G14410.3 52.041 196 77 6 37 229 96 277 2.87e-55 178
MsaG009984 AT4G14410.1 52.041 196 77 6 37 229 102 283 3.25e-55 178
MsaG009984 AT3G23210.2 52.261 199 87 5 35 229 97 291 5.16e-55 178
MsaG009984 AT3G23210.1 52.261 199 87 5 35 229 126 320 1.42e-54 177
MsaG009984 AT3G19860.1 45.299 117 59 2 66 178 2 117 1.27e-22 93.6
MsaG009984 AT3G19860.3 45.299 117 59 2 66 178 33 148 2.31e-22 93.6
MsaG009984 AT3G19860.2 45.299 117 59 2 66 178 55 170 2.45e-22 93.6
MsaG009984 AT4G36060.4 38.971 136 72 5 69 199 26 155 1.35e-18 82.4
MsaG009984 AT4G36060.2 39.706 136 71 5 69 199 26 155 2.37e-18 81.6
MsaG009984 AT4G36060.3 38.971 136 72 5 69 199 44 173 4.51e-18 81.3
MsaG009984 AT4G36060.1 39.706 136 71 5 69 199 44 173 4.88e-18 81.3
MsaG009984 AT3G47640.1 30.128 156 93 4 73 216 31 182 5.02e-12 63.9
MsaG009984 AT3G47640.3 30.128 156 93 4 73 216 31 182 5.02e-12 63.9
MsaG009984 AT3G47640.2 30.128 156 93 4 73 216 31 182 5.02e-12 63.9

Find 77 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGAAGATTAAAGAGTTAA+AGG 0.125284 2:+67405342 MsaT009984.1:CDS
AATTTGAGTCTTTCAACTTT+TGG 0.132451 2:-67405309 None:intergenic
TGAAAGGCATTAACTTGTTT+GGG 0.247330 2:-67405688 None:intergenic
ATGAAAGGCATTAACTTGTT+TGG 0.257284 2:-67405689 None:intergenic
ATTGATAGGTTTGTTGAATT+AGG 0.284956 2:+67405193 MsaT009984.1:intron
AGGAGGGTGTGTCAAGAAAC+TGG 0.351738 2:-67405630 None:intergenic
ATGTGCTCCTTCCAGCTCTA+AGG 0.373277 2:+67405036 MsaT009984.1:CDS
GCATTAACTTGTTTGGGGCT+TGG 0.383016 2:-67405682 None:intergenic
CTCTGCTCCTAGTATTGAAA+TGG 0.383024 2:+67404653 MsaT009984.1:intron
GCAAATGCAGCAGGGATTGC+AGG 0.388118 2:-67405650 None:intergenic
AAGGAGCCATCGACAGAAAC+AGG 0.397378 2:-67403810 None:intergenic
CGGTTGCCAATTTAGGCAAC+TGG 0.406655 2:-67405791 None:intergenic
CCGAATGGTGACACAGTTGC+GGG 0.410732 2:+67405279 MsaT009984.1:CDS
AAGTTGAAAGACTCAAATTC+AGG 0.412450 2:+67405313 MsaT009984.1:CDS
TGTTGAATTAGGCTCCATCT+TGG 0.436518 2:+67405204 MsaT009984.1:CDS
TAAGGCTGAGAAGGAGAAGT+TGG 0.437128 2:+67405577 MsaT009984.1:CDS
GAAGGAGAAGTTGGAGCAGC+AGG 0.442475 2:+67405586 MsaT009984.1:CDS
ATGCCTTTCATGAGTTATCC+AGG 0.449494 2:+67405701 MsaT009984.1:CDS
AATTGCCACATGGCAACTCC+TGG 0.456430 2:-67405719 None:intergenic
CCCGCAACTGTGTCACCATT+CGG 0.471915 2:-67405279 None:intergenic
TGATGAGAAGCAGAGGCTTA+AGG 0.477872 2:+67405559 MsaT009984.1:CDS
TTTCCCCGGAAAACACCAAT+TGG 0.488899 2:+67403757 MsaT009984.1:CDS
GAGAGAAGTTGCGGAGGGAT+AGG 0.490114 2:+67405065 MsaT009984.1:CDS
CCTTGATGAGCAAATGCAGC+AGG 0.490383 2:-67405659 None:intergenic
AGTTACCTCTTCTTCGAACC+AGG 0.496718 2:-67404714 None:intergenic
TTCTTGTTGCAGAGGTAGAT+CGG 0.503971 2:+67405009 MsaT009984.1:intron
TCCGAATGGTGACACAGTTG+CGG 0.503977 2:+67405278 MsaT009984.1:CDS
TTAGGCTCCATCTTGGAGCC+TGG 0.505934 2:+67405211 MsaT009984.1:CDS
TGTGAGGTATCCACGGCGGC+TGG 0.507559 2:-67405749 None:intergenic
GAAATTCCTGTTTCTGTCGA+TGG 0.514909 2:+67403804 MsaT009984.1:CDS
CAGGAATTTCATCAATCAAA+GGG 0.518186 2:-67403791 None:intergenic
GCCATTGGAGAGTTGAGGTG+GGG 0.518653 2:-67403847 None:intergenic
AGGGTAATCGAAAAGCCAAT+TGG 0.523695 2:-67403772 None:intergenic
CGCCATTGGAGAGTTGAGGT+GGG 0.524275 2:-67403848 None:intergenic
ACAGGAATTTCATCAATCAA+AGG 0.524589 2:-67403792 None:intergenic
CTCTCGACATGCCTTAGAGC+TGG 0.527575 2:-67405047 None:intergenic
CAACCCAACTATGGTTTCCC+CGG 0.528497 2:+67403743 None:intergenic
GCAGAGGCTTAAGGCTGAGA+AGG 0.531438 2:+67405568 MsaT009984.1:CDS
CCTGCTGCATTTGCTCATCA+AGG 0.536277 2:+67405659 MsaT009984.1:CDS
CACCTCAACTCTCCAATGGC+GGG 0.541239 2:+67403850 MsaT009984.1:CDS
GAGGTATCCACGGCGGCTGG+TGG 0.543817 2:-67405746 None:intergenic
CAAAATCAGATACCCGCCAT+TGG 0.547933 2:-67403862 None:intergenic
GTGTGTCAAGAAACTGGGTT+GGG 0.557971 2:-67405624 None:intergenic
GCTCCATCTTGGAGCCTGGA+AGG 0.560039 2:+67405215 MsaT009984.1:CDS
AAGAACCTGGTTCGAAGAAG+AGG 0.561194 2:+67404709 MsaT009984.1:CDS
CCGCCATTGGAGAGTTGAGG+TGG 0.568621 2:-67403849 None:intergenic
GAAAGGCATTAACTTGTTTG+GGG 0.569345 2:-67405687 None:intergenic
CCATTGGAGAGTTGAGGTGG+GGG 0.574009 2:-67403846 None:intergenic
TGGCCTTCCAGGCTCCAAGA+TGG 0.580720 2:-67405218 None:intergenic
AATGGATGATAGCTCTCTAG+TGG 0.589069 2:+67404671 MsaT009984.1:CDS
CGACATGCCTTAGAGCTGGA+AGG 0.592843 2:-67405043 None:intergenic
CAATTTAGGCAACTGGTGGA+CGG 0.594311 2:-67405784 None:intergenic
CCACCTCAACTCTCCAATGG+CGG 0.595417 2:+67403849 MsaT009984.1:CDS
ATTCATGCCACCAGCCGCCG+TGG 0.596384 2:+67405739 MsaT009984.1:CDS
AGGCATGTCGAGAGAAGTTG+CGG 0.604709 2:+67405056 MsaT009984.1:CDS
ATGATCTTGTGAGGTATCCA+CGG 0.609314 2:-67405756 None:intergenic
ACTCCTGGATAACTCATGAA+AGG 0.613176 2:-67405704 None:intergenic
TCTGATGGTATCAAAGAACC+TGG 0.613566 2:+67404696 MsaT009984.1:CDS
TTGCCAATTTAGGCAACTGG+TGG 0.613733 2:-67405788 None:intergenic
TACCCGCCATTGGAGAGTTG+AGG 0.621755 2:-67403852 None:intergenic
AACTTCGTGATGAGAAGCAG+AGG 0.627738 2:+67405552 MsaT009984.1:CDS
GGTGTGTCAAGAAACTGGGT+TGG 0.631646 2:-67405625 None:intergenic
AGCTCTCTAGTGGATTCTGA+TGG 0.634077 2:+67404681 MsaT009984.1:CDS
ATGGCTCCTTCGCCTTCACG+TGG 0.638692 2:+67403823 MsaT009984.1:CDS
CTTGATGAGCAAATGCAGCA+GGG 0.642514 2:-67405658 None:intergenic
AATGCAGCAGGGATTGCAGG+AGG 0.644570 2:-67405647 None:intergenic
ATGCAGCAGGGATTGCAGGA+GGG 0.653807 2:-67405646 None:intergenic
CATGTCGAGAGAAGTTGCGG+AGG 0.656044 2:+67405059 MsaT009984.1:CDS
ATGTCGAGAGAAGTTGCGGA+GGG 0.659997 2:+67405060 MsaT009984.1:CDS
TCTGATTGATGCTGTCCGAA+TGG 0.662212 2:+67405264 MsaT009984.1:CDS
TGGTGGCATGAATTGCCACA+TGG 0.684045 2:-67405729 None:intergenic
GGAGGGTGTGTCAAGAAACT+GGG 0.689856 2:-67405629 None:intergenic
ACGGAGTACATGATCTTGTG+AGG 0.697745 2:-67405765 None:intergenic
AAGGCCACCTAAAACAGACA+AGG 0.714338 2:+67405234 MsaT009984.1:CDS
CGAATGGTGACACAGTTGCG+GGG 0.732614 2:+67405280 MsaT009984.1:CDS
GTTATCCAGGAGTTGCCATG+TGG 0.743485 2:+67405714 MsaT009984.1:CDS
ATCTTGTGAGGTATCCACGG+CGG 0.745646 2:-67405753 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 67403753 67405802 67403753 ID=MsaG009984
Chr2 mRNA 67403753 67405802 67403753 ID=MsaT009984.1;Parent=MsaG009984
Chr2 exon 67403753 67403871 67403753 ID=MsaT009984.1.exon1;Parent=MsaT009984.1
Chr2 CDS 67403753 67403871 67403753 ID=cds.MsaT009984.1;Parent=MsaT009984.1
Chr2 exon 67404665 67404730 67404665 ID=MsaT009984.1.exon2;Parent=MsaT009984.1
Chr2 CDS 67404665 67404730 67404665 ID=cds.MsaT009984.1;Parent=MsaT009984.1
Chr2 exon 67405021 67405098 67405021 ID=MsaT009984.1.exon3;Parent=MsaT009984.1
Chr2 CDS 67405021 67405098 67405021 ID=cds.MsaT009984.1;Parent=MsaT009984.1
Chr2 exon 67405201 67405363 67405201 ID=MsaT009984.1.exon4;Parent=MsaT009984.1
Chr2 CDS 67405201 67405363 67405201 ID=cds.MsaT009984.1;Parent=MsaT009984.1
Chr2 exon 67405539 67405802 67405539 ID=MsaT009984.1.exon5;Parent=MsaT009984.1
Chr2 CDS 67405539 67405802 67405539 ID=cds.MsaT009984.1;Parent=MsaT009984.1
Gene Sequence

>MsaT009984.1

ATGGTTTCCCCGGAAAACACCAATTGGCTTTTCGATTACCCTTTGATTGATGAAATTCCTGTTTCTGTCGATGGCTCCTTCGCCTTCACGTGGCCCCCACCTCAACTCTCCAATGGCGGTATTGAAATGGATGATAGCTCTCTAGTGGATTCTGATGGTATCAAAGAACCTGGTTCGAAGAAGAGAGGTAGATCGGATTCATGTGCTCCTTCCAGCTCTAAGGCATGTCGAGAGAAGTTGCGGAGGGATAGGCTGAACGACAAGTTTGTTGAATTAGGCTCCATCTTGGAGCCTGGAAGGCCACCTAAAACAGACAAGGCAGCAATTCTGATTGATGCTGTCCGAATGGTGACACAGTTGCGGGGTGAAGCCCAAAAGTTGAAAGACTCAAATTCAGGTCTTCAAGAGAAGATTAAAGAGTTAAAGGTTGAGAAGAATGAACTTCGTGATGAGAAGCAGAGGCTTAAGGCTGAGAAGGAGAAGTTGGAGCAGCAGGTGAAATCAATGAACACCCAACCCAGTTTCTTGACACACCCTCCTGCAATCCCTGCTGCATTTGCTCATCAAGGCCAAGCCCCAAACAAGTTAATGCCTTTCATGAGTTATCCAGGAGTTGCCATGTGGCAATTCATGCCACCAGCCGCCGTGGATACCTCACAAGATCATGTACTCCGTCCACCAGTTGCCTAA
Protein sequence

>MsaT009984.1

MVSPENTNWLFDYPLIDEIPVSVDGSFAFTWPPPQLSNGGIEMDDSSLVDSDGIKEPGSKKRGRSDSCAPSSSKACREKLRRDRLNDKFVELGSILEPGRPPKTDKAAILIDAVRMVTQLRGEAQKLKDSNSGLQEKIKELKVEKNELRDEKQRLKAEKEKLEQQVKSMNTQPSFLTHPPAIPAAFAHQGQAPNKLMPFMSYPGVAMWQFMPPAAVDTSQDHVLRPPVA*