AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028203


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028203 MtrunA17_Chr5g0435711 68.376 234 15 3 1 175 1 234 7.24e-107 305
MsaG028203 MtrunA17_Chr3g0112181 52.500 120 41 3 11 115 8 126 4.36e-31 113
MsaG028203 MtrunA17_Chr3g0112181 37.821 156 68 9 40 173 112 260 1.53e-11 61.2
MsaG028203 MtrunA17_Chr4g0009461 71.014 69 16 1 23 91 35 99 3.26e-28 106
MsaG028203 MtrunA17_Chr5g0400571 64.474 76 24 3 10 84 44 117 2.41e-27 103
MsaG028203 MtrunA17_Chr1g0184381 59.701 67 26 1 41 106 29 95 1.21e-19 81.6
MsaG028203 MtrunA17_Chr2g0315591 66.667 48 15 1 38 84 40 87 1.76e-18 79.3
MsaG028203 MtrunA17_Chr4g0032111 73.684 38 10 0 46 83 20 57 1.29e-14 68.2
MsaG028203 MtrunA17_Chr7g0239441 37.302 126 53 3 47 170 37 138 4.94e-14 65.9
MsaG028203 MtrunA17_Chr1g0184331 45.833 72 32 2 43 107 34 105 7.34e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028203 AT2G37740.1 64.286 70 19 2 11 80 7 70 1.28e-25 100
MsaG028203 AT4G17810.2 62.319 69 23 2 10 76 6 73 7.32e-25 95.1
MsaG028203 AT4G17810.1 62.319 69 23 2 10 76 6 73 1.29e-24 95.5
MsaG028203 AT5G06070.1 55.952 84 26 2 6 88 22 95 6.82e-23 91.3
MsaG028203 AT3G23130.1 76.744 43 10 0 37 79 35 77 1.95e-18 79.3
MsaG028203 AT2G42410.2 32.184 174 64 5 44 168 44 212 2.53e-17 76.3
MsaG028203 AT2G42410.1 32.184 174 64 5 44 168 44 212 2.53e-17 76.3
MsaG028203 AT2G42410.3 32.184 174 64 5 44 168 70 238 4.44e-17 76.3
MsaG028203 AT3G09290.1 32.099 162 67 5 39 175 25 168 7.25e-15 68.9
MsaG028203 AT3G53820.1 50.725 69 30 3 40 106 14 80 1.12e-13 65.1
MsaG028203 AT5G43540.1 33.333 126 56 4 48 168 34 136 8.43e-11 57.4

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCTGATCAGTACTGGTTT+TGG 0.291198 5:-58939717 MsaT028203.1:CDS
ACTATTCCTAGTAAGGAAAA+AGG 0.312548 5:-58939217 MsaT028203.1:CDS
AATTTGTCTTTAGGAATGTT+TGG 0.353496 5:-58939253 MsaT028203.1:intron
TTAGATCTTGAACTCAGGTT+GGG 0.396208 5:-58939046 MsaT028203.1:CDS
AAATGATCATCATAGGTTCC+TGG 0.401685 5:-58939122 MsaT028203.1:CDS
TTTAGGTCTGCTCAAGCTCT+TGG 0.423987 5:-58939559 MsaT028203.1:CDS
ATCATCAACTATTCCTAGTA+AGG 0.427141 5:-58939224 MsaT028203.1:CDS
CTGAAGGTTGTTGAAAAGCC+AGG 0.429995 5:+58939104 None:intergenic
CAACCTTCAGAAATTGTACT+AGG 0.453879 5:-58939091 MsaT028203.1:CDS
TTCAAGCACCAATTGAATCA+TGG 0.457719 5:-58939678 MsaT028203.1:CDS
AATTGAATCATGGGAAGAAA+AGG 0.467520 5:-58939668 MsaT028203.1:CDS
ATCAAATCATTGTTCTTCTG+AGG 0.467552 5:+58939481 None:intergenic
TTTAGATCTTGAACTCAGGT+TGG 0.474254 5:-58939047 MsaT028203.1:CDS
GATCTTACTCTGATCAGTAC+TGG 0.491061 5:-58939723 MsaT028203.1:CDS
TCAAGCACCAATTGAATCAT+GGG 0.500236 5:-58939677 MsaT028203.1:CDS
AAGATTTAGATCTTGAACTC+AGG 0.503939 5:-58939051 MsaT028203.1:CDS
AAGTTACATGAATAAAATCT+TGG 0.505499 5:+58939595 None:intergenic
CATGTTCAAATGATCATCAT+AGG 0.515352 5:-58939129 MsaT028203.1:CDS
AGGTCTGCTCAAGCTCTTGG+TGG 0.535050 5:-58939556 MsaT028203.1:CDS
TAGATCTTGAACTCAGGTTG+GGG 0.538027 5:-58939045 MsaT028203.1:CDS
TCAAATCATTGTTCTTCTGA+GGG 0.542057 5:+58939482 None:intergenic
GTGGTCACATGAATATTCAT+AGG 0.543934 5:-58939537 MsaT028203.1:CDS
GCAGCTAGGAATATATTGAA+TGG 0.562026 5:-58939631 MsaT028203.1:CDS
ATTGTACTAGGACTTGATCA+TGG 0.568821 5:-58939079 MsaT028203.1:CDS
TTACATGAATAAAATCTTGG+TGG 0.571433 5:+58939598 None:intergenic
AGTCCTAGTACAATTTCTGA+AGG 0.591874 5:+58939088 None:intergenic
TTCATAGGAGAGATAGAGCT+AGG 0.597256 5:-58939522 MsaT028203.1:CDS
ACTAGGACTTGATCATGGAA+TGG 0.618438 5:-58939074 MsaT028203.1:CDS
GATTTGATCAACTCATCACT+AGG 0.628308 5:-58939466 MsaT028203.1:intron
GATCATTTGAACATGTCTTG+AGG 0.638691 5:+58939137 None:intergenic
CATGTCTTGAGGAACACAGA+AGG 0.671603 5:+58939148 None:intergenic
ATATATTGAATGGTAGCATG+TGG 0.672779 5:-58939621 MsaT028203.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 58939021 58939752 58939021 ID=MsaG028203
Chr5 mRNA 58939021 58939752 58939021 ID=MsaT028203.1;Parent=MsaG028203
Chr5 exon 58939021 58939262 58939021 ID=MsaT028203.1.exon2;Parent=MsaT028203.1
Chr5 CDS 58939021 58939262 58939021 ID=cds.MsaT028203.1;Parent=MsaT028203.1
Chr5 exon 58939467 58939752 58939467 ID=MsaT028203.1.exon1;Parent=MsaT028203.1
Chr5 CDS 58939467 58939752 58939467 ID=cds.MsaT028203.1;Parent=MsaT028203.1
Gene Sequence

>MsaT028203.1

ATGGAGGGATCTTACTCTGATCAGTACTGGTTTTGGATGAAGAGAAGGCAAGTTCAAGCACCAATTGAATCATGGGAAGAAAAGGCTTTTGCAGAAGATGCAGCTAGGAATATATTGAATGGTAGCATGTGGCCACCAAGATTTTATTCATGTAACTTTTGTAAAAGAGAGTTTAGGTCTGCTCAAGCTCTTGGTGGTCACATGAATATTCATAGGAGAGATAGAGCTAGGCTCAAACAAAATCTTAGCCCTCAGAAGAACAATGATTTGATCAACTCATCACTAGGAATGTTTGGACAAAAATCATCAACTATTCCTAGTAAGGAAAAAGGTATCATGAGTTGCAAGAGATTGAAGACTAATAACATTTCTTCATTGCCTTCTGTGTTCCTCAAGACATGTTCAAATGATCATCATAGGTTCCTGGCTTTTCAACAACCTTCAGAAATTGTACTAGGACTTGATCATGGAATGGAAGATTTAGATCTTGAACTCAGGTTGGGGAAACAACAAAAAATTATTAAGTAG

Protein sequence

>MsaT028203.1

MEGSYSDQYWFWMKRRQVQAPIESWEEKAFAEDAARNILNGSMWPPRFYSCNFCKREFRSAQALGGHMNIHRRDRARLKQNLSPQKNNDLINSSLGMFGQKSSTIPSKEKGIMSCKRLKTNNISSLPSVFLKTCSNDHHRFLAFQQPSEIVLGLDHGMEDLDLELRLGKQQKIIK*