AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035227

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035227 MtrunA17_Chr1g0172931 93.197 147 10 0 1 147 1 147 3.32e-99 281
MsaG035227 MtrunA17_Chr6g0473421 58.654 104 43 0 44 147 23 126 8.29e-41 134
MsaG035227 MtrunA17_Chr2g0331371 56.731 104 45 0 44 147 23 126 1.16e-31 112
MsaG035227 MtrunA17_Chr8g0389811 49.074 108 53 1 38 145 48 153 1.79e-29 106
MsaG035227 MtrunA17_Chr1g0203051 45.361 97 53 0 49 145 52 148 8.93e-23 93.2
MsaG035227 MtrunA17_Chr8g0366311 46.667 60 32 0 48 107 51 110 8.66e-13 60.8
MsaG035227 MtrunA17_Chr1g0171741 32.184 87 59 0 56 142 113 199 6.25e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTTCTAGATTTGGAAAT+TGG 0.196980 7:+9231127 None:intergenic
ACTTCAGGGATTTATGTAAA+TGG 0.234570 7:-9231210 MsaT035227.1:CDS
TGTAAATGGGTTAGAAGATA+TGG 0.243632 7:-9231196 MsaT035227.1:CDS
GTAAATGCAACTTCTAGATT+TGG 0.299845 7:+9231120 None:intergenic
CATATAATGTTCTCTAGAAT+TGG 0.354536 7:+9231442 None:intergenic
GAGAAGGGTTTAGAGTAGAT+AGG 0.396938 7:-9230993 MsaT035227.1:CDS
AACGGATGCGAAGGAACTTC+AGG 0.399953 7:-9231225 MsaT035227.1:CDS
CTTCAGGGATTTATGTAAAT+GGG 0.402595 7:-9231209 MsaT035227.1:CDS
TTGCATTTACGTTCTACAAT+TGG 0.412215 7:-9231107 MsaT035227.1:CDS
CAGAGATTCAATTGTGGAAT+CGG 0.427184 7:-9231309 MsaT035227.1:CDS
CAATAGTGGAAGTGCACATC+AGG 0.429272 7:-9231417 MsaT035227.1:intron
GAACATTATATGAGCAATAG+TGG 0.450610 7:-9231431 MsaT035227.1:CDS
CTGCCCGTAAAAGCAAGGTT+AGG 0.456809 7:-9231062 MsaT035227.1:CDS
AAGTAATGGACATGGTGGTT+TGG 0.474191 7:-9231250 MsaT035227.1:CDS
GTAAATGGGTTAGAAGATAT+GGG 0.504469 7:-9231195 MsaT035227.1:CDS
AAATTCGTATGCGTGAAGCT+AGG 0.508016 7:-9230957 MsaT035227.1:CDS
AATTGGTATGCTAGAATGCA+TGG 0.517057 7:-9231090 MsaT035227.1:CDS
AATTCGTATGCGTGAAGCTA+GGG 0.522710 7:-9230956 MsaT035227.1:CDS
ACGGATGCGAAGGAACTTCA+GGG 0.551214 7:-9231224 MsaT035227.1:CDS
AACAGATGCGAAGGAAGTAA+TGG 0.553161 7:-9231264 MsaT035227.1:CDS
CCCGTAAAAGCAAGGTTAGG+AGG 0.562228 7:-9231059 MsaT035227.1:CDS
ATGTTCTCTAGAATTGGCAT+TGG 0.589930 7:+9231448 None:intergenic
AAAAGTGACAACAGATGCGA+AGG 0.598673 7:-9231273 MsaT035227.1:CDS
GGTTTGGACAACGGATGCGA+AGG 0.609341 7:-9231234 MsaT035227.1:CDS
TTGTTGCAGAGATTCAATTG+TGG 0.644923 7:-9231315 MsaT035227.1:intron
TGCGAAGGAAGTAATGGACA+TGG 0.666587 7:-9231258 MsaT035227.1:CDS
GGACATGGTGGTTTGGACAA+CGG 0.671586 7:-9231243 MsaT035227.1:CDS
AATGGGTTAGAAGATATGGG+TGG 0.723070 7:-9231192 MsaT035227.1:CDS
GAAGGAAGTAATGGACATGG+TGG 0.727695 7:-9231255 MsaT035227.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 9230945 9231477 9230945 ID=MsaG035227
Chr7 mRNA 9230945 9231477 9230945 ID=MsaT035227.1;Parent=MsaG035227
Chr7 exon 9230945 9231328 9230945 ID=MsaT035227.1.exon2;Parent=MsaT035227.1
Chr7 CDS 9230945 9231328 9230945 ID=cds.MsaT035227.1;Parent=MsaT035227.1
Chr7 exon 9231418 9231477 9231418 ID=MsaT035227.1.exon1;Parent=MsaT035227.1
Chr7 CDS 9231418 9231477 9231418 ID=cds.MsaT035227.1;Parent=MsaT035227.1
Gene Sequence

>MsaT035227.1

ATGGATACCAATGCCAATTCTAGAGAACATTATATGAGCAATAGTGGAAGTGCACATCAGAGATTCAATTGTGGAATCGGACCAAGATTCATGAAAAGTGACAACAGATGCGAAGGAAGTAATGGACATGGTGGTTTGGACAACGGATGCGAAGGAACTTCAGGGATTTATGTAAATGGGTTAGAAGATATGGGTGGCATTAATTTCAAGATGTTAACTGAAGATGATATGAAGAACTACCAATTTCCAAATCTAGAAGTTGCATTTACGTTCTACAATTGGTATGCTAGAATGCATGGATTTTCTGCCCGTAAAAGCAAGGTTAGGAGGAACAAATTAAATGAAGTTGTCCAACAAAATTTTGTTTGCTACAGAGAAGGGTTTAGAGTAGATAGGTTTAATAATAACAAAATTCGTATGCGTGAAGCTAGGGCAGACACATGA
Protein sequence

>MsaT035227.1

MDTNANSREHYMSNSGSAHQRFNCGIGPRFMKSDNRCEGSNGHGGLDNGCEGTSGIYVNGLEDMGGINFKMLTEDDMKNYQFPNLEVAFTFYNWYARMHGFSARKSKVRRNKLNEVVQQNFVCYREGFRVDRFNNNKIRMREARADT*