AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015055

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015055 MtrunA17_Chr3g0113721 86.260 262 2 1 1 262 1 228 5.53e-160 443
MsaG015055 MtrunA17_Chr1g0198801 45.503 189 94 3 66 254 151 330 1.99e-43 150
MsaG015055 MtrunA17_Chr7g0255961 34.661 251 140 6 7 254 13 242 5.28e-41 141
MsaG015055 MtrunA17_Chr4g0041051 35.533 197 106 4 65 254 60 242 3.77e-24 97.4
MsaG015055 MtrunA17_Chr5g0412371 37.059 170 84 4 73 236 45 197 3.88e-24 96.3
MsaG015055 MtrunA17_Chr4g0045901 33.668 199 112 6 67 255 69 257 3.97e-23 95.1
MsaG015055 MtrunA17_Chr2g0325521 34.054 185 105 4 63 240 49 223 4.31e-23 94.7
MsaG015055 MtrunA17_Chr5g0427361 29.596 223 107 5 51 234 7 218 1.81e-16 76.6
MsaG015055 MtrunA17_Chr2g0283714 43.182 88 37 2 105 192 16 90 1.93e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015055 AT2G40200.1 44.245 278 108 10 3 261 1 250 2.47e-54 176
MsaG015055 AT1G68810.1 41.538 195 98 4 66 255 167 350 3.87e-36 132
MsaG015055 AT3G56770.1 36.757 185 105 4 61 243 33 207 5.67e-34 123
MsaG015055 AT3G25710.1 46.405 153 70 2 69 220 128 269 6.78e-34 125
MsaG015055 AT2G41130.1 34.973 183 106 4 63 242 57 229 2.82e-25 100
MsaG015055 AT4G38070.1 33.108 148 82 3 73 220 92 222 1.53e-18 82.8

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTGATGATGAAGCAATTT+TGG 0.183435 3:-82152345 None:intergenic
TATATTGGTGCTTTGTTCTA+AGG 0.203318 3:+82152265 MsaT015055.1:CDS
ATTTCCCATTTGGATGAGTA+TGG 0.281846 3:+82150740 None:intergenic
GTCTTAAACCTTTGAGGACT+TGG 0.282951 3:-82152193 None:intergenic
AATATCTCTGACTCTTCTTC+TGG 0.300411 3:+82150873 MsaT015055.1:CDS
ATTAGTTCAGAGAACAATTC+TGG 0.307068 3:-82152170 None:intergenic
TTTGGTCACTGCTGATTTAA+GGG 0.341399 3:-82152327 None:intergenic
TTGAAGGGAGTGTTGAAGAT+AGG 0.378452 3:+82150937 MsaT015055.1:CDS
TTGTAAGTCTTAAACCTTTG+AGG 0.389696 3:-82152199 None:intergenic
CTCTGCTTGACTATGACTCT+TGG 0.398647 3:-82150973 None:intergenic
CTCTGCCTCTTACTTCTTGT+AGG 0.400975 3:-82152380 None:intergenic
ATGGACAAAGCAGCATTACT+AGG 0.419485 3:+82151954 MsaT015055.1:CDS
TCTTCAACACTCCCTTCAAT+AGG 0.436660 3:-82150933 None:intergenic
TGGCAGAATCAAAAGTATAT+TGG 0.438346 3:+82152250 MsaT015055.1:CDS
TTTGTTCACTTTGTTAGTGT+TGG 0.440377 3:-82152099 None:intergenic
GAAGAGTCAGAGATATTATG+AGG 0.460214 3:-82150867 None:intergenic
TGGTTTACCTTATCAGACTT+AGG 0.468900 3:-82151050 None:intergenic
CAAAATTGCTTCATCATCAA+TGG 0.471187 3:+82152346 MsaT015055.1:CDS
GGCAGCATTTGAGCACAAAC+TGG 0.479615 3:+82150787 MsaT015055.1:CDS
ACTTATTCCTAAGTCTGATA+AGG 0.480745 3:+82151043 MsaT015055.1:CDS
GATACTTCATCAATTTCAGT+TGG 0.481484 3:-82152044 None:intergenic
TCATGGAATTTACCTATTGA+AGG 0.482372 3:+82150921 MsaT015055.1:CDS
CAGAGAAAAGACGTAGAGAC+AGG 0.494900 3:+82150991 MsaT015055.1:CDS
GCCGACATAGCAAGTGTTGG+TGG 0.503196 3:+82152230 MsaT015055.1:CDS
GCCACCAACACTTGCTATGT+CGG 0.503342 3:-82152231 None:intergenic
TGAAGGGAGTGTTGAAGATA+GGG 0.514386 3:+82150938 MsaT015055.1:CDS
AATATAGTGAATTTCAGTCA+TGG 0.537343 3:+82150904 MsaT015055.1:CDS
CATGGAATTTACCTATTGAA+GGG 0.539204 3:+82150922 MsaT015055.1:CDS
ATCTGTGTAGGTACAGTCAC+AGG 0.552887 3:-82150840 None:intergenic
AGATCTAAAGCGAAAAGCAA+TGG 0.560117 3:+82151998 MsaT015055.1:CDS
ATTGTCCTACAAGAAGTAAG+AGG 0.570567 3:+82152375 MsaT015055.1:CDS
GAACTAATCCAAGTCCTCAA+AGG 0.579974 3:+82152185 MsaT015055.1:CDS
TGGACAAAGCAGCATTACTA+GGG 0.580902 3:+82151955 MsaT015055.1:CDS
TGGTTTCATCTTCAACAACA+TGG 0.610583 3:-82152079 None:intergenic
AATTACTATACAAAATGAGA+AGG 0.613826 3:-82152413 None:intergenic
TTATGAGGTAGTATCTGTGT+AGG 0.633198 3:-82150852 None:intergenic
AAAGCCGACATAGCAAGTGT+TGG 0.637609 3:+82152227 MsaT015055.1:CDS
ACTACAATGATTCTTCTGAG+TGG 0.704840 3:+82150766 MsaT015055.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 82150753 82152430 82150753 ID=MsaG015055
Chr3 mRNA 82150753 82152430 82150753 ID=MsaT015055.1;Parent=MsaG015055
Chr3 exon 82150753 82151064 82150753 ID=MsaT015055.1.exon1;Parent=MsaT015055.1
Chr3 CDS 82150753 82151064 82150753 ID=cds.MsaT015055.1;Parent=MsaT015055.1
Chr3 exon 82151954 82152430 82151954 ID=MsaT015055.1.exon2;Parent=MsaT015055.1
Chr3 CDS 82151954 82152430 82151954 ID=cds.MsaT015055.1;Parent=MsaT015055.1
Gene Sequence

>MsaT015055.1

ATGAGTATGGAAAACTACAATGATTCTTCTGAGTGGCAGCATTTGAGCACAAACTGGTCTCAATACAGTAATGATCATTCACAATTTCCTGTGACTGTACCTACACAGATACTACCTCATAATATCTCTGACTCTTCTTCTGGTTCTTTTCAATATAGTGAATTTCAGTCATGGAATTTACCTATTGAAGGGAGTGTTGAAGATAGGGCAGCAAGTGCTTCCAAGAGTCATAGTCAAGCAGAGAAAAGACGTAGAGACAGGATTAATACACAGCTTGCTAATCTTAGAAAACTTATTCCTAAGTCTGATAAGATGGACAAAGCAGCATTACTAGGGAGTGTGATAGATCAAGTCAAAGATCTAAAGCGAAAAGCAATGGATGTTAGCAGAGTCATCACAGTTCCAACTGAAATTGATGAAGTATCAATAGACTATAACCATGTTGTTGAAGATGAAACCAACACTAACAAAGTGAACAAATTCAAAGACAATATCATCATCAAAGCTTCTGTTTGTTGCGACGATCGACCAGAATTGTTCTCTGAACTAATCCAAGTCCTCAAAGGTTTAAGACTTACAACAGTTAAAGCCGACATAGCAAGTGTTGGTGGCAGAATCAAAAGTATATTGGTGCTTTGTTCTAAGGACAGTGAAGAAAATGTTTGCATTAATACTCTCAAACAGTCCCTTAAATCAGCAGTGACCAAAATTGCTTCATCATCAATGGTATCTAATTGTCCTACAAGAAGTAAGAGGCAGAGATTCTTTTTGCCTTCTCATTTTGTATAG
Protein sequence

>MsaT015055.1

MSMENYNDSSEWQHLSTNWSQYSNDHSQFPVTVPTQILPHNISDSSSGSFQYSEFQSWNLPIEGSVEDRAASASKSHSQAEKRRRDRINTQLANLRKLIPKSDKMDKAALLGSVIDQVKDLKRKAMDVSRVITVPTEIDEVSIDYNHVVEDETNTNKVNKFKDNIIIKASVCCDDRPELFSELIQVLKGLRLTTVKADIASVGGRIKSILVLCSKDSEENVCINTLKQSLKSAVTKIASSSMVSNCPTRSKRQRFFLPSHFV*