AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003008


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003008 MtrunA17_Chr1g0180581 67.870 277 30 4 1 275 1 220 1.97e-119 340
MsaG003008 MtrunA17_Chr7g0214511 51.258 318 64 12 7 275 12 287 1.34e-79 242
MsaG003008 MtrunA17_Chr1g0193731 52.448 286 83 12 10 273 15 269 4.03e-68 213
MsaG003008 MtrunA17_Chr1g0169561 44.255 235 68 9 57 246 94 310 1.45e-41 145
MsaG003008 MtrunA17_Chr1g0169521 44.255 235 68 10 57 246 94 310 6.24e-40 140
MsaG003008 MtrunA17_Chr1g0174001 44.949 198 65 8 83 246 2 189 1.12e-36 129
MsaG003008 MtrunA17_Chr1g0180571 74.227 97 22 1 176 269 1 97 2.26e-35 124
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 35 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGAAGGTGAAACAGAATT+AGG 0.205798 1:-50441969 MsaT003008.1:CDS
AAAGAGAAAGAAGGGTATTT+AGG 0.220162 1:+50442563 None:intergenic
CTTAGCACTTGCCGTTTCTT+AGG 0.240976 1:+50442287 None:intergenic
CTCTTCAATACTTTGATTAG+AGG 0.294988 1:+50442001 None:intergenic
TGAATCACCGTGGTGCTAAA+AGG 0.300323 1:-50442166 MsaT003008.1:CDS
ACTTCTAACAAAGCTTTGAA+TGG 0.400226 1:-50442380 MsaT003008.1:CDS
ACGGTGATTCAAATTGATAT+TGG 0.408428 1:+50442178 None:intergenic
ATGAAGGTGAAACAGAATTA+GGG 0.423059 1:-50441968 MsaT003008.1:CDS
GGAGCTATGGTCAACATGAT+TGG 0.423303 1:+50442595 None:intergenic
TATTCTGTTCCTAATGATGC+TGG 0.432407 1:-50442446 MsaT003008.1:CDS
TCTTCAACAACTAATGATGC+TGG 0.461941 1:-50442497 MsaT003008.1:CDS
CTGGAAAACAGAAGATCATA+TGG 0.475072 1:-50442478 MsaT003008.1:CDS
ATATCTCGTGGCGGTTTCGA+CGG 0.494058 1:-50442209 MsaT003008.1:CDS
ATACTTTGATTAGAGGCAGC+AGG 0.495332 1:+50442008 None:intergenic
GAAGAGAAGAAGATTAATGA+AGG 0.510676 1:-50441984 MsaT003008.1:CDS
AATCAATGAAAGAGAAAGAA+GGG 0.516168 1:+50442555 None:intergenic
ATCTTCCTCTGCAAGCTATG+AGG 0.522500 1:-50442324 MsaT003008.1:CDS
TATGATGGATGCTAATATGA+TGG 0.534594 1:-50442126 MsaT003008.1:CDS
TGATATTGAGAAGACGAAGA+AGG 0.543732 1:-50442102 MsaT003008.1:CDS
TAATCAATGAAAGAGAAAGA+AGG 0.544898 1:+50442554 None:intergenic
TCATAGCTTGCAGAGGAAGA+TGG 0.548781 1:+50442326 None:intergenic
ACTTCCTACCACCTAAGAAA+CGG 0.558147 1:-50442298 MsaT003008.1:CDS
TCATCTTCAAAATCATCACT+TGG 0.561254 1:+50441840 None:intergenic
AAATTCTTCACATCATCACT+TGG 0.564670 1:+50441879 None:intergenic
AGCACTTGCCGTTTCTTAGG+TGG 0.568114 1:+50442290 None:intergenic
TTCATGTGATGTTTGCAACA+AGG 0.571040 1:-50442408 MsaT003008.1:CDS
CTTGCCGTTTCTTAGGTGGT+AGG 0.575022 1:+50442294 None:intergenic
TATTGCAGCTGAAACTCTGT+TGG 0.580874 1:-50442234 MsaT003008.1:CDS
AAATTCATCACATCATCACT+TGG 0.595232 1:+50441909 None:intergenic
GAGGAAGATGGTGCAACAGT+TGG 0.627306 1:+50442338 None:intergenic
ACGAAGAAGGAGAAAGAACA+AGG 0.647791 1:-50442089 MsaT003008.1:CDS
CTGTTGGATATATCTCGTGG+CGG 0.650335 1:-50442218 MsaT003008.1:CDS
GTGATCCTCATAGCTTGCAG+AGG 0.672732 1:+50442319 None:intergenic
ACTCTGTTGGATATATCTCG+TGG 0.678764 1:-50442221 MsaT003008.1:CDS
AATATCAATTTGAATCACCG+TGG 0.727003 1:-50442176 MsaT003008.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 50441830 50442657 50441830 ID=MsaG003008
Chr1 mRNA 50441830 50442657 50441830 ID=MsaT003008.1;Parent=MsaG003008
Chr1 exon 50441830 50442657 50441830 ID=MsaT003008.1.exon1;Parent=MsaT003008.1
Chr1 CDS 50441830 50442657 50441830 ID=cds.MsaT003008.1;Parent=MsaT003008.1
Gene Sequence

>MsaT003008.1

ATGAAGAAGAAAATGTCTTCTTTTGATCATAAACCAAAAACCAATCATGTTGACCATAGCTCCCTTCAAAAACCTAAATACCCTTCTTTCTCTTTCATTGATTATTCAAACCCTAATCATAACAAAACCAAAAACTTTTCTTCAACAACTAATGATGCTGGAAAACAGAAGATCATATGGTTTTTTTCTTATTCTGTTCCTAATGATGCTGGAAAACAAAAGAAACATTCATGTGATGTTTGCAACAAGGTTTTTACTTCTAACAAAGCTTTGAATGGACATATGATATGTCACTCACCAACTGTTGCACCATCTTCCTCTGCAAGCTATGAGGATCACTTCCTACCACCTAAGAAACGGCAAGTGCTAAGAAGAAGTTATATGAATAATGATGATGATGCTATTGCAGCTGAAACTCTGTTGGATATATCTCGTGGCGGTTTCGACGGATCAACTACCAATATCAATTTGAATCACCGTGGTGCTAAAAGGCAAAAACTCTTTTGCAATATGATGGATGCTAATATGATGGATGATATTGAGAAGACGAAGAAGGAGAAAGAACAAGGTGTGTTGCTAACAAGTGCTACAGACATGATTTTTCAAACATCACAAGATTGCAAGCAACCTGCTGCCTCTAATCAAAGTATTGAAGAGAAGAAGATTAATGAAGGTGAAACAGAATTAGGGTCAAAAGTTGTGAAATTTTTTGATTTGAACGAGCTTCCAAGTGATGATGTGATGAATTTTGAGCTTCCAAGTGATGATGTGAAGAATTTTGATTTGAATGAGCTTCCAAGTGATGATTTTGAAGATGAAATCAATTAG

Protein sequence

>MsaT003008.1

MKKKMSSFDHKPKTNHVDHSSLQKPKYPSFSFIDYSNPNHNKTKNFSSTTNDAGKQKIIWFFSYSVPNDAGKQKKHSCDVCNKVFTSNKALNGHMICHSPTVAPSSSASYEDHFLPPKKRQVLRRSYMNNDDDAIAAETLLDISRGGFDGSTTNINLNHRGAKRQKLFCNMMDANMMDDIEKTKKEKEQGVLLTSATDMIFQTSQDCKQPAASNQSIEEKKINEGETELGSKVVKFFDLNELPSDDVMNFELPSDDVKNFDLNELPSDDFEDEIN*