AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009250

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009250 MtrunA17_Chr2g0311181 98.396 187 3 0 1 187 1 187 2.98e-134 380
MsaG009250 MtrunA17_Chr3g0094341 98.540 137 2 0 51 187 13 149 1.61e-96 281
MsaG009250 MtrunA17_Chr2g0304101 35.000 120 77 1 69 187 69 188 2.99e-20 87.0
MsaG009250 MtrunA17_Chr5g0417641 32.520 123 82 1 63 184 51 173 7.38e-16 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009250 AT2G36000.2 50.833 120 55 3 70 185 74 193 2.21e-32 120
MsaG009250 AT2G36000.1 50.833 120 55 3 70 185 74 193 2.48e-32 120
MsaG009250 AT2G34620.1 35.833 120 76 1 69 187 55 174 1.23e-21 91.3
MsaG009250 AT2G03050.1 33.813 139 84 4 50 184 14 148 3.39e-17 79.0
MsaG009250 AT2G03050.2 33.813 139 84 4 50 184 15 149 3.50e-17 78.6

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGCAAACCCTTTCATTCT+AGG 0.246141 2:+55794097 MsaT009250.1:CDS
CAAAGGTTATACAAATTTAA+AGG 0.251866 2:+55797966 MsaT009250.1:CDS
TGCAATCGAGTTTCGGCGTT+TGG 0.258940 2:+55795603 MsaT009250.1:CDS
CAAAGACGAGTGAAGGATTT+GGG 0.291354 2:-55794078 None:intergenic
TTAAATTTGTATAACCTTTG+TGG 0.313288 2:-55797963 None:intergenic
TTATACAAATTTAAAGGAAC+AGG 0.344536 2:+55797972 MsaT009250.1:CDS
ATTTCTCTGCAATCGAGTTT+CGG 0.347052 2:+55795596 MsaT009250.1:CDS
ATGTATTACAGGTTGTAAAA+TGG 0.349290 2:+55795401 MsaT009250.1:intron
GCAAAGACGAGTGAAGGATT+TGG 0.354919 2:-55794079 None:intergenic
TTGGGAGGTAGAGTTTGATT+TGG 0.383136 2:-55795430 None:intergenic
GGACGCAACATCGGCAAAAT+CGG 0.383258 2:+55797927 MsaT009250.1:CDS
CCTCTTCTATGCCAATACTT+TGG 0.410530 2:-55795801 None:intergenic
TTGCAAACCCTTTCATTCTA+GGG 0.423352 2:+55794098 MsaT009250.1:CDS
ACTTTGGTGGTAAGAATCTC+CGG 0.437649 2:-55795637 None:intergenic
GGGTATAATGTCTGAGACTT+TGG 0.442292 2:-55795653 None:intergenic
TCGTGAGGAATGGAAGGAAA+TGG 0.443191 2:-55794130 None:intergenic
GCGTTTGGTTGGCATGTGCC+CGG 0.446971 2:+55795618 MsaT009250.1:CDS
TCCACAGTGGAATACATTAC+CGG 0.452556 2:+55795568 MsaT009250.1:CDS
TGGAAACCGGTATCACTGTT+GGG 0.460724 2:-55795448 None:intergenic
CACCGAGAAGTTCGTGTAAG+TGG 0.461340 2:+55795691 MsaT009250.1:CDS
AGCCACTTACACGAACTTCT+CGG 0.475846 2:-55795693 None:intergenic
ATCGAGTTTCGGCGTTTGGT+TGG 0.478511 2:+55795607 MsaT009250.1:CDS
GAATGGAAGGAAATGGAAGT+GGG 0.494037 2:-55794123 None:intergenic
GATTGCAGAGAAATCCATTC+CGG 0.494440 2:-55795587 None:intergenic
CTTCTATGCCAATACTTTGG+AGG 0.495955 2:-55795798 None:intergenic
GTTGTTTCTTGATGATCTGA+AGG 0.499765 2:+55797906 MsaT009250.1:CDS
TCAAGAAGTATACTCAGGTC+TGG 0.502353 2:-55797999 None:intergenic
TATTGAAAATCATCCGAAGC+TGG 0.506432 2:+55795519 MsaT009250.1:CDS
CTACCTCCCAACAGTGATAC+CGG 0.510788 2:+55795442 MsaT009250.1:CDS
TTGGAAACCGGTATCACTGT+TGG 0.511598 2:-55795449 None:intergenic
CACCTTCTTTGTCAGAGCTA+CGG 0.513083 2:+55794155 MsaT009250.1:CDS
CGGTGAAGGAACGTGAAGAC+GGG 0.516327 2:-55795673 None:intergenic
CTTTGGAGGAAGTACATAGT+AGG 0.519338 2:-55795784 None:intergenic
AGTGACGCAGTAACCAGCTT+CGG 0.520879 2:-55795532 None:intergenic
AGAAGGTGGGTCGTGAGGAA+TGG 0.533372 2:-55794140 None:intergenic
ATGTGATAAATCGTCGTCCT+CGG 0.539592 2:+55795728 MsaT009250.1:CDS
GGAATGGAAGGAAATGGAAG+TGG 0.540119 2:-55794124 None:intergenic
AGTGGGGACCCTAGAATGAA+AGG 0.540231 2:-55794106 None:intergenic
ATGTACTTCCTCCAAAGTAT+TGG 0.554399 2:+55795790 MsaT009250.1:CDS
TCGGTGAAGGAACGTGAAGA+CGG 0.554418 2:-55795674 None:intergenic
TTTGGGAATGTGGTGATCGG+TGG 0.563121 2:-55794061 None:intergenic
GGTGGGTCGTGAGGAATGGA+AGG 0.564987 2:-55794136 None:intergenic
GGGTTTGCAAAGACGAGTGA+AGG 0.566400 2:-55794085 None:intergenic
AAACTAGAATATGACTAATG+AGG 0.567059 2:+55797879 MsaT009250.1:intron
GGATTTGGGAATGTGGTGAT+CGG 0.571770 2:-55794064 None:intergenic
TATAATGTCTGAGACTTTGG+TGG 0.577681 2:-55795650 None:intergenic
GTGGGGACCCTAGAATGAAA+GGG 0.587170 2:-55794105 None:intergenic
CTTTGGTGGTAAGAATCTCC+GGG 0.592939 2:-55795636 None:intergenic
GACAAAGAAGGTGGGTCGTG+AGG 0.595553 2:-55794145 None:intergenic
AACCGTAGCTCTGACAAAGA+AGG 0.595582 2:-55794157 None:intergenic
GTGGTGATCGGTGGAAAACA+AGG 0.598610 2:-55794052 None:intergenic
CCAAAGTATTGGCATAGAAG+AGG 0.600971 2:+55795801 MsaT009250.1:CDS
TTACACGAACTTCTCGGTGA+AGG 0.604014 2:-55795687 None:intergenic
TGATCTGAAGGACGCAACAT+CGG 0.605830 2:+55797918 MsaT009250.1:CDS
AGTGGAATACATTACCGGAA+TGG 0.608509 2:+55795573 MsaT009250.1:CDS
CGTAGCTCTGACAAAGAAGG+TGG 0.608988 2:-55794154 None:intergenic
GTCTTGTATCTAGAGTCTAT+CGG 0.615640 2:+55795478 MsaT009250.1:CDS
TATACAAATTTAAAGGAACA+GGG 0.644657 2:+55797973 MsaT009250.1:CDS
GAGTGAAGGATTTGGGAATG+TGG 0.645827 2:-55794071 None:intergenic
GCTGTGATTTCATTCCACAA+AGG 0.673903 2:+55797949 MsaT009250.1:CDS
TCCGGTAATGTATTCCACTG+TGG 0.695997 2:-55795569 None:intergenic
AATGGAAGGAAATGGAAGTG+GGG 0.702093 2:-55794122 None:intergenic
GTAGCTCTGACAAAGAAGGT+GGG 0.703208 2:-55794153 None:intergenic
ACATTGCAAATAATCAACCG+AGG 0.738760 2:-55795745 None:intergenic
AAACCGGTATCACTGTTGGG+AGG 0.748317 2:-55795445 None:intergenic
TGGTGATCGGTGGAAAACAA+GGG 0.748516 2:-55794051 None:intergenic
TGACGATATAAAATCCACAG+TGG 0.749902 2:+55795555 MsaT009250.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 55794027 55798008 55794027 ID=MsaG009250
Chr2 mRNA 55794027 55798008 55794027 ID=MsaT009250.1;Parent=MsaG009250
Chr2 exon 55794027 55794176 55794027 ID=MsaT009250.1.exon1;Parent=MsaT009250.1
Chr2 CDS 55794027 55794176 55794027 ID=cds.MsaT009250.1;Parent=MsaT009250.1
Chr2 exon 55795412 55795822 55795412 ID=MsaT009250.1.exon2;Parent=MsaT009250.1
Chr2 CDS 55795412 55795822 55795412 ID=cds.MsaT009250.1;Parent=MsaT009250.1
Chr2 exon 55797886 55798008 55797886 ID=MsaT009250.1.exon3;Parent=MsaT009250.1
Chr2 CDS 55797886 55798008 55797886 ID=cds.MsaT009250.1;Parent=MsaT009250.1
Gene Sequence

>MsaT009250.1

ATGTGTTCTGCTACTGCTACAACACCCTTGTTTTCCACCGATCACCACATTCCCAAATCCTTCACTCGTCTTTGCAAACCCTTTCATTCTAGGGTCCCCACTTCCATTTCCTTCCATTCCTCACGACCCACCTTCTTTGTCAGAGCTACGGTTGTAAAATGGCGATGTCCAAATCAAACTCTACCTCCCAACAGTGATACCGGTTTCCAAAAAAAGGTCTTGTATCTAGAGTCTATCGGCATTGACTCTTTCTCCCTTATTGAAAATCATCCGAAGCTGGTTACTGCGTCACTTGACGATATAAAATCCACAGTGGAATACATTACCGGAATGGATTTCTCTGCAATCGAGTTTCGGCGTTTGGTTGGCATGTGCCCGGAGATTCTTACCACCAAAGTCTCAGACATTATACCCGTCTTCACGTTCCTTCACCGAGAAGTTCGTGTAAGTGGCTCAAATATCAAGCATGTGATAAATCGTCGTCCTCGGTTGATTATTTGCAATGTTGATAAGCAACTTCGTCCTACTATGTACTTCCTCCAAAGTATTGGCATAGAAGAGAATATGACTAATGAGGTCTCGTTGTTTCTTGATGATCTGAAGGACGCAACATCGGCAAAATCGGCTGTGATTTCATTCCACAAAGGTTATACAAATTTAAAGGAACAGGGCAACCAGACCTGA
Protein sequence

>MsaT009250.1

MCSATATTPLFSTDHHIPKSFTRLCKPFHSRVPTSISFHSSRPTFFVRATVVKWRCPNQTLPPNSDTGFQKKVLYLESIGIDSFSLIENHPKLVTASLDDIKSTVEYITGMDFSAIEFRRLVGMCPEILTTKVSDIIPVFTFLHREVRVSGSNIKHVINRRPRLIICNVDKQLRPTMYFLQSIGIEENMTNEVSLFLDDLKDATSAKSAVISFHKGYTNLKEQGNQT*