AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030431

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030431 MtrunA17_Chr6g0452891 68.306 183 18 4 1 164 1 162 2.31e-76 226
MsaG030431 MtrunA17_Chr6g0452881 63.684 190 43 3 1 164 569 758 1.39e-60 200
MsaG030431 MtrunA17_Chr4g0037071 81.333 75 14 0 56 130 1 75 3.46e-41 137
MsaG030431 MtrunA17_Chr1g0179281 34.848 66 43 0 61 126 829 894 4.93e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030431 AT4G04885.1 55.172 145 46 2 39 164 591 735 1.22e-44 156
MsaG030431 AT1G66500.1 33.333 222 89 9 1 164 125 345 4.91e-24 97.1
MsaG030431 AT5G43620.1 35.955 178 80 9 1 148 124 297 8.11e-21 88.2

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACGAACCTTGAGAATATT+TGG 0.171658 6:-7469214 None:intergenic
GTGACTGCTGTGCTCATCTT+TGG 0.248435 6:-7469308 None:intergenic
GGTTGTTGGCTTGACGTATT+AGG 0.261888 6:-7468993 None:intergenic
AAGAGTTGTTTCCGATTCTT+TGG 0.310522 6:-7468905 None:intergenic
TATGTAATTTGTGATTTATA+TGG 0.358933 6:+7469241 MsaT030431.1:CDS
CCGATTCTTTGGTATGGAAT+AGG 0.359303 6:-7468894 None:intergenic
TGCCCAAGGTGTTATCTCAT+TGG 0.416501 6:+7469052 MsaT030431.1:CDS
AAATTAGAATATCCAACAAT+TGG 0.418071 6:-7469014 None:intergenic
AATATCCAACAATTGGTTGT+TGG 0.433148 6:-7469007 None:intergenic
TTCCGACCTTTACCTCCAGC+TGG 0.442785 6:+7468927 MsaT030431.1:CDS
GATTCGGATGAGGTAGAATC+TGG 0.448129 6:-7468965 None:intergenic
ATTCTACCTCATCCGAATCT+TGG 0.451748 6:+7468969 MsaT030431.1:CDS
TTGTTTCCGATTCTTTGGTA+TGG 0.469020 6:-7468900 None:intergenic
AGTAGAGCATGTGGGCCAGC+TGG 0.471650 6:-7468942 None:intergenic
TCAAGCCAACAACCAATTGT+TGG 0.475162 6:+7469002 MsaT030431.1:CDS
CTTTGGTATGGAATAGGAAG+TGG 0.486169 6:-7468888 None:intergenic
GCTAAAAGGTGCAGAGACAT+TGG 0.487532 6:+7469417 MsaT030431.1:intron
CCTATTCCATACCAAAGAAT+CGG 0.490580 6:+7468894 MsaT030431.1:CDS
GACGTATTAGGACCAAGATT+CGG 0.494335 6:-7468981 None:intergenic
TGTGGGCCAGCTGGAGGTAA+AGG 0.498674 6:-7468933 None:intergenic
ATTGATTTAGTTACCTTCGC+AGG 0.505170 6:-7469086 None:intergenic
CATCTTTGGATTTGAATCGA+TGG 0.508546 6:-7469294 None:intergenic
TTGGGAGTTAAGTCAACTCC+AGG 0.511970 6:+7469436 MsaT030431.1:CDS
CCACAAGTTGTGCATTGTCT+AGG 0.520332 6:-7469271 None:intergenic
CTAAAAGGTGCAGAGACATT+GGG 0.523678 6:+7469418 MsaT030431.1:intron
AGAAAATAAAGATGAAGAGT+TGG 0.524053 6:+7469483 MsaT030431.1:CDS
CCTAGACAATGCACAACTTG+TGG 0.528311 6:+7469271 MsaT030431.1:CDS
AGCACAGCAGTCACATGGAT+TGG 0.529243 6:+7469317 MsaT030431.1:CDS
AGCCAATGAGATAACACCTT+GGG 0.530219 6:-7469054 None:intergenic
TTGATTTAGTTACCTTCGCA+GGG 0.565255 6:-7469085 None:intergenic
ATTAGTTCACTCATTGCCCA+AGG 0.573674 6:+7469038 MsaT030431.1:CDS
GAATATTTGGATCAAACTCA+AGG 0.580223 6:-7469201 None:intergenic
AGATGAGCACAGCAGTCACA+TGG 0.587427 6:+7469312 MsaT030431.1:CDS
GTTTGATCCAAATATTCTCA+AGG 0.588305 6:+7469207 MsaT030431.1:CDS
AGAGCATGTGGGCCAGCTGG+AGG 0.611285 6:-7468939 None:intergenic
GGCTAATCAAGCCCCTGCGA+AGG 0.612023 6:+7469073 MsaT030431.1:CDS
GGCCAGCTGGAGGTAAAGGT+CGG 0.612329 6:-7468929 None:intergenic
AGAATCTGGAGTAGAGCATG+TGG 0.640782 6:-7468951 None:intergenic
TTAGGACCAAGATTCGGATG+AGG 0.644974 6:-7468975 None:intergenic
GTTGGCAGTTCCGTTCGATG+AGG 0.647423 6:+7469501 MsaT030431.1:CDS
TAGCCAATGAGATAACACCT+TGG 0.659744 6:-7469055 None:intergenic
TGATTTAGTTACCTTCGCAG+GGG 0.687811 6:-7469084 None:intergenic
GAATCTGGAGTAGAGCATGT+GGG 0.691664 6:-7468950 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 7468885 7469528 7468885 ID=MsaG030431
Chr6 mRNA 7468885 7469528 7468885 ID=MsaT030431.1;Parent=MsaG030431
Chr6 exon 7468885 7469094 7468885 ID=MsaT030431.1.exon1;Parent=MsaT030431.1
Chr6 CDS 7468885 7469094 7468885 ID=cds.MsaT030431.1;Parent=MsaT030431.1
Chr6 exon 7469190 7469370 7469190 ID=MsaT030431.1.exon2;Parent=MsaT030431.1
Chr6 CDS 7469190 7469370 7469190 ID=cds.MsaT030431.1;Parent=MsaT030431.1
Chr6 exon 7469425 7469528 7469425 ID=MsaT030431.1.exon3;Parent=MsaT030431.1
Chr6 CDS 7469425 7469528 7469425 ID=cds.MsaT030431.1;Parent=MsaT030431.1
Gene Sequence

>MsaT030431.1

ATGCCACTTCCTATTCCATACCAAAGAATCGGAAACAACTCTTTCCGACCTTTACCTCCAGCTGGCCCACATGCTCTACTCCAGATTCTACCTCATCCGAATCTTGGTCCTAATACGTCAAGCCAACAACCAATTGTTGGATATTCTAATTTGATTAGTTCACTCATTGCCCAAGGTGTTATCTCATTGGCTAATCAAGCCCCTGCGAAGGATTTTATTGGCCTTGAGTTTGATCCAAATATTCTCAAGGTTCGTCATGAATATGTAATTTGTGATTTATATGGTGATTTTCCTAGACAATGCACAACTTGTGGCCATCGATTCAAATCCAAAGATGAGCACAGCAGTCACATGGATTGGCATGTGACAAAGAACCGTATGTCTAAAAACTGTGCAGAGACATTGGGAGTTAAGTCAACTCCAGGTTTTTTGCCAACCGAGACCACCGAAGAAAATAAAGATGAAGAGTTGGCAGTTCCGTTCGATGAGGATTAA
Protein sequence

>MsaT030431.1

MPLPIPYQRIGNNSFRPLPPAGPHALLQILPHPNLGPNTSSQQPIVGYSNLISSLIAQGVISLANQAPAKDFIGLEFDPNILKVRHEYVICDLYGDFPRQCTTCGHRFKSKDEHSSHMDWHVTKNRMSKNCAETLGVKSTPGFLPTETTEENKDEELAVPFDED*