AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038733

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038733 MtrunA17_Chr7g0249551 88.732 71 8 0 89 159 28 98 1.16e-36 134
MsaG038733 MtrunA17_Chr4g0033731 70.886 79 23 0 83 161 21 99 7.99e-30 116
MsaG038733 MtrunA17_Chr1g0192661 58.571 70 29 0 90 159 28 97 2.39e-20 89.7
MsaG038733 MtrunA17_Chr7g0250141 41.379 116 59 2 150 265 214 320 2.01e-17 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038733 AT1G08450.3 72.000 75 21 0 90 164 32 106 1.55e-29 115
MsaG038733 AT1G08450.2 72.000 75 21 0 90 164 32 106 1.72e-29 114
MsaG038733 AT1G08450.1 72.000 75 21 0 90 164 32 106 2.85e-29 115
MsaG038733 AT1G56340.2 61.972 71 27 0 89 159 25 95 7.08e-23 97.4
MsaG038733 AT1G56340.1 61.972 71 27 0 89 159 25 95 8.86e-23 97.1
MsaG038733 AT1G09210.1 60.563 71 28 0 89 159 25 95 2.40e-22 95.9

Find 63 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAAGCTATGCTTATCTTT+TGG 0.226135 7:+80049469 MsaT038733.1:CDS
CACACGTTGTTTCTCATCTT+TGG 0.261898 7:+80049245 MsaT038733.1:CDS
ATTGATCATTTCACTTCATT+TGG 0.284559 7:-80049596 None:intergenic
TCAATGGGATGGTATGCTTT+TGG 0.323509 7:+80049561 MsaT038733.1:CDS
GTCTCAACCATCGTCTTTCT+TGG 0.342208 7:+80049270 MsaT038733.1:CDS
GAGAAACAACGTGTGAATTC+TGG 0.349806 7:-80049237 None:intergenic
TGCAGAGATGGCAAAGTGTT+TGG 0.351900 7:-80049208 None:intergenic
TTGGTATTGTCTACAACATA+TGG 0.355189 7:+80049289 MsaT038733.1:CDS
TCCATATGGCTGTCCTTGCT+CGG 0.359531 7:+80049372 MsaT038733.1:CDS
CTGTCCTTGCTCGGGTTGTT+TGG 0.362995 7:+80049381 MsaT038733.1:CDS
CTACCCCACTGAAGAAGAAT+TGG 0.368065 7:+80047082 MsaT038733.1:CDS
TCAAGCACACAGCTGGGAAA+TGG 0.374796 7:+80048650 MsaT038733.1:CDS
GATCATTTCACTTCATTTGG+TGG 0.389143 7:-80049593 None:intergenic
GTCACTTTCATGATTCTTGT+TGG 0.391512 7:+80049426 MsaT038733.1:CDS
ATTAGTCGGTGGACTTTCAA+TGG 0.393044 7:+80049545 MsaT038733.1:CDS
AGGAAACTGAAACACCGTTT+TGG 0.401398 7:+80047927 MsaT038733.1:CDS
TAGATGAAGATGACAAGAAT+GGG 0.418974 7:+80047837 MsaT038733.1:CDS
CTTCAAGTGTGTGTTCCTCC+TGG 0.426564 7:+80047050 MsaT038733.1:CDS
GGTTTGTTCAAGCACACAGC+TGG 0.435407 7:+80048643 MsaT038733.1:CDS
CAAGCACACAGCTGGGAAAT+GGG 0.442525 7:+80048651 MsaT038733.1:CDS
AACAACCGTTTCGATCTTGA+TGG 0.443938 7:+80047902 MsaT038733.1:CDS
GCTGGAGATCCTGATGATAA+AGG 0.460952 7:+80048673 MsaT038733.1:CDS
CCCGAGCAAGGACAGCCATA+TGG 0.462842 7:-80049373 None:intergenic
ACGATCACCGCCTTTCCATA+TGG 0.464583 7:+80049358 MsaT038733.1:CDS
AGATGGATGGCGAAGTCGTT+GGG 0.466818 7:+80048585 MsaT038733.1:intron
CAACAAGTACCTTTATCATC+AGG 0.471304 7:-80048682 None:intergenic
GGACATAGATAATTGATGAT+AGG 0.471608 7:-80049317 None:intergenic
CCATATGGCTGTCCTTGCTC+GGG 0.480858 7:+80049373 MsaT038733.1:CDS
TCTTCTTTATTTAACCAAAA+CGG 0.492005 7:-80047941 None:intergenic
GAAGTGTTTGTTACATTAGT+CGG 0.497356 7:+80049531 MsaT038733.1:CDS
CTTCTTCAGTGGGGTAGAAA+CGG 0.499380 7:-80047076 None:intergenic
CACACAGCTGGGAAATGGGC+TGG 0.501352 7:+80048655 MsaT038733.1:CDS
TTCTGGTATCTTTGCAGAGA+TGG 0.507021 7:-80049220 None:intergenic
GTAGATGAAGATGACAAGAA+TGG 0.510222 7:+80047836 MsaT038733.1:CDS
TTAGTCGGTGGACTTTCAAT+GGG 0.511483 7:+80049546 MsaT038733.1:CDS
TCGTGTTCTTTGTGCAGTGG+TGG 0.536041 7:-80049339 None:intergenic
ACAACCGTTTCGATCTTGAT+GGG 0.536427 7:+80047903 MsaT038733.1:CDS
CATACCAATTCTTCTTCAGT+GGG 0.538126 7:-80047086 None:intergenic
AGCTGTGTGCTTGAACAAAC+CGG 0.538636 7:-80048641 None:intergenic
TGAAGAATTTGAGAAGAATG+AGG 0.548531 7:+80047814 MsaT038733.1:CDS
ACATACCAATTCTTCTTCAG+TGG 0.550743 7:-80047087 None:intergenic
TCGGTGGACTTTCAATGGGA+TGG 0.557658 7:+80049550 MsaT038733.1:CDS
GTCGTTGGGTAAAATCAGAC+TGG 0.558783 7:+80048599 MsaT038733.1:CDS
AAGATGGATGGCGAAGTCGT+TGG 0.569423 7:+80048584 MsaT038733.1:intron
CGTGTTCTTTGTGCAGTGGT+GGG 0.569884 7:-80049338 None:intergenic
TCTTCTCAAATTCTTCACGT+TGG 0.574625 7:-80047808 None:intergenic
CCGTTTCGATCTTGATGGGG+AGG 0.575181 7:+80047907 MsaT038733.1:CDS
CCTCCCCATCAAGATCGAAA+CGG 0.575429 7:-80047907 None:intergenic
GTGGGGTAGAAACGGTAACC+AGG 0.576684 7:-80047068 None:intergenic
AAAAGTAGCGAAGGAAAAGC+CGG 0.577015 7:+80048622 MsaT038733.1:CDS
GCAAGGACAGCCATATGGAA+AGG 0.582538 7:-80049368 None:intergenic
AAAACCAAACAACCCGAGCA+AGG 0.588094 7:-80049385 None:intergenic
GTTTGTTCAAGCACACAGCT+GGG 0.589722 7:+80048644 MsaT038733.1:CDS
TCAGACTGGAAAAGTAGCGA+AGG 0.615853 7:+80048613 MsaT038733.1:CDS
TGATCGTGTTCTTTGTGCAG+TGG 0.619907 7:-80049342 None:intergenic
AGATGAAGATGACAAGAATG+GGG 0.620721 7:+80047838 MsaT038733.1:CDS
GTGTTTGTTACATTAGTCGG+TGG 0.622983 7:+80049534 MsaT038733.1:CDS
AACAAGAATCATGAAAGTGA+CGG 0.641716 7:-80049424 None:intergenic
GACAATACCAAGAAAGACGA+TGG 0.643742 7:-80049277 None:intergenic
CAACCGTTTCGATCTTGATG+GGG 0.647695 7:+80047904 MsaT038733.1:CDS
AGGACAGCCATATGGAAAGG+CGG 0.693360 7:-80049365 None:intergenic
ATACCAATTCTTCTTCAGTG+GGG 0.740014 7:-80047085 None:intergenic
GGGTAGAAACGGTAACCAGG+AGG 0.743909 7:-80047065 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 80047044 80049608 80047044 ID=MsaG038733
Chr7 mRNA 80047044 80049608 80047044 ID=MsaT038733.1;Parent=MsaG038733
Chr7 exon 80047044 80047103 80047044 ID=MsaT038733.1.exon1;Parent=MsaT038733.1
Chr7 CDS 80047044 80047103 80047044 ID=cds.MsaT038733.1;Parent=MsaT038733.1
Chr7 exon 80047782 80048007 80047782 ID=MsaT038733.1.exon2;Parent=MsaT038733.1
Chr7 CDS 80047782 80048007 80047782 ID=cds.MsaT038733.1;Parent=MsaT038733.1
Chr7 exon 80048587 80048694 80048587 ID=MsaT038733.1.exon3;Parent=MsaT038733.1
Chr7 CDS 80048587 80048694 80048587 ID=cds.MsaT038733.1;Parent=MsaT038733.1
Chr7 exon 80049187 80049608 80049187 ID=MsaT038733.1.exon4;Parent=MsaT038733.1
Chr7 CDS 80049187 80049608 80049187 ID=cds.MsaT038733.1;Parent=MsaT038733.1
Gene Sequence

>MsaT038733.1

ATGGATCTTCAAGTGTGTGTTCCTCCTGGTTACCGTTTCTACCCCACTGAAGAAGAATTGATATCATATTATCTTTGCAAACTAAGCCAACGTGAAGAATTTGAGAAGAATGAGGTAGATGAAGATGACAAGAATGGGGTTGATGAAGAAGTACATAGAAGATTATTTAAAAATATAAAGAACAACCGTTTCGATCTTGATGGGGAGGAAACTGAAACACCGTTTTGGTTAAATAAAGAAGAAATATCATCATGCTACAGAAATATCTTCGAAGAGCGTTTTGAAGATGGATGGCGAAGTCGTTGGGTAAAATCAGACTGGAAAAGTAGCGAAGGAAAAGCCGGTTTGTTCAAGCACACAGCTGGGAAATGGGCTGGAGATCCTGATGATAAAGGTATTCAAACATCTAATGATGCCAAACACTTTGCCATCTCTGCAAAGATACCAGAATTCACACGTTGTTTCTCATCTTTGGTAGTCTCAACCATCGTCTTTCTTGGTATTGTCTACAACATATGGAACAGCCTATCATCAATTATCTATGTCCCACCACTGCACAAAGAACACGATCACCGCCTTTCCATATGGCTGTCCTTGCTCGGGTTGTTTGGTTTTATGGTGTTTGTTTGTGCCGTCACTTTCATGATTCTTGTTGGTGCAGAATTCACTAGTATTCAGAAAGCTATGCTTATCTTTTGGGTCATTTTGATGCATCTTCAATCAGCTAACTCAATCATCGAAGTGTTTGTTACATTAGTCGGTGGACTTTCAATGGGATGGTATGCTTTTGGAAAAAGCAACCACCAAATGAAGTGA
Protein sequence

>MsaT038733.1

MDLQVCVPPGYRFYPTEEELISYYLCKLSQREEFEKNEVDEDDKNGVDEEVHRRLFKNIKNNRFDLDGEETETPFWLNKEEISSCYRNIFEERFEDGWRSRWVKSDWKSSEGKAGLFKHTAGKWAGDPDDKGIQTSNDAKHFAISAKIPEFTRCFSSLVVSTIVFLGIVYNIWNSLSSIIYVPPLHKEHDHRLSIWLSLLGLFGFMVFVCAVTFMILVGAEFTSIQKAMLIFWVILMHLQSANSIIEVFVTLVGGLSMGWYAFGKSNHQMK*