AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020996


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020996 MtrunA17_Chr4g0033951 88.384 198 23 0 1 198 1 198 7.99e-126 352
MsaG020996 MtrunA17_Chr4g0033941 53.846 156 51 6 44 180 1 154 5.54e-37 128
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020996 AT5G18090.1 30.070 143 95 4 4 144 11 150 3.32e-14 70.1
MsaG020996 AT3G17010.1 27.976 168 110 6 4 164 14 177 1.09e-11 62.8
MsaG020996 AT5G18000.1 31.193 109 68 4 4 108 13 118 2.28e-11 62.0

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTTCTCTTGGCCACAAT+TGG 0.131130 4:-61613816 None:intergenic
ATGTTCAAGGTGGAAATTTA+TGG 0.176554 4:+61613738 MsaT020996.1:CDS
TTCTTTGATGATAGAGAAAA+AGG 0.238400 4:-61613015 None:intergenic
GAAGAAAGCATCAATTATTC+TGG 0.262336 4:+61613569 MsaT020996.1:CDS
TGGATATGGGTGAAGAGTTT+TGG 0.266007 4:+61613547 MsaT020996.1:CDS
ATTATTCTGGTATGCTCTTC+TGG 0.267481 4:+61613582 MsaT020996.1:CDS
AGTTGGACTTGAAGAGTTCT+TGG 0.296108 4:+61613692 MsaT020996.1:CDS
ACTGAAGATTGTTATGGATA+TGG 0.300118 4:+61613533 MsaT020996.1:CDS
TTTCCAACGCATACTCTCTT+TGG 0.308501 4:-61613936 None:intergenic
CCCTTCTTTGTCACAATTGT+TGG 0.332631 4:-61613978 None:intergenic
TCTTTCTCTTGGCCACAATT+GGG 0.346000 4:-61613815 None:intergenic
GTGGAAATTTATGGTAAGAA+TGG 0.371009 4:+61613747 MsaT020996.1:CDS
TTTGTCTTAGCCACAATTGT+TGG 0.398096 4:-61613894 None:intergenic
TGGTCTACCCCTCTTTCTCT+TGG 0.402146 4:-61613826 None:intergenic
TTTATCTGCGAAACTTTGAT+TGG 0.404846 4:+61613646 MsaT020996.1:CDS
TGGAAATTTATGGTAAGAAT+GGG 0.420098 4:+61613748 MsaT020996.1:CDS
CTTTCTCTTGGCCACAATTG+GGG 0.448018 4:-61613814 None:intergenic
AGTACCACTGAAGATTGTTA+TGG 0.454780 4:+61613527 MsaT020996.1:CDS
ACCAACAATTGTGACAAAGA+AGG 0.484661 4:+61613977 MsaT020996.1:CDS
TCTACTAAAATAACAGAAAG+AGG 0.490912 4:-61614023 None:intergenic
TTTCTGAAAGACAACTCAGT+TGG 0.508167 4:+61613675 MsaT020996.1:CDS
CTGAAGATTGTTATGGATAT+GGG 0.516066 4:+61613534 MsaT020996.1:CDS
TAATGGAGAAAACATGTTCA+AGG 0.519688 4:+61613725 MsaT020996.1:CDS
CAATTGTGGCCAAGAGAAAG+AGG 0.520539 4:+61613817 MsaT020996.1:CDS
CCAACAATTGTGACAAAGAA+GGG 0.536191 4:+61613978 MsaT020996.1:CDS
AAAATAACAGAAAGAGGAGC+AGG 0.548640 4:-61614017 None:intergenic
AGTTGTTGCAGCCCCAATTG+TGG 0.571592 4:+61613803 MsaT020996.1:CDS
AATTGTGGCTAAGACAAAGA+TGG 0.585870 4:+61613899 MsaT020996.1:CDS
AGAATCTGCACCAACAATTG+TGG 0.587568 4:+61613884 MsaT020996.1:CDS
ATGCTCTTCTGGTGAGAAGT+GGG 0.591020 4:+61613593 MsaT020996.1:CDS
CAAATGAATTACCATGCACT+TGG 0.596053 4:-61613048 None:intergenic
AGGTTTCAACACCAAGTGCA+TGG 0.605306 4:+61613037 MsaT020996.1:CDS
AATCCAAAGAGAGTATGCGT+TGG 0.611249 4:+61613933 MsaT020996.1:CDS
AATTGTGGCCAAGAGAAAGA+GGG 0.618437 4:+61613818 MsaT020996.1:CDS
TATGCTCTTCTGGTGAGAAG+TGG 0.619565 4:+61613592 MsaT020996.1:CDS
TGGAGAAAACATGTTCAAGG+TGG 0.671580 4:+61613728 MsaT020996.1:CDS
CGTTGGAAAACAAAACGCAG+AGG 0.680803 4:+61613950 MsaT020996.1:CDS
ATATCCATAACAATCTTCAG+TGG 0.686786 4:-61613531 None:intergenic
ATTGTGGCCAAGAGAAAGAG+GGG 0.688040 4:+61613819 MsaT020996.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 61612987 61614049 61612987 ID=MsaG020996
Chr4 mRNA 61612987 61614049 61612987 ID=MsaT020996.1;Parent=MsaG020996
Chr4 exon 61612987 61613058 61612987 ID=MsaT020996.1.exon1;Parent=MsaT020996.1
Chr4 CDS 61612987 61613058 61612987 ID=cds.MsaT020996.1;Parent=MsaT020996.1
Chr4 exon 61613525 61614049 61613525 ID=MsaT020996.1.exon2;Parent=MsaT020996.1
Chr4 CDS 61613525 61614049 61613525 ID=cds.MsaT020996.1;Parent=MsaT020996.1
Gene Sequence

>MsaT020996.1

ATGGATCATGAGCAGCAAGAGAAGCCATCCTTTTTCTCTATCATCAAAGAAGGTTTCAACACCAAGTGCATGAAAGTACCACTGAAGATTGTTATGGATATGGGTGAAGAGTTTTGGAAGAAAGCATCAATTATTCTGGTATGCTCTTCTGGTGAGAAGTGGGAAGTTAAAATTTTGAAGAAAGCAAATGACATTTATCTGCGAAACTTTGATTGGCAAAAGTTTCTGAAAGACAACTCAGTTGGACTTGAAGAGTTCTTGGTTTTCACTTATAATGGAGAAAACATGTTCAAGGTGGAAATTTATGGTAAGAATGGGTTAGAGAAACCATGCTTCAAGAAAAAGCAAGAAGTTGTTGCAGCCCCAATTGTGGCCAAGAGAAAGAGGGGTAGACCAAGAAAAAATCCTGCAGATGTCAAGGAAGAAAAAGAAGAATCTGCACCAACAATTGTGGCTAAGACAAAGATGGTACAAAGAAAAAATCCAAAGAGAGTATGCGTTGGAAAACAAAACGCAGAGGTTTCACCAACAATTGTGACAAAGAAGGGTATATCAAGAAAATGTCCTGCTCCTCTTTCTGTTATTTTAGTAGACTGA

Protein sequence

>MsaT020996.1

MDHEQQEKPSFFSIIKEGFNTKCMKVPLKIVMDMGEEFWKKASIILVCSSGEKWEVKILKKANDIYLRNFDWQKFLKDNSVGLEEFLVFTYNGENMFKVEIYGKNGLEKPCFKKKQEVVAAPIVAKRKRGRPRKNPADVKEEKEESAPTIVAKTKMVQRKNPKRVCVGKQNAEVSPTIVTKKGISRKCPAPLSVILVD*