AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012425


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012425 MtrunA17_Chr3g0088851 81.429 70 7 1 6 75 33 96 1.64e-35 118
MsaG012425 MtrunA17_Chr3g0090311 52.846 123 51 4 8 128 39 156 1.79e-29 105
MsaG012425 MtrunA17_Chr3g0098461 39.231 130 72 4 1 128 28 152 2.13e-18 76.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012425 AT5G13780.1 49.180 122 55 4 8 127 39 155 1.52e-25 95.9

Find 31 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGCTGCAGAGTTGCTCTTC+CGG 0.345662 3:-24168458 None:intergenic
TCTTGGTTTGTTTGAAAAGA+TGG 0.363394 3:+24168479 MsaT012425.1:CDS
CGTGGAAGAGGAAGAGGAAG+AGG 0.394995 3:+24167648 MsaT012425.1:CDS
AACAATACAGCCGCTGCAAT+CGG 0.422612 3:-24167602 None:intergenic
CTCCTCATCATCAAAATACT+TGG 0.430558 3:-24168526 None:intergenic
GAAGAGGAAGAGGAAGAGGA+AGG 0.438753 3:+24167652 MsaT012425.1:CDS
CGCCCAAAACACCATGGAAA+AGG 0.453353 3:+24167756 MsaT012425.1:CDS
CTTGGTTTGTTTGAAAAGAT+GGG 0.459057 3:+24168480 MsaT012425.1:CDS
AAGAGCAACTCTGCAGCTCT+TGG 0.462439 3:+24168462 MsaT012425.1:CDS
AGAGGACGTGGAAGAGGAAG+AGG 0.489740 3:+24167642 MsaT012425.1:CDS
TGCTTACCTCCTCTCTAAAG+AGG 0.494825 3:+24167624 MsaT012425.1:CDS
AAGATGTCTCGGTGCACGTC+CGG 0.505757 3:+24168439 MsaT012425.1:CDS
CTCTAAAGAGGACGTGGAAG+AGG 0.510205 3:+24167636 MsaT012425.1:CDS
GAAGAGGAAGAGGAAGGGAA+TGG 0.522153 3:+24167658 MsaT012425.1:CDS
CCTCCTCTCTAAAGAGGACG+TGG 0.530197 3:+24167630 MsaT012425.1:CDS
GAGTGGCTCTCACAGTTAGG+TGG 0.542114 3:-24168592 None:intergenic
AAGAGGAAGAGGAAGAGGAA+GGG 0.544404 3:+24167653 MsaT012425.1:CDS
AGGAACAATGTCGTCAAAGA+AGG 0.558119 3:+24167468 None:intergenic
CACGTCGCGGCCGATTGCAG+CGG 0.560201 3:+24167592 MsaT012425.1:CDS
TTACACACTTCTTGAGGTGA+AGG 0.565558 3:+24168503 MsaT012425.1:CDS
ATAGGTATGGTGAACAAAGA+GGG 0.575631 3:-24167698 None:intergenic
CCACGTCCTCTTTAGAGAGG+AGG 0.581322 3:-24167630 None:intergenic
GATGGGTTACACACTTCTTG+AGG 0.581446 3:+24168497 MsaT012425.1:CDS
CTTCCACGTCCTCTTTAGAG+AGG 0.584682 3:-24167633 None:intergenic
AGGAGGACGCTATTGTCTTG+TGG 0.587701 3:+24168544 MsaT012425.1:CDS
GATAGGTATGGTGAACAAAG+AGG 0.607709 3:-24167699 None:intergenic
CACCGCCGCCCAAAACACCA+TGG 0.620119 3:+24167750 MsaT012425.1:CDS
CACCATACCTATCGTAAACG+TGG 0.628725 3:+24167709 MsaT012425.1:CDS
GGTGGGTGCTAAAGATGTCT+CGG 0.629911 3:+24168428 MsaT012425.1:intron
TACCACGTTTACGATAGGTA+TGG 0.651983 3:-24167711 None:intergenic
AGCGATACCACGTTTACGAT+AGG 0.681782 3:-24167716 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 24167475 24168599 24167475 ID=MsaG012425
Chr3 mRNA 24167475 24168599 24167475 ID=MsaT012425.1;Parent=MsaG012425
Chr3 exon 24167475 24167491 24167475 ID=MsaT012425.1.exon1;Parent=MsaT012425.1
Chr3 CDS 24167475 24167491 24167475 ID=cds.MsaT012425.1;Parent=MsaT012425.1
Chr3 exon 24167573 24167777 24167573 ID=MsaT012425.1.exon2;Parent=MsaT012425.1
Chr3 CDS 24167573 24167777 24167573 ID=cds.MsaT012425.1;Parent=MsaT012425.1
Chr3 exon 24168429 24168599 24168429 ID=MsaT012425.1.exon3;Parent=MsaT012425.1
Chr3 CDS 24168429 24168599 24168429 ID=cds.MsaT012425.1;Parent=MsaT012425.1
Gene Sequence

>MsaT012425.1

ATGTCGTCAAAGAAGGTATTGTGGAAAAAGCTTGTTCACGTCGCGGCCGATTGCAGCGGCTGTATTGTTGCTTACCTCCTCTCTAAAGAGGACGTGGAAGAGGAAGAGGAAGAGGAAGGGAATGGTCACTTTTGTATCGCTTCCCTCTTTGTTCACCATACCTATCGTAAACGTGGTATCGCTACTGATCTTATCACCGCCGCCCAAAACACCATGGAAAAGGTGGGTGCTAAAGATGTCTCGGTGCACGTCCGGAAGAGCAACTCTGCAGCTCTTGGTTTGTTTGAAAAGATGGGTTACACACTTCTTGAGGTGAAGGCCAAGTATTTTGATGATGAGGAGGACGCTATTGTCTTGTGGAAGAAACTCAACGAGAAGCATATAGCCACCTAA

Protein sequence

>MsaT012425.1

MSSKKVLWKKLVHVAADCSGCIVAYLLSKEDVEEEEEEEGNGHFCIASLFVHHTYRKRGIATDLITAAQNTMEKVGAKDVSVHVRKSNSAALGLFEKMGYTLLEVKAKYFDDEEDAIVLWKKLNEKHIAT*