AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0751490


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0751490 MtrunA17_Chr5g0394481 95.455 154 3 2 1 151 1 153 6.88e-104 293
Msa0751490 MtrunA17_Chr2g0321501 33.766 154 84 4 7 142 2 155 1.10e-22 87.8
Msa0751490 MtrunA17_Chr4g0026331 33.113 151 91 4 1 141 4 154 1.59e-22 87.4
Msa0751490 MtrunA17_Chr1g0210661 37.302 126 72 4 22 141 29 153 2.67e-19 79.0
Msa0751490 MtrunA17_Chr2g0277481 31.387 137 86 3 10 141 15 148 2.11e-18 76.6
Msa0751490 MtrunA17_Chr1g0210631 38.393 112 58 3 41 141 106 217 2.20e-18 78.2
Msa0751490 MtrunA17_Chr8g0380641 34.400 125 77 2 20 143 28 148 5.52e-18 75.5
Msa0751490 MtrunA17_Chr4g0054691 32.759 116 71 3 33 147 55 164 2.05e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0751490 AT4G14890.1 81.132 106 20 0 46 151 49 154 6.81e-62 187
Msa0751490 AT2G27510.1 33.758 157 87 5 1 142 1 155 1.01e-22 88.2
Msa0751490 AT1G60950.1 34.532 139 81 6 10 142 14 148 3.00e-18 76.6
Msa0751490 AT5G10000.1 31.387 137 84 2 16 142 12 148 2.93e-16 71.2
Msa0751490 AT1G10960.1 30.435 138 88 4 10 142 14 148 5.03e-15 68.2
Msa0751490 AT1G32550.1 31.915 141 88 4 9 147 25 159 4.60e-14 66.2

Find 39 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCCAATGCCTTTGATAATA+TGG 0.193692 5_2:-4972116 None:intergenic
TCGTTCTGATTGTCATATTA+AGG 0.194811 5_2:+4972288 Msa0751490:CDS
TTCTGTCTGAAGAGAGTTAA+GGG 0.376635 5_2:-4971929 None:intergenic
TTTGATAATATGGTTTCATC+AGG 0.398760 5_2:-4972106 None:intergenic
CTGAAAGCTAAATTAGTCAT+TGG 0.415804 5_2:-4972353 None:intergenic
CTTCTGTCTGAAGAGAGTTA+AGG 0.435022 5_2:-4971930 None:intergenic
AGGATAGGGGAGCTTAGTTG+TGG 0.462415 5_2:-4971960 None:intergenic
GAGTTAAGGGTGTAAATTGA+AGG 0.462964 5_2:-4971916 None:intergenic
TTATCAAAGGCATTGGACTC+TGG 0.464183 5_2:+4972121 Msa0751490:CDS
GGATAGGGGAGCTTAGTTGT+GGG 0.466042 5_2:-4971959 None:intergenic
AACCATATTATCAAAGGCAT+TGG 0.476989 5_2:+4972114 Msa0751490:CDS
TGTGTTGAGCTGAGAAGGAT+AGG 0.480320 5_2:-4971975 None:intergenic
ACAAGACCACGCCTTGGTTC+AGG 0.487317 5_2:+4971995 Msa0751490:CDS
ACAATCAGAACGAGGGTAAG+AGG 0.509900 5_2:-4972278 None:intergenic
GTGCCTCATGACTGTAAGCT+TGG 0.510320 5_2:+4972151 Msa0751490:CDS
AGTTAAGGGTGTAAATTGAA+GGG 0.533055 5_2:-4971915 None:intergenic
GTGTTGAGCTGAGAAGGATA+GGG 0.540357 5_2:-4971974 None:intergenic
TGTGAGGTCTTCTTATAAAG+TGG 0.558437 5_2:+4972042 Msa0751490:CDS
TAAAGTGGTGATTGAGCATG+AGG 0.567310 5_2:+4972057 Msa0751490:CDS
TGATGAAACCATATTATCAA+AGG 0.569530 5_2:+4972108 Msa0751490:CDS
GGTCTTGTGTTGAGCTGAGA+AGG 0.574174 5_2:-4971980 None:intergenic
CTCAACACAAGACCACGCCT+TGG 0.584774 5_2:+4971989 Msa0751490:CDS
GTGCCACTGATAAGACGAGC+AGG 0.599960 5_2:-4972190 None:intergenic
TCATATTAAGGTTATAGCAG+AGG 0.608535 5_2:+4972300 Msa0751490:CDS
TCACAGTGAAAGTGAGTGAT+GGG 0.611048 5_2:-4972024 None:intergenic
GGCACAGTTGATCAGAGTGA+TGG 0.619808 5_2:+4972208 Msa0751490:CDS
TGTTGAGCTGAGAAGGATAG+GGG 0.635174 5_2:-4971973 None:intergenic
CTCACAGTGAAAGTGAGTGA+TGG 0.635887 5_2:-4972025 None:intergenic
TGTCCTGCTCGTCTTATCAG+TGG 0.649957 5_2:+4972187 Msa0751490:CDS
AAGCTTACAGTCATGAGGCA+CGG 0.652590 5_2:-4972149 None:intergenic
GATAGGGGAGCTTAGTTGTG+GGG 0.665612 5_2:-4971958 None:intergenic
AGTGATGATGTTGTAGAGCG+TGG 0.677618 5_2:+4972238 Msa0751490:CDS
ACTCCAAGCTTACAGTCATG+AGG 0.678735 5_2:-4972154 None:intergenic
TAATATGACAATCAGAACGA+GGG 0.699912 5_2:-4972285 None:intergenic
CATCACTCACTTTCACTGTG+AGG 0.704299 5_2:+4972026 Msa0751490:CDS
AAAGTGGTGATTGAGCATGA+GGG 0.724790 5_2:+4972058 Msa0751490:CDS
TGTGAACCTGAACCAAGGCG+TGG 0.725548 5_2:-4972001 None:intergenic
TTAATATGACAATCAGAACG+AGG 0.733351 5_2:-4972286 None:intergenic
ATGGGTGTGAACCTGAACCA+AGG 0.761073 5_2:-4972006 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTGATAATATGGTTTCATC+AGG - chr5_2:4972109-4972128 None:intergenic 25.0%
! TGATGAAACCATATTATCAA+AGG + chr5_2:4972108-4972127 Msa0751490:CDS 25.0%
! AGTTAAGGGTGTAAATTGAA+GGG - chr5_2:4971918-4971937 None:intergenic 30.0%
! AACCATATTATCAAAGGCAT+TGG + chr5_2:4972114-4972133 Msa0751490:CDS 30.0%
TAATATGACAATCAGAACGA+GGG - chr5_2:4972288-4972307 None:intergenic 30.0%
TTAATATGACAATCAGAACG+AGG - chr5_2:4972289-4972308 None:intergenic 30.0%
TCGTTCTGATTGTCATATTA+AGG + chr5_2:4972288-4972307 Msa0751490:CDS 30.0%
TCATATTAAGGTTATAGCAG+AGG + chr5_2:4972300-4972319 Msa0751490:CDS 30.0%
! GAGTTAAGGGTGTAAATTGA+AGG - chr5_2:4971919-4971938 None:intergenic 35.0%
TTCTGTCTGAAGAGAGTTAA+GGG - chr5_2:4971932-4971951 None:intergenic 35.0%
TGTGAGGTCTTCTTATAAAG+TGG + chr5_2:4972042-4972061 Msa0751490:CDS 35.0%
! GTCCAATGCCTTTGATAATA+TGG - chr5_2:4972119-4972138 None:intergenic 35.0%
CTTCTGTCTGAAGAGAGTTA+AGG - chr5_2:4971933-4971952 None:intergenic 40.0%
TCACAGTGAAAGTGAGTGAT+GGG - chr5_2:4972027-4972046 None:intergenic 40.0%
TAAAGTGGTGATTGAGCATG+AGG + chr5_2:4972057-4972076 Msa0751490:CDS 40.0%
AAAGTGGTGATTGAGCATGA+GGG + chr5_2:4972058-4972077 Msa0751490:CDS 40.0%
!! TTATCAAAGGCATTGGACTC+TGG + chr5_2:4972121-4972140 Msa0751490:CDS 40.0%
TGTTGAGCTGAGAAGGATAG+GGG - chr5_2:4971976-4971995 None:intergenic 45.0%
GTGTTGAGCTGAGAAGGATA+GGG - chr5_2:4971977-4971996 None:intergenic 45.0%
TGTGTTGAGCTGAGAAGGAT+AGG - chr5_2:4971978-4971997 None:intergenic 45.0%
CTCACAGTGAAAGTGAGTGA+TGG - chr5_2:4972028-4972047 None:intergenic 45.0%
CATCACTCACTTTCACTGTG+AGG + chr5_2:4972026-4972045 Msa0751490:CDS 45.0%
AAGCTTACAGTCATGAGGCA+CGG - chr5_2:4972152-4972171 None:intergenic 45.0%
ACTCCAAGCTTACAGTCATG+AGG - chr5_2:4972157-4972176 None:intergenic 45.0%
! AGTGATGATGTTGTAGAGCG+TGG + chr5_2:4972238-4972257 Msa0751490:CDS 45.0%
ACAATCAGAACGAGGGTAAG+AGG - chr5_2:4972281-4972300 None:intergenic 45.0%
GATAGGGGAGCTTAGTTGTG+GGG - chr5_2:4971961-4971980 None:intergenic 50.0%
GGATAGGGGAGCTTAGTTGT+GGG - chr5_2:4971962-4971981 None:intergenic 50.0%
AGGATAGGGGAGCTTAGTTG+TGG - chr5_2:4971963-4971982 None:intergenic 50.0%
! GGTCTTGTGTTGAGCTGAGA+AGG - chr5_2:4971983-4972002 None:intergenic 50.0%
ATGGGTGTGAACCTGAACCA+AGG - chr5_2:4972009-4972028 None:intergenic 50.0%
GTGCCTCATGACTGTAAGCT+TGG + chr5_2:4972151-4972170 Msa0751490:CDS 50.0%
TGTCCTGCTCGTCTTATCAG+TGG + chr5_2:4972187-4972206 Msa0751490:CDS 50.0%
GGCACAGTTGATCAGAGTGA+TGG + chr5_2:4972208-4972227 Msa0751490:CDS 50.0%
CTCAACACAAGACCACGCCT+TGG + chr5_2:4971989-4972008 Msa0751490:CDS 55.0%
ACAAGACCACGCCTTGGTTC+AGG + chr5_2:4971995-4972014 Msa0751490:CDS 55.0%
TGTGAACCTGAACCAAGGCG+TGG - chr5_2:4972004-4972023 None:intergenic 55.0%
! GTGCCACTGATAAGACGAGC+AGG - chr5_2:4972193-4972212 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr5_2 gene 4971908 4972363 4971908 ID=Msa0751490;Name=Msa0751490
chr5_2 mRNA 4971908 4972363 4971908 ID=Msa0751490-mRNA-1;Parent=Msa0751490;Name=Msa0751490-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|151
chr5_2 exon 4971908 4972363 4971908 ID=Msa0751490-mRNA-1:exon:1932;Parent=Msa0751490-mRNA-1
chr5_2 CDS 4971908 4972363 4971908 ID=Msa0751490-mRNA-1:cds;Parent=Msa0751490-mRNA-1
Gene Sequence

>Msa0751490

ATGGCAACCCTTCAATTTACACCCTTAACTCTCTTCAGACAGAAGAAGCACCCCACAACTAAGCTCCCCTATCCTTCTCAGCTCAACACAAGACCACGCCTTGGTTCAGGTTCACACCCATCACTCACTTTCACTGTGAGGTCTTCTTATAAAGTGGTGATTGAGCATGAGGGCAAGACTACACAGCTTGAAGTTGAACCTGATGAAACCATATTATCAAAGGCATTGGACTCTGGTTTGTCCGTGCCTCATGACTGTAAGCTTGGAGTTTGCATGACTTGTCCTGCTCGTCTTATCAGTGGCACAGTTGATCAGAGTGATGGTATGCTCAGTGATGATGTTGTAGAGCGTGGCTATGCACTCTTGTGTGCCTCTTACCCTCGTTCTGATTGTCATATTAAGGTTATAGCAGAGGATGAGCTACTCTCAATGCAGTTAGCTACAGCCAATGACTAA

Protein sequence

>Msa0751490

MATLQFTPLTLFRQKKHPTTKLPYPSQLNTRPRLGSGSHPSLTFTVRSSYKVVIEHEGKTTQLEVEPDETILSKALDSGLSVPHDCKLGVCMTCPARLISGTVDQSDGMLSDDVVERGYALLCASYPRSDCHIKVIAEDELLSMQLATAND*