AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene034318

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034318.t1 MTR_8g106080 99.286 140 1 0 1 140 1 140 3.04e-100 283
MS.gene034318.t1 MTR_8g106020 99.286 140 1 0 1 140 1 140 3.04e-100 283
MS.gene034318.t1 MTR_5g075240 98.571 140 2 0 1 140 1 140 7.72e-100 282
MS.gene034318.t1 MTR_4g085580 94.286 140 8 0 1 140 4 143 9.84e-96 272
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034318.t1 AT2G09990 89.209 139 15 0 2 140 8 146 1.84e-91 261
MS.gene034318.t1 AT5G18380 88.489 139 16 0 2 140 8 146 3.12e-91 261
MS.gene034318.t1 AT3G04230 83.453 139 23 0 2 140 8 146 5.94e-85 245
MS.gene034318.t1 AT5G18380 86.400 125 17 0 2 126 8 132 1.60e-78 229
MS.gene034318.t1 AT5G18380 86.111 108 15 0 2 109 8 115 5.33e-67 199

Find 38 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATCTAACGATAAGATTTC+TGG 0.210396 4.1:-89925170 None:intergenic
ACAGAGTAAGAAAGAGATTA+AGG 0.239341 4.1:+89925053 MS.gene034318:CDS
CCGCAACGGCGTTCTTCTTC+CGG 0.308388 4.1:-89924789 None:intergenic
GCCTGAGATTCTTCGTTTCA+AGG 0.344740 4.1:+89924876 MS.gene034318:CDS
CGCTGTGAGCCTAAGAAGTT+TGG 0.359075 4.1:+89925123 MS.gene034318:CDS
TCAGAGTATTGCTAAGGCTT+TGG 0.386737 4.1:+89925002 MS.gene034318:CDS
CCACGACCACCAAACTTCTT+AGG 0.436009 4.1:-89925132 None:intergenic
TACGAACCAATCCTCCTTCT+CGG 0.444217 4.1:+89924901 MS.gene034318:CDS
GTTTCGCCGGCGTTGATATG+AGG 0.478501 4.1:+89924932 MS.gene034318:CDS
GCCTTGAAACGAAGAATCTC+AGG 0.478888 4.1:-89924877 None:intergenic
CTCGGAAGACACCGTTTCGC+CGG 0.484088 4.1:+89924919 MS.gene034318:CDS
ATGGAACAAGTGCAATGCTT+TGG 0.487256 4.1:+89924766 MS.gene034318:CDS
CAACGGCTGTCCAATCGAAC+TGG 0.488470 4.1:+89924849 MS.gene034318:CDS
GTGGTCGTGGTGCTCGTGCT+AGG 0.502073 4.1:+89925145 MS.gene034318:CDS
CCTAAGAAGTTTGGTGGTCG+TGG 0.511400 4.1:+89925132 MS.gene034318:CDS
AGGATCCGTGTGAAGGGAGG+AGG 0.521481 4.1:+89924952 MS.gene034318:CDS
TCATATCAACGCCGGCGAAA+CGG 0.524265 4.1:-89924930 None:intergenic
TCAGGCTCAACCAGTTCGAT+TGG 0.524396 4.1:-89924859 None:intergenic
AACAAGTGCAATGCTTTGGC+CGG 0.546867 4.1:+89924770 MS.gene034318:CDS
AACGGTGTCTTCCGAGAAGG+AGG 0.549270 4.1:-89924912 None:intergenic
TGTGAGCCTAAGAAGTTTGG+TGG 0.558448 4.1:+89925126 MS.gene034318:CDS
GACCGCGACCTCTCTTGCAG+TGG 0.558828 4.1:-89924816 None:intergenic
ACCCACTGCAAGAGAGGTCG+CGG 0.562945 4.1:+89924814 MS.gene034318:CDS
CATTCGTCAGAGTATTGCTA+AGG 0.576627 4.1:+89924996 MS.gene034318:CDS
TGATATGAGGATCCGTGTGA+AGG 0.579448 4.1:+89924945 MS.gene034318:CDS
GCGGTAACCCACTGCAAGAG+AGG 0.580471 4.1:+89924808 MS.gene034318:CDS
TTCTTAGGCTCACAGCGTCT+AGG 0.590494 4.1:-89925117 None:intergenic
TGTCTTCCGAGAAGGAGGAT+TGG 0.592227 4.1:-89924907 None:intergenic
GATATGAGGATCCGTGTGAA+GGG 0.594162 4.1:+89924946 MS.gene034318:CDS
CTTGCAGTGGGTTACCGCAA+CGG 0.599991 4.1:-89924803 None:intergenic
ACCGCGACCTCTCTTGCAGT+GGG 0.603590 4.1:-89924815 None:intergenic
CGCGGTCTGATCAAGATCAA+CGG 0.609302 4.1:+89924832 MS.gene034318:CDS
CTTAGCAATACTCTGACGAA+TGG 0.614188 4.1:-89924995 None:intergenic
ATGAGGATCCGTGTGAAGGG+AGG 0.615322 4.1:+89924949 MS.gene034318:CDS
CGAAACGGTGTCTTCCGAGA+AGG 0.622095 4.1:-89924915 None:intergenic
TGTGACCTCCTCCCTTCACA+CGG 0.629480 4.1:-89924957 None:intergenic
CCGGAAGAAGAACGCCGTTG+CGG 0.651449 4.1:+89924789 MS.gene034318:CDS
ACGGATCCTCATATCAACGC+CGG 0.685813 4.1:-89924938 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAGAGTAAGAAAGAGATTA+AGG + chr4.1:89925053-89925072 MS.gene034318:CDS 30.0%
ATGGAACAAGTGCAATGCTT+TGG + chr4.1:89924766-89924785 MS.gene034318:CDS 40.0%
CTTAGCAATACTCTGACGAA+TGG - chr4.1:89924998-89925017 None:intergenic 40.0%
!! CATTCGTCAGAGTATTGCTA+AGG + chr4.1:89924996-89925015 MS.gene034318:CDS 40.0%
!! TCAGAGTATTGCTAAGGCTT+TGG + chr4.1:89925002-89925021 MS.gene034318:CDS 40.0%
AACAAGTGCAATGCTTTGGC+CGG + chr4.1:89924770-89924789 MS.gene034318:CDS 45.0%
GATATGAGGATCCGTGTGAA+GGG + chr4.1:89924946-89924965 MS.gene034318:CDS 45.0%
GCCTGAGATTCTTCGTTTCA+AGG + chr4.1:89924876-89924895 MS.gene034318:CDS 45.0%
GCCTTGAAACGAAGAATCTC+AGG - chr4.1:89924880-89924899 None:intergenic 45.0%
TACGAACCAATCCTCCTTCT+CGG + chr4.1:89924901-89924920 MS.gene034318:CDS 45.0%
TGATATGAGGATCCGTGTGA+AGG + chr4.1:89924945-89924964 MS.gene034318:CDS 45.0%
TGTGAGCCTAAGAAGTTTGG+TGG + chr4.1:89925126-89925145 MS.gene034318:CDS 45.0%
ACGGATCCTCATATCAACGC+CGG - chr4.1:89924941-89924960 None:intergenic 50.0%
CCACGACCACCAAACTTCTT+AGG - chr4.1:89925135-89925154 None:intergenic 50.0%
CGCGGTCTGATCAAGATCAA+CGG + chr4.1:89924832-89924851 MS.gene034318:CDS 50.0%
CGCTGTGAGCCTAAGAAGTT+TGG + chr4.1:89925123-89925142 MS.gene034318:CDS 50.0%
TCAGGCTCAACCAGTTCGAT+TGG - chr4.1:89924862-89924881 None:intergenic 50.0%
TCATATCAACGCCGGCGAAA+CGG - chr4.1:89924933-89924952 None:intergenic 50.0%
TGTCTTCCGAGAAGGAGGAT+TGG - chr4.1:89924910-89924929 None:intergenic 50.0%
TTCTTAGGCTCACAGCGTCT+AGG - chr4.1:89925120-89925139 None:intergenic 50.0%
! CCTAAGAAGTTTGGTGGTCG+TGG + chr4.1:89925132-89925151 MS.gene034318:CDS 50.0%
AACGGTGTCTTCCGAGAAGG+AGG - chr4.1:89924915-89924934 None:intergenic 55.0%
ATGAGGATCCGTGTGAAGGG+AGG + chr4.1:89924949-89924968 MS.gene034318:CDS 55.0%
CAACGGCTGTCCAATCGAAC+TGG + chr4.1:89924849-89924868 MS.gene034318:CDS 55.0%
CGAAACGGTGTCTTCCGAGA+AGG - chr4.1:89924918-89924937 None:intergenic 55.0%
TGTGACCTCCTCCCTTCACA+CGG - chr4.1:89924960-89924979 None:intergenic 55.0%
!! CTTGCAGTGGGTTACCGCAA+CGG - chr4.1:89924806-89924825 None:intergenic 55.0%
!! GTTTCGCCGGCGTTGATATG+AGG + chr4.1:89924932-89924951 MS.gene034318:CDS 55.0%
ACCCACTGCAAGAGAGGTCG+CGG + chr4.1:89924814-89924833 MS.gene034318:CDS 60.0%
ACCGCGACCTCTCTTGCAGT+GGG - chr4.1:89924818-89924837 None:intergenic 60.0%
AGGATCCGTGTGAAGGGAGG+AGG + chr4.1:89924952-89924971 MS.gene034318:CDS 60.0%
CCGCAACGGCGTTCTTCTTC+CGG - chr4.1:89924792-89924811 None:intergenic 60.0%
CCGGAAGAAGAACGCCGTTG+CGG + chr4.1:89924789-89924808 MS.gene034318:CDS 60.0%
CTCGGAAGACACCGTTTCGC+CGG + chr4.1:89924919-89924938 MS.gene034318:CDS 60.0%
GCGGTAACCCACTGCAAGAG+AGG + chr4.1:89924808-89924827 MS.gene034318:CDS 60.0%
GACCGCGACCTCTCTTGCAG+TGG - chr4.1:89924819-89924838 None:intergenic 65.0%
GTGGTCGTGGTGCTCGTGCT+AGG + chr4.1:89925145-89925164 MS.gene034318:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 89924766 89925188 89924766 ID=MS.gene034318
chr4.1 mRNA 89924766 89925188 89924766 ID=MS.gene034318.t1;Parent=MS.gene034318
chr4.1 exon 89924766 89925188 89924766 ID=MS.gene034318.t1.exon1;Parent=MS.gene034318.t1
chr4.1 CDS 89924766 89925188 89924766 ID=cds.MS.gene034318.t1;Parent=MS.gene034318.t1
Gene Sequence

>MS.gene034318

ATGGAACAAGTGCAATGCTTTGGCCGGAAGAAGAACGCCGTTGCGGTAACCCACTGCAAGAGAGGTCGCGGTCTGATCAAGATCAACGGCTGTCCAATCGAACTGGTTGAGCCTGAGATTCTTCGTTTCAAGGCATACGAACCAATCCTCCTTCTCGGAAGACACCGTTTCGCCGGCGTTGATATGAGGATCCGTGTGAAGGGAGGAGGTCACACTTCTCAGATCTACGCCATTCGTCAGAGTATTGCTAAGGCTTTGGTTGCTTACTATCAGAAATTTGTTGATGAACAGAGTAAGAAAGAGATTAAGGATATTCTTGTTCGTTATGATCGTACTCTTCTTGTTGCTGATCCTAGACGCTGTGAGCCTAAGAAGTTTGGTGGTCGTGGTGCTCGTGCTAGGTTCCAGAAATCTTATCGTTAG
Protein sequence

>MS.gene034318.t1

MEQVQCFGRKKNAVAVTHCKRGRGLIKINGCPIELVEPEILRFKAYEPILLLGRHRFAGVDMRIRVKGGGHTSQIYAIRQSIAKALVAYYQKFVDEQSKKEIKDILVRYDRTLLVADPRRCEPKKFGGRGARARFQKSYR