AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene034319

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034319.t1 MTR_8g106080 99.281 139 1 0 1 139 1 139 1.65e-99 281
MS.gene034319.t1 MTR_8g106020 99.281 139 1 0 1 139 1 139 1.65e-99 281
MS.gene034319.t1 MTR_5g075240 98.561 139 2 0 1 139 1 139 3.41e-99 281
MS.gene034319.t1 MTR_4g085580 94.245 139 8 0 1 139 4 142 4.90e-95 270
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034319.t1 AT2G09990 89.130 138 15 0 2 139 8 145 8.59e-91 259
MS.gene034319.t1 AT5G18380 88.406 138 16 0 2 139 8 145 1.27e-90 259
MS.gene034319.t1 AT3G04230 83.333 138 23 0 2 139 8 145 2.77e-84 243
MS.gene034319.t1 AT5G18380 86.400 125 17 0 2 126 8 132 1.41e-78 229
MS.gene034319.t1 AT5G18380 86.111 108 15 0 2 109 8 115 6.31e-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:+89814937 None:intergenic
ACAGAGTAAGAAAGAGATTA+AGG 0.239341 4.1:-89815054 MS.gene034319:CDS
CCGCAACGGCGTTCTTCTTC+CGG 0.308388 4.1:+89815318 None:intergenic
GCCTGAGATTCTTCGTTTCA+AGG 0.344740 4.1:-89815231 MS.gene034319:CDS
CGCTGTGAGCCTAAGAAGTT+TGG 0.359075 4.1:-89814984 MS.gene034319:CDS
TCAGAGTATTGCTAAGGCTT+TGG 0.386737 4.1:-89815105 MS.gene034319:CDS
CCACGACCACCAAACTTCTT+AGG 0.436009 4.1:+89814975 None:intergenic
TACGAACCAATCCTCCTTCT+CGG 0.444217 4.1:-89815206 MS.gene034319:CDS
GTTTCGCCGGCGTTGATATG+AGG 0.478501 4.1:-89815175 MS.gene034319:CDS
GCCTTGAAACGAAGAATCTC+AGG 0.478888 4.1:+89815230 None:intergenic
CTCGGAAGACACCGTTTCGC+CGG 0.484088 4.1:-89815188 MS.gene034319:CDS
ATGGAACAAGTGCAATGCTT+TGG 0.487256 4.1:-89815341 MS.gene034319:CDS
CAACGGCTGTCCAATCGAAC+TGG 0.488470 4.1:-89815258 MS.gene034319:CDS
GTGGTCGTGGTGCTCGTGCT+AGG 0.502073 4.1:-89814962 MS.gene034319:CDS
CCTAAGAAGTTTGGTGGTCG+TGG 0.511400 4.1:-89814975 MS.gene034319:CDS
AGGATCCGTGTGAAGGGAGG+AGG 0.521481 4.1:-89815155 MS.gene034319:CDS
TCATATCAACGCCGGCGAAA+CGG 0.524265 4.1:+89815177 None:intergenic
TCAGGCTCAACCAGTTCGAT+TGG 0.524396 4.1:+89815248 None:intergenic
AACAAGTGCAATGCTTTGGC+CGG 0.546867 4.1:-89815337 MS.gene034319:CDS
AACGGTGTCTTCCGAGAAGG+AGG 0.549270 4.1:+89815195 None:intergenic
TGTGAGCCTAAGAAGTTTGG+TGG 0.558448 4.1:-89814981 MS.gene034319:CDS
GACCGCGACCTCTCTTGCAG+TGG 0.558828 4.1:+89815291 None:intergenic
ACCCACTGCAAGAGAGGTCG+CGG 0.562945 4.1:-89815293 MS.gene034319:CDS
CATTCGTCAGAGTATTGCTA+AGG 0.576627 4.1:-89815111 MS.gene034319:CDS
TGATATGAGGATCCGTGTGA+AGG 0.579448 4.1:-89815162 MS.gene034319:CDS
GCGGTAACCCACTGCAAGAG+AGG 0.580471 4.1:-89815299 MS.gene034319:CDS
TTCTTAGGCTCACAGCGTCT+AGG 0.590494 4.1:+89814990 None:intergenic
TGTCTTCCGAGAAGGAGGAT+TGG 0.592227 4.1:+89815200 None:intergenic
GATATGAGGATCCGTGTGAA+GGG 0.594162 4.1:-89815161 MS.gene034319:CDS
CTTGCAGTGGGTTACCGCAA+CGG 0.599991 4.1:+89815304 None:intergenic
ACCGCGACCTCTCTTGCAGT+GGG 0.603590 4.1:+89815292 None:intergenic
CGCGGTCTGATCAAGATCAA+CGG 0.609302 4.1:-89815275 MS.gene034319:CDS
CTTAGCAATACTCTGACGAA+TGG 0.614188 4.1:+89815112 None:intergenic
ATGAGGATCCGTGTGAAGGG+AGG 0.615322 4.1:-89815158 MS.gene034319:CDS
CGAAACGGTGTCTTCCGAGA+AGG 0.622095 4.1:+89815192 None:intergenic
TGTGACCTCCTCCCTTCACA+CGG 0.629480 4.1:+89815150 None:intergenic
CCGGAAGAAGAACGCCGTTG+CGG 0.651449 4.1:-89815318 MS.gene034319:CDS
ACGGATCCTCATATCAACGC+CGG 0.685813 4.1:+89815169 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAGAGTAAGAAAGAGATTA+AGG - chr4.1:89815233-89815252 MS.gene034319:CDS 30.0%
ATGGAACAAGTGCAATGCTT+TGG - chr4.1:89814946-89814965 MS.gene034319:CDS 40.0%
CTTAGCAATACTCTGACGAA+TGG + chr4.1:89815178-89815197 None:intergenic 40.0%
!! CATTCGTCAGAGTATTGCTA+AGG - chr4.1:89815176-89815195 MS.gene034319:CDS 40.0%
!! TCAGAGTATTGCTAAGGCTT+TGG - chr4.1:89815182-89815201 MS.gene034319:CDS 40.0%
AACAAGTGCAATGCTTTGGC+CGG - chr4.1:89814950-89814969 MS.gene034319:CDS 45.0%
GATATGAGGATCCGTGTGAA+GGG - chr4.1:89815126-89815145 MS.gene034319:CDS 45.0%
GCCTGAGATTCTTCGTTTCA+AGG - chr4.1:89815056-89815075 MS.gene034319:CDS 45.0%
GCCTTGAAACGAAGAATCTC+AGG + chr4.1:89815060-89815079 None:intergenic 45.0%
TACGAACCAATCCTCCTTCT+CGG - chr4.1:89815081-89815100 MS.gene034319:CDS 45.0%
TGATATGAGGATCCGTGTGA+AGG - chr4.1:89815125-89815144 MS.gene034319:CDS 45.0%
TGTGAGCCTAAGAAGTTTGG+TGG - chr4.1:89815306-89815325 MS.gene034319:CDS 45.0%
ACGGATCCTCATATCAACGC+CGG + chr4.1:89815121-89815140 None:intergenic 50.0%
CCACGACCACCAAACTTCTT+AGG + chr4.1:89815315-89815334 None:intergenic 50.0%
CGCGGTCTGATCAAGATCAA+CGG - chr4.1:89815012-89815031 MS.gene034319:CDS 50.0%
CGCTGTGAGCCTAAGAAGTT+TGG - chr4.1:89815303-89815322 MS.gene034319:CDS 50.0%
TCAGGCTCAACCAGTTCGAT+TGG + chr4.1:89815042-89815061 None:intergenic 50.0%
TCATATCAACGCCGGCGAAA+CGG + chr4.1:89815113-89815132 None:intergenic 50.0%
TGTCTTCCGAGAAGGAGGAT+TGG + chr4.1:89815090-89815109 None:intergenic 50.0%
TTCTTAGGCTCACAGCGTCT+AGG + chr4.1:89815300-89815319 None:intergenic 50.0%
! CCTAAGAAGTTTGGTGGTCG+TGG - chr4.1:89815312-89815331 MS.gene034319:CDS 50.0%
AACGGTGTCTTCCGAGAAGG+AGG + chr4.1:89815095-89815114 None:intergenic 55.0%
ATGAGGATCCGTGTGAAGGG+AGG - chr4.1:89815129-89815148 MS.gene034319:CDS 55.0%
CAACGGCTGTCCAATCGAAC+TGG - chr4.1:89815029-89815048 MS.gene034319:CDS 55.0%
CGAAACGGTGTCTTCCGAGA+AGG + chr4.1:89815098-89815117 None:intergenic 55.0%
TGTGACCTCCTCCCTTCACA+CGG + chr4.1:89815140-89815159 None:intergenic 55.0%
!! CTTGCAGTGGGTTACCGCAA+CGG + chr4.1:89814986-89815005 None:intergenic 55.0%
!! GTTTCGCCGGCGTTGATATG+AGG - chr4.1:89815112-89815131 MS.gene034319:CDS 55.0%
ACCCACTGCAAGAGAGGTCG+CGG - chr4.1:89814994-89815013 MS.gene034319:CDS 60.0%
ACCGCGACCTCTCTTGCAGT+GGG + chr4.1:89814998-89815017 None:intergenic 60.0%
AGGATCCGTGTGAAGGGAGG+AGG - chr4.1:89815132-89815151 MS.gene034319:CDS 60.0%
CCGCAACGGCGTTCTTCTTC+CGG + chr4.1:89814972-89814991 None:intergenic 60.0%
CCGGAAGAAGAACGCCGTTG+CGG - chr4.1:89814969-89814988 MS.gene034319:CDS 60.0%
CTCGGAAGACACCGTTTCGC+CGG - chr4.1:89815099-89815118 MS.gene034319:CDS 60.0%
GCGGTAACCCACTGCAAGAG+AGG - chr4.1:89814988-89815007 MS.gene034319:CDS 60.0%
GACCGCGACCTCTCTTGCAG+TGG + chr4.1:89814999-89815018 None:intergenic 65.0%
GTGGTCGTGGTGCTCGTGCT+AGG - chr4.1:89815325-89815344 MS.gene034319:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 89814946 89815363 89814946 ID=MS.gene034319
chr4.1 mRNA 89814946 89815363 89814946 ID=MS.gene034319.t1;Parent=MS.gene034319
chr4.1 exon 89814946 89815363 89814946 ID=MS.gene034319.t1.exon1;Parent=MS.gene034319.t1
chr4.1 CDS 89814946 89815363 89814946 ID=cds.MS.gene034319.t1;Parent=MS.gene034319.t1
Gene Sequence

>MS.gene034319

ATGGAACAAGTGCAATGCTTTGGCCGGAAGAAGAACGCCGTTGCGGTAACCCACTGCAAGAGAGGTCGCGGTCTGATCAAGATCAACGGCTGTCCAATCGAACTGGTTGAGCCTGAGATTCTTCGTTTCAAGGCATACGAACCAATCCTCCTTCTCGGAAGACACCGTTTCGCCGGCGTTGATATGAGGATCCGTGTGAAGGGAGGAGGTCACACTTCTCAGATCTACGCCATTCGTCAGAGTATTGCTAAGGCTTTGGTTGCTTACTATCAGAAATTTGTTGATGAACAGAGTAAGAAAGAGATTAAGGATATTCTTGTTCGTTATGATCGTACTCTTCTTGTTGCTGATCCTAGACGCTGTGAGCCTAAGAAGTTTGGTGGTCGTGGTGCTCGTGCTAGGTTCCAGAAATCTTATC
Protein sequence

>MS.gene034319.t1

MEQVQCFGRKKNAVAVTHCKRGRGLIKINGCPIELVEPEILRFKAYEPILLLGRHRFAGVDMRIRVKGGGHTSQIYAIRQSIAKALVAYYQKFVDEQSKKEIKDILVRYDRTLLVADPRRCEPKKFGGRGARARFQKSY