AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene047623

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047623.t1 MTR_5g094680 75.701 107 25 1 1 106 113 219 3.75e-56 174
MS.gene047623.t1 MTR_7g092960 64.762 105 28 2 1 105 1 96 9.16e-43 135
MS.gene047623.t1 MTR_7g093310 71.951 82 23 0 26 107 56 137 1.21e-37 124
MS.gene047623.t1 MTR_8g085520 37.500 112 64 2 1 106 37 148 4.17e-16 70.1
MS.gene047623.t1 MTR_8g085550 37.500 112 64 2 1 106 37 148 1.55e-15 68.2
MS.gene047623.t1 MTR_5g037840 35.714 126 57 4 1 106 8 129 4.97e-15 66.2
MS.gene047623.t1 MTR_5g037810 35.714 126 57 4 1 106 8 129 8.24e-15 65.9
MS.gene047623.t1 MTR_5g006240 32.759 116 65 2 1 105 110 223 1.19e-13 64.7
MS.gene047623.t1 MTR_8g085530 51.923 52 25 0 55 106 245 296 8.05e-13 63.2
MS.gene047623.t1 MTR_1g029860 28.972 107 65 3 1 106 80 176 3.85e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGACGAAGATCAGAAAATC+TGG 0.344881 5.3:+9546859 MS.gene047623:CDS
GGACCGGTGTGCAATTTGTT+TGG 0.399227 5.3:+9547004 MS.gene047623:CDS
TTGTCGTGCATAGGTTGAAA+AGG 0.409763 5.3:+9546949 MS.gene047623:CDS
TCAACCTATGCACGACAAGT+AGG 0.515427 5.3:-9546944 None:intergenic
TCATTCATCTTGTTACTCTA+CGG 0.521288 5.3:+9546983 MS.gene047623:CDS
TGTCGTGCATAGGTTGAAAA+GGG 0.521463 5.3:+9546950 MS.gene047623:CDS
TAGGTTGAAAAGGGTTGGAA+TGG 0.534088 5.3:+9546959 MS.gene047623:CDS
CAACCTATGCACGACAAGTA+GGG 0.534986 5.3:-9546943 None:intergenic
GTGCATAGGTTGAAAAGGGT+TGG 0.538584 5.3:+9546954 MS.gene047623:CDS
TGTTTGGAAGAGCTCTTCGA+TGG 0.552068 5.3:+9547020 MS.gene047623:CDS
CATCTTGTTACTCTACGGAC+CGG 0.566084 5.3:+9546988 MS.gene047623:CDS
CGACGAAGATCAGAAAATCT+GGG 0.572391 5.3:+9546860 MS.gene047623:CDS
GCGACACAATGGACACGAGA+GGG 0.606474 5.3:-9547138 None:intergenic
TGAAGCTTGATGTCAATACA+TGG 0.634786 5.3:+9546892 MS.gene047623:CDS
ATGCCCTACTTGTCGTGCAT+AGG 0.639243 5.3:+9546940 MS.gene047623:CDS
TGCGACACAATGGACACGAG+AGG 0.660737 5.3:-9547139 None:intergenic
ACGAGAGGGATGATTGACGA+TGG 0.663362 5.3:-9547124 None:intergenic
CTTCCAAACAAATTGCACAC+CGG 0.732526 5.3:-9547007 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAAGAGTGTATTTTTCAA+TGG + chr5.3:9547087-9547106 MS.gene047623:CDS 20.0%
! ATGAAAAACATGCAAACAAT+TGG - chr5.3:9547069-9547088 None:intergenic 25.0%
TCATTCATCTTGTTACTCTA+CGG + chr5.3:9546983-9547002 MS.gene047623:CDS 30.0%
TGAAGCTTGATGTCAATACA+TGG + chr5.3:9546892-9546911 MS.gene047623:CDS 35.0%
ACGACGAAGATCAGAAAATC+TGG + chr5.3:9546859-9546878 MS.gene047623:CDS 40.0%
CGACGAAGATCAGAAAATCT+GGG + chr5.3:9546860-9546879 MS.gene047623:CDS 40.0%
CTTCCAAACAAATTGCACAC+CGG - chr5.3:9547010-9547029 None:intergenic 40.0%
! TAGGTTGAAAAGGGTTGGAA+TGG + chr5.3:9546959-9546978 MS.gene047623:CDS 40.0%
! TCATCAGTTTTGCGACACAA+TGG - chr5.3:9547152-9547171 None:intergenic 40.0%
! TGTCGTGCATAGGTTGAAAA+GGG + chr5.3:9546950-9546969 MS.gene047623:CDS 40.0%
! TTGTCGTGCATAGGTTGAAA+AGG + chr5.3:9546949-9546968 MS.gene047623:CDS 40.0%
CAACCTATGCACGACAAGTA+GGG - chr5.3:9546946-9546965 None:intergenic 45.0%
CATCTTGTTACTCTACGGAC+CGG + chr5.3:9546988-9547007 MS.gene047623:CDS 45.0%
TCAACCTATGCACGACAAGT+AGG - chr5.3:9546947-9546966 None:intergenic 45.0%
TGTTTGGAAGAGCTCTTCGA+TGG + chr5.3:9547020-9547039 MS.gene047623:CDS 45.0%
! GTGCATAGGTTGAAAAGGGT+TGG + chr5.3:9546954-9546973 MS.gene047623:CDS 45.0%
ACGAGAGGGATGATTGACGA+TGG - chr5.3:9547127-9547146 None:intergenic 50.0%
ATGCCCTACTTGTCGTGCAT+AGG + chr5.3:9546940-9546959 MS.gene047623:CDS 50.0%
! GGACCGGTGTGCAATTTGTT+TGG + chr5.3:9547004-9547023 MS.gene047623:CDS 50.0%
GCGACACAATGGACACGAGA+GGG - chr5.3:9547141-9547160 None:intergenic 55.0%
TGCGACACAATGGACACGAG+AGG - chr5.3:9547142-9547161 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 9546846 9547184 9546846 ID=MS.gene047623
chr5.3 mRNA 9546846 9547184 9546846 ID=MS.gene047623.t1;Parent=MS.gene047623
chr5.3 exon 9546846 9547184 9546846 ID=MS.gene047623.t1.exon1;Parent=MS.gene047623.t1
chr5.3 CDS 9546846 9547184 9546846 ID=cds.MS.gene047623.t1;Parent=MS.gene047623.t1
Gene Sequence

>MS.gene047623

ATGGTCGCTAATGACGACGAAGATCAGAAAATCTGGGAGATAGACGTGAAGCTTGATGTCAATACATGGTATATTGAAGACAATGATGCTGTGAATGCCCTACTTGTCGTGCATAGGTTGAAAAGGGTTGGAATGGATCATTCATCTTGTTACTCTACGGACCGGTGTGCAATTTGTTTGGAAGAGCTCTTCGATGGATCAAAGTCAGAACATGTTATGACCAATTGTTTGCATGTTTTTCATAAAGAGTGTATTTTTCAATGGCTCAAAAGATGCTTCCATCGTCAATCATCCCTCTCGTGTCCATTGTGTCGCAAAACTGATGAAGCTTTTGAATGA
Protein sequence

>MS.gene047623.t1

MVANDDEDQKIWEIDVKLDVNTWYIEDNDAVNALLVVHRLKRVGMDHSSCYSTDRCAICLEELFDGSKSEHVMTNCLHVFHKECIFQWLKRCFHRQSSLSCPLCRKTDEAFE