AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55126

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55126.t1 MTR_2g037760 98.907 183 2 0 1 183 1 183 2.93e-133 370
MS.gene55126.t1 MTR_4g127530 57.838 185 70 4 1 182 1 180 1.03e-64 197
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 41 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCACTTGGTTAACTGAAAT+TGG 0.230756 2.1:+52726167 None:intergenic
CGATGTTTCGCCTGTGGACT+TGG 0.305136 2.1:-52726006 MS.gene55126:CDS
GCACGTGTAGAGGGCGGTTA+TGG 0.352043 2.1:-52725800 MS.gene55126:CDS
CAAGATGCTTTGAGCAGTAT+TGG 0.370908 2.1:-52725894 MS.gene55126:CDS
TCGGCTTGTAGAATTGAATA+AGG 0.390315 2.1:+52726026 None:intergenic
AAGATGCTTTGAGCAGTATT+GGG 0.392840 2.1:-52725893 MS.gene55126:CDS
AGCATGAAGTAAACATTTCC+TGG 0.401282 2.1:+52726050 None:intergenic
GTTGCAGTGGCTGAACAATA+TGG 0.430731 2.1:-52725843 MS.gene55126:CDS
CAATACTGCTCAAAGCATCT+TGG 0.438811 2.1:+52725895 None:intergenic
GCGGTTATGGAGACCTCTAT+TGG 0.447733 2.1:-52725787 MS.gene55126:CDS
TTCAGCCACTGCAACTCTGC+CGG 0.455045 2.1:+52725851 None:intergenic
AGTTGTGTATCTCCTTTCAA+TGG 0.456894 2.1:+52726077 None:intergenic
TCATTGATATTCTTTCAAAT+CGG 0.458020 2.1:+52725725 None:intergenic
AAGAAGATGAAAGAAGTTGA+AGG 0.463012 2.1:+52726105 None:intergenic
GATTTCTACTATTGATCACT+TGG 0.465741 2.1:+52726153 None:intergenic
ACTTGGCTTCGCTTGCGAAA+AGG 0.475168 2.1:-52725989 MS.gene55126:CDS
ATCCGTTTGGTTCATCTAAG+TGG 0.485610 2.1:-52726212 MS.gene55126:CDS
CACATCAAAGAAGATCCGTT+TGG 0.499575 2.1:-52726225 MS.gene55126:CDS
TCAGCCACTGCAACTCTGCC+GGG 0.515257 2.1:+52725852 None:intergenic
TCTTCTTCAAAACCATTGAA+AGG 0.529265 2.1:-52726089 MS.gene55126:CDS
GAACAATATGGTATGACGTA+TGG 0.536661 2.1:-52725831 MS.gene55126:CDS
TGCGAAAAGGCTCACTGCAA+AGG 0.539702 2.1:-52725976 MS.gene55126:CDS
AGAAGATGAAAGAAGTTGAA+GGG 0.551501 2.1:+52726106 None:intergenic
ACAAGCCGATGTTTCGCCTG+TGG 0.566214 2.1:-52726012 MS.gene55126:CDS
GAGTCCCGGCAGAGTTGCAG+TGG 0.570245 2.1:-52725856 MS.gene55126:CDS
GCAAGCGAAGCCAAGTCCAC+AGG 0.570328 2.1:+52725996 None:intergenic
AGTTCGCCTTCGATGAGTCC+CGG 0.577190 2.1:-52725870 MS.gene55126:CDS
ACTCTGCCGGGACTCATCGA+AGG 0.577322 2.1:+52725864 None:intergenic
GAGGACGAAGCACGTGTAGA+GGG 0.582190 2.1:-52725809 MS.gene55126:CDS
TCATCTAAGTGGTTATGTAG+AGG 0.591667 2.1:-52726201 MS.gene55126:CDS
TCTCTGATAGTATCCAATAG+AGG 0.601725 2.1:+52725774 None:intergenic
AACCACTTAGATGAACCAAA+CGG 0.602554 2.1:+52726210 None:intergenic
GTACAAACAAAGTGAGTAGG+TGG 0.603098 2.1:+52726131 None:intergenic
CAAGTCCACAGGCGAAACAT+CGG 0.606841 2.1:+52726007 None:intergenic
GGAGGACGAAGCACGTGTAG+AGG 0.609110 2.1:-52725810 MS.gene55126:CDS
AGATGAAAGAAGTTGAAGGG+AGG 0.610782 2.1:+52726109 None:intergenic
GAGGTACAAACAAAGTGAGT+AGG 0.613139 2.1:+52726128 None:intergenic
AAAGCATCTTGGTTTGACAA+AGG 0.621621 2.1:+52725906 None:intergenic
CAATATGGTATGACGTATGG+AGG 0.621739 2.1:-52725828 MS.gene55126:CDS
GACGAAGCACGTGTAGAGGG+CGG 0.690431 2.1:-52725806 MS.gene55126:CDS
GGAGATACACAACTTCAACC+AGG 0.693853 2.1:-52726068 MS.gene55126:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCATTGATATTCTTTCAAAT+CGG + chr2.1:52726260-52726279 None:intergenic 20.0%
AAGAAGATGAAAGAAGTTGA+AGG + chr2.1:52725880-52725899 None:intergenic 30.0%
AGAAGATGAAAGAAGTTGAA+GGG + chr2.1:52725879-52725898 None:intergenic 30.0%
ATCACTTGGTTAACTGAAAT+TGG + chr2.1:52725818-52725837 None:intergenic 30.0%
GATGAGAAAAAGTCATTGAA+AGG - chr2.1:52726046-52726065 MS.gene55126:CDS 30.0%
GATTTCTACTATTGATCACT+TGG + chr2.1:52725832-52725851 None:intergenic 30.0%
TCTTCTTCAAAACCATTGAA+AGG - chr2.1:52725893-52725912 MS.gene55126:CDS 30.0%
AACCACTTAGATGAACCAAA+CGG + chr2.1:52725775-52725794 None:intergenic 35.0%
AGCATGAAGTAAACATTTCC+TGG + chr2.1:52725935-52725954 None:intergenic 35.0%
AGTTGTGTATCTCCTTTCAA+TGG + chr2.1:52725908-52725927 None:intergenic 35.0%
GAACAATATGGTATGACGTA+TGG - chr2.1:52726151-52726170 MS.gene55126:CDS 35.0%
TCATCTAAGTGGTTATGTAG+AGG - chr2.1:52725781-52725800 MS.gene55126:CDS 35.0%
TCTCTGATAGTATCCAATAG+AGG + chr2.1:52726211-52726230 None:intergenic 35.0%
! AAAGCATCTTGGTTTGACAA+AGG + chr2.1:52726079-52726098 None:intergenic 35.0%
! AAGATGCTTTGAGCAGTATT+GGG - chr2.1:52726089-52726108 MS.gene55126:CDS 35.0%
! TCGGCTTGTAGAATTGAATA+AGG + chr2.1:52725959-52725978 None:intergenic 35.0%
AGATGAAAGAAGTTGAAGGG+AGG + chr2.1:52725876-52725895 None:intergenic 40.0%
CAATATGGTATGACGTATGG+AGG - chr2.1:52726154-52726173 MS.gene55126:CDS 40.0%
CACATCAAAGAAGATCCGTT+TGG - chr2.1:52725757-52725776 MS.gene55126:CDS 40.0%
GAGGTACAAACAAAGTGAGT+AGG + chr2.1:52725857-52725876 None:intergenic 40.0%
GTACAAACAAAGTGAGTAGG+TGG + chr2.1:52725854-52725873 None:intergenic 40.0%
! ATCCGTTTGGTTCATCTAAG+TGG - chr2.1:52725770-52725789 MS.gene55126:CDS 40.0%
! CAAGATGCTTTGAGCAGTAT+TGG - chr2.1:52726088-52726107 MS.gene55126:CDS 40.0%
! CAATACTGCTCAAAGCATCT+TGG + chr2.1:52726090-52726109 None:intergenic 40.0%
GGAGATACACAACTTCAACC+AGG - chr2.1:52725914-52725933 MS.gene55126:CDS 45.0%
GTTGCAGTGGCTGAACAATA+TGG - chr2.1:52726139-52726158 MS.gene55126:CDS 45.0%
ACTTGGCTTCGCTTGCGAAA+AGG - chr2.1:52725993-52726012 MS.gene55126:CDS 50.0%
CAAGTCCACAGGCGAAACAT+CGG + chr2.1:52725978-52725997 None:intergenic 50.0%
GCGGTTATGGAGACCTCTAT+TGG - chr2.1:52726195-52726214 MS.gene55126:CDS 50.0%
TGCGAAAAGGCTCACTGCAA+AGG - chr2.1:52726006-52726025 MS.gene55126:CDS 50.0%
ACAAGCCGATGTTTCGCCTG+TGG - chr2.1:52725970-52725989 MS.gene55126:CDS 55.0%
AGTTCGCCTTCGATGAGTCC+CGG - chr2.1:52726112-52726131 MS.gene55126:CDS 55.0%
CGATGTTTCGCCTGTGGACT+TGG - chr2.1:52725976-52725995 MS.gene55126:CDS 55.0%
GAGGACGAAGCACGTGTAGA+GGG - chr2.1:52726173-52726192 MS.gene55126:CDS 55.0%
TTCAGCCACTGCAACTCTGC+CGG + chr2.1:52726134-52726153 None:intergenic 55.0%
ACTCTGCCGGGACTCATCGA+AGG + chr2.1:52726121-52726140 None:intergenic 60.0%
GACGAAGCACGTGTAGAGGG+CGG - chr2.1:52726176-52726195 MS.gene55126:CDS 60.0%
GCAAGCGAAGCCAAGTCCAC+AGG + chr2.1:52725989-52726008 None:intergenic 60.0%
GCACGTGTAGAGGGCGGTTA+TGG - chr2.1:52726182-52726201 MS.gene55126:CDS 60.0%
GGAGGACGAAGCACGTGTAG+AGG - chr2.1:52726172-52726191 MS.gene55126:CDS 60.0%
TCAGCCACTGCAACTCTGCC+GGG + chr2.1:52726133-52726152 None:intergenic 60.0%
GAGTCCCGGCAGAGTTGCAG+TGG - chr2.1:52726126-52726145 MS.gene55126:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 52725725 52726279 52725725 ID=MS.gene55126
chr2.1 mRNA 52725725 52726279 52725725 ID=MS.gene55126.t1;Parent=MS.gene55126
chr2.1 exon 52725725 52726279 52725725 ID=MS.gene55126.t1.exon1;Parent=MS.gene55126.t1
chr2.1 CDS 52725725 52726279 52725725 ID=cds.MS.gene55126.t1;Parent=MS.gene55126.t1
Gene Sequence

>MS.gene55126

ATGGGAGGGTGTTTTTCTTCAAGATCATCATGCACATCAAAGAAGATCCGTTTGGTTCATCTAAGTGGTTATGTAGAGGATTTTGAGCAACCAATTTCAGTTAACCAAGTGATCAATAGTAGAAATCCACCTACTCACTTTGTTTGTACCTCCCTTCAACTTCTTTCATCTTCTTCAAAACCATTGAAAGGAGATACACAACTTCAACCAGGAAATGTTTACTTCATGCTACCTTATTCAATTCTACAAGCCGATGTTTCGCCTGTGGACTTGGCTTCGCTTGCGAAAAGGCTCACTGCAAAGGCAAAAACTAGTAGATTTGATGAGAAAAAGTCATTGAAAGGTAGTAGTCCTTTGTCAAACCAAGATGCTTTGAGCAGTATTGGGAGTTCGCCTTCGATGAGTCCCGGCAGAGTTGCAGTGGCTGAACAATATGGTATGACGTATGGAGGACGAAGCACGTGTAGAGGGCGGTTATGGAGACCTCTATTGGATACTATCAGAGAGAAGTCATTCAATAGAAGTAATGAATCCGATTTGAAAGAATATCAATGA
Protein sequence

>MS.gene55126.t1

MGGCFSSRSSCTSKKIRLVHLSGYVEDFEQPISVNQVINSRNPPTHFVCTSLQLLSSSSKPLKGDTQLQPGNVYFMLPYSILQADVSPVDLASLAKRLTAKAKTSRFDEKKSLKGSSPLSNQDALSSIGSSPSMSPGRVAVAEQYGMTYGGRSTCRGRLWRPLLDTIREKSFNRSNESDLKEYQ