AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63021

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63021.t1 MTR_1g029990 95.455 110 5 0 1 110 1 110 2.76e-66 195
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63021.t1 AT1G44414 63.636 110 31 2 1 110 1 101 3.94e-44 139

Find 35 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGTTCTTCTTCTTTGC+AGG 0.269891 1.2:+15760808 None:intergenic
GTTCCCGTTTGGCGGTGGCC+AGG 0.363736 1.2:+15760943 MS.gene63021:CDS
CCACCGCTGGACGGCGGAGG+AGG 0.404658 1.2:-15761027 None:intergenic
GTTCGCCAGGTGGTGAAATC+AGG 0.405267 1.2:+15760847 MS.gene63021:CDS
TTCCCTGGCCACCGCCAAAC+GGG 0.406298 1.2:-15760946 None:intergenic
CTTCCCTGGCCACCGCCAAA+CGG 0.426962 1.2:-15760947 None:intergenic
TACCGACATCGCAAGGCGTC+TGG 0.433608 1.2:-15761060 None:intergenic
ATTTCACCACCTGGCGAACC+TGG 0.448778 1.2:-15760843 None:intergenic
TTCCCGTTTGGCGGTGGCCA+GGG 0.453465 1.2:+15760944 MS.gene63021:CDS
TGCGATGTCGGTACTGTGAT+CGG 0.460955 1.2:+15761070 MS.gene63021:CDS
CGCTGGACGGCGGAGGAGGA+AGG 0.466799 1.2:-15761023 None:intergenic
TACAGTTGTTCACCACAGTA+AGG 0.478529 1.2:-15761120 None:intergenic
TACAAGAGAGTTTCCTTCCC+TGG 0.491912 1.2:-15760961 None:intergenic
TGCAGGAGGGTTAGAAAACC+AGG 0.493973 1.2:+15760825 MS.gene63021:CDS
GTTAGAAAACCAGGTTCGCC+AGG 0.505813 1.2:+15760834 MS.gene63021:CDS
TCTTCGTTCCCGTTTGGCGG+TGG 0.506122 1.2:+15760938 MS.gene63021:CDS
GCTGGACGGCGGAGGAGGAA+GGG 0.512715 1.2:-15761022 None:intergenic
GGAGGAAGGGAATGCGATTG+AGG 0.522381 1.2:-15761009 None:intergenic
TGGCAACGTTGAACCACCGC+TGG 0.536785 1.2:-15761040 None:intergenic
CGTTTGGCGGTGGCCAGGGA+AGG 0.537051 1.2:+15760948 MS.gene63021:CDS
ATGTTCTTCTTCTTTGCAGG+AGG 0.539886 1.2:+15760811 MS.gene63021:CDS
CCTCCTCCGCCGTCCAGCGG+TGG 0.540963 1.2:+15761027 MS.gene63021:CDS
GAACCACCGCTGGACGGCGG+AGG 0.546537 1.2:-15761030 None:intergenic
TGCCAGACGCCTTGCGATGT+CGG 0.560703 1.2:+15761058 MS.gene63021:CDS
TGTTCTTCTTCTTTGCAGGA+GGG 0.566427 1.2:+15760812 MS.gene63021:CDS
CTTCCTCCTCCGCCGTCCAG+CGG 0.567042 1.2:+15761024 MS.gene63021:CDS
CCACACCTGATTTCACCACC+TGG 0.568190 1.2:-15760852 None:intergenic
AACGTTGAACCACCGCTGGA+CGG 0.578481 1.2:-15761036 None:intergenic
CCAGGTGGTGAAATCAGGTG+TGG 0.601448 1.2:+15760852 MS.gene63021:CDS
ATCACAGTACCGACATCGCA+AGG 0.607291 1.2:-15761067 None:intergenic
CAGGTGGTGAAATCAGGTGT+GGG 0.626180 1.2:+15760853 MS.gene63021:CDS
TTCACGTTCTGTCCTTACTG+TGG 0.627118 1.2:+15761108 MS.gene63021:CDS
TGGTGAAATCAGGTGTGGGA+AGG 0.629446 1.2:+15760857 MS.gene63021:CDS
GTTGAACCACCGCTGGACGG+CGG 0.661244 1.2:-15761033 None:intergenic
AGAAAACCAGGTTCGCCAGG+TGG 0.662890 1.2:+15760837 MS.gene63021:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTTCTTCTTCTTTGCAGG+AGG + chr1.2:15760811-15760830 MS.gene63021:CDS 40.0%
TACAGTTGTTCACCACAGTA+AGG - chr1.2:15761123-15761142 None:intergenic 40.0%
TGTTCTTCTTCTTTGCAGGA+GGG + chr1.2:15760812-15760831 MS.gene63021:CDS 40.0%
TACAAGAGAGTTTCCTTCCC+TGG - chr1.2:15760964-15760983 None:intergenic 45.0%
TTCACGTTCTGTCCTTACTG+TGG + chr1.2:15761108-15761127 MS.gene63021:CDS 45.0%
! AGCTTTTCTTCGTTCCCGTT+TGG + chr1.2:15760932-15760951 MS.gene63021:CDS 45.0%
! TTTTCTTCGTTCCCGTTTGG+CGG + chr1.2:15760935-15760954 MS.gene63021:CDS 45.0%
CAGGTGGTGAAATCAGGTGT+GGG + chr1.2:15760853-15760872 MS.gene63021:CDS 50.0%
GTTAGAAAACCAGGTTCGCC+AGG + chr1.2:15760834-15760853 MS.gene63021:CDS 50.0%
TGCAGGAGGGTTAGAAAACC+AGG + chr1.2:15760825-15760844 MS.gene63021:CDS 50.0%
TGCGATGTCGGTACTGTGAT+CGG + chr1.2:15761070-15761089 MS.gene63021:CDS 50.0%
TGGTGAAATCAGGTGTGGGA+AGG + chr1.2:15760857-15760876 MS.gene63021:CDS 50.0%
!! ATCACAGTACCGACATCGCA+AGG - chr1.2:15761070-15761089 None:intergenic 50.0%
AACGTTGAACCACCGCTGGA+CGG - chr1.2:15761039-15761058 None:intergenic 55.0%
AGAAAACCAGGTTCGCCAGG+TGG + chr1.2:15760837-15760856 MS.gene63021:CDS 55.0%
ATTTCACCACCTGGCGAACC+TGG - chr1.2:15760846-15760865 None:intergenic 55.0%
CCACACCTGATTTCACCACC+TGG - chr1.2:15760855-15760874 None:intergenic 55.0%
CCAGGTGGTGAAATCAGGTG+TGG + chr1.2:15760852-15760871 MS.gene63021:CDS 55.0%
GGAGGAAGGGAATGCGATTG+AGG - chr1.2:15761012-15761031 None:intergenic 55.0%
GTTCGCCAGGTGGTGAAATC+AGG + chr1.2:15760847-15760866 MS.gene63021:CDS 55.0%
TCTTCGTTCCCGTTTGGCGG+TGG + chr1.2:15760938-15760957 MS.gene63021:CDS 60.0%
TGCCAGACGCCTTGCGATGT+CGG + chr1.2:15761058-15761077 MS.gene63021:CDS 60.0%
TGGCAACGTTGAACCACCGC+TGG - chr1.2:15761043-15761062 None:intergenic 60.0%
! TACCGACATCGCAAGGCGTC+TGG - chr1.2:15761063-15761082 None:intergenic 60.0%
CTTCCCTGGCCACCGCCAAA+CGG - chr1.2:15760950-15760969 None:intergenic 65.0%
GTTGAACCACCGCTGGACGG+CGG - chr1.2:15761036-15761055 None:intergenic 65.0%
TTCCCGTTTGGCGGTGGCCA+GGG + chr1.2:15760944-15760963 MS.gene63021:CDS 65.0%
TTCCCTGGCCACCGCCAAAC+GGG - chr1.2:15760949-15760968 None:intergenic 65.0%
CGTTTGGCGGTGGCCAGGGA+AGG + chr1.2:15760948-15760967 MS.gene63021:CDS 70.0%
CTTCCTCCTCCGCCGTCCAG+CGG + chr1.2:15761024-15761043 MS.gene63021:CDS 70.0%
GCTGGACGGCGGAGGAGGAA+GGG - chr1.2:15761025-15761044 None:intergenic 70.0%
GTTCCCGTTTGGCGGTGGCC+AGG + chr1.2:15760943-15760962 MS.gene63021:CDS 70.0%
CGCTGGACGGCGGAGGAGGA+AGG - chr1.2:15761026-15761045 None:intergenic 75.0%
GAACCACCGCTGGACGGCGG+AGG - chr1.2:15761033-15761052 None:intergenic 75.0%
! CCACCGCTGGACGGCGGAGG+AGG - chr1.2:15761030-15761049 None:intergenic 80.0%
! CCTCCTCCGCCGTCCAGCGG+TGG + chr1.2:15761027-15761046 MS.gene63021:CDS 80.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 15760811 15761143 15760811 ID=MS.gene63021
chr1.2 mRNA 15760811 15761143 15760811 ID=MS.gene63021.t1;Parent=MS.gene63021
chr1.2 exon 15760811 15761143 15760811 ID=MS.gene63021.t1.exon1;Parent=MS.gene63021.t1
chr1.2 CDS 15760811 15761143 15760811 ID=cds.MS.gene63021.t1;Parent=MS.gene63021.t1
Gene Sequence

>MS.gene63021

ATGTTCTTCTTCTTTGCAGGAGGGTTAGAAAACCAGGTTCGCCAGGTGGTGAAATCAGGTGTGGGAAGGTGCATCAACTGCAATTCACGCGCTGATCTTGTTGAATACGATAAAGTTCTGAAGCTTTTCTTCGTTCCCGTTTGGCGGTGGCCAGGGAAGGAAACTCTCTTGTATTGTCAAGACTGCAAGTTCATGTTTCCTCAATCGCATTCCCTTCCTCCTCCGCCGTCCAGCGGTGGTTCAACGTTGCCAGACGCCTTGCGATGTCGGTACTGTGATCGGAATGTAGCAGTTGATTTCACGTTCTGTCCTTACTGTGGTGAACAACTGTAA
Protein sequence

>MS.gene63021.t1

MFFFFAGGLENQVRQVVKSGVGRCINCNSRADLVEYDKVLKLFFVPVWRWPGKETLLYCQDCKFMFPQSHSLPPPPSSGGSTLPDALRCRYCDRNVAVDFTFCPYCGEQL