AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33604

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33604.t1 MTR_1g029990 96.364 110 4 0 1 110 1 110 3.52e-78 225
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33604.t1 AT1G44414 63.636 110 31 2 1 110 1 101 2.00e-44 140

Find 37 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGTTCTTCTTCTTTGC+AGG 0.269891 1.1:+15814954 None:intergenic
GTTCCCGTTTGGCGGTGGCC+AGG 0.363736 1.1:+15815089 MS.gene33604:CDS
CCACCGCTGGACGGCGGAGG+AGG 0.404658 1.1:-15815173 None:intergenic
TTCCCTGGCCACCGCCAAAC+GGG 0.406298 1.1:-15815092 None:intergenic
CAGCGGTGGTTCAACGTTGC+CGG 0.408381 1.1:+15815187 MS.gene33604:CDS
CTTCCCTGGCCACCGCCAAA+CGG 0.426962 1.1:-15815093 None:intergenic
GTTCGCCAGGTGGTGAAATC+CGG 0.430423 1.1:+15814993 MS.gene33604:CDS
TACCGACATCGCAAGGCGTC+CGG 0.450518 1.1:-15815206 None:intergenic
TTCCCGTTTGGCGGTGGCCA+GGG 0.453465 1.1:+15815090 MS.gene33604:CDS
TGCGATGTCGGTACTGTGAT+CGG 0.460955 1.1:+15815216 MS.gene33604:CDS
ATTTCACCACCTGGCGAACC+TGG 0.465030 1.1:-15814989 None:intergenic
CGCTGGACGGCGGAGGAGGA+AGG 0.466799 1.1:-15815169 None:intergenic
TACAGTTGTTCACCACAGTA+AGG 0.478529 1.1:-15815266 None:intergenic
TACAAGAGAGTTTCCTTCCC+TGG 0.491912 1.1:-15815107 None:intergenic
TGCAGGAGGGTTAGAAAACC+AGG 0.493973 1.1:+15814971 MS.gene33604:CDS
GTTAGAAAACCAGGTTCGCC+AGG 0.505813 1.1:+15814980 MS.gene33604:CDS
TCTTCGTTCCCGTTTGGCGG+TGG 0.506122 1.1:+15815084 MS.gene33604:CDS
GCTGGACGGCGGAGGAGGAA+GGG 0.512715 1.1:-15815168 None:intergenic
TGCCGGACGCCTTGCGATGT+CGG 0.520259 1.1:+15815204 MS.gene33604:CDS
GGAGGAAGGGAATGCGATTG+AGG 0.522381 1.1:-15815155 None:intergenic
CGTTTGGCGGTGGCCAGGGA+AGG 0.537051 1.1:+15815094 MS.gene33604:CDS
CGGCAACGTTGAACCACCGC+TGG 0.537592 1.1:-15815186 None:intergenic
ATGTTCTTCTTCTTTGCAGG+AGG 0.539886 1.1:+15814957 MS.gene33604:CDS
CCTCCTCCGCCGTCCAGCGG+TGG 0.540963 1.1:+15815173 MS.gene33604:CDS
GAACCACCGCTGGACGGCGG+AGG 0.546537 1.1:-15815176 None:intergenic
TGTTCTTCTTCTTTGCAGGA+GGG 0.566427 1.1:+15814958 MS.gene33604:CDS
CTTCCTCCTCCGCCGTCCAG+CGG 0.567042 1.1:+15815170 MS.gene33604:CDS
AACGTTGAACCACCGCTGGA+CGG 0.580920 1.1:-15815182 None:intergenic
CTACACCGGATTTCACCACC+TGG 0.599868 1.1:-15814998 None:intergenic
CAGGTGGTGAAATCCGGTGT+AGG 0.607010 1.1:+15814999 MS.gene33604:CDS
ATCACAGTACCGACATCGCA+AGG 0.607291 1.1:-15815213 None:intergenic
GTTGATGCATCTTCCTACAC+CGG 0.615709 1.1:-15815012 None:intergenic
TTCACGTTCTGTCCTTACTG+TGG 0.627118 1.1:+15815254 MS.gene33604:CDS
TCGGTACTGTGATCGGAATG+TGG 0.638906 1.1:+15815223 MS.gene33604:CDS
GTTGAACCACCGCTGGACGG+CGG 0.661244 1.1:-15815179 None:intergenic
AGAAAACCAGGTTCGCCAGG+TGG 0.662890 1.1:+15814983 MS.gene33604:CDS
GTACTGTGATCGGAATGTGG+CGG 0.737155 1.1:+15815226 MS.gene33604:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTTCTTCTTCTTTGCAGG+AGG + chr1.1:15814957-15814976 MS.gene33604:CDS 40.0%
TACAGTTGTTCACCACAGTA+AGG - chr1.1:15815269-15815288 None:intergenic 40.0%
TGTTCTTCTTCTTTGCAGGA+GGG + chr1.1:15814958-15814977 MS.gene33604:CDS 40.0%
GTTGATGCATCTTCCTACAC+CGG - chr1.1:15815015-15815034 None:intergenic 45.0%
TACAAGAGAGTTTCCTTCCC+TGG - chr1.1:15815110-15815129 None:intergenic 45.0%
TTCACGTTCTGTCCTTACTG+TGG + chr1.1:15815254-15815273 MS.gene33604:CDS 45.0%
! AGCTTTTCTTCGTTCCCGTT+TGG + chr1.1:15815078-15815097 MS.gene33604:CDS 45.0%
! TTTTCTTCGTTCCCGTTTGG+CGG + chr1.1:15815081-15815100 MS.gene33604:CDS 45.0%
GTACTGTGATCGGAATGTGG+CGG + chr1.1:15815226-15815245 MS.gene33604:CDS 50.0%
GTTAGAAAACCAGGTTCGCC+AGG + chr1.1:15814980-15814999 MS.gene33604:CDS 50.0%
TCGGTACTGTGATCGGAATG+TGG + chr1.1:15815223-15815242 MS.gene33604:CDS 50.0%
TGCAGGAGGGTTAGAAAACC+AGG + chr1.1:15814971-15814990 MS.gene33604:CDS 50.0%
TGCGATGTCGGTACTGTGAT+CGG + chr1.1:15815216-15815235 MS.gene33604:CDS 50.0%
!! ATCACAGTACCGACATCGCA+AGG - chr1.1:15815216-15815235 None:intergenic 50.0%
AACGTTGAACCACCGCTGGA+CGG - chr1.1:15815185-15815204 None:intergenic 55.0%
AGAAAACCAGGTTCGCCAGG+TGG + chr1.1:15814983-15815002 MS.gene33604:CDS 55.0%
ATTTCACCACCTGGCGAACC+TGG - chr1.1:15814992-15815011 None:intergenic 55.0%
CAGGTGGTGAAATCCGGTGT+AGG + chr1.1:15814999-15815018 MS.gene33604:CDS 55.0%
CTACACCGGATTTCACCACC+TGG - chr1.1:15815001-15815020 None:intergenic 55.0%
GGAGGAAGGGAATGCGATTG+AGG - chr1.1:15815158-15815177 None:intergenic 55.0%
GTTCGCCAGGTGGTGAAATC+CGG + chr1.1:15814993-15815012 MS.gene33604:CDS 55.0%
CAGCGGTGGTTCAACGTTGC+CGG + chr1.1:15815187-15815206 MS.gene33604:CDS 60.0%
TCTTCGTTCCCGTTTGGCGG+TGG + chr1.1:15815084-15815103 MS.gene33604:CDS 60.0%
! TACCGACATCGCAAGGCGTC+CGG - chr1.1:15815209-15815228 None:intergenic 60.0%
CGGCAACGTTGAACCACCGC+TGG - chr1.1:15815189-15815208 None:intergenic 65.0%
CTTCCCTGGCCACCGCCAAA+CGG - chr1.1:15815096-15815115 None:intergenic 65.0%
GTTGAACCACCGCTGGACGG+CGG - chr1.1:15815182-15815201 None:intergenic 65.0%
TGCCGGACGCCTTGCGATGT+CGG + chr1.1:15815204-15815223 MS.gene33604:CDS 65.0%
TTCCCGTTTGGCGGTGGCCA+GGG + chr1.1:15815090-15815109 MS.gene33604:CDS 65.0%
TTCCCTGGCCACCGCCAAAC+GGG - chr1.1:15815095-15815114 None:intergenic 65.0%
CGTTTGGCGGTGGCCAGGGA+AGG + chr1.1:15815094-15815113 MS.gene33604:CDS 70.0%
CTTCCTCCTCCGCCGTCCAG+CGG + chr1.1:15815170-15815189 MS.gene33604:CDS 70.0%
GCTGGACGGCGGAGGAGGAA+GGG - chr1.1:15815171-15815190 None:intergenic 70.0%
GTTCCCGTTTGGCGGTGGCC+AGG + chr1.1:15815089-15815108 MS.gene33604:CDS 70.0%
CGCTGGACGGCGGAGGAGGA+AGG - chr1.1:15815172-15815191 None:intergenic 75.0%
GAACCACCGCTGGACGGCGG+AGG - chr1.1:15815179-15815198 None:intergenic 75.0%
! CCACCGCTGGACGGCGGAGG+AGG - chr1.1:15815176-15815195 None:intergenic 80.0%
! CCTCCTCCGCCGTCCAGCGG+TGG + chr1.1:15815173-15815192 MS.gene33604:CDS 80.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 15814957 15815289 15814957 ID=MS.gene33604
chr1.1 mRNA 15814957 15815289 15814957 ID=MS.gene33604.t1;Parent=MS.gene33604
chr1.1 exon 15814957 15815289 15814957 ID=MS.gene33604.t1.exon1;Parent=MS.gene33604.t1
chr1.1 CDS 15814957 15815289 15814957 ID=cds.MS.gene33604.t1;Parent=MS.gene33604.t1
Gene Sequence

>MS.gene33604

ATGTTCTTCTTCTTTGCAGGAGGGTTAGAAAACCAGGTTCGCCAGGTGGTGAAATCCGGTGTAGGAAGATGCATCAACTGCAATTCACGCGCTGATCTTGTTGAATACGATAAAGTTCTGAAGCTTTTCTTCGTTCCCGTTTGGCGGTGGCCAGGGAAGGAAACTCTCTTGTATTGTCAAGACTGCAAGTTCATGTTTCCTCAATCGCATTCCCTTCCTCCTCCGCCGTCCAGCGGTGGTTCAACGTTGCCGGACGCCTTGCGATGTCGGTACTGTGATCGGAATGTGGCGGCTGATTTCACGTTCTGTCCTTACTGTGGTGAACAACTGTAA
Protein sequence

>MS.gene33604.t1

MFFFFAGGLENQVRQVVKSGVGRCINCNSRADLVEYDKVLKLFFVPVWRWPGKETLLYCQDCKFMFPQSHSLPPPPSSGGSTLPDALRCRYCDRNVAADFTFCPYCGEQL