AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene026639

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026639.t1 MTR_1g029990 94.545 110 6 0 1 110 1 110 3.71e-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.gene026639.t1 AT1G44414 63.636 110 31 2 1 110 1 101 1.42e-44 140

Find 39 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGTTCTTCTTCTTTGC+AGG 0.269891 1.4:+15137079 None:intergenic
GTTCCCGTTTGGCGGTGGCC+AGG 0.363736 1.4:+15137214 MS.gene026639:CDS
CAGCGGTGGTTCAACGTTGC+CGG 0.378236 1.4:+15137312 MS.gene026639:CDS
GTTCGCCAGGTGGTGAAATC+AGG 0.405267 1.4:+15137118 MS.gene026639:CDS
TTCCCTGGCCACCGCCAAAC+GGG 0.406298 1.4:-15137217 None:intergenic
CTTCCCTGGCCACCGCCAAA+CGG 0.426962 1.4:-15137218 None:intergenic
CGCTGGACGGTGGCGGAGGA+AGG 0.439236 1.4:-15137294 None:intergenic
CCACCGCTGGACGGTGGCGG+AGG 0.442892 1.4:-15137298 None:intergenic
ATTTCACCACCTGGCGAACC+TGG 0.448778 1.4:-15137114 None:intergenic
TTCCCGTTTGGCGGTGGCCA+GGG 0.453465 1.4:+15137215 MS.gene026639:CDS
TGCGATGTCGGTACTGTGAT+CGG 0.460955 1.4:+15137341 MS.gene026639:CDS
TACCGACATCGCAAGGCATC+CGG 0.470871 1.4:-15137331 None:intergenic
TACAGTTGTTCACCACAGTA+AGG 0.478529 1.4:-15137391 None:intergenic
TGCAGGAGGGTTAGAAAACC+AGG 0.493973 1.4:+15137096 MS.gene026639:CDS
TACAAAAGAGTTTCCTTCCC+TGG 0.503579 1.4:-15137232 None:intergenic
GTTAGAAAACCAGGTTCGCC+AGG 0.505813 1.4:+15137105 MS.gene026639:CDS
TCTTCGTTCCCGTTTGGCGG+TGG 0.506122 1.4:+15137209 MS.gene026639:CDS
GAACCACCGCTGGACGGTGG+CGG 0.524000 1.4:-15137301 None:intergenic
GCTGGACGGTGGCGGAGGAA+GGG 0.524490 1.4:-15137293 None:intergenic
TGCCGGATGCCTTGCGATGT+CGG 0.525213 1.4:+15137329 MS.gene026639:CDS
CGTTTGGCGGTGGCCAGGGA+AGG 0.537051 1.4:+15137219 MS.gene026639:CDS
CGGCAACGTTGAACCACCGC+TGG 0.539612 1.4:-15137311 None:intergenic
ATGTTCTTCTTCTTTGCAGG+AGG 0.539886 1.4:+15137082 MS.gene026639:CDS
CTGTGATCGGAATGTGGCGG+CGG 0.559992 1.4:+15137354 MS.gene026639:CDS
CCTCCGCCACCGTCCAGCGG+TGG 0.562021 1.4:+15137298 MS.gene026639:CDS
TGTTCTTCTTCTTTGCAGGA+GGG 0.566427 1.4:+15137083 MS.gene026639:CDS
CCACACCTGATTTCACCACC+TGG 0.568190 1.4:-15137123 None:intergenic
GGAGGAAGGGAATAAGATTG+AGG 0.581424 1.4:-15137280 None:intergenic
AACGTTGAACCACCGCTGGA+CGG 0.589458 1.4:-15137307 None:intergenic
CCAGGTGGTGAAATCAGGTG+TGG 0.601448 1.4:+15137123 MS.gene026639:CDS
ATCACAGTACCGACATCGCA+AGG 0.607291 1.4:-15137338 None:intergenic
TTTACGTTCTGTCCTTACTG+TGG 0.617134 1.4:+15137379 MS.gene026639:CDS
CTTCCTCCGCCACCGTCCAG+CGG 0.621958 1.4:+15137295 MS.gene026639:CDS
CAGGTGGTGAAATCAGGTGT+GGG 0.626180 1.4:+15137124 MS.gene026639:CDS
TGGTGAAATCAGGTGTGGGA+AGG 0.629446 1.4:+15137128 MS.gene026639:CDS
TCGGTACTGTGATCGGAATG+TGG 0.638906 1.4:+15137348 MS.gene026639:CDS
GTTGAACCACCGCTGGACGG+TGG 0.643835 1.4:-15137304 None:intergenic
AGAAAACCAGGTTCGCCAGG+TGG 0.662890 1.4:+15137108 MS.gene026639:CDS
GTACTGTGATCGGAATGTGG+CGG 0.702683 1.4:+15137351 MS.gene026639:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTTCTTCTTCTTTGCAGG+AGG + chr1.4:15137082-15137101 MS.gene026639:CDS 40.0%
TACAAAAGAGTTTCCTTCCC+TGG - chr1.4:15137235-15137254 None:intergenic 40.0%
TACAGTTGTTCACCACAGTA+AGG - chr1.4:15137394-15137413 None:intergenic 40.0%
TGTTCTTCTTCTTTGCAGGA+GGG + chr1.4:15137083-15137102 MS.gene026639:CDS 40.0%
TTTACGTTCTGTCCTTACTG+TGG + chr1.4:15137379-15137398 MS.gene026639:CDS 40.0%
GGAGGAAGGGAATAAGATTG+AGG - chr1.4:15137283-15137302 None:intergenic 45.0%
! AGCTTTTCTTCGTTCCCGTT+TGG + chr1.4:15137203-15137222 MS.gene026639:CDS 45.0%
! TTTTCTTCGTTCCCGTTTGG+CGG + chr1.4:15137206-15137225 MS.gene026639:CDS 45.0%
CAGGTGGTGAAATCAGGTGT+GGG + chr1.4:15137124-15137143 MS.gene026639:CDS 50.0%
GTACTGTGATCGGAATGTGG+CGG + chr1.4:15137351-15137370 MS.gene026639:CDS 50.0%
GTTAGAAAACCAGGTTCGCC+AGG + chr1.4:15137105-15137124 MS.gene026639:CDS 50.0%
TCGGTACTGTGATCGGAATG+TGG + chr1.4:15137348-15137367 MS.gene026639:CDS 50.0%
TGCAGGAGGGTTAGAAAACC+AGG + chr1.4:15137096-15137115 MS.gene026639:CDS 50.0%
TGCGATGTCGGTACTGTGAT+CGG + chr1.4:15137341-15137360 MS.gene026639:CDS 50.0%
TGGTGAAATCAGGTGTGGGA+AGG + chr1.4:15137128-15137147 MS.gene026639:CDS 50.0%
!! ATCACAGTACCGACATCGCA+AGG - chr1.4:15137341-15137360 None:intergenic 50.0%
AACGTTGAACCACCGCTGGA+CGG - chr1.4:15137310-15137329 None:intergenic 55.0%
AGAAAACCAGGTTCGCCAGG+TGG + chr1.4:15137108-15137127 MS.gene026639:CDS 55.0%
ATTTCACCACCTGGCGAACC+TGG - chr1.4:15137117-15137136 None:intergenic 55.0%
CCACACCTGATTTCACCACC+TGG - chr1.4:15137126-15137145 None:intergenic 55.0%
CCAGGTGGTGAAATCAGGTG+TGG + chr1.4:15137123-15137142 MS.gene026639:CDS 55.0%
GTTCGCCAGGTGGTGAAATC+AGG + chr1.4:15137118-15137137 MS.gene026639:CDS 55.0%
! TACCGACATCGCAAGGCATC+CGG - chr1.4:15137334-15137353 None:intergenic 55.0%
CAGCGGTGGTTCAACGTTGC+CGG + chr1.4:15137312-15137331 MS.gene026639:CDS 60.0%
CTGTGATCGGAATGTGGCGG+CGG + chr1.4:15137354-15137373 MS.gene026639:CDS 60.0%
TCTTCGTTCCCGTTTGGCGG+TGG + chr1.4:15137209-15137228 MS.gene026639:CDS 60.0%
TGCCGGATGCCTTGCGATGT+CGG + chr1.4:15137329-15137348 MS.gene026639:CDS 60.0%
CGGCAACGTTGAACCACCGC+TGG - chr1.4:15137314-15137333 None:intergenic 65.0%
CTTCCCTGGCCACCGCCAAA+CGG - chr1.4:15137221-15137240 None:intergenic 65.0%
GTTGAACCACCGCTGGACGG+TGG - chr1.4:15137307-15137326 None:intergenic 65.0%
TTCCCGTTTGGCGGTGGCCA+GGG + chr1.4:15137215-15137234 MS.gene026639:CDS 65.0%
TTCCCTGGCCACCGCCAAAC+GGG - chr1.4:15137220-15137239 None:intergenic 65.0%
CGTTTGGCGGTGGCCAGGGA+AGG + chr1.4:15137219-15137238 MS.gene026639:CDS 70.0%
CTTCCTCCGCCACCGTCCAG+CGG + chr1.4:15137295-15137314 MS.gene026639:CDS 70.0%
GAACCACCGCTGGACGGTGG+CGG - chr1.4:15137304-15137323 None:intergenic 70.0%
GTTCCCGTTTGGCGGTGGCC+AGG + chr1.4:15137214-15137233 MS.gene026639:CDS 70.0%
!! GCTGGACGGTGGCGGAGGAA+GGG - chr1.4:15137296-15137315 None:intergenic 70.0%
!! CGCTGGACGGTGGCGGAGGA+AGG - chr1.4:15137297-15137316 None:intergenic 75.0%
! CCTCCGCCACCGTCCAGCGG+TGG + chr1.4:15137298-15137317 MS.gene026639:CDS 80.0%
!! CCACCGCTGGACGGTGGCGG+AGG - chr1.4:15137301-15137320 None:intergenic 80.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 15137082 15137414 15137082 ID=MS.gene026639
chr1.4 mRNA 15137082 15137414 15137082 ID=MS.gene026639.t1;Parent=MS.gene026639
chr1.4 exon 15137082 15137414 15137082 ID=MS.gene026639.t1.exon1;Parent=MS.gene026639.t1
chr1.4 CDS 15137082 15137414 15137082 ID=cds.MS.gene026639.t1;Parent=MS.gene026639.t1
Gene Sequence

>MS.gene026639

ATGTTCTTCTTCTTTGCAGGAGGGTTAGAAAACCAGGTTCGCCAGGTGGTGAAATCAGGTGTGGGAAGGTGCATCAACTGCAATTCACGCGCTGATCTTGTTGAATACGATAAAGTTCTGAAGCTTTTCTTCGTTCCCGTTTGGCGGTGGCCAGGGAAGGAAACTCTTTTGTATTGTCAAGACTGCAAGTTCATATTTCCTCAATCTTATTCCCTTCCTCCGCCACCGTCCAGCGGTGGTTCAACGTTGCCGGATGCCTTGCGATGTCGGTACTGTGATCGGAATGTGGCGGCGGATTTTACGTTCTGTCCTTACTGTGGTGAACAACTGTAA
Protein sequence

>MS.gene026639.t1

MFFFFAGGLENQVRQVVKSGVGRCINCNSRADLVEYDKVLKLFFVPVWRWPGKETLLYCQDCKFIFPQSYSLPPPPSSGGSTLPDALRCRYCDRNVAADFTFCPYCGEQL