AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene89965

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene89965.t1 MTR_4g055920 92.683 82 6 0 12 93 185 266 3.36e-48 164
MS.gene89965.t1 MTR_2g084615 71.429 91 26 0 3 93 154 244 5.17e-38 135
MS.gene89965.t1 MTR_4g055910 91.525 59 5 0 1 59 70 128 1.14e-32 111
MS.gene89965.t1 MTR_2g084620 68.293 82 26 0 12 93 180 261 1.11e-31 117
MS.gene89965.t1 MTR_2g084620 68.293 82 26 0 12 93 180 261 1.75e-31 117
MS.gene89965.t1 MTR_4g076180 47.191 89 47 0 5 93 489 577 2.24e-20 85.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene89965.t1 AT5G22760 63.043 92 34 0 2 93 168 259 1.82e-35 128
MS.gene89965.t1 AT5G22760 63.043 92 34 0 2 93 168 259 1.88e-35 128
MS.gene89965.t1 AT5G35210 62.195 82 31 0 12 93 184 265 3.22e-30 113
MS.gene89965.t1 AT5G35210 62.195 82 31 0 12 93 184 265 7.72e-29 109
MS.gene89965.t1 AT5G12400 43.956 91 51 0 3 93 395 485 7.36e-19 81.3

Find 28 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAATTCATCCAAAGTAAA+TGG 0.252438 4.2:-47754025 None:intergenic
TCACATCTCCTATCTGTATA+TGG 0.258148 4.2:+47753965 MS.gene89965:CDS
ATTCTGTATTTGGTGGTTAA+TGG 0.284613 4.2:+47754230 MS.gene89965:CDS
TGCATCACAATGTTTATTAC+AGG 0.296822 4.2:+47754159 MS.gene89965:CDS
TGTTTGGCCCTTGATAATTC+AGG 0.340039 4.2:-47754054 None:intergenic
GTTTCTTCATCCATTTACTT+TGG 0.414419 4.2:+47754015 MS.gene89965:CDS
TTTATTACAGGTGCAAAGAA+TGG 0.426482 4.2:+47754171 MS.gene89965:CDS
TTTACTTTGGATGAATTTGT+TGG 0.439674 4.2:+47754028 MS.gene89965:CDS
TTGCATTTGTCGCCATCGTC+CGG 0.440498 4.2:+47753914 MS.gene89965:CDS
CACATCTCCTATCTGTATAT+GGG 0.448254 4.2:+47753966 MS.gene89965:CDS
GTTGGTGCCCTGAATTATCA+AGG 0.460690 4.2:+47754046 MS.gene89965:CDS
CTTAGGCACACCGATAGTTC+CGG 0.476815 4.2:-47753933 None:intergenic
GTTTGGCCCTTGATAATTCA+GGG 0.490294 4.2:-47754053 None:intergenic
AAATGCAACGGCGGAGGCAA+AGG 0.490425 4.2:-47753899 None:intergenic
ACTACGTCAAACAAAGTGTT+TGG 0.500116 4.2:-47754070 None:intergenic
AGTTCACATTTCTCTGATGC+GGG 0.528734 4.2:+47754090 MS.gene89965:CDS
GGCGACAAATGCAACGGCGG+AGG 0.529494 4.2:-47753905 None:intergenic
AGATGTGAGACACTCGGCTT+AGG 0.530667 4.2:-47753950 None:intergenic
TAGTTCACATTTCTCTGATG+CGG 0.532155 4.2:+47754089 MS.gene89965:CDS
TAAATGGATGAAGAAACAAT+CGG 0.532907 4.2:-47754009 None:intergenic
TCGCCATCGTCCGGAACTAT+CGG 0.533089 4.2:+47753923 MS.gene89965:CDS
TTTCTCTGATGCGGGTGTTG+AGG 0.543481 4.2:+47754098 MS.gene89965:CDS
AAATGGATGAAGAAACAATC+GGG 0.558564 4.2:-47754008 None:intergenic
TTGGTGCCCTGAATTATCAA+GGG 0.588615 4.2:+47754047 MS.gene89965:CDS
GACGATGGCGACAAATGCAA+CGG 0.607184 4.2:-47753911 None:intergenic
GATAGGAGATGTGAGACACT+CGG 0.668003 4.2:-47753956 None:intergenic
ACACCGATAGTTCCGGACGA+TGG 0.681888 4.2:-47753926 None:intergenic
GATGGCGACAAATGCAACGG+CGG 0.702395 4.2:-47753908 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACAAATTCATCCAAAGTAAA+TGG - chr4.2:47754028-47754047 None:intergenic 25.0%
! TAAATGGATGAAGAAACAAT+CGG - chr4.2:47754012-47754031 None:intergenic 25.0%
! TTTACTTTGGATGAATTTGT+TGG + chr4.2:47754028-47754047 MS.gene89965:CDS 25.0%
!!! TGTTTTTGTGATTCTGTATT+TGG + chr4.2:47754220-47754239 MS.gene89965:CDS 25.0%
AAATGGATGAAGAAACAATC+GGG - chr4.2:47754011-47754030 None:intergenic 30.0%
GTTTCTTCATCCATTTACTT+TGG + chr4.2:47754015-47754034 MS.gene89965:CDS 30.0%
TCAAAAACCCATATACAGAT+AGG - chr4.2:47753976-47753995 None:intergenic 30.0%
TGCATCACAATGTTTATTAC+AGG + chr4.2:47754159-47754178 MS.gene89965:CDS 30.0%
TTTATTACAGGTGCAAAGAA+TGG + chr4.2:47754171-47754190 MS.gene89965:CDS 30.0%
! TTTTGTGATTCTGTATTTGG+TGG + chr4.2:47754223-47754242 MS.gene89965:CDS 30.0%
CACATCTCCTATCTGTATAT+GGG + chr4.2:47753966-47753985 MS.gene89965:CDS 35.0%
TAGTTCACATTTCTCTGATG+CGG + chr4.2:47754089-47754108 MS.gene89965:CDS 35.0%
TCACATCTCCTATCTGTATA+TGG + chr4.2:47753965-47753984 MS.gene89965:CDS 35.0%
! ACTACGTCAAACAAAGTGTT+TGG - chr4.2:47754073-47754092 None:intergenic 35.0%
AGTTCACATTTCTCTGATGC+GGG + chr4.2:47754090-47754109 MS.gene89965:CDS 40.0%
! GTTTGGCCCTTGATAATTCA+GGG - chr4.2:47754056-47754075 None:intergenic 40.0%
! TGTTTGGCCCTTGATAATTC+AGG - chr4.2:47754057-47754076 None:intergenic 40.0%
! TTGGTGCCCTGAATTATCAA+GGG + chr4.2:47754047-47754066 MS.gene89965:CDS 40.0%
GATAGGAGATGTGAGACACT+CGG - chr4.2:47753959-47753978 None:intergenic 45.0%
! GTTGGTGCCCTGAATTATCA+AGG + chr4.2:47754046-47754065 MS.gene89965:CDS 45.0%
AGATGTGAGACACTCGGCTT+AGG - chr4.2:47753953-47753972 None:intergenic 50.0%
CTTAGGCACACCGATAGTTC+CGG - chr4.2:47753936-47753955 None:intergenic 50.0%
GACGATGGCGACAAATGCAA+CGG - chr4.2:47753914-47753933 None:intergenic 50.0%
TTGCATTTGTCGCCATCGTC+CGG + chr4.2:47753914-47753933 MS.gene89965:CDS 50.0%
! TTTCTCTGATGCGGGTGTTG+AGG + chr4.2:47754098-47754117 MS.gene89965:CDS 50.0%
AAATGCAACGGCGGAGGCAA+AGG - chr4.2:47753902-47753921 None:intergenic 55.0%
ACACCGATAGTTCCGGACGA+TGG - chr4.2:47753929-47753948 None:intergenic 55.0%
GATGGCGACAAATGCAACGG+CGG - chr4.2:47753911-47753930 None:intergenic 55.0%
TCGCCATCGTCCGGAACTAT+CGG + chr4.2:47753923-47753942 MS.gene89965:CDS 55.0%
GGCGACAAATGCAACGGCGG+AGG - chr4.2:47753908-47753927 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 47753896 47754249 47753896 ID=MS.gene89965
chr4.2 mRNA 47753896 47754249 47753896 ID=MS.gene89965.t1;Parent=MS.gene89965
chr4.2 exon 47753896 47754249 47753896 ID=MS.gene89965.t1.exon1;Parent=MS.gene89965.t1
chr4.2 CDS 47753896 47754249 47753896 ID=cds.MS.gene89965.t1;Parent=MS.gene89965.t1
Gene Sequence

>MS.gene89965

ATGCCTTTGCCTCCGCCGTTGCATTTGTCGCCATCGTCCGGAACTATCGGTGTGCCTAAGCCGAGTGTCTCACATCTCCTATCTGTATATGGGTTTTTGAGATCGTTCAGCACCCGATTGTTTCTTCATCCATTTACTTTGGATGAATTTGTTGGTGCCCTGAATTATCAAGGGCCAAACACTTTGTTTGACGTAGTTCACATTTCTCTGATGCGGGTGTTGAGGCGTCATCTTGAAAGCTTGTCGTCTGATGAGTTTGAGCTTGCATCACAATGTTTATTACAGGTGCAAAGAATGGAGCTTGCTCGATACGATGACTCAGTCTGTTTTTGTGATTCTGTATTTGGTGGTTAA
Protein sequence

>MS.gene89965.t1

MPLPPPLHLSPSSGTIGVPKPSVSHLLSVYGFLRSFSTRLFLHPFTLDEFVGALNYQGPNTLFDVVHISLMRVLRRHLESLSSDEFELASQCLLQVQRMELARYDDSVCFCDSVFGG