AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88373

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88373.t1 MTR_2g081000 94.872 117 6 0 1 117 1 117 1.82e-65 207
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 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCGCGCCTCTTTCCGCTTC+CGG 0.265737 2.3:+17393091 MS.gene88373:CDS
GGGAGTTTAGGGAAGGGTTT+TGG 0.293170 2.3:-17392950 None:intergenic
TACGGAGGAGAGGGAGTTTA+GGG 0.300913 2.3:-17392961 None:intergenic
TTACGGAGGAGAGGGAGTTT+AGG 0.308680 2.3:-17392962 None:intergenic
GAAGGGATGGATGAGTTCAT+TGG 0.350804 2.3:-17392914 None:intergenic
CCGTATTTACCTTTCATAAC+CGG 0.395087 2.3:-17393124 None:intergenic
CCGTTCAAGCAGCGAGGAAC+CGG 0.396666 2.3:-17393053 None:intergenic
CATAACCGGATTAATGTTAC+CGG 0.413040 2.3:-17393110 None:intergenic
GAAGCGGAAAGAGGCGCGGC+CGG 0.424508 2.3:-17393088 None:intergenic
AAAGGTAAATACGGTGCGTT+TGG 0.441403 2.3:+17393133 MS.gene88373:CDS
CGCTTCCGGTAACATTAATC+CGG 0.441871 2.3:+17393105 MS.gene88373:CDS
CCGGTTCCTCGCTGCTTGAA+CGG 0.442423 2.3:+17393053 MS.gene88373:CDS
AAGGGATGGATGAGTTCATT+GGG 0.454914 2.3:-17392913 None:intergenic
CGGATTAATGTTACCGGAAG+CGG 0.470374 2.3:-17393104 None:intergenic
CAAGACGGCGGTGACGGTTA+CGG 0.473141 2.3:-17392979 None:intergenic
TGAACGGTGTTTCGCTGCTC+CGG 0.487700 2.3:+17393069 MS.gene88373:CDS
CCGGTTATGAAAGGTAAATA+CGG 0.497596 2.3:+17393124 MS.gene88373:CDS
CGGGAGAAGCGGACCACGAT+CGG 0.509858 2.3:-17393006 None:intergenic
GAGGAGAGGGAGTTTAGGGA+AGG 0.512666 2.3:-17392957 None:intergenic
ATATCGCTGTCGACATCGGC+GGG 0.513440 2.3:-17393025 None:intergenic
ATGTTACCGGAAGCGGAAAG+AGG 0.528493 2.3:-17393097 None:intergenic
AACATTAATCCGGTTATGAA+AGG 0.530557 2.3:+17393115 MS.gene88373:CDS
AGGAGAGGGAGTTTAGGGAA+GGG 0.533110 2.3:-17392956 None:intergenic
GTCGACAGCGATATTTCCTC+CGG 0.540129 2.3:+17393034 MS.gene88373:CDS
GTCGACATCGGCGGGAGAAG+CGG 0.545373 2.3:-17393017 None:intergenic
CTTCGATTTCTCGAGCGTAA+CGG 0.550925 2.3:-17393158 None:intergenic
GGAAATATCGCTGTCGACAT+CGG 0.555376 2.3:-17393029 None:intergenic
GGATAACAAGACGGCGGTGA+CGG 0.559797 2.3:-17392985 None:intergenic
AAAGAAATATGACAAACCTC+AGG 0.569697 2.3:-17393217 None:intergenic
GGTGACGGTTACGGAGGAGA+GGG 0.577402 2.3:-17392970 None:intergenic
GGATGGATGAGTTCATTGGG+AGG 0.588310 2.3:-17392910 None:intergenic
AAGTAACAAGTCTGCGCCTG+AGG 0.601985 2.3:+17393201 MS.gene88373:CDS
CGGTGACGGTTACGGAGGAG+AGG 0.603340 2.3:-17392971 None:intergenic
TTCAAGCAGCGAGGAACCGG+AGG 0.621943 2.3:-17393050 None:intergenic
AATATCGCTGTCGACATCGG+CGG 0.624159 2.3:-17393026 None:intergenic
ACCGGAAGCGGAAAGAGGCG+CGG 0.630373 2.3:-17393092 None:intergenic
GACGGCGGTGACGGTTACGG+AGG 0.646221 2.3:-17392976 None:intergenic
GCCGTCTTGTTATCCGATCG+TGG 0.647592 2.3:+17392993 MS.gene88373:CDS
ACCACGATCGGATAACAAGA+CGG 0.656119 2.3:-17392994 None:intergenic
GAAACACCGTTCAAGCAGCG+AGG 0.728116 2.3:-17393059 None:intergenic
ACGATCGGATAACAAGACGG+CGG 0.806476 2.3:-17392991 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAGAAATATGACAAACCTC+AGG - chr2.3:17393220-17393239 None:intergenic 30.0%
AACATTAATCCGGTTATGAA+AGG + chr2.3:17393115-17393134 MS.gene88373:CDS 30.0%
!!! TTGGTGATAAGGTTTTAGAA+GGG - chr2.3:17392934-17392953 None:intergenic 30.0%
!!! TTTGGTGATAAGGTTTTAGA+AGG - chr2.3:17392935-17392954 None:intergenic 30.0%
CATAACCGGATTAATGTTAC+CGG - chr2.3:17393113-17393132 None:intergenic 35.0%
CCGGTTATGAAAGGTAAATA+CGG + chr2.3:17393124-17393143 MS.gene88373:CDS 35.0%
CCGTATTTACCTTTCATAAC+CGG - chr2.3:17393127-17393146 None:intergenic 35.0%
!!! TGATAAGGTTTTAGAAGGGA+TGG - chr2.3:17392930-17392949 None:intergenic 35.0%
AAAGGTAAATACGGTGCGTT+TGG + chr2.3:17393133-17393152 MS.gene88373:CDS 40.0%
AAGGGATGGATGAGTTCATT+GGG - chr2.3:17392916-17392935 None:intergenic 40.0%
ACCACGATCGGATAACAAGA+CGG - chr2.3:17392997-17393016 None:intergenic 45.0%
CGCTTCCGGTAACATTAATC+CGG + chr2.3:17393105-17393124 MS.gene88373:CDS 45.0%
CGGATTAATGTTACCGGAAG+CGG - chr2.3:17393107-17393126 None:intergenic 45.0%
CTTCGATTTCTCGAGCGTAA+CGG - chr2.3:17393161-17393180 None:intergenic 45.0%
GAAGGGATGGATGAGTTCAT+TGG - chr2.3:17392917-17392936 None:intergenic 45.0%
GGAAATATCGCTGTCGACAT+CGG - chr2.3:17393032-17393051 None:intergenic 45.0%
!! AGGGAAGGGTTTTGGTGATA+AGG - chr2.3:17392945-17392964 None:intergenic 45.0%
AAGTAACAAGTCTGCGCCTG+AGG + chr2.3:17393201-17393220 MS.gene88373:CDS 50.0%
AATATCGCTGTCGACATCGG+CGG - chr2.3:17393029-17393048 None:intergenic 50.0%
ACGATCGGATAACAAGACGG+CGG - chr2.3:17392994-17393013 None:intergenic 50.0%
AGGAGAGGGAGTTTAGGGAA+GGG - chr2.3:17392959-17392978 None:intergenic 50.0%
ATGTTACCGGAAGCGGAAAG+AGG - chr2.3:17393100-17393119 None:intergenic 50.0%
GGATGGATGAGTTCATTGGG+AGG - chr2.3:17392913-17392932 None:intergenic 50.0%
GTCGACAGCGATATTTCCTC+CGG + chr2.3:17393034-17393053 MS.gene88373:CDS 50.0%
TACGGAGGAGAGGGAGTTTA+GGG - chr2.3:17392964-17392983 None:intergenic 50.0%
TTACGGAGGAGAGGGAGTTT+AGG - chr2.3:17392965-17392984 None:intergenic 50.0%
! GGGAGTTTAGGGAAGGGTTT+TGG - chr2.3:17392953-17392972 None:intergenic 50.0%
ATATCGCTGTCGACATCGGC+GGG - chr2.3:17393028-17393047 None:intergenic 55.0%
GAAACACCGTTCAAGCAGCG+AGG - chr2.3:17393062-17393081 None:intergenic 55.0%
GAGGAGAGGGAGTTTAGGGA+AGG - chr2.3:17392960-17392979 None:intergenic 55.0%
GGATAACAAGACGGCGGTGA+CGG - chr2.3:17392988-17393007 None:intergenic 55.0%
TGAACGGTGTTTCGCTGCTC+CGG + chr2.3:17393069-17393088 MS.gene88373:CDS 55.0%
! GCCGTCTTGTTATCCGATCG+TGG + chr2.3:17392993-17393012 MS.gene88373:CDS 55.0%
CCGGTTCCTCGCTGCTTGAA+CGG + chr2.3:17393053-17393072 MS.gene88373:CDS 60.0%
CCGTTCAAGCAGCGAGGAAC+CGG - chr2.3:17393056-17393075 None:intergenic 60.0%
TTCAAGCAGCGAGGAACCGG+AGG - chr2.3:17393053-17393072 None:intergenic 60.0%
! CAAGACGGCGGTGACGGTTA+CGG - chr2.3:17392982-17393001 None:intergenic 60.0%
! GGTGACGGTTACGGAGGAGA+GGG - chr2.3:17392973-17392992 None:intergenic 60.0%
ACCGGAAGCGGAAAGAGGCG+CGG - chr2.3:17393095-17393114 None:intergenic 65.0%
CGGGAGAAGCGGACCACGAT+CGG - chr2.3:17393009-17393028 None:intergenic 65.0%
GTCGACATCGGCGGGAGAAG+CGG - chr2.3:17393020-17393039 None:intergenic 65.0%
! CGGTGACGGTTACGGAGGAG+AGG - chr2.3:17392974-17392993 None:intergenic 65.0%
GCCGCGCCTCTTTCCGCTTC+CGG + chr2.3:17393091-17393110 MS.gene88373:CDS 70.0%
! GAAGCGGAAAGAGGCGCGGC+CGG - chr2.3:17393091-17393110 None:intergenic 70.0%
! GACGGCGGTGACGGTTACGG+AGG - chr2.3:17392979-17392998 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 17392875 17393252 17392875 ID=MS.gene88373
chr2.3 mRNA 17392875 17393252 17392875 ID=MS.gene88373.t1;Parent=MS.gene88373
chr2.3 exon 17392875 17393252 17392875 ID=MS.gene88373.t1.exon1;Parent=MS.gene88373.t1
chr2.3 CDS 17392875 17393252 17392875 ID=cds.MS.gene88373.t1;Parent=MS.gene88373.t1
Gene Sequence

>MS.gene88373

ATGTCGTCTCACGCGCTGTTTCAAGCAGCGCAAATCCTCCCAATGAACTCATCCATCCCTTCTAAAACCTTATCACCAAAACCCTTCCCTAAACTCCCTCTCCTCCGTAACCGTCACCGCCGTCTTGTTATCCGATCGTGGTCCGCTTCTCCCGCCGATGTCGACAGCGATATTTCCTCCGGTTCCTCGCTGCTTGAACGGTGTTTCGCTGCTCCGGCCGCGCCTCTTTCCGCTTCCGGTAACATTAATCCGGTTATGAAAGGTAAATACGGTGCGTTTGGTGCCGTTACGCTCGAGAAATCGAAGCTTGAAATTTCGCAACAACAAAGTAACAAGTCTGCGCCTGAGGTTTGTCATATTTCTTTCTTTCTTCACTAG
Protein sequence

>MS.gene88373.t1

MSSHALFQAAQILPMNSSIPSKTLSPKPFPKLPLLRNRHRRLVIRSWSASPADVDSDISSGSSLLERCFAAPAAPLSASGNINPVMKGKYGAFGAVTLEKSKLEISQQQSNKSAPEVCHISFFLH