AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35801


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35801.t1 MTR_2g088720 96.212 132 5 0 1 132 1 132 2.65e-89 255
MS.gene35801.t1 MTR_2g088720 96.212 132 5 0 1 132 12 143 3.32e-89 255
MS.gene35801.t1 MTR_7g106600 83.077 130 22 0 4 133 1 130 1.43e-76 223
MS.gene35801.t1 MTR_7g106580 78.947 133 28 0 1 133 1 133 1.97e-73 215
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35801.t1 AT5G62980 63.492 126 45 1 5 129 4 129 5.87e-52 160
MS.gene35801.t1 AT5G62980 63.492 126 45 1 5 129 4 129 5.87e-52 160
MS.gene35801.t1 AT3G11750 62.810 121 44 1 10 129 21 141 9.45e-51 158
MS.gene35801.t1 AT3G21730 52.500 120 56 1 11 129 40 159 5.10e-41 134
MS.gene35801.t1 AT3G21730 46.032 63 33 1 68 129 13 75 1.50e-13 62.0

Find 31 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGGGGATTGACTTTCTA+TGG 0.199149 2.4:-12727193 MS.gene35801:CDS
AAAGCCTCATGTGGCGATTC+AGG 0.223719 2.4:-12726915 MS.gene35801:CDS
GAAGGTGTTGATGCATTAAT+AGG 0.255291 2.4:-12727232 MS.gene35801:CDS
GGGGAGACAAACTTATTCTA+AGG 0.345136 2.4:-12727210 MS.gene35801:CDS
AGGACCAGCTCAAAACCTTC+TGG 0.360872 2.4:-12727014 MS.gene35801:CDS
TAAAATTGCAATCGCTACTT+TGG 0.362829 2.4:-12726978 MS.gene35801:CDS
AAGGTGTTGATGCATTAATA+GGG 0.411585 2.4:-12727231 MS.gene35801:CDS
TCATGTGGCGATTCAGGGTC+CGG 0.432381 2.4:-12726909 MS.gene35801:CDS
ATAGCTAAGAAAGTTATTGA+AGG 0.467494 2.4:-12727034 MS.gene35801:CDS
AAGCCTCATGTGGCGATTCA+GGG 0.468423 2.4:-12726914 MS.gene35801:CDS
TCAACGCCTAAGTAATCAAC+CGG 0.493700 2.4:+12726890 None:intergenic
ACGGAGCAATAGCGGAAGAA+AGG 0.526769 2.4:-12727165 MS.gene35801:CDS
CAGGGTCCGGTTGATTACTT+AGG 0.529018 2.4:-12726896 MS.gene35801:CDS
TGGTTGGATCTCAAACCAGC+TGG 0.535894 2.4:-12727106 MS.gene35801:CDS
GCGCGCGCGCATAGAATGGA+AGG 0.548883 2.4:-12727250 None:intergenic
GGGAGACAAACTTATTCTAA+GGG 0.552621 2.4:-12727209 MS.gene35801:CDS
GGTAGACGTGGATGCTTGGT+TGG 0.560167 2.4:-12727122 MS.gene35801:CDS
AGGTGTTGATGCATTAATAG+GGG 0.577512 2.4:-12727230 MS.gene35801:CDS
TCTGCTGTTCGTGTGAAGGT+TGG 0.579288 2.4:-12726938 MS.gene35801:CDS
TTGTGGTAGACGTGGATGCT+TGG 0.584289 2.4:-12727126 MS.gene35801:CDS
TATGGGCCACTGACTCCAGA+AGG 0.586966 2.4:+12726999 None:intergenic
GACGCTAGGACAGAAGTTTG+TGG 0.591207 2.4:-12727143 MS.gene35801:CDS
TCAAAACCTTCTGGAGTCAG+TGG 0.595009 2.4:-12727005 MS.gene35801:CDS
ATAGCGGAAGAAAGGACGCT+AGG 0.622684 2.4:-12727157 MS.gene35801:CDS
GATATCTGCTGTTCGTGTGA+AGG 0.625108 2.4:-12726942 MS.gene35801:CDS
GGACCCTGAATCGCCACATG+AGG 0.659244 2.4:+12726911 None:intergenic
GGTGTTGATGCATTAATAGG+GGG 0.666097 2.4:-12727229 MS.gene35801:CDS
ACAGAAGTTTGTGGTAGACG+TGG 0.680810 2.4:-12727134 MS.gene35801:CDS
GTTGAGATTCTGAGACGCAG+AGG 0.704169 2.4:-12726872 MS.gene35801:CDS
GAAGGTTGGAAAGCCTCATG+TGG 0.704756 2.4:-12726924 MS.gene35801:CDS
GGAGACAAACTTATTCTAAG+GGG 0.705478 2.4:-12727208 MS.gene35801:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAGCTAAGAAAGTTATTGA+AGG - chr2.4:12727057-12727076 MS.gene35801:CDS 25.0%
TAAAATTGCAATCGCTACTT+TGG - chr2.4:12727113-12727132 MS.gene35801:CDS 30.0%
! AAGTAGCGATTGCAATTTTA+TGG + chr2.4:12727113-12727132 None:intergenic 30.0%
! AGTAGCGATTGCAATTTTAT+GGG + chr2.4:12727112-12727131 None:intergenic 30.0%
! TTGACTTTCTATGGTTTTCA+CGG - chr2.4:12726907-12726926 MS.gene35801:CDS 30.0%
!! AAGGTGTTGATGCATTAATA+GGG - chr2.4:12726860-12726879 MS.gene35801:CDS 30.0%
GGAGACAAACTTATTCTAAG+GGG - chr2.4:12726883-12726902 MS.gene35801:CDS 35.0%
GGGAGACAAACTTATTCTAA+GGG - chr2.4:12726882-12726901 MS.gene35801:CDS 35.0%
! AAGTTATCAGATTTTCCAGC+TGG + chr2.4:12727003-12727022 None:intergenic 35.0%
!! AGGTGTTGATGCATTAATAG+GGG - chr2.4:12726861-12726880 MS.gene35801:CDS 35.0%
!! GAAGGTGTTGATGCATTAAT+AGG - chr2.4:12726859-12726878 MS.gene35801:CDS 35.0%
GGGGAGACAAACTTATTCTA+AGG - chr2.4:12726881-12726900 MS.gene35801:CDS 40.0%
TCAACGCCTAAGTAATCAAC+CGG + chr2.4:12727204-12727223 None:intergenic 40.0%
! CTAAGGGGATTGACTTTCTA+TGG - chr2.4:12726898-12726917 MS.gene35801:CDS 40.0%
!! GGTGTTGATGCATTAATAGG+GGG - chr2.4:12726862-12726881 MS.gene35801:CDS 40.0%
ACAGAAGTTTGTGGTAGACG+TGG - chr2.4:12726957-12726976 MS.gene35801:CDS 45.0%
GATATCTGCTGTTCGTGTGA+AGG - chr2.4:12727149-12727168 MS.gene35801:CDS 45.0%
! TGGTTTTCACGGAGCAATAG+CGG - chr2.4:12726918-12726937 MS.gene35801:CDS 45.0%
!! TCAAAACCTTCTGGAGTCAG+TGG - chr2.4:12727086-12727105 MS.gene35801:CDS 45.0%
AAAGCCTCATGTGGCGATTC+AGG - chr2.4:12727176-12727195 MS.gene35801:CDS 50.0%
AAGCCTCATGTGGCGATTCA+GGG - chr2.4:12727177-12727196 MS.gene35801:CDS 50.0%
AGGACCAGCTCAAAACCTTC+TGG - chr2.4:12727077-12727096 MS.gene35801:CDS 50.0%
CAGGGTCCGGTTGATTACTT+AGG - chr2.4:12727195-12727214 MS.gene35801:CDS 50.0%
GAAGGTTGGAAAGCCTCATG+TGG - chr2.4:12727167-12727186 MS.gene35801:CDS 50.0%
GACGCTAGGACAGAAGTTTG+TGG - chr2.4:12726948-12726967 MS.gene35801:CDS 50.0%
TCTGCTGTTCGTGTGAAGGT+TGG - chr2.4:12727153-12727172 MS.gene35801:CDS 50.0%
TGGTTGGATCTCAAACCAGC+TGG - chr2.4:12726985-12727004 MS.gene35801:CDS 50.0%
TTGTGGTAGACGTGGATGCT+TGG - chr2.4:12726965-12726984 MS.gene35801:CDS 50.0%
! ACGGAGCAATAGCGGAAGAA+AGG - chr2.4:12726926-12726945 MS.gene35801:CDS 50.0%
! ATAGCGGAAGAAAGGACGCT+AGG - chr2.4:12726934-12726953 MS.gene35801:CDS 50.0%
!! GTTGAGATTCTGAGACGCAG+AGG - chr2.4:12727219-12727238 MS.gene35801:CDS 50.0%
!!! GACTCCAGAAGGTTTTGAGC+TGG + chr2.4:12727084-12727103 None:intergenic 50.0%
GGTAGACGTGGATGCTTGGT+TGG - chr2.4:12726969-12726988 MS.gene35801:CDS 55.0%
TCATGTGGCGATTCAGGGTC+CGG - chr2.4:12727182-12727201 MS.gene35801:CDS 55.0%
!! TATGGGCCACTGACTCCAGA+AGG + chr2.4:12727095-12727114 None:intergenic 55.0%
GGACCCTGAATCGCCACATG+AGG + chr2.4:12727183-12727202 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 12726856 12727257 12726856 ID=MS.gene35801
chr2.4 mRNA 12726856 12727257 12726856 ID=MS.gene35801.t1;Parent=MS.gene35801
chr2.4 exon 12726856 12727257 12726856 ID=MS.gene35801.t1.exon1;Parent=MS.gene35801.t1
chr2.4 CDS 12726856 12727257 12726856 ID=cds.MS.gene35801.t1;Parent=MS.gene35801.t1
Gene Sequence

>MS.gene35801

ATGGAAGGTGTTGATGCATTAATAGGGGGAGACAAACTTATTCTAAGGGGATTGACTTTCTATGGTTTTCACGGAGCAATAGCGGAAGAAAGGACGCTAGGACAGAAGTTTGTGGTAGACGTGGATGCTTGGTTGGATCTCAAACCAGCTGGAAAATCTGATAACTTGTCTGATTCTTTTAGTTACGCTGAAATATATCTTATAGCTAAGAAAGTTATTGAAGGACCAGCTCAAAACCTTCTGGAGTCAGTGGCCCATAAAATTGCAATCGCTACTTTGGAAGTTCAGAAAAAGATATCTGCTGTTCGTGTGAAGGTTGGAAAGCCTCATGTGGCGATTCAGGGTCCGGTTGATTACTTAGGCGTTGAGATTCTGAGACGCAGAGGCGATTTGACAGACTAG

Protein sequence

>MS.gene35801.t1

MEGVDALIGGDKLILRGLTFYGFHGAIAEERTLGQKFVVDVDAWLDLKPAGKSDNLSDSFSYAEIYLIAKKVIEGPAQNLLESVAHKIAIATLEVQKKISAVRVKVGKPHVAIQGPVDYLGVEILRRRGDLTD