AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22538

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22538.t1 MTR_2g041170 100.000 104 0 0 1 104 223 326 7.82e-69 210
MS.gene22538.t1 MTR_8g019620 61.538 104 39 1 1 104 241 343 1.47e-36 127
MS.gene22538.t1 MTR_5g026970 40.541 74 38 1 31 104 161 228 8.85e-14 65.5
MS.gene22538.t1 MTR_5g026970 40.541 74 38 1 31 104 239 306 1.37e-13 65.5
MS.gene22538.t1 MTR_8g071220 56.667 60 21 1 45 104 253 307 4.74e-13 63.9
MS.gene22538.t1 MTR_5g089900 36.842 95 57 2 10 104 982 1073 5.15e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22538.t1 AT5G20540 70.297 101 29 1 4 104 259 358 5.96e-34 120
MS.gene22538.t1 AT3G14000 57.407 108 41 3 2 104 241 348 9.60e-30 109
MS.gene22538.t1 AT3G14000 57.407 108 41 3 2 104 241 348 9.60e-30 109
MS.gene22538.t1 AT1G54180 63.291 79 26 1 26 104 243 318 3.54e-26 99.8
MS.gene22538.t1 AT1G54180 63.291 79 26 1 26 104 269 344 5.02e-26 99.8
MS.gene22538.t1 AT2G35600 63.158 57 16 1 48 104 254 305 1.87e-14 67.8
MS.gene22538.t1 AT2G35600 63.158 57 16 1 48 104 254 305 1.87e-14 67.8
MS.gene22538.t1 AT2G35600 63.158 57 16 1 48 104 254 305 1.87e-14 67.8
MS.gene22538.t1 AT1G31880 71.795 39 11 0 66 104 294 332 6.87e-13 63.5
MS.gene22538.t1 AT1G31880 71.795 39 11 0 66 104 280 318 6.98e-13 63.5

Find 29 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTGATTGTTGAAACCTTT+GGG 0.201703 2.2:+46761126 None:intergenic
GCACTGATTGTTGAAACCTT+TGG 0.347272 2.2:+46761125 None:intergenic
TAAGTCATACTGATAATGTT+TGG 0.386791 2.2:+46761166 None:intergenic
AGATCAGAAGAGTCAGGTTC+AGG 0.420068 2.2:-46760926 MS.gene22538:CDS
GGTCTATGCCAGGCGGCAAA+AGG 0.431422 2.2:-46760950 MS.gene22538:CDS
TCCTCAACCCATTCACTATC+CGG 0.441147 2.2:+46761002 None:intergenic
CGACCAACAGGAATGGGAAT+GGG 0.443580 2.2:-46761230 None:intergenic
CTAGTGATCCGGATAGTGAA+TGG 0.493944 2.2:-46761010 MS.gene22538:CDS
CTGCATTGAGTGTTGATCAT+AGG 0.502333 2.2:+46761190 None:intergenic
CATTATCAGTATGACTTAAG+TGG 0.503249 2.2:-46761161 MS.gene22538:CDS
AAAGGGAGATCAGAAGAGTC+AGG 0.507865 2.2:-46760932 MS.gene22538:CDS
TCTAGAGAAGCTGATCGCTC+TGG 0.508451 2.2:-46761053 MS.gene22538:CDS
GTCTATGCCAGGCGGCAAAA+GGG 0.525569 2.2:-46760949 MS.gene22538:CDS
CTGGTGTTTACATTACCATC+AGG 0.535325 2.2:-46760971 MS.gene22538:CDS
AAAGAGTTTAACCACAGCAT+TGG 0.537364 2.2:+46760892 None:intergenic
GATGAGCAATGCTAGTGATC+CGG 0.543562 2.2:-46761021 MS.gene22538:CDS
CCGACCAACAGGAATGGGAA+TGG 0.551911 2.2:-46761231 None:intergenic
TCCGGATAGTGAATGGGTTG+AGG 0.565873 2.2:-46761003 MS.gene22538:CDS
GCCGCCTGGCATAGACCTGA+TGG 0.580566 2.2:+46760956 None:intergenic
GACCAACAGGAATGGGAATG+GGG 0.596999 2.2:-46761229 None:intergenic
ATTACCATCAGGTCTATGCC+AGG 0.603107 2.2:-46760960 MS.gene22538:CDS
ACTGATTGTTGAAACCTTTG+GGG 0.610645 2.2:+46761127 None:intergenic
TAGTGATCCGGATAGTGAAT+GGG 0.626102 2.2:-46761009 MS.gene22538:CDS
CTGATGGTAATGTAAACACC+AGG 0.642022 2.2:+46760972 None:intergenic
GTGTTGATCATAGGAATCTG+AGG 0.660572 2.2:+46761199 None:intergenic
TGGCATGAACTCGACCCCAA+AGG 0.664011 2.2:-46761141 MS.gene22538:CDS
TGGGTTGAGGAAGATGAACC+TGG 0.668490 2.2:-46760990 MS.gene22538:CDS
ACCATCAGGTCTATGCCAGG+CGG 0.705588 2.2:-46760957 MS.gene22538:CDS
TATGCTATGTACCAATGCTG+TGG 0.727203 2.2:-46760903 MS.gene22538:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAGTCATACTGATAATGTT+TGG + chr2.2:46760954-46760973 None:intergenic 25.0%
CATTATCAGTATGACTTAAG+TGG - chr2.2:46760956-46760975 MS.gene22538:CDS 30.0%
ACTGATTGTTGAAACCTTTG+GGG + chr2.2:46760993-46761012 None:intergenic 35.0%
! CACTGATTGTTGAAACCTTT+GGG + chr2.2:46760994-46761013 None:intergenic 35.0%
CTGGTGTTTACATTACCATC+AGG - chr2.2:46761146-46761165 MS.gene22538:CDS 40.0%
TAGTGATCCGGATAGTGAAT+GGG - chr2.2:46761108-46761127 MS.gene22538:CDS 40.0%
TATGCTATGTACCAATGCTG+TGG - chr2.2:46761214-46761233 MS.gene22538:CDS 40.0%
! CTGATGGTAATGTAAACACC+AGG + chr2.2:46761148-46761167 None:intergenic 40.0%
! GTGTTGATCATAGGAATCTG+AGG + chr2.2:46760921-46760940 None:intergenic 40.0%
!! CTGCATTGAGTGTTGATCAT+AGG + chr2.2:46760930-46760949 None:intergenic 40.0%
!! GCACTGATTGTTGAAACCTT+TGG + chr2.2:46760995-46761014 None:intergenic 40.0%
AAAGGGAGATCAGAAGAGTC+AGG - chr2.2:46761185-46761204 MS.gene22538:CDS 45.0%
AGATCAGAAGAGTCAGGTTC+AGG - chr2.2:46761191-46761210 MS.gene22538:CDS 45.0%
ATTACCATCAGGTCTATGCC+AGG - chr2.2:46761157-46761176 MS.gene22538:CDS 45.0%
CTAGTGATCCGGATAGTGAA+TGG - chr2.2:46761107-46761126 MS.gene22538:CDS 45.0%
GATGAGCAATGCTAGTGATC+CGG - chr2.2:46761096-46761115 MS.gene22538:CDS 45.0%
TCCTCAACCCATTCACTATC+CGG + chr2.2:46761118-46761137 None:intergenic 45.0%
TCTAGAGAAGCTGATCGCTC+TGG - chr2.2:46761064-46761083 MS.gene22538:CDS 50.0%
! TGGGTTGAGGAAGATGAACC+TGG - chr2.2:46761127-46761146 MS.gene22538:CDS 50.0%
!! TCCGGATAGTGAATGGGTTG+AGG - chr2.2:46761114-46761133 MS.gene22538:CDS 50.0%
ACCATCAGGTCTATGCCAGG+CGG - chr2.2:46761160-46761179 MS.gene22538:CDS 55.0%
GTCTATGCCAGGCGGCAAAA+GGG - chr2.2:46761168-46761187 MS.gene22538:CDS 55.0%
TGGCATGAACTCGACCCCAA+AGG - chr2.2:46760976-46760995 MS.gene22538:CDS 55.0%
GGTCTATGCCAGGCGGCAAA+AGG - chr2.2:46761167-46761186 MS.gene22538:CDS 60.0%
! CTGATCTCCCTTTTGCCGCC+TGG + chr2.2:46761178-46761197 None:intergenic 60.0%
GCCGCCTGGCATAGACCTGA+TGG + chr2.2:46761164-46761183 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 46760899 46761240 46760899 ID=MS.gene22538
chr2.2 mRNA 46760899 46761240 46760899 ID=MS.gene22538.t1;Parent=MS.gene22538
chr2.2 exon 46760899 46761240 46760899 ID=MS.gene22538.t1.exon1;Parent=MS.gene22538.t1
chr2.2 CDS 46760899 46761240 46760899 ID=cds.MS.gene22538.t1;Parent=MS.gene22538.t1
Gene Sequence

>MS.gene22538

ATGGGAATGGGGTACTCGTCCTCAGATTCCTATGATCAACACTCAATGCAGTCCAAACATTATCAGTATGACTTAAGTGGCATGAACTCGACCCCAAAGGTTTCAACAATCAGTGCTGCTAAGACAGATATATCATCAGTAGCTGCTTCTATAAGAAGTAGCTCTTCTAGAGAAGCTGATCGCTCTGGTGATTTATCGATGAGCAATGCTAGTGATCCGGATAGTGAATGGGTTGAGGAAGATGAACCTGGTGTTTACATTACCATCAGGTCTATGCCAGGCGGCAAAAGGGAGATCAGAAGAGTCAGGTTCAGGTATGCTATGTACCAATGCTGTGGTTAA
Protein sequence

>MS.gene22538.t1

MGMGYSSSDSYDQHSMQSKHYQYDLSGMNSTPKVSTISAAKTDISSVAASIRSSSSREADRSGDLSMSNASDPDSEWVEEDEPGVYITIRSMPGGKREIRRVRFRYAMYQCCG