AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1432120

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1432120 MtrunA17_Chr5g0448731 83.007 153 14 5 1 143 1 151 2.21e-73 216
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1432120 AT4G35320.1 44.444 126 65 2 13 134 15 139 1.89e-21 84.3

Find 42 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAGCAGCATCTCCTAATT+TGG 0.208008 tig0026950:-42168 None:intergenic
AGCATCTCCTAATTTGGTTT+TGG 0.264987 tig0026950:-42162 None:intergenic
GTGTCAACCAAAACCAAATT+AGG 0.315228 tig0026950:+42155 Msa1432120:CDS
TCAAGATCTGTTGCAAAGAT+AGG 0.315447 tig0026950:-42362 None:intergenic
CCCTTTCCACTTCTACTTGT+TGG 0.332543 tig0026950:-42122 None:intergenic
GTTGGAAACATGTTATTTGC+AGG 0.354673 tig0026950:+42432 Msa1432120:CDS
GGTGGACCTGGAGCTGGGCC+TGG 0.359670 tig0026950:+42324 Msa1432120:CDS
TGAGAATGACGACTTGGATC+TGG 0.361698 tig0026950:-42270 None:intergenic
TGGGCGACTCTATCAGAAAT+TGG 0.371725 tig0026950:+42303 Msa1432120:CDS
TTGCTGACTTCCCGTGATAA+GGG 0.402825 tig0026950:+42407 Msa1432120:CDS
GTCATTCTCATTCTCATCCA+TGG 0.415773 tig0026950:+42283 Msa1432120:CDS
GTTGCTGACTTCCCGTGATA+AGG 0.430057 tig0026950:+42406 Msa1432120:CDS
GATGCTGCTGCTGCTGATGC+AGG 0.432107 tig0026950:+42179 Msa1432120:CDS
GAAATTGGTGGACCTGGAGC+TGG 0.438969 tig0026950:+42318 Msa1432120:CDS
GCCGACATGGTTTGAGGAAG+AGG 0.443482 tig0026950:-42506 None:intergenic
TGCGTAGTAATAATCAGAAT+TGG 0.448686 tig0026950:-42483 None:intergenic
CAGTGAGAGAGGAAGTTGAT+AGG 0.455790 tig0026950:-42220 None:intergenic
GCTGCTGCTGCTGATGCAGG+AGG 0.460455 tig0026950:+42182 Msa1432120:CDS
GAGGATCCAGGCCCAGCTCC+AGG 0.463280 tig0026950:-42330 None:intergenic
CTATCAGAAATTGGTGGACC+TGG 0.485539 tig0026950:+42312 Msa1432120:CDS
AGATCTTGAAATGAATGAGC+AGG 0.491670 tig0026950:+42376 Msa1432120:CDS
CCAACAAGTAGAAGTGGAAA+GGG 0.494860 tig0026950:+42122 Msa1432120:CDS
CAAAGATAGGCTTCCTTGAG+AGG 0.500750 tig0026950:-42349 None:intergenic
ATCACGGGAAGTCAGCAACT+TGG 0.507000 tig0026950:-42402 None:intergenic
GAGAATGACGACTTGGATCT+GGG 0.517935 tig0026950:-42269 None:intergenic
AACATGTTATTTGCAGGATG+AGG 0.535337 tig0026950:+42438 Msa1432120:CDS
GTTTCCAACTCCCCTTATCA+CGG 0.535374 tig0026950:-42418 None:intergenic
TCATTCTCATTCTCATCCAT+GGG 0.545509 tig0026950:+42284 Msa1432120:CDS
AAATTGGTGGACCTGGAGCT+GGG 0.557795 tig0026950:+42319 Msa1432120:CDS
GTGTAAGCCGACATGGTTTG+AGG 0.558720 tig0026950:-42512 None:intergenic
AGGCTTCCTTGAGAGGATCC+AGG 0.559333 tig0026950:-42342 None:intergenic
ACCAACAAGTAGAAGTGGAA+AGG 0.562172 tig0026950:+42121 Msa1432120:CDS
TTTCCAACTCCCCTTATCAC+GGG 0.565961 tig0026950:-42417 None:intergenic
TTCTTACCAACAAGTAGAAG+TGG 0.570154 tig0026950:+42116 Msa1432120:CDS
TGTTGTTTCTGCAGTGAGAG+AGG 0.590813 tig0026950:-42231 None:intergenic
TGCTGACTTCCCGTGATAAG+GGG 0.596069 tig0026950:+42408 Msa1432120:CDS
TCATTGTGTGTAAGCCGACA+TGG 0.600825 tig0026950:-42519 None:intergenic
GCGACTCTATCAGAAATTGG+TGG 0.617542 tig0026950:+42306 Msa1432120:CDS
TGAGAATGAGAATGACGACT+TGG 0.638362 tig0026950:-42276 None:intergenic
ATTTCTGATAGAGTCGCCCA+TGG 0.647698 tig0026950:-42300 None:intergenic
ACCTCTTCCTCAAACCATGT+CGG 0.673431 tig0026950:+42505 Msa1432120:CDS
CAACAAGTAGAAGTGGAAAG+GGG 0.687682 tig0026950:+42123 Msa1432120:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGCGTAGTAATAATCAGAAT+TGG - tig0026950:42486-42505 None:intergenic 30.0%
TTCTTACCAACAAGTAGAAG+TGG + tig0026950:42116-42135 Msa1432120:CDS 35.0%
!!! ATTTGGTTTTGGTTGACACA+GGG - tig0026950:42154-42173 None:intergenic 35.0%
!!! AATTTGGTTTTGGTTGACAC+AGG - tig0026950:42155-42174 None:intergenic 35.0%
GTGTCAACCAAAACCAAATT+AGG + tig0026950:42155-42174 Msa1432120:CDS 35.0%
!! AGCATCTCCTAATTTGGTTT+TGG - tig0026950:42165-42184 None:intergenic 35.0%
TCATTCTCATTCTCATCCAT+GGG + tig0026950:42284-42303 Msa1432120:CDS 35.0%
TCAAGATCTGTTGCAAAGAT+AGG - tig0026950:42365-42384 None:intergenic 35.0%
AGATCTTGAAATGAATGAGC+AGG + tig0026950:42376-42395 Msa1432120:CDS 35.0%
! GTTGGAAACATGTTATTTGC+AGG + tig0026950:42432-42451 Msa1432120:CDS 35.0%
! AACATGTTATTTGCAGGATG+AGG + tig0026950:42438-42457 Msa1432120:CDS 35.0%
ACCAACAAGTAGAAGTGGAA+AGG + tig0026950:42121-42140 Msa1432120:CDS 40.0%
CCAACAAGTAGAAGTGGAAA+GGG + tig0026950:42122-42141 Msa1432120:CDS 40.0%
CAACAAGTAGAAGTGGAAAG+GGG + tig0026950:42123-42142 Msa1432120:CDS 40.0%
TGAGAATGAGAATGACGACT+TGG - tig0026950:42279-42298 None:intergenic 40.0%
GTCATTCTCATTCTCATCCA+TGG + tig0026950:42283-42302 Msa1432120:CDS 40.0%
CCCTTTCCACTTCTACTTGT+TGG - tig0026950:42125-42144 None:intergenic 45.0%
AGCAGCAGCATCTCCTAATT+TGG - tig0026950:42171-42190 None:intergenic 45.0%
! CAGTGAGAGAGGAAGTTGAT+AGG - tig0026950:42223-42242 None:intergenic 45.0%
!! TGTTGTTTCTGCAGTGAGAG+AGG - tig0026950:42234-42253 None:intergenic 45.0%
! GAGAATGACGACTTGGATCT+GGG - tig0026950:42272-42291 None:intergenic 45.0%
! TGAGAATGACGACTTGGATC+TGG - tig0026950:42273-42292 None:intergenic 45.0%
ATTTCTGATAGAGTCGCCCA+TGG - tig0026950:42303-42322 None:intergenic 45.0%
TGGGCGACTCTATCAGAAAT+TGG + tig0026950:42303-42322 Msa1432120:CDS 45.0%
GCGACTCTATCAGAAATTGG+TGG + tig0026950:42306-42325 Msa1432120:CDS 45.0%
! CTATCAGAAATTGGTGGACC+TGG + tig0026950:42312-42331 Msa1432120:CDS 45.0%
CAAAGATAGGCTTCCTTGAG+AGG - tig0026950:42352-42371 None:intergenic 45.0%
!! TTGCTGACTTCCCGTGATAA+GGG + tig0026950:42407-42426 Msa1432120:CDS 45.0%
TTTCCAACTCCCCTTATCAC+GGG - tig0026950:42420-42439 None:intergenic 45.0%
GTTTCCAACTCCCCTTATCA+CGG - tig0026950:42421-42440 None:intergenic 45.0%
ACCTCTTCCTCAAACCATGT+CGG + tig0026950:42505-42524 Msa1432120:CDS 45.0%
TCATTGTGTGTAAGCCGACA+TGG - tig0026950:42522-42541 None:intergenic 45.0%
! AAATTGGTGGACCTGGAGCT+GGG + tig0026950:42319-42338 Msa1432120:CDS 50.0%
ATCACGGGAAGTCAGCAACT+TGG - tig0026950:42405-42424 None:intergenic 50.0%
!! GTTGCTGACTTCCCGTGATA+AGG + tig0026950:42406-42425 Msa1432120:CDS 50.0%
!! TGCTGACTTCCCGTGATAAG+GGG + tig0026950:42408-42427 Msa1432120:CDS 50.0%
GTGTAAGCCGACATGGTTTG+AGG - tig0026950:42515-42534 None:intergenic 50.0%
! GAAATTGGTGGACCTGGAGC+TGG + tig0026950:42318-42337 Msa1432120:CDS 55.0%
AGGCTTCCTTGAGAGGATCC+AGG - tig0026950:42345-42364 None:intergenic 55.0%
CTTCCCGTGATAAGGGGAGT+TGG + tig0026950:42414-42433 Msa1432120:CDS 55.0%
GCCGACATGGTTTGAGGAAG+AGG - tig0026950:42509-42528 None:intergenic 55.0%
GATGCTGCTGCTGCTGATGC+AGG + tig0026950:42179-42198 Msa1432120:CDS 60.0%
GCTGCTGCTGCTGATGCAGG+AGG + tig0026950:42182-42201 Msa1432120:CDS 65.0%
GCTGGGCCTGGATCCTCTCA+AGG + tig0026950:42336-42355 Msa1432120:CDS 65.0%
GAGGATCCAGGCCCAGCTCC+AGG - tig0026950:42333-42352 None:intergenic 70.0%
GGTGGACCTGGAGCTGGGCC+TGG + tig0026950:42324-42343 Msa1432120:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0026950 gene 42110 42541 42110 ID=Msa1432120;Name=Msa1432120
tig0026950 mRNA 42110 42541 42110 ID=Msa1432120-mRNA-1;Parent=Msa1432120;Name=Msa1432120-mRNA-1;_AED=0.29;_eAED=0.30;_QI=0|-1|0|1|-1|1|1|0|143
tig0026950 exon 42110 42541 42110 ID=Msa1432120-mRNA-1:exon:7890;Parent=Msa1432120-mRNA-1
tig0026950 CDS 42110 42541 42110 ID=Msa1432120-mRNA-1:cds;Parent=Msa1432120-mRNA-1
Gene Sequence

>Msa1432120

ATGAGCTTCTTACCAACAAGTAGAAGTGGAAAGGGGTCTCTCCCTGTGTCAACCAAAACCAAATTAGGAGATGCTGCTGCTGCTGATGCAGGAGGCTTTATTCGCAGACGCCTATCAACTTCCTCTCTCACTGCAGAAACAACAGCAGCATCATTTATTCCCAGATCCAAGTCGTCATTCTCATTCTCATCCATGGGCGACTCTATCAGAAATTGGTGGACCTGGAGCTGGGCCTGGATCCTCTCAAGGAAGCCTATCTTTGCAACAGATCTTGAAATGAATGAGCAGGAAACCAAGTTGCTGACTTCCCGTGATAAGGGGAGTTGGAAACATGTTATTTGCAGGATGAGGTCTGAGATCAGAAGAAGAATCACCAATTCTGATTATTACTACGCACCTCTTCCTCAAACCATGTCGGCTTACACACAATGA
Protein sequence

>Msa1432120

MSFLPTSRSGKGSLPVSTKTKLGDAAAADAGGFIRRRLSTSSLTAETTAASFIPRSKSSFSFSSMGDSIRNWWTWSWAWILSRKPIFATDLEMNEQETKLLTSRDKGSWKHVICRMRSEIRRRITNSDYYYAPLPQTMSAYTQ*