AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052482


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052482.t1 MTR_4g088920 89.474 152 16 0 7 158 1 152 1.76e-92 287
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052482.t1 AT1G65070 47.581 124 61 1 34 153 40 163 7.43e-29 111
MS.gene052482.t1 AT1G65070 47.581 124 61 1 34 153 40 163 7.56e-29 111
MS.gene052482.t1 AT1G65070 47.581 124 61 1 34 153 40 163 7.60e-29 111
MS.gene052482.t1 AT1G65070 47.581 124 61 1 34 153 40 163 8.65e-29 111

Find 46 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAACACTCGCTGCTTCC+AGG 0.290821 4.3:+24174368 MS.gene052482:CDS
ATTCTCTCCGTTGCTGTTTC+CGG 0.310263 4.3:+24174310 MS.gene052482:CDS
AGGTTTGATCGAGAAGCTTT+TGG 0.334460 4.3:-24174225 None:intergenic
AGGGATTGAGGGTTTGTTGA+TGG 0.339868 4.3:-24174020 None:intergenic
GGGATTGAGGGTTTGTTGAT+GGG 0.370731 4.3:-24174019 None:intergenic
AGCATTCACTTCCACTTCAA+TGG 0.372505 4.3:+24174147 MS.gene052482:CDS
AAGGAGAAGCGAGGGATTGA+GGG 0.374390 4.3:-24174031 None:intergenic
ACGGGCGTTGTTGGCGGCGG+AGG 0.376941 4.3:-24174173 None:intergenic
GAGTACGTCCGACGGGTAAA+CGG 0.383430 4.3:-24174192 None:intergenic
GAAGGAGAAGCGAGGGATTG+AGG 0.404110 4.3:-24174032 None:intergenic
CATTCACACAGGTTTGAACT+TGG 0.408717 4.3:+24174433 MS.gene052482:CDS
GACGGGTAAACGGGCGTTGT+TGG 0.416611 4.3:-24174182 None:intergenic
GTAGCAGAAGCAAGGTTTGA+AGG 0.434423 4.3:-24174050 None:intergenic
CTTCGAACGGTGCAAAGCTC+GGG 0.437748 4.3:-24174349 None:intergenic
TGCTGAGAGTTGCTTGCATA+TGG 0.449310 4.3:-24174128 None:intergenic
GCATTCACTTCCACTTCAAT+GGG 0.457389 4.3:+24174148 MS.gene052482:CDS
GGATTGAGGGTTTGTTGATG+GGG 0.474954 4.3:-24174018 None:intergenic
AGTACGTCCGACGGGTAAAC+GGG 0.478043 4.3:-24174191 None:intergenic
GGGTAAACGGGCGTTGTTGG+CGG 0.478868 4.3:-24174179 None:intergenic
TAAACGGGCGTTGTTGGCGG+CGG 0.480719 4.3:-24174176 None:intergenic
TCTTCGAACGGTGCAAAGCT+CGG 0.496479 4.3:-24174350 None:intergenic
GATGGGGATGAAGAGGTTGC+AGG 0.501851 4.3:-24174002 None:intergenic
GTTTGATAGTTTGAAACACT+TGG 0.502558 4.3:+24174396 MS.gene052482:CDS
CAAACTATCAAACAATTCCC+TGG 0.528874 4.3:-24174386 None:intergenic
GTTTGTTGATGGGGATGAAG+AGG 0.545453 4.3:-24174009 None:intergenic
GGATTGGACTGAGTTGGACT+CGG 0.547239 4.3:-24174077 None:intergenic
AAGGTTTGAAGGAGAAGCGA+GGG 0.550811 4.3:-24174039 None:intergenic
TTGTTGTTGAGGAATGAGTC+TGG 0.550825 4.3:-24174254 None:intergenic
GTCTGTTGGAGTACGTCCGA+CGG 0.557543 4.3:-24174200 None:intergenic
AAGAACACTCGCTGCTTCCA+GGG 0.558472 4.3:+24174369 MS.gene052482:CDS
AGGTTGCAGGTGAGTTGCAT+CGG 0.562147 4.3:-24173989 None:intergenic
TCTGTTGGAGTACGTCCGAC+GGG 0.568179 4.3:-24174199 None:intergenic
ATAGCCTCAAAACTCTCGAA+TGG 0.578502 4.3:+24174101 MS.gene052482:CDS
AGGAATGAGTCTGGCAGCGG+AGG 0.579503 4.3:-24174245 None:intergenic
GCTATCGGATTGGACTGAGT+TGG 0.590319 4.3:-24174083 None:intergenic
TTGAGGAATGAGTCTGGCAG+CGG 0.591996 4.3:-24174248 None:intergenic
GGCGGAGGAGCCCATTGAAG+TGG 0.595273 4.3:-24174158 None:intergenic
CTGTATCTAATCATTCACAC+AGG 0.610846 4.3:+24174422 MS.gene052482:CDS
GGGAATAGTCAACAATCTAC+CGG 0.610891 4.3:-24174329 None:intergenic
TCGGTTGAGTAGCAGAAGCA+AGG 0.613416 4.3:-24174058 None:intergenic
AACAACGCCCGTTTACCCGT+CGG 0.621448 4.3:+24174184 MS.gene052482:CDS
CAAGGTTTGAAGGAGAAGCG+AGG 0.631968 4.3:-24174040 None:intergenic
GAAAAGTCGAGTTGTTGTTG+AGG 0.632731 4.3:-24174265 None:intergenic
CAATCTACCGGAAACAGCAA+CGG 0.634527 4.3:-24174317 None:intergenic
AGCAGCGAGTGTTCTTCGAA+CGG 0.642225 4.3:-24174362 None:intergenic
GCAGGTGAGTTGCATCGGTG+TGG 0.676745 4.3:-24173984 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTTTGATAGTTTGAAACACT+TGG + chr4.3:24174396-24174415 MS.gene052482:CDS 30.0%
CAAACTATCAAACAATTCCC+TGG - chr4.3:24174389-24174408 None:intergenic 35.0%
CTGTATCTAATCATTCACAC+AGG + chr4.3:24174422-24174441 MS.gene052482:CDS 35.0%
AGCATTCACTTCCACTTCAA+TGG + chr4.3:24174147-24174166 MS.gene052482:CDS 40.0%
ATAGCCTCAAAACTCTCGAA+TGG + chr4.3:24174101-24174120 MS.gene052482:CDS 40.0%
CATTCACACAGGTTTGAACT+TGG + chr4.3:24174433-24174452 MS.gene052482:CDS 40.0%
GCATTCACTTCCACTTCAAT+GGG + chr4.3:24174148-24174167 MS.gene052482:CDS 40.0%
GGGAATAGTCAACAATCTAC+CGG - chr4.3:24174332-24174351 None:intergenic 40.0%
! AGGTTTGATCGAGAAGCTTT+TGG - chr4.3:24174228-24174247 None:intergenic 40.0%
! AGTTCCATTCGAGAGTTTTG+AGG - chr4.3:24174108-24174127 None:intergenic 40.0%
! CAACAACAACTCGACTTTTC+TGG + chr4.3:24174268-24174287 MS.gene052482:CDS 40.0%
! GAAAAGTCGAGTTGTTGTTG+AGG - chr4.3:24174268-24174287 None:intergenic 40.0%
! TTGTTGTTGAGGAATGAGTC+TGG - chr4.3:24174257-24174276 None:intergenic 40.0%
!!! TTCGAGAGTTTTGAGGCTAT+CGG - chr4.3:24174101-24174120 None:intergenic 40.0%
AAGGTTTGAAGGAGAAGCGA+GGG - chr4.3:24174042-24174061 None:intergenic 45.0%
CAATCTACCGGAAACAGCAA+CGG - chr4.3:24174320-24174339 None:intergenic 45.0%
GTAGCAGAAGCAAGGTTTGA+AGG - chr4.3:24174053-24174072 None:intergenic 45.0%
TGCTGAGAGTTGCTTGCATA+TGG - chr4.3:24174131-24174150 None:intergenic 45.0%
! GTTTGTTGATGGGGATGAAG+AGG - chr4.3:24174012-24174031 None:intergenic 45.0%
!! AGAAGCTTTTGGCTGTCTGT+TGG - chr4.3:24174217-24174236 None:intergenic 45.0%
!! AGGGATTGAGGGTTTGTTGA+TGG - chr4.3:24174023-24174042 None:intergenic 45.0%
!! ATTCTCTCCGTTGCTGTTTC+CGG + chr4.3:24174310-24174329 MS.gene052482:CDS 45.0%
!! GGATTGAGGGTTTGTTGATG+GGG - chr4.3:24174021-24174040 None:intergenic 45.0%
!! GGGATTGAGGGTTTGTTGAT+GGG - chr4.3:24174022-24174041 None:intergenic 45.0%
!!! GAGTTTTGAGGCTATCGGAT+TGG - chr4.3:24174096-24174115 None:intergenic 45.0%
AAGAACACTCGCTGCTTCCA+GGG + chr4.3:24174369-24174388 MS.gene052482:CDS 50.0%
AAGGAGAAGCGAGGGATTGA+GGG - chr4.3:24174034-24174053 None:intergenic 50.0%
AGCAGCGAGTGTTCTTCGAA+CGG - chr4.3:24174365-24174384 None:intergenic 50.0%
AGGTTGCAGGTGAGTTGCAT+CGG - chr4.3:24173992-24174011 None:intergenic 50.0%
CAAGGTTTGAAGGAGAAGCG+AGG - chr4.3:24174043-24174062 None:intergenic 50.0%
TCGGTTGAGTAGCAGAAGCA+AGG - chr4.3:24174061-24174080 None:intergenic 50.0%
TCTTCGAACGGTGCAAAGCT+CGG - chr4.3:24174353-24174372 None:intergenic 50.0%
TTGAGGAATGAGTCTGGCAG+CGG - chr4.3:24174251-24174270 None:intergenic 50.0%
! GCTATCGGATTGGACTGAGT+TGG - chr4.3:24174086-24174105 None:intergenic 50.0%
! GGATTGGACTGAGTTGGACT+CGG - chr4.3:24174080-24174099 None:intergenic 50.0%
AACAACGCCCGTTTACCCGT+CGG + chr4.3:24174184-24174203 MS.gene052482:CDS 55.0%
AGTACGTCCGACGGGTAAAC+GGG - chr4.3:24174194-24174213 None:intergenic 55.0%
CTTCGAACGGTGCAAAGCTC+GGG - chr4.3:24174352-24174371 None:intergenic 55.0%
GAAGAACACTCGCTGCTTCC+AGG + chr4.3:24174368-24174387 MS.gene052482:CDS 55.0%
GAAGGAGAAGCGAGGGATTG+AGG - chr4.3:24174035-24174054 None:intergenic 55.0%
GAGTACGTCCGACGGGTAAA+CGG - chr4.3:24174195-24174214 None:intergenic 55.0%
GATGGGGATGAAGAGGTTGC+AGG - chr4.3:24174005-24174024 None:intergenic 55.0%
GTCTGTTGGAGTACGTCCGA+CGG - chr4.3:24174203-24174222 None:intergenic 55.0%
TCTGTTGGAGTACGTCCGAC+GGG - chr4.3:24174202-24174221 None:intergenic 55.0%
AGGAATGAGTCTGGCAGCGG+AGG - chr4.3:24174248-24174267 None:intergenic 60.0%
! GACGGGTAAACGGGCGTTGT+TGG - chr4.3:24174185-24174204 None:intergenic 60.0%
! GCAGGTGAGTTGCATCGGTG+TGG - chr4.3:24173987-24174006 None:intergenic 60.0%
! GGGTAAACGGGCGTTGTTGG+CGG - chr4.3:24174182-24174201 None:intergenic 60.0%
! TAAACGGGCGTTGTTGGCGG+CGG - chr4.3:24174179-24174198 None:intergenic 60.0%
GGCGGAGGAGCCCATTGAAG+TGG - chr4.3:24174161-24174180 None:intergenic 65.0%
! ACGGGCGTTGTTGGCGGCGG+AGG - chr4.3:24174176-24174195 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 24173974 24174462 24173974 ID=MS.gene052482
chr4.3 mRNA 24173974 24174462 24173974 ID=MS.gene052482.t1;Parent=MS.gene052482
chr4.3 exon 24173974 24174462 24173974 ID=MS.gene052482.t1.exon1;Parent=MS.gene052482.t1
chr4.3 CDS 24173974 24174462 24173974 ID=cds.MS.gene052482.t1;Parent=MS.gene052482.t1
Gene Sequence

>MS.gene052482

CAGCGAGTCACCACACCGATGCAACTCACCTGCAACCTCTTCATCCCCATCAACAAACCCTCAATCCCTCGCTTCTCCTTCAAACCTTGCTTCTGCTACTCAACCGAGTCCAACTCAGTCCAATCCGATAGCCTCAAAACTCTCGAATGGAACTCCATATGCAAGCAACTCTCAGCATTCACTTCCACTTCAATGGGCTCCTCCGCCGCCAACAACGCCCGTTTACCCGTCGGACGTACTCCAACAGACAGCCAAAAGCTTCTCGATCAAACCTCCGCTGCCAGACTCATTCCTCAACAACAACTCGACTTTTCTGGAATACATGACTTGACTGACATTCTCTCCGTTGCTGTTTCCGGTAGATTGTTGACTATTCCCGAGCTTTGCACCGTTCGAAGAACACTCGCTGCTTCCAGGGAATTGTTTGATAGTTTGAAACACTTGGCTTCTGTATCTAATCATTCACACAGGTTTGAACTTGGAATCTAA

Protein sequence

>MS.gene052482.t1

QRVTTPMQLTCNLFIPINKPSIPRFSFKPCFCYSTESNSVQSDSLKTLEWNSICKQLSAFTSTSMGSSAANNARLPVGRTPTDSQKLLDQTSAARLIPQQQLDFSGIHDLTDILSVAVSGRLLTIPELCTVRRTLAASRELFDSLKHLASVSNHSHRFELGI