AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51256

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51256.t1 MTR_8g012210 77.419 124 28 0 1 124 139 262 7.00e-64 198
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51256.t1 AT1G79220 45.600 125 67 1 1 124 165 289 1.52e-31 115

Find 24 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTCGTTGCTATGTGAAAA+TGG 0.268635 6.3:-76538299 MS.gene51256:CDS
TCTTACAAAGTTTGGTTTAT+CGG 0.270206 6.3:-76538045 MS.gene51256:CDS
GTTGACAATGTCATAATATT+AGG 0.285517 6.3:+76537990 None:intergenic
AAATATGTGGTGACGTTAAT+AGG 0.287337 6.3:-76538107 MS.gene51256:CDS
GTGTTAAATCTTACAAAGTT+TGG 0.362500 6.3:-76538053 MS.gene51256:CDS
GTTGCACAATATGAAGAGTT+AGG 0.395236 6.3:-76538257 MS.gene51256:CDS
AAGAGTTAGGCGTATTGAAA+AGG 0.444866 6.3:-76538244 MS.gene51256:CDS
TATGACATTGTCAACTGATA+AGG 0.455700 6.3:-76537982 MS.gene51256:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.470731 6.3:-76538174 MS.gene51256:CDS
ATGGTATATATAAGCAGGAC+TGG 0.475180 6.3:-76538155 MS.gene51256:CDS
AGGCGTATTGAAAAGGGACT+TGG 0.493691 6.3:-76538237 MS.gene51256:CDS
TTATCGGATGATGAGATAGT+TGG 0.498981 6.3:-76538029 MS.gene51256:CDS
TGCAGCCGGCGATTATTACA+AGG 0.503215 6.3:-76538199 MS.gene51256:CDS
AGAAGATGGTATATATAAGC+AGG 0.519672 6.3:-76538160 MS.gene51256:CDS
CAACGAAGGGTTTCTTGCAA+TGG 0.530280 6.3:+76538313 None:intergenic
AGAGTTAGGCGTATTGAAAA+GGG 0.532449 6.3:-76538243 MS.gene51256:CDS
TGGTATATATAAGCAGGACT+GGG 0.532776 6.3:-76538154 MS.gene51256:CDS
TGCAAAATTGTACAAATATG+TGG 0.567808 6.3:-76538120 MS.gene51256:CDS
GAAGTCCTTGTAATAATCGC+CGG 0.570186 6.3:+76538194 None:intergenic
TACCATCTTCTCATCATCAA+AGG 0.572098 6.3:+76538172 None:intergenic
GAAAATGGCTATGACATTGA+AGG 0.583187 6.3:-76538284 MS.gene51256:CDS
TGTGGAAATGATTCACGCAA+AGG 0.607677 6.3:-76538075 MS.gene51256:CDS
GTTAATAGGCATCTCTCGTG+TGG 0.607952 6.3:-76538093 MS.gene51256:CDS
GGTATATATAAGCAGGACTG+GGG 0.703023 6.3:-76538153 MS.gene51256:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTGTTAAATCTTACAAAGTT+TGG - chr6.3:76538247-76538266 MS.gene51256:CDS 25.0%
! GTTGACAATGTCATAATATT+AGG + chr6.3:76538313-76538332 None:intergenic 25.0%
! TGCAAAATTGTACAAATATG+TGG - chr6.3:76538180-76538199 MS.gene51256:CDS 25.0%
!! TCTTACAAAGTTTGGTTTAT+CGG - chr6.3:76538255-76538274 MS.gene51256:CDS 25.0%
AGAAGATGGTATATATAAGC+AGG - chr6.3:76538140-76538159 MS.gene51256:CDS 30.0%
TATGACATTGTCAACTGATA+AGG - chr6.3:76538318-76538337 MS.gene51256:CDS 30.0%
! AAATATGTGGTGACGTTAAT+AGG - chr6.3:76538193-76538212 MS.gene51256:CDS 30.0%
AAGAGTTAGGCGTATTGAAA+AGG - chr6.3:76538056-76538075 MS.gene51256:CDS 35.0%
AGAGTTAGGCGTATTGAAAA+GGG - chr6.3:76538057-76538076 MS.gene51256:CDS 35.0%
ATGGTATATATAAGCAGGAC+TGG - chr6.3:76538145-76538164 MS.gene51256:CDS 35.0%
GAAAATGGCTATGACATTGA+AGG - chr6.3:76538016-76538035 MS.gene51256:CDS 35.0%
GTTGCACAATATGAAGAGTT+AGG - chr6.3:76538043-76538062 MS.gene51256:CDS 35.0%
TACCATCTTCTCATCATCAA+AGG + chr6.3:76538131-76538150 None:intergenic 35.0%
TGGTATATATAAGCAGGACT+GGG - chr6.3:76538146-76538165 MS.gene51256:CDS 35.0%
TTATCGGATGATGAGATAGT+TGG - chr6.3:76538271-76538290 MS.gene51256:CDS 35.0%
! CATTTTCACATAGCAACGAA+GGG + chr6.3:76538003-76538022 None:intergenic 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG - chr6.3:76538126-76538145 MS.gene51256:CDS 35.0%
!!! GATGAGATAGTTGGTCTTTT+TGG - chr6.3:76538280-76538299 MS.gene51256:CDS 35.0%
!!! TCAAATACTGATTTTGCAGC+CGG - chr6.3:76538087-76538106 MS.gene51256:CDS 35.0%
CCTTCGTTGCTATGTGAAAA+TGG - chr6.3:76538001-76538020 MS.gene51256:CDS 40.0%
GAAGTCCTTGTAATAATCGC+CGG + chr6.3:76538109-76538128 None:intergenic 40.0%
GGTATATATAAGCAGGACTG+GGG - chr6.3:76538147-76538166 MS.gene51256:CDS 40.0%
TGTGGAAATGATTCACGCAA+AGG - chr6.3:76538225-76538244 MS.gene51256:CDS 40.0%
! CCATTTTCACATAGCAACGA+AGG + chr6.3:76538004-76538023 None:intergenic 40.0%
AGGCGTATTGAAAAGGGACT+TGG - chr6.3:76538063-76538082 MS.gene51256:CDS 45.0%
CAACGAAGGGTTTCTTGCAA+TGG + chr6.3:76537990-76538009 None:intergenic 45.0%
GTTAATAGGCATCTCTCGTG+TGG - chr6.3:76538207-76538226 MS.gene51256:CDS 45.0%
TGCAGCCGGCGATTATTACA+AGG - chr6.3:76538101-76538120 MS.gene51256:CDS 50.0%
!! AAGCAGGACTGGGGTTTTGA+AGG - chr6.3:76538156-76538175 MS.gene51256:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 76537974 76538348 76537974 ID=MS.gene51256
chr6.3 mRNA 76537974 76538348 76537974 ID=MS.gene51256.t1;Parent=MS.gene51256
chr6.3 exon 76537974 76538348 76537974 ID=MS.gene51256.t1.exon1;Parent=MS.gene51256.t1
chr6.3 CDS 76537974 76538348 76537974 ID=cds.MS.gene51256.t1;Parent=MS.gene51256.t1
Gene Sequence

>MS.gene51256

ATGCTTCTTAAGACCATTGCAAGAAACCCTTCGTTGCTATGTGAAAATGGCTATGACATTGAAGGTATTGTTGCACAATATGAAGAGTTAGGCGTATTGAAAAGGGACTTGGTTCAAATACTGATTTTGCAGCCGGCGATTATTACAAGGACTTCCTTTGATGATGAGAAGATGGTATATATAAGCAGGACTGGGGTTTTGAAGGATGCAAAATTGTACAAATATGTGGTGACGTTAATAGGCATCTCTCGTGTGGAAATGATTCACGCAAAGGTGTTAAATCTTACAAAGTTTGGTTTATCGGATGATGAGATAGTTGGTCTTTTTGGTAAGTCTCCTAATATTATGACATTGTCAACTGATAAGGCACAATGA
Protein sequence

>MS.gene51256.t1

MLLKTIARNPSLLCENGYDIEGIVAQYEELGVLKRDLVQILILQPAIITRTSFDDEKMVYISRTGVLKDAKLYKYVVTLIGISRVEMIHAKVLNLTKFGLSDDEIVGLFGKSPNIMTLSTDKAQ