AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97550

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97550.t1 MTR_7g024873 94.161 137 8 0 1 137 1 137 4.61e-93 265
MS.gene97550.t1 MTR_7g024880 91.241 137 12 0 1 137 1 137 2.33e-89 256
MS.gene97550.t1 MTR_7g024890 91.241 137 12 0 1 137 1 137 3.42e-89 255
MS.gene97550.t1 MTR_8g446810 48.571 140 69 1 1 137 1 140 1.95e-40 132
MS.gene97550.t1 MTR_7g024900 94.118 51 3 0 1 51 1 51 7.15e-29 100
MS.gene97550.t1 MTR_1g081270 36.641 131 78 1 1 131 1 126 2.19e-19 78.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97550.t1 AT2G44310 48.175 137 69 1 1 135 1 137 3.51e-40 131

Find 27 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGATGAGTGTAGAAATTT+TGG 0.159822 7.2:+74791129 None:intergenic
CTTGAATGGCATAATTGATT+TGG 0.284664 7.2:+74791384 MS.gene97550:CDS
TAAACACGAGCAAGCTCATT+TGG 0.308764 7.2:-74791331 None:intergenic
TAAATGCTTCTTCATCTTCA+AGG 0.379890 7.2:-74791174 None:intergenic
CATGCCAATTCAAATGGTCT+TGG 0.391639 7.2:+74791465 MS.gene97550:CDS
TCTTCCAAGACCATTTGAAT+TGG 0.395041 7.2:-74791469 None:intergenic
GAAGGAGCTCAAGAGCTTGC+GGG 0.426982 7.2:+74791270 MS.gene97550:CDS
AAACACGAGCAAGCTCATTT+GGG 0.439893 7.2:-74791330 None:intergenic
TTAATAGCTCGGTAGGAAAT+CGG 0.444846 7.2:+74791194 MS.gene97550:CDS
CTTCTTCATCTTCAAGGAAG+TGG 0.447415 7.2:-74791168 None:intergenic
CTCCTTCAACATCTCATCAT+AGG 0.454389 7.2:-74791254 None:intergenic
GGGTTTCATGCCAATTCAAA+TGG 0.458206 7.2:+74791459 MS.gene97550:CDS
CAGTTCGATCACAACTTGAA+TGG 0.477280 7.2:+74791370 MS.gene97550:CDS
CTCCTATGATGAGATGTTGA+AGG 0.506798 7.2:+74791252 MS.gene97550:CDS
ATTATGCTTGCAATGGCAGA+TGG 0.516462 7.2:+74791433 MS.gene97550:CDS
GCTTGCAATGGCAGATGGGA+TGG 0.518450 7.2:+74791438 MS.gene97550:CDS
GAAGCATTTAATAGCTCGGT+AGG 0.541215 7.2:+74791187 MS.gene97550:CDS
TGAAGAAGCATTTAATAGCT+CGG 0.548389 7.2:+74791183 MS.gene97550:CDS
TGAAAGAGAGTACAATAAAG+TGG 0.551009 7.2:+74791516 MS.gene97550:CDS
CGGCTCGACACAAATAAAGA+TGG 0.561664 7.2:+74791223 MS.gene97550:CDS
CTTGCAATGGCAGATGGGAT+GGG 0.563155 7.2:+74791439 MS.gene97550:CDS
TGAAGGAGCTCAAGAGCTTG+CGG 0.581055 7.2:+74791269 MS.gene97550:CDS
AACACACTTTGGTATTGATG+TGG 0.581840 7.2:+74791300 MS.gene97550:CDS
CGGTAGGAAATCGGTTTGCT+CGG 0.591236 7.2:+74791203 MS.gene97550:CDS
TTCAAGGAAGTGGACAATTG+TGG 0.596143 7.2:-74791158 None:intergenic
TAAGCAGATTATGCTTGCAA+TGG 0.607418 7.2:+74791426 MS.gene97550:CDS
TTATGCTTGCAATGGCAGAT+GGG 0.653752 7.2:+74791434 MS.gene97550:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTGAATGGCATAATTGATT+TGG + chr7.2:74791384-74791403 MS.gene97550:CDS 30.0%
TAAATGCTTCTTCATCTTCA+AGG - chr7.2:74791177-74791196 None:intergenic 30.0%
! ATGAGTGTAGAAATTTTGGA+TGG + chr7.2:74791133-74791152 MS.gene97550:CDS 30.0%
! TGAAAGAGAGTACAATAAAG+TGG + chr7.2:74791516-74791535 MS.gene97550:CDS 30.0%
!! TGAAGAAGCATTTAATAGCT+CGG + chr7.2:74791183-74791202 MS.gene97550:CDS 30.0%
TAAGCAGATTATGCTTGCAA+TGG + chr7.2:74791426-74791445 MS.gene97550:CDS 35.0%
TCTTCCAAGACCATTTGAAT+TGG - chr7.2:74791472-74791491 None:intergenic 35.0%
TTAATAGCTCGGTAGGAAAT+CGG + chr7.2:74791194-74791213 MS.gene97550:CDS 35.0%
!! AACACACTTTGGTATTGATG+TGG + chr7.2:74791300-74791319 MS.gene97550:CDS 35.0%
!! CTCTTTCAACAGCTATTTTG+AGG - chr7.2:74791504-74791523 None:intergenic 35.0%
AAACACGAGCAAGCTCATTT+GGG - chr7.2:74791333-74791352 None:intergenic 40.0%
ATTATGCTTGCAATGGCAGA+TGG + chr7.2:74791433-74791452 MS.gene97550:CDS 40.0%
CAGTTCGATCACAACTTGAA+TGG + chr7.2:74791370-74791389 MS.gene97550:CDS 40.0%
CATGCCAATTCAAATGGTCT+TGG + chr7.2:74791465-74791484 MS.gene97550:CDS 40.0%
CTCCTATGATGAGATGTTGA+AGG + chr7.2:74791252-74791271 MS.gene97550:CDS 40.0%
CTCCTTCAACATCTCATCAT+AGG - chr7.2:74791257-74791276 None:intergenic 40.0%
CTTCTTCATCTTCAAGGAAG+TGG - chr7.2:74791171-74791190 None:intergenic 40.0%
GGGTTTCATGCCAATTCAAA+TGG + chr7.2:74791459-74791478 MS.gene97550:CDS 40.0%
TAAACACGAGCAAGCTCATT+TGG - chr7.2:74791334-74791353 None:intergenic 40.0%
TTATGCTTGCAATGGCAGAT+GGG + chr7.2:74791434-74791453 MS.gene97550:CDS 40.0%
TTCAAGGAAGTGGACAATTG+TGG - chr7.2:74791161-74791180 None:intergenic 40.0%
! GAAGCATTTAATAGCTCGGT+AGG + chr7.2:74791187-74791206 MS.gene97550:CDS 40.0%
!!! CGGGTTTTTGAAACACACTT+TGG + chr7.2:74791289-74791308 MS.gene97550:CDS 40.0%
CGGCTCGACACAAATAAAGA+TGG + chr7.2:74791223-74791242 MS.gene97550:CDS 45.0%
CTTGCAATGGCAGATGGGAT+GGG + chr7.2:74791439-74791458 MS.gene97550:CDS 50.0%
TGAAGGAGCTCAAGAGCTTG+CGG + chr7.2:74791269-74791288 MS.gene97550:CDS 50.0%
!! CGGTAGGAAATCGGTTTGCT+CGG + chr7.2:74791203-74791222 MS.gene97550:CDS 50.0%
GAAGGAGCTCAAGAGCTTGC+GGG + chr7.2:74791270-74791289 MS.gene97550:CDS 55.0%
GCTTGCAATGGCAGATGGGA+TGG + chr7.2:74791438-74791457 MS.gene97550:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 74791133 74791546 74791133 ID=MS.gene97550
chr7.2 mRNA 74791133 74791546 74791133 ID=MS.gene97550.t1;Parent=MS.gene97550
chr7.2 exon 74791133 74791546 74791133 ID=MS.gene97550.t1.exon1;Parent=MS.gene97550.t1
chr7.2 CDS 74791133 74791546 74791133 ID=cds.MS.gene97550.t1;Parent=MS.gene97550.t1
Gene Sequence

>MS.gene97550

ATGAGTGTAGAAATTTTGGATGGTGCCACAATTGTCCACTTCCTTGAAGATGAAGAAGCATTTAATAGCTCGGTAGGAAATCGGTTTGCTCGGCTCGACACAAATAAAGATGGTATGCTCTCCTATGATGAGATGTTGAAGGAGCTCAAGAGCTTGCGGGTTTTTGAAACACACTTTGGTATTGATGTGGATTCAGACCCAAATGAGCTTGCTCGTGTTTATAAATCTTTGTTCATACAGTTCGATCACAACTTGAATGGCATAATTGATTTGGAAGAATTCAAGAAAGAAACTAAGCAGATTATGCTTGCAATGGCAGATGGGATGGGTTTCATGCCAATTCAAATGGTCTTGGAAGAAGACAGCATCCTCAAAATAGCTGTTGAAAGAGAGTACAATAAAGTGGCAGCTTAA
Protein sequence

>MS.gene97550.t1

MSVEILDGATIVHFLEDEEAFNSSVGNRFARLDTNKDGMLSYDEMLKELKSLRVFETHFGIDVDSDPNELARVYKSLFIQFDHNLNGIIDLEEFKKETKQIMLAMADGMGFMPIQMVLEEDSILKIAVEREYNKVAA