AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053103


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053103.t1 MTR_6g004100 88.889 135 12 2 1 135 3 134 2.34e-84 243
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053103.t1 AT5G23440 48.980 147 51 5 11 137 40 182 1.43e-34 119
MS.gene053103.t1 AT5G08410 62.921 89 30 3 47 135 97 182 6.10e-31 109
MS.gene053103.t1 AT5G08410 62.921 89 30 3 47 135 117 202 7.69e-31 109

Find 25 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAACAGAACGTGACTTTC+TGG 0.206313 6.2:+126361 MS.gene053103:CDS
CTCTGCTAATCTTCCTTATA+AGG 0.228848 6.2:+126401 MS.gene053103:CDS
GCAACAAATTCAACCTTATA+AGG 0.312698 6.2:-126414 None:intergenic
CCAAGATTGGAGCGCGTGTT+AGG 0.324986 6.2:+126265 MS.gene053103:CDS
AAGTCACGTTCTGTTTGATT+TGG 0.360970 6.2:-126356 None:intergenic
CCTAACACGCGCTCCAATCT+TGG 0.382971 6.2:-126265 None:intergenic
GAGATCAACTTCAGGAACTT+TGG 0.391850 6.2:-126319 None:intergenic
TGGAGCGCGTGTTAGGGTTA+AGG 0.393600 6.2:+126272 MS.gene053103:CDS
CACTTCTTCAATTGCAACAT+TGG 0.395451 6.2:+126122 MS.gene053103:CDS
AGATCAACTTCAGGAACTTT+GGG 0.402665 6.2:-126318 None:intergenic
GATTCATCAACAGCCAAGAT+TGG 0.446077 6.2:+126252 MS.gene053103:CDS
CTTCAGGAACTTTGGGAACA+TGG 0.459074 6.2:-126311 None:intergenic
CTACCAGTGAGATCAACTTC+AGG 0.479502 6.2:-126327 None:intergenic
CAAGATTGGAGCGCGTGTTA+GGG 0.489458 6.2:+126266 MS.gene053103:CDS
TTTGTTGCTGATGATATTCA+AGG 0.490454 6.2:+126429 MS.gene053103:CDS
GGAACATGGTAGACTTTGAG+AGG 0.538879 6.2:-126297 None:intergenic
GTTCCTGAAGTTGATCTCAC+TGG 0.542999 6.2:+126324 MS.gene053103:CDS
ACTCAGATAAGATGTGATGT+TGG 0.560643 6.2:+126216 MS.gene053103:CDS
GTTGATCTCACTGGTAGAGA+AGG 0.573181 6.2:+126333 MS.gene053103:CDS
AGATGAGCAACAAACTTGAG+AGG 0.590824 6.2:-126462 None:intergenic
TTCTTCGTATTCATAAACAA+AGG 0.597181 6.2:-126156 None:intergenic
CAATGTTGCAATTGAAGAAG+TGG 0.598656 6.2:-126121 None:intergenic
GTATTCATAAACAAAGGTAA+CGG 0.650137 6.2:-126150 None:intergenic
GATGATATTCAAGGTCCTCG+TGG 0.683280 6.2:+126438 MS.gene053103:CDS
ACAAACTTGAGAGGACCACG+AGG 0.762532 6.2:-126453 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTATTCATAAACAAAGGTAA+CGG - chr6.2:126153-126172 None:intergenic 25.0%
! TTCTTCGTATTCATAAACAA+AGG - chr6.2:126159-126178 None:intergenic 25.0%
GCAACAAATTCAACCTTATA+AGG - chr6.2:126417-126436 None:intergenic 30.0%
TTTGTTGCTGATGATATTCA+AGG + chr6.2:126429-126448 MS.gene053103:CDS 30.0%
AAGTCACGTTCTGTTTGATT+TGG - chr6.2:126359-126378 None:intergenic 35.0%
ACTCAGATAAGATGTGATGT+TGG + chr6.2:126216-126235 MS.gene053103:CDS 35.0%
AGATCAACTTCAGGAACTTT+GGG - chr6.2:126321-126340 None:intergenic 35.0%
CAATGTTGCAATTGAAGAAG+TGG - chr6.2:126124-126143 None:intergenic 35.0%
CACTTCTTCAATTGCAACAT+TGG + chr6.2:126122-126141 MS.gene053103:CDS 35.0%
CTCTGCTAATCTTCCTTATA+AGG + chr6.2:126401-126420 MS.gene053103:CDS 35.0%
AGATGAGCAACAAACTTGAG+AGG - chr6.2:126465-126484 None:intergenic 40.0%
GAGATCAACTTCAGGAACTT+TGG - chr6.2:126322-126341 None:intergenic 40.0%
GATTCATCAACAGCCAAGAT+TGG + chr6.2:126252-126271 MS.gene053103:CDS 40.0%
TCAAACAGAACGTGACTTTC+TGG + chr6.2:126361-126380 MS.gene053103:CDS 40.0%
CTACCAGTGAGATCAACTTC+AGG - chr6.2:126330-126349 None:intergenic 45.0%
GATGATATTCAAGGTCCTCG+TGG + chr6.2:126438-126457 MS.gene053103:CDS 45.0%
GGAACATGGTAGACTTTGAG+AGG - chr6.2:126300-126319 None:intergenic 45.0%
GTTGATCTCACTGGTAGAGA+AGG + chr6.2:126333-126352 MS.gene053103:CDS 45.0%
! CTTCAGGAACTTTGGGAACA+TGG - chr6.2:126314-126333 None:intergenic 45.0%
! GTTCCTGAAGTTGATCTCAC+TGG + chr6.2:126324-126343 MS.gene053103:CDS 45.0%
ACAAACTTGAGAGGACCACG+AGG - chr6.2:126456-126475 None:intergenic 50.0%
CAAGATTGGAGCGCGTGTTA+GGG + chr6.2:126266-126285 MS.gene053103:CDS 50.0%
CCAAGATTGGAGCGCGTGTT+AGG + chr6.2:126265-126284 MS.gene053103:CDS 55.0%
CCTAACACGCGCTCCAATCT+TGG - chr6.2:126268-126287 None:intergenic 55.0%
TGGAGCGCGTGTTAGGGTTA+AGG + chr6.2:126272-126291 MS.gene053103:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 126105 126518 126105 ID=MS.gene053103
chr6.2 mRNA 126105 126518 126105 ID=MS.gene053103.t1;Parent=MS.gene053103
chr6.2 exon 126105 126518 126105 ID=MS.gene053103.t1.exon1;Parent=MS.gene053103.t1
chr6.2 CDS 126105 126518 126105 ID=cds.MS.gene053103.t1;Parent=MS.gene053103.t1
Gene Sequence

>MS.gene053103

ATGAACATGACTAGCACCACTTCTTCAATTGCAACATTGGTGACTCCGTTACCTTTGTTTATGAATACGAAGAAGAAGAAGATGATGATTCAGAGAAGCATAAGAATGACGACTCAGATAAGATGTGATGTTGGAGAAGAAGAACAAGATTCATCAACAGCCAAGATTGGAGCGCGTGTTAGGGTTAAGGTTCCTCTCAAAGTCTACCATGTTCCCAAAGTTCCTGAAGTTGATCTCACTGGTAGAGAAGGCCAAATCAAACAGAACGTGACTTTCTGGAAAGATAATAAGCGAATCTCTGCTAATCTTCCTTATAAGGTTGAATTTGTTGCTGATGATATTCAAGGTCCTCGTGGTCCTCTCAAGTTTGTTGCTCATCTCAAAGATGATGAATTCGAATTTCTCTCTCAGTAA

Protein sequence

>MS.gene053103.t1

MNMTSTTSSIATLVTPLPLFMNTKKKKMMIQRSIRMTTQIRCDVGEEEQDSSTAKIGARVRVKVPLKVYHVPKVPEVDLTGREGQIKQNVTFWKDNKRISANLPYKVEFVADDIQGPRGPLKFVAHLKDDEFEFLSQ