AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32539

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32539.t1 MTR_5g080260 96.703 91 1 2 1 91 1 89 1.84e-57 171
MS.gene32539.t1 MTR_3g067980 72.152 79 18 3 15 91 17 93 6.20e-31 104
MS.gene32539.t1 MTR_4g064520 37.255 102 32 2 21 90 1 102 2.97e-15 65.5
MS.gene32539.t1 MTR_2g097570 61.111 36 14 0 56 91 51 86 1.00e-12 58.5
MS.gene32539.t1 MTR_8g023610 57.895 38 16 0 48 85 15 52 4.60e-11 53.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32539.t1 AT2G39705 56.322 87 36 2 7 91 1 87 4.80e-26 92.4
MS.gene32539.t1 AT3G55515 51.471 68 31 1 24 91 9 74 1.39e-18 73.2
MS.gene32539.t1 AT2G36985 61.290 31 12 0 57 87 15 45 1.28e-11 54.7
MS.gene32539.t1 AT3G14362 65.714 35 12 0 56 90 13 47 3.69e-11 53.5
MS.gene32539.t1 AT4G13395 47.059 51 24 1 44 91 4 54 8.28e-11 52.8
MS.gene32539.t1 AT1G53708 68.571 35 11 0 56 90 13 47 9.99e-11 53.9

Find 11 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGGCTTCTTCTTCTTCTA+TGG 0.160103 5.1:+62407661 None:intergenic
GAGGAGGTTGAGTAGGTTGA+GGG 0.392322 5.1:-62407694 None:intergenic
AAGTAGAGAGGAGGTTGAGT+AGG 0.436749 5.1:-62407701 None:intergenic
AGAGGAGGTTGAGTAGGTTG+AGG 0.441847 5.1:-62407695 None:intergenic
TGGAAGCTATCAAAGAAAGA+AGG 0.500507 5.1:+62407734 MS.gene32539:CDS
GTGTTACAATGCTCATCTGC+TGG 0.512962 5.1:+62407894 MS.gene32539:CDS
CATAGAAGAAGAAGAAGCCA+TGG 0.520025 5.1:-62407660 None:intergenic
GGAAGCTATCAAAGAAAGAA+GGG 0.569563 5.1:+62407735 MS.gene32539:CDS
AGGAGGTTGAGTAGGTTGAG+GGG 0.573510 5.1:-62407693 None:intergenic
CACGTTTCTACATCATGAGG+CGG 0.662634 5.1:+62407870 MS.gene32539:CDS
GAGCACGTTTCTACATCATG+AGG 0.665259 5.1:+62407867 MS.gene32539:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTCTCTACTTTGATGAAAAA+TGG + chr5.1:62407714-62407733 MS.gene32539:CDS 30.0%
! CATTTTTCATCAAAGTAGAG+AGG - chr5.1:62407716-62407735 None:intergenic 30.0%
GGAAGCTATCAAAGAAAGAA+GGG + chr5.1:62407735-62407754 MS.gene32539:CDS 35.0%
TGGAAGCTATCAAAGAAAGA+AGG + chr5.1:62407734-62407753 MS.gene32539:CDS 35.0%
! TTTTCATCAAAGTAGAGAGG+AGG - chr5.1:62407713-62407732 None:intergenic 35.0%
AAGTAGAGAGGAGGTTGAGT+AGG - chr5.1:62407704-62407723 None:intergenic 45.0%
CACGTTTCTACATCATGAGG+CGG + chr5.1:62407870-62407889 MS.gene32539:CDS 45.0%
GAGCACGTTTCTACATCATG+AGG + chr5.1:62407867-62407886 MS.gene32539:CDS 45.0%
GTGTTACAATGCTCATCTGC+TGG + chr5.1:62407894-62407913 MS.gene32539:CDS 45.0%
AGAGGAGGTTGAGTAGGTTG+AGG - chr5.1:62407698-62407717 None:intergenic 50.0%
! AGGAGGTTGAGTAGGTTGAG+GGG - chr5.1:62407696-62407715 None:intergenic 50.0%
! GAGGAGGTTGAGTAGGTTGA+GGG - chr5.1:62407697-62407716 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 62407662 62407937 62407662 ID=MS.gene32539
chr5.1 mRNA 62407662 62407937 62407662 ID=MS.gene32539.t1;Parent=MS.gene32539
chr5.1 exon 62407662 62407937 62407662 ID=MS.gene32539.t1.exon1;Parent=MS.gene32539.t1
chr5.1 CDS 62407662 62407937 62407662 ID=cds.MS.gene32539.t1;Parent=MS.gene32539.t1
Gene Sequence

>MS.gene32539

ATGGCTTCTTCTTCTTCTATGGAAAGTGCAACCCCTCAACCTACTCAACCTCCTCTCTACTTTGATGAAAAATGGAAGCTATCAAAGAAAGAAGGGTCAACAAGAAGCAAATCATCATCAACAACATCATTCATCAAAAACACTTCAACAACACAAAGAAAGTGTGCTTTTGCTAGAAAATGTGCAAGACTCGTCAAAGAACAAAGAGCACGTTTCTACATCATGAGGCGGTGTGTTACAATGCTCATCTGCTGGCGTGATTACAGTGATTCATGA
Protein sequence

>MS.gene32539.t1

MASSSSMESATPQPTQPPLYFDEKWKLSKKEGSTRSKSSSTTSFIKNTSTTQRKCAFARKCARLVKEQRARFYIMRRCVTMLICWRDYSDS