AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065273

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065273.t1 MTR_2g078630 94.444 72 4 0 12 83 13 84 8.60e-34 122
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065273.t1 AT3G15120 52.308 65 27 1 12 72 18 82 7.40e-12 60.5
MS.gene065273.t1 AT3G15120 52.308 65 27 1 12 72 18 82 7.55e-12 60.1

Find 45 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGATTTGAACCCTGATTC+AGG 0.263489 2.2:+16108970 MS.gene065273:CDS
GTGGAGGGCGATAAAGGTTT+AGG 0.267191 2.2:+16109099 MS.gene065273:CDS
GGGGTTCTGGTGGTGGGAAT+TGG 0.269461 2.2:+16109132 MS.gene065273:CDS
CTTCTCCTCACCCCTGAATC+AGG 0.295693 2.2:-16108982 None:intergenic
TCGGAAGAAACATAAGAAAT+TGG 0.298698 2.2:+16108894 MS.gene065273:CDS
AGGGAGAGAAAGTGGGGTTC+TGG 0.306684 2.2:+16109119 MS.gene065273:CDS
CACCTTCCTCGTCGCGGGTT+CGG 0.323377 2.2:+16108875 MS.gene065273:CDS
AACTTCAACCGTTTCTTCTT+CGG 0.351843 2.2:-16109051 None:intergenic
TGAGGAGAAGCTCGCGGGCT+AGG 0.358848 2.2:+16108995 MS.gene065273:CDS
AAGAGTGTGGAGGGCGATAA+AGG 0.369033 2.2:+16109093 MS.gene065273:CDS
TGGAGGGCGATAAAGGTTTA+GGG 0.382897 2.2:+16109100 MS.gene065273:CDS
AGAAAGTGGGGTTCTGGTGG+TGG 0.388888 2.2:+16109125 MS.gene065273:CDS
AAGAAGAAACGGTTGAAGTT+AGG 0.410399 2.2:+16109054 MS.gene065273:CDS
GGAGAGATATCAAGTAAAAC+CGG 0.435410 2.2:-16109024 None:intergenic
AACCGTTTCTTCTTCGGTGT+GGG 0.436848 2.2:-16109045 None:intergenic
AAAGGTTTAGGGAGAGAAAG+TGG 0.443761 2.2:+16109111 MS.gene065273:CDS
CTCGCGGGCTAGGCGTGCCC+CGG 0.448561 2.2:+16109005 MS.gene065273:CDS
AAGGTTTAGGGAGAGAAAGT+GGG 0.466637 2.2:+16109112 MS.gene065273:CDS
GAAAGTGGGGTTCTGGTGGT+GGG 0.478331 2.2:+16109126 MS.gene065273:CDS
CAACCGTTTCTTCTTCGGTG+TGG 0.483812 2.2:-16109046 None:intergenic
ATCACCACCTTCCTCGTCGC+GGG 0.487457 2.2:+16108870 MS.gene065273:CDS
CTCCCACACCGAAGAAGAAA+CGG 0.512135 2.2:+16109043 MS.gene065273:CDS
GGATGTAGTGCAGAAGAGTG+TGG 0.522014 2.2:+16109080 MS.gene065273:CDS
TTCTCCTCACCCCTGAATCA+GGG 0.531038 2.2:-16108981 None:intergenic
ATGATTTGAACCCTGATTCA+GGG 0.534628 2.2:+16108971 MS.gene065273:CDS
GAGAGAAAGTGGGGTTCTGG+TGG 0.539132 2.2:+16109122 MS.gene065273:CDS
AGGTTTAGGGAGAGAAAGTG+GGG 0.547466 2.2:+16109113 MS.gene065273:CDS
TGAACCCTGATTCAGGGGTG+AGG 0.555601 2.2:+16108977 MS.gene065273:CDS
AGGGGTGAGGAGAAGCTCGC+GGG 0.561182 2.2:+16108990 MS.gene065273:CDS
CGAACCCGCGACGAGGAAGG+TGG 0.583701 2.2:-16108874 None:intergenic
GATGAGTATACTAGAAATCA+CGG 0.590671 2.2:+16108931 MS.gene065273:CDS
GTGGTGGGAATTGGAGTTTG+AGG 0.590846 2.2:+16109141 MS.gene065273:CDS
TTCCGAACCCGCGACGAGGA+AGG 0.591238 2.2:-16108877 None:intergenic
GAGAGATATCAAGTAAAACC+GGG 0.597314 2.2:-16109023 None:intergenic
GAAACGGTTGAAGTTAGGAA+AGG 0.600516 2.2:+16109059 MS.gene065273:CDS
CAGGGGTGAGGAGAAGCTCG+CGG 0.616970 2.2:+16108989 MS.gene065273:CDS
AAATCACGGTGAGTGTAATG+TGG 0.632872 2.2:+16108945 MS.gene065273:CDS
GAAATTGGATGCAATTTGTG+AGG 0.638052 2.2:+16108909 MS.gene065273:CDS
GTAGTGCAGAAGAGTGTGGA+GGG 0.646871 2.2:+16109084 MS.gene065273:CDS
TGTAGTGCAGAAGAGTGTGG+AGG 0.654474 2.2:+16109083 MS.gene065273:CDS
TTTCTTCCGAACCCGCGACG+AGG 0.654692 2.2:-16108881 None:intergenic
AATCACGGTGAGTGTAATGT+GGG 0.677165 2.2:+16108946 MS.gene065273:CDS
GATCACCACCTTCCTCGTCG+CGG 0.682400 2.2:+16108869 MS.gene065273:CDS
TGATTTGAACCCTGATTCAG+GGG 0.704961 2.2:+16108972 MS.gene065273:CDS
AGAGATATCAAGTAAAACCG+GGG 0.732688 2.2:-16109022 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GATGAGTATACTAGAAATCA+CGG + chr2.2:16108931-16108950 MS.gene065273:CDS 30.0%
TCGGAAGAAACATAAGAAAT+TGG + chr2.2:16108894-16108913 MS.gene065273:CDS 30.0%
AACTTCAACCGTTTCTTCTT+CGG - chr2.2:16109054-16109073 None:intergenic 35.0%
AAGAAGAAACGGTTGAAGTT+AGG + chr2.2:16109054-16109073 MS.gene065273:CDS 35.0%
AGAGATATCAAGTAAAACCG+GGG - chr2.2:16109025-16109044 None:intergenic 35.0%
ATGATTTGAACCCTGATTCA+GGG + chr2.2:16108971-16108990 MS.gene065273:CDS 35.0%
GAAATTGGATGCAATTTGTG+AGG + chr2.2:16108909-16108928 MS.gene065273:CDS 35.0%
GAGAGATATCAAGTAAAACC+GGG - chr2.2:16109026-16109045 None:intergenic 35.0%
GGAGAGATATCAAGTAAAAC+CGG - chr2.2:16109027-16109046 None:intergenic 35.0%
AAAGGTTTAGGGAGAGAAAG+TGG + chr2.2:16109111-16109130 MS.gene065273:CDS 40.0%
AAATCACGGTGAGTGTAATG+TGG + chr2.2:16108945-16108964 MS.gene065273:CDS 40.0%
AAGGTTTAGGGAGAGAAAGT+GGG + chr2.2:16109112-16109131 MS.gene065273:CDS 40.0%
AATCACGGTGAGTGTAATGT+GGG + chr2.2:16108946-16108965 MS.gene065273:CDS 40.0%
GAAACGGTTGAAGTTAGGAA+AGG + chr2.2:16109059-16109078 MS.gene065273:CDS 40.0%
GATGATTTGAACCCTGATTC+AGG + chr2.2:16108970-16108989 MS.gene065273:CDS 40.0%
TGATTTGAACCCTGATTCAG+GGG + chr2.2:16108972-16108991 MS.gene065273:CDS 40.0%
AGGTTTAGGGAGAGAAAGTG+GGG + chr2.2:16109113-16109132 MS.gene065273:CDS 45.0%
TGGAGGGCGATAAAGGTTTA+GGG + chr2.2:16109100-16109119 MS.gene065273:CDS 45.0%
! AACCGTTTCTTCTTCGGTGT+GGG - chr2.2:16109048-16109067 None:intergenic 45.0%
CAACCGTTTCTTCTTCGGTG+TGG - chr2.2:16109049-16109068 None:intergenic 50.0%
CTCCCACACCGAAGAAGAAA+CGG + chr2.2:16109043-16109062 MS.gene065273:CDS 50.0%
GGATGTAGTGCAGAAGAGTG+TGG + chr2.2:16109080-16109099 MS.gene065273:CDS 50.0%
GTGGAGGGCGATAAAGGTTT+AGG + chr2.2:16109099-16109118 MS.gene065273:CDS 50.0%
TTCTCCTCACCCCTGAATCA+GGG - chr2.2:16108984-16109003 None:intergenic 50.0%
! AAGAGTGTGGAGGGCGATAA+AGG + chr2.2:16109093-16109112 MS.gene065273:CDS 50.0%
! GTAGTGCAGAAGAGTGTGGA+GGG + chr2.2:16109084-16109103 MS.gene065273:CDS 50.0%
! TGTAGTGCAGAAGAGTGTGG+AGG + chr2.2:16109083-16109102 MS.gene065273:CDS 50.0%
AGGGAGAGAAAGTGGGGTTC+TGG + chr2.2:16109119-16109138 MS.gene065273:CDS 55.0%
CTTCTCCTCACCCCTGAATC+AGG - chr2.2:16108985-16109004 None:intergenic 55.0%
TGAACCCTGATTCAGGGGTG+AGG + chr2.2:16108977-16108996 MS.gene065273:CDS 55.0%
! AGAAAGTGGGGTTCTGGTGG+TGG + chr2.2:16109125-16109144 MS.gene065273:CDS 55.0%
! GAAAGTGGGGTTCTGGTGGT+GGG + chr2.2:16109126-16109145 MS.gene065273:CDS 55.0%
! GAGAGAAAGTGGGGTTCTGG+TGG + chr2.2:16109122-16109141 MS.gene065273:CDS 55.0%
ATCACCACCTTCCTCGTCGC+GGG + chr2.2:16108870-16108889 MS.gene065273:CDS 60.0%
GATCACCACCTTCCTCGTCG+CGG + chr2.2:16108869-16108888 MS.gene065273:CDS 60.0%
TTTCTTCCGAACCCGCGACG+AGG - chr2.2:16108884-16108903 None:intergenic 60.0%
!! GGGGTTCTGGTGGTGGGAAT+TGG + chr2.2:16109132-16109151 MS.gene065273:CDS 60.0%
AGGGGTGAGGAGAAGCTCGC+GGG + chr2.2:16108990-16109009 MS.gene065273:CDS 65.0%
CACCTTCCTCGTCGCGGGTT+CGG + chr2.2:16108875-16108894 MS.gene065273:CDS 65.0%
CAGGGGTGAGGAGAAGCTCG+CGG + chr2.2:16108989-16109008 MS.gene065273:CDS 65.0%
TGAGGAGAAGCTCGCGGGCT+AGG + chr2.2:16108995-16109014 MS.gene065273:CDS 65.0%
TTCCGAACCCGCGACGAGGA+AGG - chr2.2:16108880-16108899 None:intergenic 65.0%
CGAACCCGCGACGAGGAAGG+TGG - chr2.2:16108877-16108896 None:intergenic 70.0%
!!! CTCGCGGGCTAGGCGTGCCC+CGG + chr2.2:16109005-16109024 MS.gene065273:CDS 80.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 16108865 16109161 16108865 ID=MS.gene065273
chr2.2 mRNA 16108865 16109161 16108865 ID=MS.gene065273.t1;Parent=MS.gene065273
chr2.2 exon 16108865 16109161 16108865 ID=MS.gene065273.t1.exon1;Parent=MS.gene065273.t1
chr2.2 CDS 16108865 16109161 16108865 ID=cds.MS.gene065273.t1;Parent=MS.gene065273.t1
Gene Sequence

>MS.gene065273

ATGCGATCACCACCTTCCTCGTCGCGGGTTCGGAAGAAACATAAGAAATTGGATGCAATTTGTGAGGATGAGTATACTAGAAATCACGGTGAGTGTAATGTGGGTGATGATTTGAACCCTGATTCAGGGGTGAGGAGAAGCTCGCGGGCTAGGCGTGCCCCGGTTTTACTTGATATCTCTCCCACACCGAAGAAGAAACGGTTGAAGTTAGGAAAGGATGTAGTGCAGAAGAGTGTGGAGGGCGATAAAGGTTTAGGGAGAGAAAGTGGGGTTCTGGTGGTGGGAATTGGAGTTTGA
Protein sequence

>MS.gene065273.t1

MRSPPSSSRVRKKHKKLDAICEDEYTRNHGECNVGDDLNPDSGVRRSSRARRAPVLLDISPTPKKKRLKLGKDVVQKSVEGDKGLGRESGVLVVGIGV