AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051566


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051566.t1 MTR_1g015530 98.374 123 2 0 1 123 863 985 1.70e-79 252
MS.gene051566.t1 MTR_1g015530 98.374 123 2 0 1 123 834 956 5.37e-77 244
MS.gene051566.t1 MTR_1g102500 46.721 122 62 2 1 122 874 992 2.17e-25 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051566.t1 AT2G26330 67.480 123 35 1 1 123 859 976 2.22e-49 168
MS.gene051566.t1 AT5G62230 51.639 122 44 3 1 122 811 917 1.31e-27 106
MS.gene051566.t1 AT5G62230 51.639 122 44 3 1 122 859 965 1.44e-27 106
MS.gene051566.t1 AT5G07180 68.333 60 19 0 1 60 862 921 4.62e-20 84.7
MS.gene051566.t1 AT5G07180 68.333 60 19 0 1 60 766 825 6.89e-20 84.3

Find 34 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCAGCTCTTTCTCAAGTT+TGG 0.238395 1.3:-6536940 MS.gene051566:CDS
CATGAAGTTTCACGTGTATT+AGG 0.255680 1.3:-6537114 MS.gene051566:CDS
AAAATCTTCACTCACTGTTC+TGG 0.313192 1.3:+6536905 None:intergenic
TACTGCATTGCTAGCTGTCT+TGG 0.385659 1.3:+6537254 None:intergenic
AAATCTTCACTCACTGTTCT+GGG 0.386155 1.3:+6536906 None:intergenic
ATTAGGAAGTCTTGTGCCTT+CGG 0.439502 1.3:-6537097 MS.gene051566:CDS
TTCATGCATCGTTGGTCTAT+CGG 0.446503 1.3:+6537131 None:intergenic
CGCCAAAGTTCCATGCTACA+TGG 0.452076 1.3:-6537025 MS.gene051566:CDS
AAATCTCAAGACACCTCATT+TGG 0.452947 1.3:-6536992 MS.gene051566:CDS
TTGCATGTGGCAGTTACGTC+GGG 0.464912 1.3:+6537216 None:intergenic
AGAGGAGTTAGTTGTTTAGC+GGG 0.468353 1.3:+6537069 None:intergenic
TGCATCGTTGGTCTATCGGC+TGG 0.471759 1.3:+6537135 None:intergenic
CTGAGCATCTGAAGTGCTCA+TGG 0.482009 1.3:+6536957 None:intergenic
ATCCATGTAGCATGGAACTT+TGG 0.494070 1.3:+6537023 None:intergenic
GACAGCTAGCAATGCAGTAA+TGG 0.512360 1.3:-6537250 MS.gene051566:CDS
GGATGAGATGCCGGCTGTAG+AGG 0.519643 1.3:+6537051 None:intergenic
GGACCTAGGTGCAGTAAAGA+AGG 0.529016 1.3:-6537193 MS.gene051566:CDS
CATGTAGCATGGAACTTTGG+CGG 0.533498 1.3:+6537026 None:intergenic
CTTGCATGTGGCAGTTACGT+CGG 0.551997 1.3:+6537215 None:intergenic
CGTGAAACTTCATGCATCGT+TGG 0.552239 1.3:+6537123 None:intergenic
TAGCAATGCAGTAATGGAAA+CGG 0.552605 1.3:-6537244 MS.gene051566:CDS
TAGAGGAGTTAGTTGTTTAG+CGG 0.557213 1.3:+6537068 None:intergenic
GAAGGACAATTGACCAAATG+AGG 0.561857 1.3:+6536979 None:intergenic
TTGTGCATAAAAGAGCAAGC+TGG 0.565630 1.3:+6537166 None:intergenic
TTGGCGGATGGATGAGATGC+CGG 0.569221 1.3:+6537042 None:intergenic
TGCACCTAGGTCCTTGCATG+TGG 0.570029 1.3:+6537203 None:intergenic
ACAACTAACTCCTCTACAGC+CGG 0.578854 1.3:-6537061 MS.gene051566:CDS
CGACGTAACTGCCACATGCA+AGG 0.580561 1.3:-6537214 MS.gene051566:CDS
GCATCTGAAGTGCTCATGGA+AGG 0.584971 1.3:+6536961 None:intergenic
GCATACTCATCCATGTAGCA+TGG 0.594011 1.3:+6537015 None:intergenic
TAGCATGGAACTTTGGCGGA+TGG 0.610066 1.3:+6537030 None:intergenic
TGTTTAGCGGGAGTGACCGA+AGG 0.612295 1.3:+6537081 None:intergenic
ACTGCCACATGCAAGGACCT+AGG 0.630971 1.3:-6537207 MS.gene051566:CDS
AAACCTTCTTTACTGCACCT+AGG 0.683870 1.3:+6537190 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATCTCAAGACACCTCATT+TGG - chr1.3:6537181-6537200 MS.gene051566:CDS 35.0%
CATGAAGTTTCACGTGTATT+AGG - chr1.3:6537059-6537078 MS.gene051566:CDS 35.0%
TAGAGGAGTTAGTTGTTTAG+CGG + chr1.3:6537108-6537127 None:intergenic 35.0%
! TAGCAATGCAGTAATGGAAA+CGG - chr1.3:6536929-6536948 MS.gene051566:CDS 35.0%
! TTGCTCTTTTATGCACAAAG+AGG - chr1.3:6537012-6537031 MS.gene051566:CDS 35.0%
AAACCTTCTTTACTGCACCT+AGG + chr1.3:6536986-6537005 None:intergenic 40.0%
AGAGGAGTTAGTTGTTTAGC+GGG + chr1.3:6537107-6537126 None:intergenic 40.0%
ATCCATGTAGCATGGAACTT+TGG + chr1.3:6537153-6537172 None:intergenic 40.0%
GAAGGACAATTGACCAAATG+AGG + chr1.3:6537197-6537216 None:intergenic 40.0%
TTGTGCATAAAAGAGCAAGC+TGG + chr1.3:6537010-6537029 None:intergenic 40.0%
! ATTAGGAAGTCTTGTGCCTT+CGG - chr1.3:6537076-6537095 MS.gene051566:CDS 40.0%
! TTCATGCATCGTTGGTCTAT+CGG + chr1.3:6537045-6537064 None:intergenic 40.0%
ACAACTAACTCCTCTACAGC+CGG - chr1.3:6537112-6537131 MS.gene051566:CDS 45.0%
CATGTAGCATGGAACTTTGG+CGG + chr1.3:6537150-6537169 None:intergenic 45.0%
CGTGAAACTTCATGCATCGT+TGG + chr1.3:6537053-6537072 None:intergenic 45.0%
GACAGCTAGCAATGCAGTAA+TGG - chr1.3:6536923-6536942 MS.gene051566:CDS 45.0%
GCATACTCATCCATGTAGCA+TGG + chr1.3:6537161-6537180 None:intergenic 45.0%
GCTCAGCTCTTTCTCAAGTT+TGG - chr1.3:6537233-6537252 MS.gene051566:CDS 45.0%
TACTGCATTGCTAGCTGTCT+TGG + chr1.3:6536922-6536941 None:intergenic 45.0%
CGCCAAAGTTCCATGCTACA+TGG - chr1.3:6537148-6537167 MS.gene051566:CDS 50.0%
CTTGCATGTGGCAGTTACGT+CGG + chr1.3:6536961-6536980 None:intergenic 50.0%
GGACCTAGGTGCAGTAAAGA+AGG - chr1.3:6536980-6536999 MS.gene051566:CDS 50.0%
TAGCATGGAACTTTGGCGGA+TGG + chr1.3:6537146-6537165 None:intergenic 50.0%
TTGCATGTGGCAGTTACGTC+GGG + chr1.3:6536960-6536979 None:intergenic 50.0%
! CTGAGCATCTGAAGTGCTCA+TGG + chr1.3:6537219-6537238 None:intergenic 50.0%
! GCATCTGAAGTGCTCATGGA+AGG + chr1.3:6537215-6537234 None:intergenic 50.0%
ACTGCCACATGCAAGGACCT+AGG - chr1.3:6536966-6536985 MS.gene051566:CDS 55.0%
CGACGTAACTGCCACATGCA+AGG - chr1.3:6536959-6536978 MS.gene051566:CDS 55.0%
TGCACCTAGGTCCTTGCATG+TGG + chr1.3:6536973-6536992 None:intergenic 55.0%
TGTTTAGCGGGAGTGACCGA+AGG + chr1.3:6537095-6537114 None:intergenic 55.0%
! TGCATCGTTGGTCTATCGGC+TGG + chr1.3:6537041-6537060 None:intergenic 55.0%
! TTGGCGGATGGATGAGATGC+CGG + chr1.3:6537134-6537153 None:intergenic 55.0%
! GGATGAGATGCCGGCTGTAG+AGG + chr1.3:6537125-6537144 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 6536912 6537283 6536912 ID=MS.gene051566
chr1.3 mRNA 6536912 6537283 6536912 ID=MS.gene051566.t1;Parent=MS.gene051566
chr1.3 exon 6536912 6537283 6536912 ID=MS.gene051566.t1.exon1;Parent=MS.gene051566.t1
chr1.3 CDS 6536912 6537283 6536912 ID=cds.MS.gene051566.t1;Parent=MS.gene051566.t1
Gene Sequence

>MS.gene051566

ATTTTGTCCAAGACAGCTAGCAATGCAGTAATGGAAACGGTTGATCCCGACGTAACTGCCACATGCAAGGACCTAGGTGCAGTAAAGAAGGTTTTCCAGCTTGCTCTTTTATGCACAAAGAGGCAGCCAGCCGATAGACCAACGATGCATGAAGTTTCACGTGTATTAGGAAGTCTTGTGCCTTCGGTCACTCCCGCTAAACAACTAACTCCTCTACAGCCGGCATCTCATCCATCCGCCAAAGTTCCATGCTACATGGATGAGTATGCAAATCTCAAGACACCTCATTTGGTCAATTGTCCTTCCATGAGCACTTCAGATGCTCAGCTCTTTCTCAAGTTTGGAGAAGTTATCTCCCAGAACAGTGAGTGA

Protein sequence

>MS.gene051566.t1

ILSKTASNAVMETVDPDVTATCKDLGAVKKVFQLALLCTKRQPADRPTMHEVSRVLGSLVPSVTPAKQLTPLQPASHPSAKVPCYMDEYANLKTPHLVNCPSMSTSDAQLFLKFGEVISQNSE