AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06035

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06035.t1 MTR_8g099135 96.689 151 5 0 1 151 35 185 5.93e-110 310
MS.gene06035.t1 MTR_8g099115 71.523 151 43 0 1 151 39 189 4.26e-81 237
MS.gene06035.t1 MTR_4g013310 32.593 135 80 4 4 136 59 184 1.81e-15 70.5
MS.gene06035.t1 MTR_4g013320 32.576 132 80 3 4 134 59 182 3.48e-15 69.7
MS.gene06035.t1 MTR_4g073950 34.884 129 74 4 4 130 51 171 1.57e-14 67.8
MS.gene06035.t1 MTR_4g013345 34.211 152 78 6 3 145 55 193 4.38e-14 66.6
MS.gene06035.t1 MTR_4g013325 32.836 134 79 4 3 134 58 182 4.85e-14 66.6
MS.gene06035.t1 MTR_4g122110 30.921 152 93 4 1 148 37 180 6.66e-14 65.9
MS.gene06035.t1 MTR_4g013335 31.061 132 80 3 4 134 58 179 7.95e-14 65.9
MS.gene06035.t1 MTR_4g013330 36.364 132 69 5 4 130 57 178 9.85e-14 65.9
MS.gene06035.t1 MTR_4g013350 32.576 132 72 4 4 130 57 176 4.99e-13 63.9
MS.gene06035.t1 MTR_7g070390 33.673 98 64 1 40 136 80 177 1.29e-12 62.8
MS.gene06035.t1 MTR_4g013770 34.043 141 67 5 4 134 50 174 6.93e-12 60.8
MS.gene06035.t1 MTR_7g093870 30.400 125 77 4 4 124 48 166 1.37e-11 60.5
MS.gene06035.t1 MTR_4g013385 31.111 135 69 5 4 130 51 169 3.12e-11 58.9
MS.gene06035.t1 MTR_0433s0040 31.111 135 69 5 4 130 51 169 3.12e-11 58.9
MS.gene06035.t1 MTR_4g122130 28.947 152 96 4 1 148 37 180 3.44e-11 58.5
MS.gene06035.t1 MTR_3g105640 27.941 136 91 3 2 134 40 171 5.16e-11 58.2
MS.gene06035.t1 MTR_1g056370 34.109 129 74 5 4 130 46 165 5.23e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06035.t1 AT4G23690 52.349 149 65 1 3 151 45 187 1.16e-55 173
MS.gene06035.t1 AT1G64160 52.000 150 66 1 2 151 39 182 4.10e-55 171
MS.gene06035.t1 AT4G11210 48.667 150 71 1 2 151 40 183 8.70e-51 160
MS.gene06035.t1 AT4G11190 43.333 150 79 1 2 151 40 183 3.18e-45 146
MS.gene06035.t1 AT4G11180 47.020 151 73 2 2 151 41 185 3.08e-40 134
MS.gene06035.t1 AT1G22900 37.500 128 63 4 4 126 56 171 1.42e-15 70.5
MS.gene06035.t1 AT1G65870 32.824 131 79 3 4 133 50 172 1.39e-13 65.1
MS.gene06035.t1 AT1G58170 31.933 119 74 2 22 133 49 167 1.54e-12 62.4
MS.gene06035.t1 AT2G21110 30.303 132 79 5 4 130 42 165 2.60e-12 61.6
MS.gene06035.t1 AT2G21100 34.091 132 78 5 4 134 48 171 4.49e-12 61.2
MS.gene06035.t1 AT2G21100 34.091 132 78 5 4 134 48 171 4.49e-12 61.2
MS.gene06035.t1 AT3G13662 29.231 130 76 4 10 134 50 168 9.96e-12 60.1
MS.gene06035.t1 AT5G49040 27.068 133 88 3 3 134 50 174 6.72e-11 58.2
MS.gene06035.t1 AT5G49030 27.068 133 88 3 3 134 50 174 7.28e-11 59.7

Find 22 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGTGCTAATTTAACTATAT+TGG 0.304835 4.1:+4950831 MS.gene06035:CDS
ATCTCTATAACTGGTGGAAC+TGG 0.361381 4.1:+4951078 MS.gene06035:CDS
AGGTTGTTATCCAATGTGAT+AGG 0.375533 4.1:-4950895 None:intergenic
AGTAGAGATATCTCTATAAC+TGG 0.379528 4.1:+4951069 MS.gene06035:CDS
AACACATACACTTCTTGGCT+TGG 0.394278 4.1:+4950970 MS.gene06035:CDS
AACCTTTATTCAAAACCAAT+TGG 0.402372 4.1:+4950913 MS.gene06035:CDS
AAATTATGTCATGAAAATAA+AGG 0.418683 4.1:-4950756 None:intergenic
AAGCCTTGTGCTCTTCCAAT+TGG 0.427146 4.1:-4950928 None:intergenic
GGAGATTTCTTTATGCATAG+AGG 0.463190 4.1:+4951099 MS.gene06035:CDS
AGATTAAGTTCTTTGAGTGC+TGG 0.486262 4.1:+4951181 MS.gene06035:CDS
TTGGCACCTCAATTCCACTT+TGG 0.514974 4.1:+4950850 MS.gene06035:CDS
CTTAACAGCACTTATCATGA+AGG 0.529875 4.1:+4951006 MS.gene06035:CDS
ATTTACAATGGAATGAATGC+AGG 0.530803 4.1:+4950775 MS.gene06035:CDS
TTTCATGACATAATTTACAA+TGG 0.548025 4.1:+4950763 MS.gene06035:CDS
GGTTGTTATCCAATGTGATA+GGG 0.551932 4.1:-4950894 None:intergenic
AAACCAATTGGAAGAGCACA+AGG 0.569554 4.1:+4950925 MS.gene06035:CDS
AAACTGCTATGTTACCAAAG+TGG 0.599214 4.1:-4950864 None:intergenic
AGAGATATCTCTATAACTGG+TGG 0.609760 4.1:+4951072 MS.gene06035:CDS
GCAATAGTTGCAGCACCACA+AGG 0.631845 4.1:+4950811 MS.gene06035:CDS
ATGTTACCAAAGTGGAATTG+AGG 0.636937 4.1:-4950856 None:intergenic
GTCAGCACCAGCAAAAGTAA+TGG 0.638672 4.1:-4951031 None:intergenic
ATAGTTAAATTAGCACCTTG+TGG 0.685706 4.1:-4950826 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTATGTCATGAAAATAA+AGG - chr4.1:4950759-4950778 None:intergenic 15.0%
!! TTTCATGACATAATTTACAA+TGG + chr4.1:4950763-4950782 MS.gene06035:CDS 20.0%
! AACCTTTATTCAAAACCAAT+TGG + chr4.1:4950913-4950932 MS.gene06035:CDS 25.0%
! AGGTGCTAATTTAACTATAT+TGG + chr4.1:4950831-4950850 MS.gene06035:CDS 25.0%
!!! TTCCAATTGGTTTTGAATAA+AGG - chr4.1:4950918-4950937 None:intergenic 25.0%
AGTAGAGATATCTCTATAAC+TGG + chr4.1:4951069-4951088 MS.gene06035:CDS 30.0%
ATAGTTAAATTAGCACCTTG+TGG - chr4.1:4950829-4950848 None:intergenic 30.0%
ATTTACAATGGAATGAATGC+AGG + chr4.1:4950775-4950794 MS.gene06035:CDS 30.0%
! ATTATGACTGATGCTTTTGA+AGG + chr4.1:4951132-4951151 MS.gene06035:CDS 30.0%
!! CTCTACTTTTCTGCATAATT+GGG - chr4.1:4951056-4951075 None:intergenic 30.0%
!! TCTCTACTTTTCTGCATAAT+TGG - chr4.1:4951057-4951076 None:intergenic 30.0%
AAACTGCTATGTTACCAAAG+TGG - chr4.1:4950867-4950886 None:intergenic 35.0%
AGAGATATCTCTATAACTGG+TGG + chr4.1:4951072-4951091 MS.gene06035:CDS 35.0%
AGATTAAGTTCTTTGAGTGC+TGG + chr4.1:4951181-4951200 MS.gene06035:CDS 35.0%
AGGTTGTTATCCAATGTGAT+AGG - chr4.1:4950898-4950917 None:intergenic 35.0%
ATGTTACCAAAGTGGAATTG+AGG - chr4.1:4950859-4950878 None:intergenic 35.0%
CCAAAAACACATACACTTCT+TGG + chr4.1:4950965-4950984 MS.gene06035:CDS 35.0%
CTTAACAGCACTTATCATGA+AGG + chr4.1:4951006-4951025 MS.gene06035:CDS 35.0%
GGAGATTTCTTTATGCATAG+AGG + chr4.1:4951099-4951118 MS.gene06035:CDS 35.0%
GGTTGTTATCCAATGTGATA+GGG - chr4.1:4950897-4950916 None:intergenic 35.0%
!! CCAAGAAGTGTATGTGTTTT+TGG - chr4.1:4950968-4950987 None:intergenic 35.0%
!! TTTTGATGACCCTATCACAT+TGG + chr4.1:4950885-4950904 MS.gene06035:CDS 35.0%
AACACATACACTTCTTGGCT+TGG + chr4.1:4950970-4950989 MS.gene06035:CDS 40.0%
ATCTCTATAACTGGTGGAAC+TGG + chr4.1:4951078-4951097 MS.gene06035:CDS 40.0%
! AAACCAATTGGAAGAGCACA+AGG + chr4.1:4950925-4950944 MS.gene06035:CDS 40.0%
!! GAAGGAACCATTACTTTTGC+TGG + chr4.1:4951024-4951043 MS.gene06035:CDS 40.0%
GTCAGCACCAGCAAAAGTAA+TGG - chr4.1:4951034-4951053 None:intergenic 45.0%
TTGGCACCTCAATTCCACTT+TGG + chr4.1:4950850-4950869 MS.gene06035:CDS 45.0%
! AAGCCTTGTGCTCTTCCAAT+TGG - chr4.1:4950931-4950950 None:intergenic 45.0%
!! GACTGATGCTTTTGAAGGTG+AGG + chr4.1:4951137-4951156 MS.gene06035:CDS 45.0%
GCAATAGTTGCAGCACCACA+AGG + chr4.1:4950811-4950830 MS.gene06035:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 4950751 4951206 4950751 ID=MS.gene06035
chr4.1 mRNA 4950751 4951206 4950751 ID=MS.gene06035.t1;Parent=MS.gene06035
chr4.1 exon 4950751 4951206 4950751 ID=MS.gene06035.t1.exon1;Parent=MS.gene06035.t1
chr4.1 CDS 4950751 4951206 4950751 ID=cds.MS.gene06035.t1;Parent=MS.gene06035.t1
Gene Sequence

>MS.gene06035

ATGGTCCTTTATTTTCATGACATAATTTACAATGGAATGAATGCAGGTAATGCAACATCTGCAATAGTTGCAGCACCACAAGGTGCTAATTTAACTATATTGGCACCTCAATTCCACTTTGGTAACATAGCAGTTTTTGATGACCCTATCACATTGGATAACAACCTTTATTCAAAACCAATTGGAAGAGCACAAGGCTTTTACATTTATGATACCAAAAACACATACACTTCTTGGCTTGGTTTCACATTTGTTCTTAACAGCACTTATCATGAAGGAACCATTACTTTTGCTGGTGCTGACCCAATTATGCAGAAAAGTAGAGATATCTCTATAACTGGTGGAACTGGAGATTTCTTTATGCATAGAGGAATTGCTACTATTATGACTGATGCTTTTGAAGGTGAGGTCTATTTTCGACTTCGTGTTGAGATTAAGTTCTTTGAGTGCTGGTGA
Protein sequence

>MS.gene06035.t1

MVLYFHDIIYNGMNAGNATSAIVAAPQGANLTILAPQFHFGNIAVFDDPITLDNNLYSKPIGRAQGFYIYDTKNTYTSWLGFTFVLNSTYHEGTITFAGADPIMQKSRDISITGGTGDFFMHRGIATIMTDAFEGEVYFRLRVEIKFFECW