AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051752

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051752.t1 MTR_7g105130 99.099 111 1 0 1 111 107 217 9.22e-75 221
MS.gene051752.t1 MTR_2g086660 47.619 105 53 2 9 111 151 255 1.61e-21 85.9
MS.gene051752.t1 MTR_4g132020 45.536 112 47 5 4 109 71 174 1.01e-19 79.3
MS.gene051752.t1 MTR_2g086660 47.059 102 52 2 9 108 151 252 1.51e-19 80.9
MS.gene051752.t1 MTR_2g023390 58.000 50 21 0 62 111 107 156 4.71e-15 67.0
MS.gene051752.t1 MTR_3g052330 61.224 49 19 0 63 111 150 198 1.24e-14 66.6
MS.gene051752.t1 MTR_7g101250 61.224 49 15 1 63 111 116 160 9.74e-13 60.8
MS.gene051752.t1 MTR_2g094410 61.224 49 15 1 63 111 112 156 1.75e-12 60.5
MS.gene051752.t1 MTR_2g018175 54.000 50 21 1 62 111 79 126 3.95e-12 58.5
MS.gene051752.t1 MTR_4g059320 58.333 48 16 1 62 109 114 157 8.17e-12 58.5
MS.gene051752.t1 MTR_2g023070 46.591 88 42 2 22 109 134 216 2.14e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051752.t1 AT3G15040 49.123 114 53 3 2 111 131 243 9.32e-21 83.6
MS.gene051752.t1 AT4G21970 42.045 88 50 1 25 111 58 145 2.40e-18 75.5
MS.gene051752.t1 AT3G45210 56.667 60 22 1 52 111 93 148 1.22e-16 70.9
MS.gene051752.t1 AT4G04630 46.154 104 51 2 13 111 65 168 6.96e-16 69.3
MS.gene051752.t1 AT1G29640 44.318 88 38 3 24 111 63 139 6.17e-14 63.9
MS.gene051752.t1 AT4G26950 41.071 112 49 5 1 111 49 144 1.20e-11 57.8
MS.gene051752.t1 AT4G26950 41.071 112 49 5 1 111 49 144 1.20e-11 57.8
MS.gene051752.t1 AT5G60680 47.727 88 37 2 29 111 80 163 2.22e-11 57.8
MS.gene051752.t1 AT5G03230 49.057 53 23 1 59 111 118 166 5.77e-11 56.6

Find 33 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCGACTCGGCGGCATAAT+CGG 0.409285 7.3:+9433111 None:intergenic
TTCAATCAAGAAAACCGGTT+TGG 0.414262 7.3:+9432893 None:intergenic
ACCGGTTCAATCAAGAAAAC+CGG 0.431244 7.3:+9432888 None:intergenic
ATCATATTCTCGGAAGGTCT+TGG 0.448234 7.3:+9433186 None:intergenic
CCTTCACCGGAGCAGATTGT+TGG 0.453692 7.3:+9433136 None:intergenic
TGTTGATGAGCTTGCGGTGT+TGG 0.456949 7.3:-9433073 MS.gene051752:CDS
TTCTCGGAAGGTCTTGGTCT+CGG 0.478965 7.3:+9433192 None:intergenic
GGCATAATCGGAACCTTCAC+CGG 0.480745 7.3:+9433123 None:intergenic
GAGATTGTTGCGAGAGGCTC+TGG 0.482407 7.3:-9433009 MS.gene051752:CDS
AACGCTGTTCTGCGCCAAAC+CGG 0.488010 7.3:-9432907 MS.gene051752:CDS
CATCAACATCCCTACGCCTC+GGG 0.490643 7.3:+9433088 None:intergenic
CATGGATTGAATCATATTCT+CGG 0.498530 7.3:+9433176 None:intergenic
AAAACCGAAAAGGTAGTTCT+CGG 0.517462 7.3:+9432979 None:intergenic
AACTCCTTCCAAAACCGAAA+AGG 0.517512 7.3:+9432969 None:intergenic
CAAAGGGAGAGATCTTCGTC+AGG 0.523089 7.3:-9432935 MS.gene051752:CDS
CCAACAATCTGCTCCGGTGA+AGG 0.523875 7.3:-9433136 MS.gene051752:CDS
ATTCTTCCAACAATCTGCTC+CGG 0.527245 7.3:-9433142 MS.gene051752:CDS
CGAGTCGATTCCCGAGGCGT+AGG 0.528775 7.3:-9433098 MS.gene051752:CDS
GAGTCGATTCCCGAGGCGTA+GGG 0.543346 7.3:-9433097 MS.gene051752:CDS
TCATCAACATCCCTACGCCT+CGG 0.557335 7.3:+9433087 None:intergenic
CTACGCCTCGGGAATCGACT+CGG 0.583023 7.3:+9433099 None:intergenic
GGAGTTGGAAGAACTCTCAA+AGG 0.586119 7.3:-9432952 MS.gene051752:CDS
GAGTTGGAAGAACTCTCAAA+GGG 0.607793 7.3:-9432951 MS.gene051752:CDS
GATTGAATCATATTCTCGGA+AGG 0.610133 7.3:+9433180 None:intergenic
GGTCTTGGTCTCGGAAACGA+AGG 0.637188 7.3:+9433201 None:intergenic
CCTCATGAGATTGTTGCGAG+AGG 0.640232 7.3:-9433015 MS.gene051752:CDS
CCTCTCGCAACAATCTCATG+AGG 0.649415 7.3:+9433015 None:intergenic
TGCCGCCGAGTCGATTCCCG+AGG 0.656419 7.3:-9433104 MS.gene051752:CDS
TAGGGATGTTGATGAGCTTG+CGG 0.658353 7.3:-9433079 MS.gene051752:CDS
CTCGCAACAATCTCATGAGG+CGG 0.658511 7.3:+9433018 None:intergenic
TGATGATAACGACGACGGCG+AGG 0.667872 7.3:-9433049 MS.gene051752:CDS
TTGGATGATGATAACGACGA+CGG 0.701580 7.3:-9433054 MS.gene051752:CDS
CGCCTCGGGAATCGACTCGG+CGG 0.734091 7.3:+9433102 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CATGGATTGAATCATATTCT+CGG + chr7.3:9432928-9432947 None:intergenic 30.0%
!! TGTTGGAAGAATTTTCTAGT+AGG + chr7.3:9432951-9432970 None:intergenic 30.0%
AAAACCGAAAAGGTAGTTCT+CGG + chr7.3:9433125-9433144 None:intergenic 35.0%
GATTGAATCATATTCTCGGA+AGG + chr7.3:9432924-9432943 None:intergenic 35.0%
!! GAAGAATTTTCTAGTAGGCA+TGG + chr7.3:9432946-9432965 None:intergenic 35.0%
AACTCCTTCCAAAACCGAAA+AGG + chr7.3:9433135-9433154 None:intergenic 40.0%
ATCATATTCTCGGAAGGTCT+TGG + chr7.3:9432918-9432937 None:intergenic 40.0%
ATTCTTCCAACAATCTGCTC+CGG - chr7.3:9432959-9432978 MS.gene051752:CDS 40.0%
GAGTTGGAAGAACTCTCAAA+GGG - chr7.3:9433150-9433169 MS.gene051752:CDS 40.0%
! GAGAACTACCTTTTCGGTTT+TGG - chr7.3:9433124-9433143 MS.gene051752:CDS 40.0%
! TTGGATGATGATAACGACGA+CGG - chr7.3:9433047-9433066 MS.gene051752:CDS 40.0%
!!! ACTACCTTTTCGGTTTTGGA+AGG - chr7.3:9433128-9433147 MS.gene051752:CDS 40.0%
!!! TTTTCGGTTTTGGAAGGAGT+TGG - chr7.3:9433134-9433153 MS.gene051752:CDS 40.0%
GGAGTTGGAAGAACTCTCAA+AGG - chr7.3:9433149-9433168 MS.gene051752:CDS 45.0%
! TAGGGATGTTGATGAGCTTG+CGG - chr7.3:9433022-9433041 MS.gene051752:CDS 45.0%
! TTCGCCGAGAACTACCTTTT+CGG - chr7.3:9433118-9433137 MS.gene051752:CDS 45.0%
CAAAGGGAGAGATCTTCGTC+AGG - chr7.3:9433166-9433185 MS.gene051752:CDS 50.0%
CCTCATGAGATTGTTGCGAG+AGG - chr7.3:9433086-9433105 MS.gene051752:CDS 50.0%
CCTCTCGCAACAATCTCATG+AGG + chr7.3:9433089-9433108 None:intergenic 50.0%
CTCGCAACAATCTCATGAGG+CGG + chr7.3:9433086-9433105 None:intergenic 50.0%
GGCATAATCGGAACCTTCAC+CGG + chr7.3:9432981-9433000 None:intergenic 50.0%
TCATCAACATCCCTACGCCT+CGG + chr7.3:9433017-9433036 None:intergenic 50.0%
TTCTCGGAAGGTCTTGGTCT+CGG + chr7.3:9432912-9432931 None:intergenic 50.0%
! TGTTGATGAGCTTGCGGTGT+TGG - chr7.3:9433028-9433047 MS.gene051752:CDS 50.0%
!! AATCGACTCGGCGGCATAAT+CGG + chr7.3:9432993-9433012 None:intergenic 50.0%
AACGCTGTTCTGCGCCAAAC+CGG - chr7.3:9433194-9433213 MS.gene051752:CDS 55.0%
CATCAACATCCCTACGCCTC+GGG + chr7.3:9433016-9433035 None:intergenic 55.0%
CCAACAATCTGCTCCGGTGA+AGG - chr7.3:9432965-9432984 MS.gene051752:CDS 55.0%
CCTTCACCGGAGCAGATTGT+TGG + chr7.3:9432968-9432987 None:intergenic 55.0%
GAGATTGTTGCGAGAGGCTC+TGG - chr7.3:9433092-9433111 MS.gene051752:CDS 55.0%
GGTCTTGGTCTCGGAAACGA+AGG + chr7.3:9432903-9432922 None:intergenic 55.0%
! TGATGATAACGACGACGGCG+AGG - chr7.3:9433052-9433071 MS.gene051752:CDS 55.0%
CTACGCCTCGGGAATCGACT+CGG + chr7.3:9433005-9433024 None:intergenic 60.0%
! GAGTCGATTCCCGAGGCGTA+GGG - chr7.3:9433004-9433023 MS.gene051752:CDS 60.0%
! CGAGTCGATTCCCGAGGCGT+AGG - chr7.3:9433003-9433022 MS.gene051752:CDS 65.0%
! TGCCGCCGAGTCGATTCCCG+AGG - chr7.3:9432997-9433016 MS.gene051752:CDS 70.0%
!! CGCCTCGGGAATCGACTCGG+CGG + chr7.3:9433002-9433021 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 9432894 9433229 9432894 ID=MS.gene051752
chr7.3 mRNA 9432894 9433229 9432894 ID=MS.gene051752.t1;Parent=MS.gene051752
chr7.3 exon 9432894 9433229 9432894 ID=MS.gene051752.t1.exon1;Parent=MS.gene051752.t1
chr7.3 CDS 9432894 9433229 9432894 ID=cds.MS.gene051752.t1;Parent=MS.gene051752.t1
Gene Sequence

>MS.gene051752

ATGATTCCTTCGTTTCCGAGACCAAGACCTTCCGAGAATATGATTCAATCCATGCCTACTAGAAAATTCTTCCAACAATCTGCTCCGGTGAAGGTTCCGATTATGCCGCCGAGTCGATTCCCGAGGCGTAGGGATGTTGATGAGCTTGCGGTGTTGGATGATGATAACGACGACGGCGAGGAGTTGTTGCCGCCTCATGAGATTGTTGCGAGAGGCTCTGGTGTTTCGCCGAGAACTACCTTTTCGGTTTTGGAAGGAGTTGGAAGAACTCTCAAAGGGAGAGATCTTCGTCAGGTTCGAAACGCTGTTCTGCGCCAAACCGGTTTTCTTGATTGA
Protein sequence

>MS.gene051752.t1

MIPSFPRPRPSENMIQSMPTRKFFQQSAPVKVPIMPPSRFPRRRDVDELAVLDDDNDDGEELLPPHEIVARGSGVSPRTTFSVLEGVGRTLKGRDLRQVRNAVLRQTGFLD