AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene003696

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene003696.t1 MTR_4g070860 98.718 156 2 0 1 156 1 156 3.66e-109 307
MS.gene003696.t1 MTR_1g022495 60.248 161 58 4 1 156 1 160 8.30e-61 185
MS.gene003696.t1 MTR_3g117120 68.627 153 45 1 1 153 1 150 5.75e-59 180
MS.gene003696.t1 MTR_8g086020 54.321 162 66 5 1 156 1 160 1.96e-49 156
MS.gene003696.t1 MTR_3g112220 69.620 79 24 0 27 105 1 79 5.89e-34 115
MS.gene003696.t1 MTR_1g087040 38.095 147 64 4 2 148 11 130 4.82e-24 91.7
MS.gene003696.t1 MTR_8g015250 45.918 98 45 1 1 98 53 142 3.01e-20 82.8
MS.gene003696.t1 MTR_7g029400 46.465 99 49 2 1 98 57 152 3.18e-20 82.8
MS.gene003696.t1 MTR_6g016375 49.398 83 41 1 16 98 77 158 1.18e-18 79.0
MS.gene003696.t1 MTR_7g017880 49.398 83 41 1 16 98 74 155 5.82e-18 77.0
MS.gene003696.t1 MTR_4g097440 37.838 111 67 1 1 109 44 154 1.42e-17 75.5
MS.gene003696.t1 MTR_5g015090 40.187 107 60 1 1 107 36 138 1.06e-15 70.1
MS.gene003696.t1 MTR_3g109310 36.111 108 65 1 6 109 98 205 3.33e-13 65.9
MS.gene003696.t1 MTR_7g109510 45.631 103 47 1 7 109 8 101 1.16e-11 59.3
MS.gene003696.t1 MTR_1g017570 45.455 66 36 0 29 94 59 124 9.31e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene003696.t1 AT4G34590 62.143 140 45 4 24 156 21 159 2.06e-49 156
MS.gene003696.t1 AT1G75390 55.128 156 64 3 2 151 9 164 2.63e-48 154
MS.gene003696.t1 AT2G18160 50.345 145 56 4 27 156 28 171 2.31e-39 131
MS.gene003696.t1 AT1G75390 61.856 97 33 2 2 94 9 105 1.88e-33 114
MS.gene003696.t1 AT3G62420 44.615 130 67 1 25 154 20 144 7.13e-29 103
MS.gene003696.t1 AT1G13600 48.235 85 42 1 16 98 70 154 5.90e-19 79.7
MS.gene003696.t1 AT2G04038 48.837 86 41 1 16 98 57 142 9.74e-19 78.6
MS.gene003696.t1 AT5G15830 46.591 88 47 0 26 113 70 157 1.39e-18 78.6
MS.gene003696.t1 AT3G30530 52.055 73 35 0 26 98 77 149 2.84e-18 77.4
MS.gene003696.t1 AT5G38800 47.500 80 42 0 19 98 61 140 7.40e-17 73.6
MS.gene003696.t1 AT5G49450 38.053 113 50 3 1 110 1 96 6.16e-13 62.8
MS.gene003696.t1 AT4G37730 42.500 80 39 1 26 98 193 272 4.37e-12 62.8
MS.gene003696.t1 AT1G68880 43.284 67 38 0 28 94 45 111 6.10e-11 57.4
MS.gene003696.t1 AT2G22850 39.286 84 51 0 26 109 125 208 7.08e-11 58.5
MS.gene003696.t1 AT2G22850 39.286 84 51 0 26 109 125 208 7.08e-11 58.5

Find 27 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATATGAACCAGCCTATTA+TGG 0.236275 4.1:-32096833 MS.gene003696:CDS
AGGTTCAGAAGAAGATTTAC+AGG 0.264553 4.1:-32097205 MS.gene003696:CDS
AACTCCATTGCTTGAATTCA+AGG 0.317165 4.1:+32096924 None:intergenic
TCATCAAGTGGAACATCTTC+AGG 0.318453 4.1:-32097249 MS.gene003696:CDS
AGAAGATTTACAGGCTTTGA+TGG 0.350638 4.1:-32097196 MS.gene003696:CDS
ATATCTGCAGAAGCCATAAT+AGG 0.384326 4.1:+32096820 None:intergenic
TGGATCAGAGAAAGAGGAAG+AGG 0.418989 4.1:-32097176 MS.gene003696:CDS
GCGAATCGGCAAGGCGGTCT+AGG 0.434095 4.1:-32097140 MS.gene003696:CDS
AGCTGAAAATTCAGTGTTGA+GGG 0.457089 4.1:-32097001 MS.gene003696:CDS
TTCAGTGTTGAGGGCTCAGA+TGG 0.472933 4.1:-32096992 MS.gene003696:CDS
GATGATATCAAACCGCGAAT+CGG 0.478759 4.1:-32097154 MS.gene003696:CDS
GAATCTTTGAATGAAATTGT+TGG 0.493743 4.1:-32096949 MS.gene003696:CDS
AGATGGGTGAGTTAAGCAAC+AGG 0.493753 4.1:-32096975 MS.gene003696:CDS
TAGACCGCCTTGCCGATTCG+CGG 0.496825 4.1:+32097142 None:intergenic
CGGCAAGGCGGTCTAGGATG+AGG 0.519007 4.1:-32097134 MS.gene003696:CDS
CTTTGATGGATCAGAGAAAG+AGG 0.526841 4.1:-32097182 MS.gene003696:CDS
CTCATCATGGCTTCATCAAG+TGG 0.531339 4.1:-32097261 None:intergenic
TGTCACAAGTTGCTAAGCTA+AGG 0.534668 4.1:-32097086 MS.gene003696:CDS
CTGCAGAAGCCATAATAGGC+TGG 0.561236 4.1:+32096824 None:intergenic
AAGCTGAAAATTCAGTGTTG+AGG 0.592611 4.1:-32097002 MS.gene003696:CDS
GATGAGGAAACAGAAGCACT+TGG 0.601620 4.1:-32097118 MS.gene003696:CDS
GGGTGAGTTAAGCAACAGGT+TGG 0.612598 4.1:-32096971 MS.gene003696:CDS
TATCAAACCGCGAATCGGCA+AGG 0.622907 4.1:-32097149 MS.gene003696:CDS
TCATCTCTACTACAAAACTC+AGG 0.649209 4.1:-32097225 MS.gene003696:CDS
TCAGTGTTGAGGGCTCAGAT+GGG 0.662073 4.1:-32096991 MS.gene003696:CDS
GGTGCCTTGAATTCAAGCAA+TGG 0.668976 4.1:-32096928 MS.gene003696:CDS
CAAACCGCGAATCGGCAAGG+CGG 0.745432 4.1:-32097146 MS.gene003696:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAATCTTTGAATGAAATTGT+TGG - chr4.1:32097113-32097132 MS.gene003696:CDS 25.0%
TTATATGAACCAGCCTATTA+TGG - chr4.1:32097229-32097248 MS.gene003696:CDS 30.0%
! AACACTCAAATACTTTTGAG+TGG + chr4.1:32097039-32097058 None:intergenic 30.0%
! AATTCAAGCAATGGAGTTTT+TGG - chr4.1:32097143-32097162 MS.gene003696:CDS 30.0%
! GCTTTTGTTGAGTCAAATAA+TGG - chr4.1:32097176-32097195 MS.gene003696:CDS 30.0%
AACTCCATTGCTTGAATTCA+AGG + chr4.1:32097141-32097160 None:intergenic 35.0%
AAGCTGAAAATTCAGTGTTG+AGG - chr4.1:32097060-32097079 MS.gene003696:CDS 35.0%
AGGTTCAGAAGAAGATTTAC+AGG - chr4.1:32096857-32096876 MS.gene003696:CDS 35.0%
ATATCTGCAGAAGCCATAAT+AGG + chr4.1:32097245-32097264 None:intergenic 35.0%
TCATCTCTACTACAAAACTC+AGG - chr4.1:32096837-32096856 MS.gene003696:CDS 35.0%
! AGAAGATTTACAGGCTTTGA+TGG - chr4.1:32096866-32096885 MS.gene003696:CDS 35.0%
! AGCTGAAAATTCAGTGTTGA+GGG - chr4.1:32097061-32097080 MS.gene003696:CDS 35.0%
GATGATATCAAACCGCGAAT+CGG - chr4.1:32096908-32096927 MS.gene003696:CDS 40.0%
TCATCAAGTGGAACATCTTC+AGG - chr4.1:32096813-32096832 MS.gene003696:CDS 40.0%
TGTCACAAGTTGCTAAGCTA+AGG - chr4.1:32096976-32096995 MS.gene003696:CDS 40.0%
! CTTTGATGGATCAGAGAAAG+AGG - chr4.1:32096880-32096899 MS.gene003696:CDS 40.0%
AGATGGGTGAGTTAAGCAAC+AGG - chr4.1:32097087-32097106 MS.gene003696:CDS 45.0%
GGTGCCTTGAATTCAAGCAA+TGG - chr4.1:32097134-32097153 MS.gene003696:CDS 45.0%
TGGATCAGAGAAAGAGGAAG+AGG - chr4.1:32096886-32096905 MS.gene003696:CDS 45.0%
!! GATGAGGAAACAGAAGCACT+TGG - chr4.1:32096944-32096963 MS.gene003696:CDS 45.0%
CTGCAGAAGCCATAATAGGC+TGG + chr4.1:32097241-32097260 None:intergenic 50.0%
GGGTGAGTTAAGCAACAGGT+TGG - chr4.1:32097091-32097110 MS.gene003696:CDS 50.0%
TATCAAACCGCGAATCGGCA+AGG - chr4.1:32096913-32096932 MS.gene003696:CDS 50.0%
! TCAGTGTTGAGGGCTCAGAT+GGG - chr4.1:32097071-32097090 MS.gene003696:CDS 50.0%
! TTCAGTGTTGAGGGCTCAGA+TGG - chr4.1:32097070-32097089 MS.gene003696:CDS 50.0%
CAAACCGCGAATCGGCAAGG+CGG - chr4.1:32096916-32096935 MS.gene003696:CDS 60.0%
!! TAGACCGCCTTGCCGATTCG+CGG + chr4.1:32096923-32096942 None:intergenic 60.0%
GCGAATCGGCAAGGCGGTCT+AGG - chr4.1:32096922-32096941 MS.gene003696:CDS 65.0%
! CGGCAAGGCGGTCTAGGATG+AGG - chr4.1:32096928-32096947 MS.gene003696:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 32096807 32097277 32096807 ID=MS.gene003696
chr4.1 mRNA 32096807 32097277 32096807 ID=MS.gene003696.t1;Parent=MS.gene003696
chr4.1 exon 32096807 32097277 32096807 ID=MS.gene003696.t1.exon1;Parent=MS.gene003696.t1
chr4.1 CDS 32096807 32097277 32096807 ID=cds.MS.gene003696.t1;Parent=MS.gene003696.t1
Gene Sequence

>MS.gene003696

ATGGCTTCATCAAGTGGAACATCTTCAGGTTCATCTCTACTACAAAACTCAGGTTCAGAAGAAGATTTACAGGCTTTGATGGATCAGAGAAAGAGGAAGAGGATGATATCAAACCGCGAATCGGCAAGGCGGTCTAGGATGAGGAAACAGAAGCACTTGGATGATCTTGTGTCACAAGTTGCTAAGCTAAGGAAAGAGAATCAAGAAATACTCACAAGTGTTAACATCACCACTCAAAAGTATTTGAGTGTTGAAGCTGAAAATTCAGTGTTGAGGGCTCAGATGGGTGAGTTAAGCAACAGGTTGGAATCTTTGAATGAAATTGTTGGTGCCTTGAATTCAAGCAATGGAGTTTTTGGAGCATCAAATGCTTTTGTTGAGTCAAATAATGGTTTCTTCTTCAACTCTTTGAATAATATGTCTTATATGAACCAGCCTATTATGGCTTCTGCAGATATACTGCAGTACTGA
Protein sequence

>MS.gene003696.t1

MASSSGTSSGSSLLQNSGSEEDLQALMDQRKRKRMISNRESARRSRMRKQKHLDDLVSQVAKLRKENQEILTSVNITTQKYLSVEAENSVLRAQMGELSNRLESLNEIVGALNSSNGVFGASNAFVESNNGFFFNSLNNMSYMNQPIMASADILQY