AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene43037

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43037.t1 MTR_2g086510 95.484 155 7 0 1 155 1 155 7.25e-109 306
MS.gene43037.t1 MTR_4g053120 73.548 155 41 0 1 155 1 155 1.05e-82 240
MS.gene43037.t1 MTR_1g112030 71.970 132 36 1 24 155 30 160 2.03e-66 199
MS.gene43037.t1 MTR_1g112030 71.970 132 36 1 24 155 26 156 2.06e-66 199
MS.gene43037.t1 MTR_1g112050 70.229 131 38 1 24 154 24 153 4.89e-63 191
MS.gene43037.t1 MTR_8g088720 61.789 123 45 2 33 154 25 146 1.74e-48 153
MS.gene43037.t1 MTR_2g006290 59.504 121 45 2 37 154 29 148 2.93e-47 150
MS.gene43037.t1 MTR_5g006320 40.404 99 57 2 56 154 47 143 1.44e-21 85.1
MS.gene43037.t1 MTR_4g098490 28.276 145 95 2 11 155 24 159 1.45e-16 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43037.t1 AT2G27510 66.197 142 45 2 15 155 16 155 7.37e-64 192
MS.gene43037.t1 AT1G60950 64.567 127 40 3 32 154 22 147 2.71e-50 158
MS.gene43037.t1 AT1G10960 64.286 126 40 3 30 151 20 144 2.15e-47 150
MS.gene43037.t1 AT5G10000 53.226 124 56 1 33 154 24 147 1.02e-43 141
MS.gene43037.t1 AT4G14890 45.263 95 50 2 60 154 52 144 1.90e-22 87.8
MS.gene43037.t1 AT1G32550 39.535 86 52 0 70 155 69 154 6.17e-18 76.6
MS.gene43037.t1 AT1G32550 37.255 102 45 3 70 155 69 167 3.30e-13 64.3

Find 37 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCGATGACAATCAATTAA+AGG 0.218310 2.4:-13759174 MS.gene43037:CDS
CGGCGGTAGTGAATTGATTT+TGG 0.246812 2.4:+13759483 None:intergenic
TGTGCTGGGAAGGTTGTTTC+CGG 0.284057 2.4:-13759224 MS.gene43037:CDS
AAGAATGTTTCACGATCTTT+TGG 0.297059 2.4:-13759425 MS.gene43037:CDS
GCTCCAGCACGGCATGAATA+TGG 0.303973 2.4:+13759257 None:intergenic
GGAGCATGCTCTACCTGTGC+TGG 0.371691 2.4:-13759239 MS.gene43037:CDS
TAGATGGAGCAGATGACTTC+AGG 0.405139 2.4:+13759402 None:intergenic
CAAAATTAAGCTGATTGGTC+CGG 0.411846 2.4:-13759357 MS.gene43037:CDS
TGAAGTCATCTGCTCCATCT+AGG 0.419302 2.4:-13759400 MS.gene43037:CDS
GCTTACAAAATTAAGCTGAT+TGG 0.422819 2.4:-13759362 MS.gene43037:CDS
GCCACCGCAGTAACCCTAGA+TGG 0.454849 2.4:+13759386 None:intergenic
CTTCCATATTCATGCCGTGC+TGG 0.458995 2.4:-13759260 MS.gene43037:CDS
ATCTGACTGATCGACAGAAC+CGG 0.475455 2.4:+13759205 None:intergenic
TGAATAACACAGTCTGAAGT+TGG 0.477269 2.4:+13759122 None:intergenic
TTCGCAGATCCTAGAGAGGA+TGG 0.516120 2.4:+13759446 None:intergenic
TGGAAAAGAAAATGAATTTG+AGG 0.517477 2.4:-13759333 MS.gene43037:CDS
ATGCTCTACCTGTGCTGGGA+AGG 0.518844 2.4:-13759234 MS.gene43037:CDS
GAGCATGCTCTACCTGTGCT+GGG 0.533531 2.4:-13759238 MS.gene43037:CDS
CTGGCAGAAAATTTCAATAG+AGG 0.534370 2.4:+13759081 None:intergenic
GTCAGCCTTGTCAACTGTGA+AGG 0.544738 2.4:-13759537 MS.gene43037:CDS
GAAGTCATCTGCTCCATCTA+GGG 0.545771 2.4:-13759399 MS.gene43037:CDS
GTTATTCATACGCACAAAGA+AGG 0.560127 2.4:-13759107 MS.gene43037:CDS
ATTAAGCTGATTGGTCCGGA+TGG 0.560404 2.4:-13759353 MS.gene43037:CDS
GTCAAGTGCCCATCCTCTCT+AGG 0.563594 2.4:-13759455 MS.gene43037:CDS
TTAGATGCAGCAGAGAATGC+AGG 0.566247 2.4:-13759290 MS.gene43037:CDS
TCCATCTAGGGTTACTGCGG+TGG 0.580356 2.4:-13759387 MS.gene43037:CDS
GGTTCTGTCGATCAGTCAGA+TGG 0.582615 2.4:-13759203 MS.gene43037:CDS
GGAAACAACCTTCCCAGCAC+AGG 0.586489 2.4:+13759226 None:intergenic
AACACAGTCTGAAGTTGGAT+AGG 0.596926 2.4:+13759127 None:intergenic
GATGACAATCAATTAAAGGA+AGG 0.602977 2.4:-13759170 MS.gene43037:CDS
GGATGGGCACTTGACAGTTG+CGG 0.612452 2.4:+13759463 None:intergenic
AGGTAGAGCATGCTCCAGCA+CGG 0.616285 2.4:+13759246 None:intergenic
TCGCAGATCCTAGAGAGGAT+GGG 0.630679 2.4:+13759447 None:intergenic
TGCTCCATCTAGGGTTACTG+CGG 0.639606 2.4:-13759390 MS.gene43037:CDS
TGGGCACTTGACAGTTGCGG+CGG 0.640252 2.4:+13759466 None:intergenic
GTAAACCTTCACAGTTGACA+AGG 0.652422 2.4:+13759532 None:intergenic
ATTCTTCGCAGATCCTAGAG+AGG 0.674873 2.4:+13759442 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGGAAAAGAAAATGAATTTG+AGG - chr2.4:13759300-13759319 MS.gene43037:CDS 25.0%
!! AATTCATTTTCTTTTCCATC+CGG + chr2.4:13759298-13759317 None:intergenic 25.0%
GATGACAATCAATTAAAGGA+AGG - chr2.4:13759463-13759482 MS.gene43037:CDS 30.0%
GCTTACAAAATTAAGCTGAT+TGG - chr2.4:13759271-13759290 MS.gene43037:CDS 30.0%
TCTCGATGACAATCAATTAA+AGG - chr2.4:13759459-13759478 MS.gene43037:CDS 30.0%
! AAGAATGTTTCACGATCTTT+TGG - chr2.4:13759208-13759227 MS.gene43037:CDS 30.0%
GTTATTCATACGCACAAAGA+AGG - chr2.4:13759526-13759545 MS.gene43037:CDS 35.0%
! CAAAATTAAGCTGATTGGTC+CGG - chr2.4:13759276-13759295 MS.gene43037:CDS 35.0%
! TGAATAACACAGTCTGAAGT+TGG + chr2.4:13759514-13759533 None:intergenic 35.0%
GTAAACCTTCACAGTTGACA+AGG + chr2.4:13759104-13759123 None:intergenic 40.0%
! AACACAGTCTGAAGTTGGAT+AGG + chr2.4:13759509-13759528 None:intergenic 40.0%
!!! CAGTTTTAAGCGTGCAATAG+CGG + chr2.4:13759126-13759145 None:intergenic 40.0%
ATCTGACTGATCGACAGAAC+CGG + chr2.4:13759431-13759450 None:intergenic 45.0%
ATTCTTCGCAGATCCTAGAG+AGG + chr2.4:13759194-13759213 None:intergenic 45.0%
GAAGTCATCTGCTCCATCTA+GGG - chr2.4:13759234-13759253 MS.gene43037:CDS 45.0%
TAGATGGAGCAGATGACTTC+AGG + chr2.4:13759234-13759253 None:intergenic 45.0%
TGAAGTCATCTGCTCCATCT+AGG - chr2.4:13759233-13759252 MS.gene43037:CDS 45.0%
TTAGATGCAGCAGAGAATGC+AGG - chr2.4:13759343-13759362 MS.gene43037:CDS 45.0%
! ATTAAGCTGATTGGTCCGGA+TGG - chr2.4:13759280-13759299 MS.gene43037:CDS 45.0%
!! CGGCGGTAGTGAATTGATTT+TGG + chr2.4:13759153-13759172 None:intergenic 45.0%
CTTCCATATTCATGCCGTGC+TGG - chr2.4:13759373-13759392 MS.gene43037:CDS 50.0%
GGTTCTGTCGATCAGTCAGA+TGG - chr2.4:13759430-13759449 MS.gene43037:CDS 50.0%
TCGCAGATCCTAGAGAGGAT+GGG + chr2.4:13759189-13759208 None:intergenic 50.0%
TTCGCAGATCCTAGAGAGGA+TGG + chr2.4:13759190-13759209 None:intergenic 50.0%
! GTCAGCCTTGTCAACTGTGA+AGG - chr2.4:13759096-13759115 MS.gene43037:CDS 50.0%
! TGCTCCATCTAGGGTTACTG+CGG - chr2.4:13759243-13759262 MS.gene43037:CDS 50.0%
! TGTGCTGGGAAGGTTGTTTC+CGG - chr2.4:13759409-13759428 MS.gene43037:CDS 50.0%
AGGTAGAGCATGCTCCAGCA+CGG + chr2.4:13759390-13759409 None:intergenic 55.0%
ATGCTCTACCTGTGCTGGGA+AGG - chr2.4:13759399-13759418 MS.gene43037:CDS 55.0%
GAGCATGCTCTACCTGTGCT+GGG - chr2.4:13759395-13759414 MS.gene43037:CDS 55.0%
GCTCCAGCACGGCATGAATA+TGG + chr2.4:13759379-13759398 None:intergenic 55.0%
GGAAACAACCTTCCCAGCAC+AGG + chr2.4:13759410-13759429 None:intergenic 55.0%
GGATGGGCACTTGACAGTTG+CGG + chr2.4:13759173-13759192 None:intergenic 55.0%
GTCAAGTGCCCATCCTCTCT+AGG - chr2.4:13759178-13759197 MS.gene43037:CDS 55.0%
! TCCATCTAGGGTTACTGCGG+TGG - chr2.4:13759246-13759265 MS.gene43037:CDS 55.0%
GCCACCGCAGTAACCCTAGA+TGG + chr2.4:13759250-13759269 None:intergenic 60.0%
GGAGCATGCTCTACCTGTGC+TGG - chr2.4:13759394-13759413 MS.gene43037:CDS 60.0%
TGGGCACTTGACAGTTGCGG+CGG + chr2.4:13759170-13759189 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 13759094 13759561 13759094 ID=MS.gene43037
chr2.4 mRNA 13759094 13759561 13759094 ID=MS.gene43037.t1;Parent=MS.gene43037
chr2.4 exon 13759094 13759561 13759094 ID=MS.gene43037.t1.exon1;Parent=MS.gene43037.t1
chr2.4 CDS 13759094 13759561 13759094 ID=cds.MS.gene43037.t1;Parent=MS.gene43037.t1
Gene Sequence

>MS.gene43037

ATGTCAGCCTTGTCAACTGTGAAGGTTTACCGCTATTGCACGCTTAAAACTGCTAACCAAAATCAATTCACTACCGCCGCAACTGTCAAGTGCCCATCCTCTCTAGGATCTGCGAAGAATGTTTCACGATCTTTTGGCCTGAAGTCATCTGCTCCATCTAGGGTTACTGCGGTGGCTGCTTACAAAATTAAGCTGATTGGTCCGGATGGAAAAGAAAATGAATTTGAGGCATCTGATGACACTTACATCTTAGATGCAGCAGAGAATGCAGGAGTTGAACTTCCATATTCATGCCGTGCTGGAGCATGCTCTACCTGTGCTGGGAAGGTTGTTTCCGGTTCTGTCGATCAGTCAGATGGCTCATTTCTCGATGACAATCAATTAAAGGAAGGTTATGTTCTAACATGTGTAGCCTATCCAACTTCAGACTGTGTTATTCATACGCACAAAGAAGGTGACCTCTATTGA
Protein sequence

>MS.gene43037.t1

MSALSTVKVYRYCTLKTANQNQFTTAATVKCPSSLGSAKNVSRSFGLKSSAPSRVTAVAAYKIKLIGPDGKENEFEASDDTYILDAAENAGVELPYSCRAGACSTCAGKVVSGSVDQSDGSFLDDNQLKEGYVLTCVAYPTSDCVIHTHKEGDLY