AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069907

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069907.t1 MTR_2g100420 100.000 205 0 0 1 205 1 205 2.80e-150 415
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069907.t1 AT1G17730 87.805 205 23 1 1 205 1 203 1.04e-130 366
MS.gene069907.t1 AT1G73030 88.293 205 22 1 1 205 1 203 8.49e-119 335
MS.gene069907.t1 AT2G06530 27.273 165 116 2 19 180 7 170 6.49e-12 62.4
MS.gene069907.t1 AT2G06530 27.273 165 116 2 19 180 28 191 8.56e-12 62.4

Find 51 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGTTCAAGCGGAGTTTA+TGG 0.198154 2.1:+4362190 MS.gene069907:CDS
CGAGAAACAGTTTGTGAATA+TGG 0.247535 2.1:+4362169 MS.gene069907:CDS
CAACAGGTGGCGGATGATTA+TGG 0.257746 2.1:+4362275 MS.gene069907:CDS
GGAAGTTTCTGTTAATCTTC+CGG 0.351384 2.1:+4362301 MS.gene069907:CDS
GGCGGCTGCTCATGCTGTTC+CGG 0.374454 2.1:+4362325 MS.gene069907:CDS
TGCTCATGCTGTTCCGGTTA+AGG 0.374890 2.1:+4362331 MS.gene069907:CDS
TCAGCATCCTTCTCCTTAAC+CGG 0.398938 2.1:-4362344 None:intergenic
GAGCACTCACGGCGTCCAAT+CGG 0.402083 2.1:-4362025 None:intergenic
CGTCCAATCGGGAGGATAAT+CGG 0.420046 2.1:-4362013 None:intergenic
TTCTGTTAATCTTCCGGTGG+CGG 0.425693 2.1:+4362307 MS.gene069907:CDS
GGTTAATAGTTTGATGCAAC+AGG 0.440152 2.1:+4362259 MS.gene069907:CDS
TTCCCTTTCGACTCCGGAAG+GGG 0.455520 2.1:+4362235 MS.gene069907:CDS
ATCGACTTCCCTTTCGACTC+CGG 0.467684 2.1:+4362229 MS.gene069907:CDS
CTCCCCTTCCGGAGTCGAAA+GGG 0.473087 2.1:-4362237 None:intergenic
AAGCTTCTCTGTGTTTCCCA+TGG 0.476337 2.1:-4361805 None:intergenic
TAGTTTGATGCAACAGGTGG+CGG 0.477361 2.1:+4362265 MS.gene069907:CDS
TTGGAATCATCGTTGGCGAC+GGG 0.477613 2.1:+4362110 MS.gene069907:CDS
AGCACTCACGGCGTCCAATC+GGG 0.483446 2.1:-4362024 None:intergenic
ACAGCATGAGCAGCCGCCAC+CGG 0.500440 2.1:-4362320 None:intergenic
TGCTGTTCCGGTTAAGGAGA+AGG 0.523122 2.1:+4362337 MS.gene069907:CDS
CTTCCCTTTCGACTCCGGAA+GGG 0.524629 2.1:+4362234 MS.gene069907:CDS
AAACTATTAACCTCCCCTTC+CGG 0.527569 2.1:-4362248 None:intergenic
GAAGCTTCTGAATCAGATCA+TGG 0.534967 2.1:+4361821 MS.gene069907:CDS
GTCAACGATCAGTAAATCGA+TGG 0.540802 2.1:+4362070 MS.gene069907:CDS
ACTTCCCTTTCGACTCCGGA+AGG 0.549210 2.1:+4362233 MS.gene069907:CDS
GGGAAACATCGTGAAATCGT+TGG 0.558024 2.1:+4362091 MS.gene069907:CDS
GCAGAAGATGTCCGAGACGA+TGG 0.561045 2.1:+4362139 MS.gene069907:CDS
CTCGAATTGATCCATCGTCT+CGG 0.572141 2.1:-4362150 None:intergenic
TAAGGAGAAGGATGCTGAGA+AGG 0.573843 2.1:+4362349 MS.gene069907:CDS
CCTCCCCTTCCGGAGTCGAA+AGG 0.580228 2.1:-4362238 None:intergenic
GTTGGAATCATCGTTGGCGA+CGG 0.581670 2.1:+4362109 MS.gene069907:CDS
GGAGTTTATGGAAAGTGCTA+TGG 0.582336 2.1:+4362202 MS.gene069907:CDS
GAAATCGTTGGAATCATCGT+TGG 0.585469 2.1:+4362103 MS.gene069907:CDS
CCTTTCGACTCCGGAAGGGG+AGG 0.586411 2.1:+4362238 MS.gene069907:CDS
CTTGCTGAGCTTAAAGCTAG+AGG 0.589782 2.1:+4362398 MS.gene069907:CDS
GGATGCTGAGAAGGTTGATG+AGG 0.596267 2.1:+4362358 MS.gene069907:CDS
GTTTATGGAAAGTGCTATGG+CGG 0.596862 2.1:+4362205 MS.gene069907:CDS
TCAACGATCAGTAAATCGAT+GGG 0.601734 2.1:+4362071 MS.gene069907:CDS
TGTGAATATGGAGGTTCAAG+CGG 0.607620 2.1:+4362181 MS.gene069907:CDS
TGTATCGAGACGAGCACTCA+CGG 0.615716 2.1:-4362036 None:intergenic
GAAACAGTTTGTGAATATGG+AGG 0.622410 2.1:+4362172 MS.gene069907:CDS
CCTCCGATTATCCTCCCGAT+TGG 0.622929 2.1:+4362010 MS.gene069907:CDS
GGTGGCGGATGATTATGGAC+TGG 0.630897 2.1:+4362280 MS.gene069907:CDS
TGGAATCATCGTTGGCGACG+GGG 0.631330 2.1:+4362111 MS.gene069907:CDS
GAGTGCTCGTCTCGATACAC+AGG 0.631959 2.1:+4362040 MS.gene069907:CDS
TTGATGAGGATGATTTGTCA+AGG 0.632184 2.1:+4362372 MS.gene069907:CDS
TTTATGGAAAGTGCTATGGC+GGG 0.633565 2.1:+4362206 MS.gene069907:CDS
AGTTTCTGTTAATCTTCCGG+TGG 0.644468 2.1:+4362304 MS.gene069907:CDS
TAATAGTTTGATGCAACAGG+TGG 0.645930 2.1:+4362262 MS.gene069907:CDS
ACTCACGGCGTCCAATCGGG+AGG 0.657435 2.1:-4362021 None:intergenic
CCAATCGGGAGGATAATCGG+AGG 0.739296 2.1:-4362010 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTCACCTTGAGTTTTT+CGG - chr2.1:4361910-4361929 None:intergenic 25.0%
GTGAAAAAAGCAATCGAAAA+AGG + chr2.1:4361921-4361940 MS.gene069907:CDS 30.0%
AGAGAAATCCGAAAAACTCA+AGG + chr2.1:4361899-4361918 MS.gene069907:CDS 35.0%
AGCAATCGAAAAAGGTAACA+TGG + chr2.1:4361929-4361948 MS.gene069907:CDS 35.0%
ATCGAAAAAGGTAACATGGA+CGG + chr2.1:4361933-4361952 MS.gene069907:CDS 35.0%
CGAGAAACAGTTTGTGAATA+TGG + chr2.1:4362169-4362188 MS.gene069907:CDS 35.0%
GAAACAGTTTGTGAATATGG+AGG + chr2.1:4362172-4362191 MS.gene069907:CDS 35.0%
GGAAGTTTCTGTTAATCTTC+CGG + chr2.1:4362301-4362320 MS.gene069907:CDS 35.0%
GGTTAATAGTTTGATGCAAC+AGG + chr2.1:4362259-4362278 MS.gene069907:CDS 35.0%
TAATAGTTTGATGCAACAGG+TGG + chr2.1:4362262-4362281 MS.gene069907:CDS 35.0%
TCAACGATCAGTAAATCGAT+GGG + chr2.1:4362071-4362090 MS.gene069907:CDS 35.0%
! TTGATGAGGATGATTTGTCA+AGG + chr2.1:4362372-4362391 MS.gene069907:CDS 35.0%
!! CTTTTTCGCATTTTCTTGCT+TGG - chr2.1:4361878-4361897 None:intergenic 35.0%
AAACTATTAACCTCCCCTTC+CGG - chr2.1:4362251-4362270 None:intergenic 40.0%
AGTTTCTGTTAATCTTCCGG+TGG + chr2.1:4362304-4362323 MS.gene069907:CDS 40.0%
GAAATCGTTGGAATCATCGT+TGG + chr2.1:4362103-4362122 MS.gene069907:CDS 40.0%
GAAGCTTCTGAATCAGATCA+TGG + chr2.1:4361821-4361840 MS.gene069907:CDS 40.0%
GTCAACGATCAGTAAATCGA+TGG + chr2.1:4362070-4362089 MS.gene069907:CDS 40.0%
TGTGAATATGGAGGTTCAAG+CGG + chr2.1:4362181-4362200 MS.gene069907:CDS 40.0%
!! GGAGTTTATGGAAAGTGCTA+TGG + chr2.1:4362202-4362221 MS.gene069907:CDS 40.0%
!! GTTTATGGAAAGTGCTATGG+CGG + chr2.1:4362205-4362224 MS.gene069907:CDS 40.0%
!! TTGGCGTTGAAGAGATTTTG+AGG - chr2.1:4361859-4361878 None:intergenic 40.0%
!! TTTATGGAAAGTGCTATGGC+GGG + chr2.1:4362206-4362225 MS.gene069907:CDS 40.0%
CTCGAATTGATCCATCGTCT+CGG - chr2.1:4362153-4362172 None:intergenic 45.0%
CTTGCTGAGCTTAAAGCTAG+AGG + chr2.1:4362398-4362417 MS.gene069907:CDS 45.0%
GGGAAACATCGTGAAATCGT+TGG + chr2.1:4362091-4362110 MS.gene069907:CDS 45.0%
TAAGGAGAAGGATGCTGAGA+AGG + chr2.1:4362349-4362368 MS.gene069907:CDS 45.0%
TAGTTTGATGCAACAGGTGG+CGG + chr2.1:4362265-4362284 MS.gene069907:CDS 45.0%
TCAGCATCCTTCTCCTTAAC+CGG - chr2.1:4362347-4362366 None:intergenic 45.0%
TTCTGTTAATCTTCCGGTGG+CGG + chr2.1:4362307-4362326 MS.gene069907:CDS 45.0%
! TCATCTGCTCTGTGCGTTTT+CGG - chr2.1:4361986-4362005 None:intergenic 45.0%
CGTCCAATCGGGAGGATAAT+CGG - chr2.1:4362016-4362035 None:intergenic 50.0%
GGAGGTTCAAGCGGAGTTTA+TGG + chr2.1:4362190-4362209 MS.gene069907:CDS 50.0%
GTTGGAATCATCGTTGGCGA+CGG + chr2.1:4362109-4362128 MS.gene069907:CDS 50.0%
TGCTCATGCTGTTCCGGTTA+AGG + chr2.1:4362331-4362350 MS.gene069907:CDS 50.0%
TGCTGTTCCGGTTAAGGAGA+AGG + chr2.1:4362337-4362356 MS.gene069907:CDS 50.0%
TGTATCGAGACGAGCACTCA+CGG - chr2.1:4362039-4362058 None:intergenic 50.0%
TTGGAATCATCGTTGGCGAC+GGG + chr2.1:4362110-4362129 MS.gene069907:CDS 50.0%
! ATCGACTTCCCTTTCGACTC+CGG + chr2.1:4362229-4362248 MS.gene069907:CDS 50.0%
!! CAACAGGTGGCGGATGATTA+TGG + chr2.1:4362275-4362294 MS.gene069907:CDS 50.0%
!! GGATGCTGAGAAGGTTGATG+AGG + chr2.1:4362358-4362377 MS.gene069907:CDS 50.0%
ACTTCCCTTTCGACTCCGGA+AGG + chr2.1:4362233-4362252 MS.gene069907:CDS 55.0%
CCAATCGGGAGGATAATCGG+AGG - chr2.1:4362013-4362032 None:intergenic 55.0%
CCTCCGATTATCCTCCCGAT+TGG + chr2.1:4362010-4362029 MS.gene069907:CDS 55.0%
CTTCCCTTTCGACTCCGGAA+GGG + chr2.1:4362234-4362253 MS.gene069907:CDS 55.0%
GAGTGCTCGTCTCGATACAC+AGG + chr2.1:4362040-4362059 MS.gene069907:CDS 55.0%
GCAGAAGATGTCCGAGACGA+TGG + chr2.1:4362139-4362158 MS.gene069907:CDS 55.0%
TGGAATCATCGTTGGCGACG+GGG + chr2.1:4362111-4362130 MS.gene069907:CDS 55.0%
TTCCCTTTCGACTCCGGAAG+GGG + chr2.1:4362235-4362254 MS.gene069907:CDS 55.0%
!! GGTGGCGGATGATTATGGAC+TGG + chr2.1:4362280-4362299 MS.gene069907:CDS 55.0%
AGCACTCACGGCGTCCAATC+GGG - chr2.1:4362027-4362046 None:intergenic 60.0%
CTCCCCTTCCGGAGTCGAAA+GGG - chr2.1:4362240-4362259 None:intergenic 60.0%
GAGCACTCACGGCGTCCAAT+CGG - chr2.1:4362028-4362047 None:intergenic 60.0%
ACAGCATGAGCAGCCGCCAC+CGG - chr2.1:4362323-4362342 None:intergenic 65.0%
ACTCACGGCGTCCAATCGGG+AGG - chr2.1:4362024-4362043 None:intergenic 65.0%
CCTCCCCTTCCGGAGTCGAA+AGG - chr2.1:4362241-4362260 None:intergenic 65.0%
CCTTTCGACTCCGGAAGGGG+AGG + chr2.1:4362238-4362257 MS.gene069907:CDS 65.0%
GGCGGCTGCTCATGCTGTTC+CGG + chr2.1:4362325-4362344 MS.gene069907:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 4361807 4362424 4361807 ID=MS.gene069907
chr2.1 mRNA 4361807 4362424 4361807 ID=MS.gene069907.t1;Parent=MS.gene069907
chr2.1 exon 4361807 4362424 4361807 ID=MS.gene069907.t1.exon1;Parent=MS.gene069907.t1
chr2.1 CDS 4361807 4362424 4361807 ID=cds.MS.gene069907.t1;Parent=MS.gene069907.t1
Gene Sequence

>MS.gene069907

ATGGGAAACACAGAGAAGCTTCTGAATCAGATCATGGAATTGAAATTCACCTCAAAATCTCTTCAACGCCAAGCAAGAAAATGCGAAAAAGAAGAGAAATCCGAAAAACTCAAGGTGAAAAAAGCAATCGAAAAAGGTAACATGGACGGTGCACGAATCTACGCTGAAAACGCGATCCGAAAACGCACAGAGCAGATGAACTACCTCCGATTATCCTCCCGATTGGACGCCGTGAGTGCTCGTCTCGATACACAGGCGAAGATGTCAACGATCAGTAAATCGATGGGAAACATCGTGAAATCGTTGGAATCATCGTTGGCGACGGGGAATTTGCAGAAGATGTCCGAGACGATGGATCAATTCGAGAAACAGTTTGTGAATATGGAGGTTCAAGCGGAGTTTATGGAAAGTGCTATGGCGGGATCGACTTCCCTTTCGACTCCGGAAGGGGAGGTTAATAGTTTGATGCAACAGGTGGCGGATGATTATGGACTGGAAGTTTCTGTTAATCTTCCGGTGGCGGCTGCTCATGCTGTTCCGGTTAAGGAGAAGGATGCTGAGAAGGTTGATGAGGATGATTTGTCAAGGCGTCTTGCTGAGCTTAAAGCTAGAGGTTAA
Protein sequence

>MS.gene069907.t1

MGNTEKLLNQIMELKFTSKSLQRQARKCEKEEKSEKLKVKKAIEKGNMDGARIYAENAIRKRTEQMNYLRLSSRLDAVSARLDTQAKMSTISKSMGNIVKSLESSLATGNLQKMSETMDQFEKQFVNMEVQAEFMESAMAGSTSLSTPEGEVNSLMQQVADDYGLEVSVNLPVAAAHAVPVKEKDAEKVDEDDLSRRLAELKARG