AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76232

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76232.t1 MTR_1g112050 96.104 154 6 0 1 154 1 154 9.76e-109 306
MS.gene76232.t1 MTR_1g112030 90.850 153 14 0 1 153 7 159 6.89e-100 284
MS.gene76232.t1 MTR_1g112030 90.850 153 14 0 1 153 3 155 9.73e-100 283
MS.gene76232.t1 MTR_2g086510 71.756 131 36 1 24 153 24 154 7.55e-64 192
MS.gene76232.t1 MTR_4g053120 62.987 154 53 2 1 153 4 154 4.02e-62 188
MS.gene76232.t1 MTR_2g006290 55.479 146 59 3 13 153 4 148 2.97e-49 155
MS.gene76232.t1 MTR_8g088720 55.102 147 63 3 9 153 1 146 7.71e-49 154
MS.gene76232.t1 MTR_5g006320 35.200 125 79 2 29 153 21 143 2.02e-19 79.7
MS.gene76232.t1 MTR_4g098490 37.647 85 53 0 69 153 74 158 9.02e-17 73.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76232.t1 AT2G27510 58.861 158 56 3 1 153 1 154 9.69e-58 177
MS.gene76232.t1 AT1G60950 60.630 127 44 3 32 153 22 147 6.40e-50 157
MS.gene76232.t1 AT1G10960 59.690 129 46 3 30 153 20 147 5.06e-48 152
MS.gene76232.t1 AT5G10000 53.846 117 51 2 40 153 31 147 3.08e-38 127
MS.gene76232.t1 AT4G14890 42.574 101 55 3 53 153 47 144 7.52e-19 78.2
MS.gene76232.t1 AT1G32550 38.824 85 52 0 69 153 69 153 1.15e-16 73.2
MS.gene76232.t1 AT1G32550 29.730 148 78 3 32 153 19 166 1.68e-11 59.7

Find 36 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCCGATGACTATTACATTT+TGG 0.219380 1.1:-79069882 MS.gene76232:CDS
CTGTGCCGGCCAAGTGGTTT+CGG 0.236759 1.1:-79069798 MS.gene76232:CDS
TAAATCACAGTATCTGATTT+CGG 0.282556 1.1:+79069695 None:intergenic
TTCACAGATCTCAAACTTGA+TGG 0.283462 1.1:+79070016 None:intergenic
AAATCACAGTATCTGATTTC+GGG 0.297921 1.1:+79069696 None:intergenic
TGTGCCGGCCAAGTGGTTTC+GGG 0.331646 1.1:-79069797 MS.gene76232:CDS
AAGAATGTGTCCAAAAGATT+TGG 0.383547 1.1:-79069995 MS.gene76232:CDS
TCCAAAATGTAATAGTCATC+GGG 0.403831 1.1:+79069881 None:intergenic
AATTTGTTCTCTGTACCATC+TGG 0.448161 1.1:+79069911 None:intergenic
CTACCTTACTCATGCAGAGC+TGG 0.470258 1.1:-79069833 MS.gene76232:CDS
TGCGCGGAACGGCTCCCTCT+AGG 0.480640 1.1:-79070063 MS.gene76232:CDS
CGAAACCACTTGGCCGGCAC+AGG 0.489725 1.1:+79069799 None:intergenic
TTGGATTCAGCTGAAGAAGC+TGG 0.491539 1.1:-79069863 MS.gene76232:CDS
GCACCAGCTCTGCATGAGTA+AGG 0.507611 1.1:+79069830 None:intergenic
AGAACCCGAAACCACTTGGC+CGG 0.523396 1.1:+79069793 None:intergenic
ATCCAAAATGTAATAGTCAT+CGG 0.523543 1.1:+79069880 None:intergenic
CGACGAGCAGCAAATTGAGA+AGG 0.535435 1.1:-79069744 MS.gene76232:CDS
CAACAGAACCCGAAACCACT+TGG 0.542417 1.1:+79069789 None:intergenic
GACAGCTTCTTTGCGCGGAA+CGG 0.550384 1.1:-79070074 MS.gene76232:CDS
CTCATTTAGAATCTCAGCAA+TGG 0.565752 1.1:-79069960 MS.gene76232:CDS
CATTGCTGAGATTCTAAATG+AGG 0.566187 1.1:+79069961 None:intergenic
TTCTACCTGTGCCGGCCAAG+TGG 0.569026 1.1:-79069804 MS.gene76232:CDS
GGTGCATGTTCTACCTGTGC+CGG 0.574784 1.1:-79069812 MS.gene76232:CDS
TTCAGCTGAAGAAGCTGGAG+TGG 0.581167 1.1:-79069858 MS.gene76232:CDS
CTTCCGACAGCTTCTTTGCG+CGG 0.592710 1.1:-79070079 MS.gene76232:CDS
AGAAGCTGTCGGAAGTCTCA+TGG 0.605132 1.1:+79070087 None:intergenic
AAGAGCACAAGATGTCCTAG+AGG 0.621822 1.1:+79070048 None:intergenic
GTGAAACTGATTCAACCAGA+TGG 0.628301 1.1:-79069926 MS.gene76232:CDS
GACGAGCAGCAAATTGAGAA+GGG 0.638971 1.1:-79069743 MS.gene76232:CDS
AGAGCACAAGATGTCCTAGA+GGG 0.645453 1.1:+79070049 None:intergenic
TACTGTGATTTACACACACA+AGG 0.647153 1.1:-79069684 MS.gene76232:CDS
GTTCCGCGCAAAGAAGCTGT+CGG 0.660034 1.1:+79070076 None:intergenic
CCAAAATGTAATAGTCATCG+GGG 0.664192 1.1:+79069882 None:intergenic
CAAAATGTAATAGTCATCGG+GGG 0.705357 1.1:+79069883 None:intergenic
AGCTGTCGGAAGTCTCATGG+TGG 0.714654 1.1:+79070090 None:intergenic
TGTGATTTACACACACAAGG+AGG 0.721823 1.1:-79069681 MS.gene76232:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATCCAAAATGTAATAGTCAT+CGG + chr1.1:79069899-79069918 None:intergenic 25.0%
! TAAATCACAGTATCTGATTT+CGG + chr1.1:79070084-79070103 None:intergenic 25.0%
!!! AGATTTTAGTCCAAATCTTT+TGG + chr1.1:79069794-79069813 None:intergenic 25.0%
AAATCACAGTATCTGATTTC+GGG + chr1.1:79070083-79070102 None:intergenic 30.0%
AAGAATGTGTCCAAAAGATT+TGG - chr1.1:79069781-79069800 MS.gene76232:CDS 30.0%
TCCAAAATGTAATAGTCATC+GGG + chr1.1:79069898-79069917 None:intergenic 30.0%
CAAAATGTAATAGTCATCGG+GGG + chr1.1:79069896-79069915 None:intergenic 35.0%
CATTGCTGAGATTCTAAATG+AGG + chr1.1:79069818-79069837 None:intergenic 35.0%
CCAAAATGTAATAGTCATCG+GGG + chr1.1:79069897-79069916 None:intergenic 35.0%
TACTGTGATTTACACACACA+AGG - chr1.1:79070092-79070111 MS.gene76232:CDS 35.0%
TTCACAGATCTCAAACTTGA+TGG + chr1.1:79069763-79069782 None:intergenic 35.0%
! AATTTGTTCTCTGTACCATC+TGG + chr1.1:79069868-79069887 None:intergenic 35.0%
! CTCATTTAGAATCTCAGCAA+TGG - chr1.1:79069816-79069835 MS.gene76232:CDS 35.0%
TGTGATTTACACACACAAGG+AGG - chr1.1:79070095-79070114 MS.gene76232:CDS 40.0%
! CCCCGATGACTATTACATTT+TGG - chr1.1:79069894-79069913 MS.gene76232:CDS 40.0%
! GTGAAACTGATTCAACCAGA+TGG - chr1.1:79069850-79069869 MS.gene76232:CDS 40.0%
AGAGCACAAGATGTCCTAGA+GGG + chr1.1:79069730-79069749 None:intergenic 45.0%
GACGAGCAGCAAATTGAGAA+GGG - chr1.1:79070033-79070052 MS.gene76232:CDS 45.0%
TTGGATTCAGCTGAAGAAGC+TGG - chr1.1:79069913-79069932 MS.gene76232:CDS 45.0%
! AAGAGCACAAGATGTCCTAG+AGG + chr1.1:79069731-79069750 None:intergenic 45.0%
AGAAGCTGTCGGAAGTCTCA+TGG + chr1.1:79069692-79069711 None:intergenic 50.0%
CAACAGAACCCGAAACCACT+TGG + chr1.1:79069990-79070009 None:intergenic 50.0%
CGACGAGCAGCAAATTGAGA+AGG - chr1.1:79070032-79070051 MS.gene76232:CDS 50.0%
CTACCTTACTCATGCAGAGC+TGG - chr1.1:79069943-79069962 MS.gene76232:CDS 50.0%
TTCAGCTGAAGAAGCTGGAG+TGG - chr1.1:79069918-79069937 MS.gene76232:CDS 50.0%
AGAACCCGAAACCACTTGGC+CGG + chr1.1:79069986-79070005 None:intergenic 55.0%
AGCTGTCGGAAGTCTCATGG+TGG + chr1.1:79069689-79069708 None:intergenic 55.0%
CTTCCGACAGCTTCTTTGCG+CGG - chr1.1:79069697-79069716 MS.gene76232:CDS 55.0%
GACAGCTTCTTTGCGCGGAA+CGG - chr1.1:79069702-79069721 MS.gene76232:CDS 55.0%
GCACCAGCTCTGCATGAGTA+AGG + chr1.1:79069949-79069968 None:intergenic 55.0%
GGTGCATGTTCTACCTGTGC+CGG - chr1.1:79069964-79069983 MS.gene76232:CDS 55.0%
GTTCCGCGCAAAGAAGCTGT+CGG + chr1.1:79069703-79069722 None:intergenic 55.0%
! CTGTGCCGGCCAAGTGGTTT+CGG - chr1.1:79069978-79069997 MS.gene76232:CDS 60.0%
! TGTGCCGGCCAAGTGGTTTC+GGG - chr1.1:79069979-79069998 MS.gene76232:CDS 60.0%
! TTCTACCTGTGCCGGCCAAG+TGG - chr1.1:79069972-79069991 MS.gene76232:CDS 60.0%
CGAAACCACTTGGCCGGCAC+AGG + chr1.1:79069980-79069999 None:intergenic 65.0%
TGCGCGGAACGGCTCCCTCT+AGG - chr1.1:79069713-79069732 MS.gene76232:CDS 70.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 79069667 79070131 79069667 ID=MS.gene76232
chr1.1 mRNA 79069667 79070131 79069667 ID=MS.gene76232.t1;Parent=MS.gene76232
chr1.1 exon 79069667 79070131 79069667 ID=MS.gene76232.t1.exon1;Parent=MS.gene76232.t1
chr1.1 CDS 79069667 79070131 79069667 ID=cds.MS.gene76232.t1;Parent=MS.gene76232.t1
Gene Sequence

>MS.gene76232

ATGTCAGCTGTGAATACGTCCACCATGAGACTTCCGACAGCTTCTTTGCGCGGAACGGCTCCCTCTAGGACATCTTGTGCTCTTCTGAAGAATCCATCAAGTTTGAGATCTGTGAAGAATGTGTCCAAAAGATTTGGACTAAAATCTTCCTCATTTAGAATCTCAGCAATGGCAGTATACAAAGTGAAACTGATTCAACCAGATGGTACAGAGAACAAATTTGATGCCCCCGATGACTATTACATTTTGGATTCAGCTGAAGAAGCTGGAGTGGAGCTACCTTACTCATGCAGAGCTGGTGCATGTTCTACCTGTGCCGGCCAAGTGGTTTCGGGTTCTGTTGATCAGTCTGATCAATCTTTTCTCGACGAGCAGCAAATTGAGAAGGGTTATCTTCTCACATGTGTCTCATACCCGAAATCAGATACTGTGATTTACACACACAAGGAGGAAGAACTCTGCTAA
Protein sequence

>MS.gene76232.t1

MSAVNTSTMRLPTASLRGTAPSRTSCALLKNPSSLRSVKNVSKRFGLKSSSFRISAMAVYKVKLIQPDGTENKFDAPDDYYILDSAEEAGVELPYSCRAGACSTCAGQVVSGSVDQSDQSFLDEQQIEKGYLLTCVSYPKSDTVIYTHKEEELC