AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068910

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068910.t1 MTR_2g045020 85.027 187 27 1 16 201 1 187 9.04e-107 304
MS.gene068910.t1 MTR_3g437790 62.766 188 54 5 16 195 1 180 4.55e-66 201
MS.gene068910.t1 MTR_8g022970 47.568 185 77 6 28 201 8 183 8.16e-43 142
MS.gene068910.t1 MTR_3g109930 49.635 137 65 3 50 185 23 156 7.72e-37 126
MS.gene068910.t1 MTR_2g105290 38.272 162 81 6 35 182 5 161 1.43e-18 79.7
MS.gene068910.t1 MTR_7g028448 34.586 133 73 3 51 182 34 153 8.24e-17 74.7
MS.gene068910.t1 MTR_4g036915 34.586 133 73 3 51 182 34 153 8.24e-17 74.7
MS.gene068910.t1 MTR_8g086290 34.884 172 91 7 35 196 10 170 2.31e-14 68.6
MS.gene068910.t1 MTR_5g053390 32.051 156 91 6 36 179 7 159 2.11e-12 64.3
MS.gene068910.t1 MTR_3g052920 31.677 161 85 5 36 179 7 159 6.21e-12 62.8
MS.gene068910.t1 MTR_3g080940 32.168 143 77 6 50 182 30 162 1.08e-11 61.6
MS.gene068910.t1 MTR_8g043650 33.125 160 78 7 36 176 7 156 1.50e-11 61.6
MS.gene068910.t1 MTR_1g105910 31.613 155 87 6 36 176 7 156 1.74e-11 61.6
MS.gene068910.t1 MTR_1g106070 30.864 162 85 7 36 179 7 159 2.43e-11 60.5
MS.gene068910.t1 MTR_1g012570 30.380 158 91 6 36 179 7 159 5.75e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068910.t1 AT5G60440 31.618 136 82 5 51 179 29 160 1.39e-12 65.5
MS.gene068910.t1 AT2G24840 26.882 186 114 6 37 201 65 249 3.70e-12 63.9

Find 27 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAGTAGCAATGTTTATATT+TGG 0.182142 2.1:+45955602 None:intergenic
GTTTATATTTGGATGTAAAT+TGG 0.187712 2.1:+45955613 None:intergenic
TGAGGACTTTAAGAATTCTT+TGG 0.239126 2.1:-45955681 MS.gene068910:CDS
GAATAATTCTATTGATGATA+TGG 0.255478 2.1:-45955717 MS.gene068910:CDS
GTGCTTCATATTGAAGCCTT+AGG 0.338858 2.1:+45955831 None:intergenic
TAGAATTATTCCACCAATCA+TGG 0.397833 2.1:+45955729 None:intergenic
TGAAGAAGAGCAGGATACTT+TGG 0.413235 2.1:-45955795 MS.gene068910:CDS
TGCTTCATATTGAAGCCTTA+GGG 0.444644 2.1:+45955832 None:intergenic
GCATAGAACTTGTTCTTGTC+CGG 0.453036 2.1:+45955956 None:intergenic
GAATTCTTTGGAGAGTTTCA+AGG 0.479356 2.1:-45955669 MS.gene068910:CDS
ACGTTGAATGACAGCATCAC+AGG 0.479438 2.1:+45955922 None:intergenic
AATTCTTTGGAGAGTTTCAA+GGG 0.490979 2.1:-45955668 MS.gene068910:CDS
GATGCATGAAATCAAGAAAG+AGG 0.498636 2.1:-45956065 MS.gene068910:CDS
ATCCTCGACCATCATATGTC+CGG 0.509285 2.1:+45955892 None:intergenic
TCATGAATAAGAAAATTGCT+AGG 0.520358 2.1:-45956141 MS.gene068910:CDS
ATGAAATTGCTGAAACCCTA+AGG 0.533334 2.1:-45955847 MS.gene068910:CDS
GGACATATGATGGTCGAGGA+TGG 0.543275 2.1:-45955890 MS.gene068910:CDS
TGCAATCATCGTCAAATCGC+CGG 0.556447 2.1:-45955975 MS.gene068910:CDS
GACATATGATGGTCGAGGAT+GGG 0.560153 2.1:-45955889 MS.gene068910:CDS
CATGAATAAGAAAATTGCTA+GGG 0.580537 2.1:-45956140 MS.gene068910:CDS
CGTTGAATGACAGCATCACA+GGG 0.594896 2.1:+45955923 None:intergenic
GACCGGACATATGATGGTCG+AGG 0.605126 2.1:-45955894 MS.gene068910:CDS
AAGAACAAGTTCTATGCATG+TGG 0.639320 2.1:-45955950 MS.gene068910:CDS
TATGGATTTAGCATCTCTTG+AGG 0.650206 2.1:-45955699 MS.gene068910:CDS
AAACAAAACTGAACAACACA+CGG 0.663810 2.1:-45956096 MS.gene068910:CDS
GGAAGCTGTCAAAGTCACTG+AGG 0.723299 2.1:-45955774 MS.gene068910:CDS
GTTGAATGACAGCATCACAG+GGG 0.800398 2.1:+45955924 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTTATATTTGGATGTAAAT+TGG + chr2.1:45956175-45956194 None:intergenic 20.0%
!! TAAGTAGCAATGTTTATATT+TGG + chr2.1:45956186-45956205 None:intergenic 20.0%
!!! GAATAATTCTATTGATGATA+TGG - chr2.1:45956068-45956087 MS.gene068910:CDS 20.0%
! CATGAATAAGAAAATTGCTA+GGG - chr2.1:45955645-45955664 MS.gene068910:CDS 25.0%
! TCATGAATAAGAAAATTGCT+AGG - chr2.1:45955644-45955663 MS.gene068910:CDS 25.0%
!!! ATTTTAATTTCCATGATTGG+TGG - chr2.1:45956046-45956065 MS.gene068910:CDS 25.0%
!!! GTGATTTTAATTTCCATGAT+TGG - chr2.1:45956043-45956062 MS.gene068910:CDS 25.0%
AAACAAAACTGAACAACACA+CGG - chr2.1:45955689-45955708 MS.gene068910:CDS 30.0%
TAGAATTATTCCACCAATCA+TGG + chr2.1:45956059-45956078 None:intergenic 30.0%
! AATTCTTTGGAGAGTTTCAA+GGG - chr2.1:45956117-45956136 MS.gene068910:CDS 30.0%
! TGAGGACTTTAAGAATTCTT+TGG - chr2.1:45956104-45956123 MS.gene068910:CDS 30.0%
!!! TGTTGTTCAGTTTTGTTTCA+GGG + chr2.1:45955687-45955706 None:intergenic 30.0%
AAGAACAAGTTCTATGCATG+TGG - chr2.1:45955835-45955854 MS.gene068910:CDS 35.0%
AGAAAAACTTGAAGAAGAGC+AGG - chr2.1:45955981-45956000 MS.gene068910:CDS 35.0%
ATGAAATTGCTGAAACCCTA+AGG - chr2.1:45955938-45955957 MS.gene068910:CDS 35.0%
GATGCATGAAATCAAGAAAG+AGG - chr2.1:45955720-45955739 MS.gene068910:CDS 35.0%
TATGGATTTAGCATCTCTTG+AGG - chr2.1:45956086-45956105 MS.gene068910:CDS 35.0%
TGCTTCATATTGAAGCCTTA+GGG + chr2.1:45955956-45955975 None:intergenic 35.0%
! CGATGATTGCAGTTTTTGAT+TGG + chr2.1:45955801-45955820 None:intergenic 35.0%
! GAATTCTTTGGAGAGTTTCA+AGG - chr2.1:45956116-45956135 MS.gene068910:CDS 35.0%
!!! GTGTTGTTCAGTTTTGTTTC+AGG + chr2.1:45955688-45955707 None:intergenic 35.0%
GTGCTTCATATTGAAGCCTT+AGG + chr2.1:45955957-45955976 None:intergenic 40.0%
TGAAGAAGAGCAGGATACTT+TGG - chr2.1:45955990-45956009 MS.gene068910:CDS 40.0%
! GCATAGAACTTGTTCTTGTC+CGG + chr2.1:45955832-45955851 None:intergenic 40.0%
! GTCATTCAACGTTTTCTGAC+CGG - chr2.1:45955874-45955893 MS.gene068910:CDS 40.0%
! TTTTCTGACCGGACATATGA+TGG - chr2.1:45955885-45955904 MS.gene068910:CDS 40.0%
ACGTTGAATGACAGCATCAC+AGG + chr2.1:45955866-45955885 None:intergenic 45.0%
ATCCTCGACCATCATATGTC+CGG + chr2.1:45955896-45955915 None:intergenic 45.0%
CGTTGAATGACAGCATCACA+GGG + chr2.1:45955865-45955884 None:intergenic 45.0%
GACATATGATGGTCGAGGAT+GGG - chr2.1:45955896-45955915 MS.gene068910:CDS 45.0%
GAGGAAAAAGAACGCAGACT+CGG - chr2.1:45955739-45955758 MS.gene068910:CDS 45.0%
GTTGAATGACAGCATCACAG+GGG + chr2.1:45955864-45955883 None:intergenic 45.0%
TGCAATCATCGTCAAATCGC+CGG - chr2.1:45955810-45955829 MS.gene068910:CDS 45.0%
GGAAGCTGTCAAAGTCACTG+AGG - chr2.1:45956011-45956030 MS.gene068910:CDS 50.0%
GGACATATGATGGTCGAGGA+TGG - chr2.1:45955895-45955914 MS.gene068910:CDS 50.0%
GACCGGACATATGATGGTCG+AGG - chr2.1:45955891-45955910 MS.gene068910:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 45955601 45956206 45955601 ID=MS.gene068910
chr2.1 mRNA 45955601 45956206 45955601 ID=MS.gene068910.t1;Parent=MS.gene068910
chr2.1 exon 45955601 45956206 45955601 ID=MS.gene068910.t1.exon1;Parent=MS.gene068910.t1
chr2.1 CDS 45955601 45956206 45955601 ID=cds.MS.gene068910.t1;Parent=MS.gene068910.t1
Gene Sequence

>MS.gene068910

ATGTTATCAGATAATTCATCATCAGTGATGTTGAATGAAACAATCATGAATAAGAAAATTGCTAGGGCTTGTGAGAGAAAGAACCCTGAAACAAAACTGAACAACACACGGAAGAGAAAGATGCATGAAATCAAGAAAGAGGAAAAAGAACGCAGACTCGGAATTTTCAACAAAGCAATAGAGCTGTCTATTCTATGCCAATCAAAAACTGCAATCATCGTCAAATCGCCGGACAAGAACAAGTTCTATGCATGTGGCTACCCCTGTGATGCTGTCATTCAACGTTTTCTGACCGGACATATGATGGTCGAGGATGGGAAAAAGAAGAAACAAGATGATGAAATTGCTGAAACCCTAAGGCTTCAATATGAAGCACTTCAAGAAAAACTTGAAGAAGAGCAGGATACTTTGGAAGCTGTCAAAGTCACTGAGGCACAAAAGAGTGATTTTAATTTCCATGATTGGTGGAATAATTCTATTGATGATATGGATTTAGCATCTCTTGAGGACTTTAAGAATTCTTTGGAGAGTTTCAAGGGTAATTTACGTTCAGCAAGCGAAGCAGAGAAGTCCAATTTACATCCAAATATAAACATTGCTACTTAA
Protein sequence

>MS.gene068910.t1

MLSDNSSSVMLNETIMNKKIARACERKNPETKLNNTRKRKMHEIKKEEKERRLGIFNKAIELSILCQSKTAIIVKSPDKNKFYACGYPCDAVIQRFLTGHMMVEDGKKKKQDDEIAETLRLQYEALQEKLEEEQDTLEAVKVTEAQKSDFNFHDWWNNSIDDMDLASLEDFKNSLESFKGNLRSASEAEKSNLHPNINIAT