AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67018

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67018.t1 MTR_6g033345 88.811 143 16 0 1 143 99 241 1.83e-91 265
MS.gene67018.t1 MTR_6g033350 76.027 146 35 0 1 146 269 414 6.38e-74 235
MS.gene67018.t1 MTR_1g095570 50.685 146 70 1 2 147 532 675 8.87e-41 145
MS.gene67018.t1 MTR_1g095570 50.685 146 70 1 2 147 964 1107 1.33e-40 144
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67018.t1 AT3G52250 35.252 139 88 1 11 147 1075 1213 1.56e-18 81.6
MS.gene67018.t1 AT3G52250 35.252 139 88 1 11 147 1075 1213 1.56e-18 81.6

Find 37 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCTAAAATTGTTGGATTAC+CGG 0.319216 6.2:-23314968 MS.gene67018:CDS
AAAATACTCTGCACTGGTAC+TGG 0.329074 6.2:+23315037 None:intergenic
TCTCGCCGGAACAAGTTTCT+TGG 0.390996 6.2:+23315178 None:intergenic
GGTCAAAGGGCTAAAATTGT+TGG 0.400501 6.2:-23314976 MS.gene67018:CDS
AAAGTCAGCTGATAGATTCC+TGG 0.428679 6.2:+23314786 None:intergenic
TGCTTTATCATCTTACAGTA+AGG 0.434500 6.2:-23315097 MS.gene67018:CDS
GCTAAAATTGTTGGATTACC+GGG 0.456842 6.2:-23314967 MS.gene67018:CDS
ATGATGATGTGGATGGTGGC+AGG 0.460790 6.2:-23314942 MS.gene67018:CDS
ATTGACCAAGAAACTTGTTC+CGG 0.462073 6.2:-23315183 MS.gene67018:CDS
TCATGATGAGTCTATTCCTA+TGG 0.482867 6.2:-23314812 MS.gene67018:CDS
TACAAGTTCTTATCAGATGC+TGG 0.510283 6.2:+23314835 None:intergenic
CACTTCACCACTGCTCTCGC+CGG 0.511452 6.2:+23315164 None:intergenic
AAATACTCTGCACTGGTACT+GGG 0.518312 6.2:+23315038 None:intergenic
GTTAATGACTCTGATACATC+AGG 0.526208 6.2:-23314880 MS.gene67018:CDS
AATGCATGCATTGCAGAGAC+AGG 0.526335 6.2:-23314907 MS.gene67018:CDS
AGTCTATTCCTATGGAAGCC+AGG 0.526851 6.2:-23314804 MS.gene67018:CDS
CGGCGAGAGCAGTGGTGAAG+TGG 0.532478 6.2:-23315163 MS.gene67018:CDS
GCAATGATTGCACAGTATGT+TGG 0.532632 6.2:-23315069 MS.gene67018:CDS
AGTTCTTATCAGATGCTGGC+TGG 0.537699 6.2:+23314839 None:intergenic
AATGGATCTCATAGGTCAAA+GGG 0.540344 6.2:-23314989 MS.gene67018:CDS
CACATTGGAATGGATCTCAT+AGG 0.550234 6.2:-23314997 MS.gene67018:CDS
TCTGATGCCGGTCATTACTC+AGG 0.557497 6.2:-23315208 None:intergenic
GAATGGATCTCATAGGTCAA+AGG 0.557727 6.2:-23314990 MS.gene67018:CDS
GATAGATTCCTGGCTTCCAT+AGG 0.558864 6.2:+23314796 None:intergenic
AGCAAGACTCACAAACACAT+TGG 0.563256 6.2:-23315012 MS.gene67018:CDS
GACTCACAAACACATTGGAA+TGG 0.575697 6.2:-23315007 MS.gene67018:CDS
TCAATATCCTGAGTAATGAC+CGG 0.596443 6.2:+23315201 None:intergenic
GGGGATGATGATGTGGATGG+TGG 0.597607 6.2:-23314946 MS.gene67018:CDS
GTGAAGTGGAGCTTACTGAT+TGG 0.601177 6.2:-23315149 MS.gene67018:CDS
TGTAAGATGATAAAGCATGA+AGG 0.602390 6.2:+23315103 None:intergenic
ATCAGGCACTAAAACAAATG+TGG 0.606889 6.2:-23314863 MS.gene67018:CDS
TGATTGGACAGATGTGGAGA+AGG 0.607263 6.2:-23315133 MS.gene67018:CDS
CCATCCACATCATCATCCCC+CGG 0.619203 6.2:+23314949 None:intergenic
ACTTGTTCCGGCGAGAGCAG+TGG 0.621466 6.2:-23315171 MS.gene67018:CDS
GCTTACTGATTGGACAGATG+TGG 0.639466 6.2:-23315139 MS.gene67018:CDS
CTAAAATTGTTGGATTACCG+GGG 0.647587 6.2:-23314966 MS.gene67018:CDS
TAAAATTGTTGGATTACCGG+GGG 0.669025 6.2:-23314965 MS.gene67018:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGCTTTATCATCTTACAGTA+AGG - chr6.2:23314887-23314906 MS.gene67018:CDS 30.0%
TGTAAGATGATAAAGCATGA+AGG + chr6.2:23314884-23314903 None:intergenic 30.0%
AATGGATCTCATAGGTCAAA+GGG - chr6.2:23314995-23315014 MS.gene67018:CDS 35.0%
ATCAGGCACTAAAACAAATG+TGG - chr6.2:23315121-23315140 MS.gene67018:CDS 35.0%
CTAAAATTGTTGGATTACCG+GGG - chr6.2:23315018-23315037 MS.gene67018:CDS 35.0%
GCTAAAATTGTTGGATTACC+GGG - chr6.2:23315017-23315036 MS.gene67018:CDS 35.0%
GGCTAAAATTGTTGGATTAC+CGG - chr6.2:23315016-23315035 MS.gene67018:CDS 35.0%
GTTAATGACTCTGATACATC+AGG - chr6.2:23315104-23315123 MS.gene67018:CDS 35.0%
TAAAATTGTTGGATTACCGG+GGG - chr6.2:23315019-23315038 MS.gene67018:CDS 35.0%
TACAAGTTCTTATCAGATGC+TGG + chr6.2:23315152-23315171 None:intergenic 35.0%
TCAATATCCTGAGTAATGAC+CGG + chr6.2:23314786-23314805 None:intergenic 35.0%
TCATGATGAGTCTATTCCTA+TGG - chr6.2:23315172-23315191 MS.gene67018:CDS 35.0%
TGCTAAAAAATACTCTGCAC+TGG + chr6.2:23314956-23314975 None:intergenic 35.0%
! ATTGACCAAGAAACTTGTTC+CGG - chr6.2:23314801-23314820 MS.gene67018:CDS 35.0%
AAAGTCAGCTGATAGATTCC+TGG + chr6.2:23315201-23315220 None:intergenic 40.0%
AGCAAGACTCACAAACACAT+TGG - chr6.2:23314972-23314991 MS.gene67018:CDS 40.0%
CACATTGGAATGGATCTCAT+AGG - chr6.2:23314987-23315006 MS.gene67018:CDS 40.0%
GAATGGATCTCATAGGTCAA+AGG - chr6.2:23314994-23315013 MS.gene67018:CDS 40.0%
GACTCACAAACACATTGGAA+TGG - chr6.2:23314977-23314996 MS.gene67018:CDS 40.0%
GCAATGATTGCACAGTATGT+TGG - chr6.2:23314915-23314934 MS.gene67018:CDS 40.0%
GGTCAAAGGGCTAAAATTGT+TGG - chr6.2:23315008-23315027 MS.gene67018:CDS 40.0%
! AAAATACTCTGCACTGGTAC+TGG + chr6.2:23314950-23314969 None:intergenic 40.0%
! AAATACTCTGCACTGGTACT+GGG + chr6.2:23314949-23314968 None:intergenic 40.0%
AATGCATGCATTGCAGAGAC+AGG - chr6.2:23315077-23315096 MS.gene67018:CDS 45.0%
AGTCTATTCCTATGGAAGCC+AGG - chr6.2:23315180-23315199 MS.gene67018:CDS 45.0%
AGTTCTTATCAGATGCTGGC+TGG + chr6.2:23315148-23315167 None:intergenic 45.0%
GATAGATTCCTGGCTTCCAT+AGG + chr6.2:23315191-23315210 None:intergenic 45.0%
GTGAAGTGGAGCTTACTGAT+TGG - chr6.2:23314835-23314854 MS.gene67018:CDS 45.0%
TGATTGGACAGATGTGGAGA+AGG - chr6.2:23314851-23314870 MS.gene67018:CDS 45.0%
! GCTTACTGATTGGACAGATG+TGG - chr6.2:23314845-23314864 MS.gene67018:CDS 45.0%
TCTCGCCGGAACAAGTTTCT+TGG + chr6.2:23314809-23314828 None:intergenic 50.0%
! ATGATGATGTGGATGGTGGC+AGG - chr6.2:23315042-23315061 MS.gene67018:CDS 50.0%
! ATTACCGGGGGATGATGATG+TGG - chr6.2:23315031-23315050 MS.gene67018:CDS 50.0%
CCATCCACATCATCATCCCC+CGG + chr6.2:23315038-23315057 None:intergenic 55.0%
! GGGGATGATGATGTGGATGG+TGG - chr6.2:23315038-23315057 MS.gene67018:CDS 55.0%
ACTTGTTCCGGCGAGAGCAG+TGG - chr6.2:23314813-23314832 MS.gene67018:CDS 60.0%
CACTTCACCACTGCTCTCGC+CGG + chr6.2:23314823-23314842 None:intergenic 60.0%
! CCGGGGGATGATGATGTGGA+TGG - chr6.2:23315035-23315054 MS.gene67018:CDS 60.0%
CGGCGAGAGCAGTGGTGAAG+TGG - chr6.2:23314821-23314840 MS.gene67018:CDS 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 23314780 23315226 23314780 ID=MS.gene67018
chr6.2 mRNA 23314780 23315226 23314780 ID=MS.gene67018.t1;Parent=MS.gene67018
chr6.2 exon 23314780 23315226 23314780 ID=MS.gene67018.t1.exon1;Parent=MS.gene67018.t1
chr6.2 CDS 23314780 23315226 23314780 ID=cds.MS.gene67018.t1;Parent=MS.gene67018.t1
Gene Sequence

>MS.gene67018

ATGCCGGTCATTACTCAGGATATTGACCAAGAAACTTGTTCCGGCGAGAGCAGTGGTGAAGTGGAGCTTACTGATTGGACAGATGTGGAGAAGGCAGCATTCCTTCATGCTTTATCATCTTACAGTAAGGAATTTGCAATGATTGCACAGTATGTTGGAACAAGATCCCAGTACCAGTGCAGAGTATTTTTTAGCAAGACTCACAAACACATTGGAATGGATCTCATAGGTCAAAGGGCTAAAATTGTTGGATTACCGGGGGATGATGATGTGGATGGTGGCAGGAGCAATGCAGATAATGCATGCATTGCAGAGACAGGTTCAGTTAATGACTCTGATACATCAGGCACTAAAACAAATGTGGACCAGCCAGCATCTGATAAGAACTTGTATCATGATGAGTCTATTCCTATGGAAGCCAGGAATCTATCAGCTGACTTTAGATGA
Protein sequence

>MS.gene67018.t1

MPVITQDIDQETCSGESSGEVELTDWTDVEKAAFLHALSSYSKEFAMIAQYVGTRSQYQCRVFFSKTHKHIGMDLIGQRAKIVGLPGDDDVDGGRSNADNACIAETGSVNDSDTSGTKTNVDQPASDKNLYHDESIPMEARNLSADFR