AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068082


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068082.t1 MTR_7g088520 92.199 141 11 0 1 141 1 141 1.70e-88 254
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 36 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGGGGTTGTGGAGGGAAT+TGG 0.246105 7.3:-20921855 None:intergenic
TGTGGAGGGAATTGGGAAAA+TGG 0.293091 7.3:-20921847 None:intergenic
TTGGGGTTGTGGAGGGAATT+GGG 0.318138 7.3:-20921854 None:intergenic
TTCTGTAGATAAGCTTCCTT+TGG 0.349663 7.3:+20922162 MS.gene068082:CDS
AGTTGAGGAAGAAGGGTAAT+TGG 0.362329 7.3:+20922278 MS.gene068082:CDS
TTCAGACCCATCTGCAACAT+TGG 0.400037 7.3:-20922110 None:intergenic
AAGAGGAAGTTGAGGAAGAA+GGG 0.402527 7.3:+20922271 MS.gene068082:CDS
TCCTTTGGAATCAAAATTGA+AGG 0.438799 7.3:+20922177 MS.gene068082:CDS
AAAGAGGAAGTTGAGGAAGA+AGG 0.452118 7.3:+20922270 MS.gene068082:CDS
AAGTCCCTTCAATGAGTTTG+TGG 0.462466 7.3:-20922017 None:intergenic
ATGGTACTTACTTGGGGTTG+TGG 0.470559 7.3:-20921865 None:intergenic
AAATGGAGGAAGAAGAAAGA+GGG 0.478465 7.3:-20921830 None:intergenic
GAAAGAGACTTGTTCAAAAG+AGG 0.482878 7.3:+20922254 MS.gene068082:CDS
TTGATAAGAAGATAAGGTTG+AGG 0.486048 7.3:+20922230 MS.gene068082:CDS
TGGAATCAAAATTGAAGGAG+AGG 0.491503 7.3:+20922182 MS.gene068082:CDS
TGAAGCTTGATAAGAAGATA+AGG 0.493499 7.3:+20922224 MS.gene068082:CDS
TCCCTCGGTTTCACAACAAA+GGG 0.494277 7.3:-20922052 None:intergenic
AGAAAGAGGGGTGAGTGTGA+TGG 0.496412 7.3:-20921817 None:intergenic
GGAATCAAAATTGAAGGAGA+GGG 0.508757 7.3:+20922183 MS.gene068082:CDS
AGTCCCTTCAATGAGTTTGT+GGG 0.524517 7.3:-20922016 None:intergenic
GTACTTACTTGGGGTTGTGG+AGG 0.532059 7.3:-20921862 None:intergenic
TTTGCCCACAAACTCATTGA+AGG 0.534777 7.3:+20922012 MS.gene068082:CDS
TTCCCTCGGTTTCACAACAA+AGG 0.535738 7.3:-20922053 None:intergenic
ACTGAATCCAATGTTGCAGA+TGG 0.538749 7.3:+20922103 MS.gene068082:CDS
TACTTACTTGGGGTTGTGGA+GGG 0.541802 7.3:-20921861 None:intergenic
TGAAGGAGAGGGAAGAGCAG+AGG 0.551586 7.3:+20922194 MS.gene068082:CDS
ATTGAAGGGACTTCGAATCT+CGG 0.553791 7.3:+20922027 MS.gene068082:CDS
TTGCCCACAAACTCATTGAA+GGG 0.555855 7.3:+20922013 MS.gene068082:CDS
AAAATGGAGGAAGAAGAAAG+AGG 0.565844 7.3:-20921831 None:intergenic
TTGTTCAAAAGAGGAAGTTG+AGG 0.577274 7.3:+20922263 MS.gene068082:CDS
AATGGAGGAAGAAGAAAGAG+GGG 0.583049 7.3:-20921829 None:intergenic
CACCCTTTGTTGTGAAACCG+AGG 0.599124 7.3:+20922050 MS.gene068082:CDS
GGAGGGAATTGGGAAAATGG+AGG 0.607476 7.3:-20921844 None:intergenic
CTGAATCCAATGTTGCAGAT+GGG 0.613616 7.3:+20922104 MS.gene068082:CDS
ACCCTTTGTTGTGAAACCGA+GGG 0.617169 7.3:+20922051 MS.gene068082:CDS
TCAGTTTCAAGAGTGCACGT+TGG 0.725975 7.3:+20921989 MS.gene068082:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACAAGAATAATAAAAACAT+GGG - chr7.3:20921925-20921944 None:intergenic 15.0%
!! TAACAAGAATAATAAAAACA+TGG - chr7.3:20921926-20921945 None:intergenic 15.0%
! AATGTATTGTGGAGAAATTA+AGG - chr7.3:20921902-20921921 None:intergenic 25.0%
!! ATAAAAATTGCATTTTCCCT+CGG - chr7.3:20922070-20922089 None:intergenic 25.0%
!!! ACTCTTCAATTTTTTCATCT+TGG - chr7.3:20922311-20922330 None:intergenic 25.0%
!!! TTCAATTTTTTCATCTTGGA+AGG - chr7.3:20922307-20922326 None:intergenic 25.0%
AAAAACATGGGAATGTATTG+TGG - chr7.3:20921913-20921932 None:intergenic 30.0%
AATTAAGGAAGAAGAAGTGA+TGG - chr7.3:20921887-20921906 None:intergenic 30.0%
TGAAGCTTGATAAGAAGATA+AGG + chr7.3:20922224-20922243 MS.gene068082:CDS 30.0%
TTGATAAGAAGATAAGGTTG+AGG + chr7.3:20922230-20922249 MS.gene068082:CDS 30.0%
!! TCCTTTGGAATCAAAATTGA+AGG + chr7.3:20922177-20922196 MS.gene068082:CDS 30.0%
!!! AATTTTTTCATCTTGGAAGG+TGG - chr7.3:20922304-20922323 None:intergenic 30.0%
!!! TCCTTCAATTTTGATTCCAA+AGG - chr7.3:20922181-20922200 None:intergenic 30.0%
AAAATGGAGGAAGAAGAAAG+AGG - chr7.3:20921834-20921853 None:intergenic 35.0%
AAATGGAGGAAGAAGAAAGA+GGG - chr7.3:20921833-20921852 None:intergenic 35.0%
AAGAAGTGATGGTACTTACT+TGG - chr7.3:20921876-20921895 None:intergenic 35.0%
AGAAGTGATGGTACTTACTT+GGG - chr7.3:20921875-20921894 None:intergenic 35.0%
GGAATCAAAATTGAAGGAGA+GGG + chr7.3:20922183-20922202 MS.gene068082:CDS 35.0%
TGGAATCAAAATTGAAGGAG+AGG + chr7.3:20922182-20922201 MS.gene068082:CDS 35.0%
TTCTGTAGATAAGCTTCCTT+TGG + chr7.3:20922162-20922181 MS.gene068082:CDS 35.0%
TTGTTCAAAAGAGGAAGTTG+AGG + chr7.3:20922263-20922282 MS.gene068082:CDS 35.0%
! GAAAGAGACTTGTTCAAAAG+AGG + chr7.3:20922254-20922273 MS.gene068082:CDS 35.0%
AAAGAGGAAGTTGAGGAAGA+AGG + chr7.3:20922270-20922289 MS.gene068082:CDS 40.0%
AAGAGGAAGTTGAGGAAGAA+GGG + chr7.3:20922271-20922290 MS.gene068082:CDS 40.0%
AAGTCCCTTCAATGAGTTTG+TGG - chr7.3:20922020-20922039 None:intergenic 40.0%
AATGGAGGAAGAAGAAAGAG+GGG - chr7.3:20921832-20921851 None:intergenic 40.0%
ACTGAATCCAATGTTGCAGA+TGG + chr7.3:20922103-20922122 MS.gene068082:CDS 40.0%
AGTCCCTTCAATGAGTTTGT+GGG - chr7.3:20922019-20922038 None:intergenic 40.0%
AGTTGAGGAAGAAGGGTAAT+TGG + chr7.3:20922278-20922297 MS.gene068082:CDS 40.0%
ATTGAAGGGACTTCGAATCT+CGG + chr7.3:20922027-20922046 MS.gene068082:CDS 40.0%
CTGAATCCAATGTTGCAGAT+GGG + chr7.3:20922104-20922123 MS.gene068082:CDS 40.0%
GAAGTGATGGTACTTACTTG+GGG - chr7.3:20921874-20921893 None:intergenic 40.0%
TTGCCCACAAACTCATTGAA+GGG + chr7.3:20922013-20922032 MS.gene068082:CDS 40.0%
TTTGCCCACAAACTCATTGA+AGG + chr7.3:20922012-20922031 MS.gene068082:CDS 40.0%
ATGGTACTTACTTGGGGTTG+TGG - chr7.3:20921868-20921887 None:intergenic 45.0%
TACTTACTTGGGGTTGTGGA+GGG - chr7.3:20921864-20921883 None:intergenic 45.0%
TCCCTCGGTTTCACAACAAA+GGG - chr7.3:20922055-20922074 None:intergenic 45.0%
TGTGGAGGGAATTGGGAAAA+TGG - chr7.3:20921850-20921869 None:intergenic 45.0%
TTCAGACCCATCTGCAACAT+TGG - chr7.3:20922113-20922132 None:intergenic 45.0%
TTCCCTCGGTTTCACAACAA+AGG - chr7.3:20922056-20922075 None:intergenic 45.0%
! ACCCTTTGTTGTGAAACCGA+GGG + chr7.3:20922051-20922070 MS.gene068082:CDS 45.0%
! TCAGTTTCAAGAGTGCACGT+TGG + chr7.3:20921989-20922008 MS.gene068082:intron 45.0%
AGAAAGAGGGGTGAGTGTGA+TGG - chr7.3:20921820-20921839 None:intergenic 50.0%
GGAGGGAATTGGGAAAATGG+AGG - chr7.3:20921847-20921866 None:intergenic 50.0%
GTACTTACTTGGGGTTGTGG+AGG - chr7.3:20921865-20921884 None:intergenic 50.0%
TTGGGGTTGTGGAGGGAATT+GGG - chr7.3:20921857-20921876 None:intergenic 50.0%
! CACCCTTTGTTGTGAAACCG+AGG + chr7.3:20922050-20922069 MS.gene068082:CDS 50.0%
CTTGGGGTTGTGGAGGGAAT+TGG - chr7.3:20921858-20921877 None:intergenic 55.0%
TGAAGGAGAGGGAAGAGCAG+AGG + chr7.3:20922194-20922213 MS.gene068082:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 20921795 20922336 20921795 ID=MS.gene068082
chr7.3 mRNA 20921795 20922336 20921795 ID=MS.gene068082.t1;Parent=MS.gene068082
chr7.3 exon 20921795 20921876 20921795 ID=MS.gene068082.t1.exon1;Parent=MS.gene068082.t1
chr7.3 CDS 20921795 20921876 20921795 ID=cds.MS.gene068082.t1;Parent=MS.gene068082.t1
chr7.3 exon 20921993 20922336 20921993 ID=MS.gene068082.t1.exon2;Parent=MS.gene068082.t1
chr7.3 CDS 20921993 20922336 20921993 ID=cds.MS.gene068082.t1;Parent=MS.gene068082.t1
Gene Sequence

>MS.gene068082

ATGGCACTTCTCTGCTTCAATTCCATCACACTCACCCCTCTTTCTTCTTCCTCCATTTTCCCAATTCCCTCCACAACCCCAAGTAAGTACCATCACTTCTTCTTCCTTAATTTCTCCACAATACATTCCCATGTTTTTATTATTCTTGTTATTGTTTCTTTTATCTTGATTCTCTCGAACTATGTTTTTGTTTATCAGTTTCAAGAGTGCACGTTGGTTTGCCCACAAACTCATTGAAGGGACTTCGAATCTCGGCACCCTTTGTTGTGAAACCGAGGGAAAATGCAATTTTTATTGCATCTGCTACTACTGAATCCAATGTTGCAGATGGGTCTGAAAGTGAAAGCAAGAAAGAGAGTGATGCTGTTTCTGTAGATAAGCTTCCTTTGGAATCAAAATTGAAGGAGAGGGAAGAGCAGAGGTTGAAGATGAAGCTTGATAAGAAGATAAGGTTGAGGAGAAAGAGACTTGTTCAAAAGAGGAAGTTGAGGAAGAAGGGTAATTGGCCACCTTCCAAGATGAAAAAATTGAAGAGTGTTTGA

Protein sequence

>MS.gene068082.t1

MALLCFNSITLTPLSSSSIFPIPSTTPISRVHVGLPTNSLKGLRISAPFVVKPRENAIFIASATTESNVADGSESESKKESDAVSVDKLPLESKLKEREEQRLKMKLDKKIRLRRKRLVQKRKLRKKGNWPPSKMKKLKSV