AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06448

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06448.t1 MTR_3g095480 97.917 192 3 1 1 191 1 192 9.89e-140 387
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06448.t1 AT3G18800 66.332 199 57 3 1 191 1 197 4.97e-89 259

Find 35 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAATTGGGCTCTTCATTT+TGG 0.160115 3.2:-79807666 MS.gene06448:CDS
GAACCTCCTGAGAGTTATTT+TGG 0.184497 3.2:-79807699 MS.gene06448:CDS
CAGACTCTTAGATGTATTAA+TGG 0.240810 3.2:-79807858 MS.gene06448:CDS
TTGGTAAGTTTAAGAGAAAT+TGG 0.241730 3.2:-79807680 MS.gene06448:CDS
AGAGTTTGAGATTCATTATC+AGG 0.276876 3.2:-79807721 MS.gene06448:CDS
GGGTTCTTGATCTTGATCTA+TGG 0.279818 3.2:-79807645 MS.gene06448:CDS
GTCTTCAATGTCGCCATTGT+TGG 0.363130 3.2:-79807935 MS.gene06448:CDS
TGAGGAAGATGAAGAAGATT+TGG 0.365817 3.2:+79807991 None:intergenic
GTTTGGCTACTGAGAAGCTT+AGG 0.366128 3.2:-79807797 MS.gene06448:CDS
TCATAAGCTTACACTTGGTT+TGG 0.408278 3.2:-79807814 MS.gene06448:CDS
TGGTAAGTTTAAGAGAAATT+GGG 0.438263 3.2:-79807679 MS.gene06448:CDS
GTTGTTGTTGTTGATGGTTG+TGG 0.489653 3.2:+79808138 None:intergenic
TTTGGCTACTGAGAAGCTTA+GGG 0.491256 3.2:-79807796 MS.gene06448:CDS
GGTGGTGATTATGATACTAT+TGG 0.492628 3.2:-79807750 MS.gene06448:CDS
CTATGGCACGTTTCTTCTCG+AGG 0.504585 3.2:+79808045 None:intergenic
CCCAATCACACTTCTCTCCA+TGG 0.514078 3.2:-79807910 MS.gene06448:CDS
GGATGATGGTGTTCAATGCT+TGG 0.519310 3.2:+79808087 None:intergenic
GCCATGGAGAGAAGTGTGAT+TGG 0.521665 3.2:+79807909 None:intergenic
CTCGAAATGGAGCTGGATGA+TGG 0.524313 3.2:+79808073 None:intergenic
TATGGCACGTTTCTTCTCGA+GGG 0.531684 3.2:+79808046 None:intergenic
AACTTACCAAAATAACTCTC+AGG 0.534886 3.2:+79807693 None:intergenic
TGCCATAGACCTTCAAAAGA+AGG 0.542520 3.2:-79808030 MS.gene06448:CDS
AGCTTAGGGATATGAAGATG+AGG 0.544927 3.2:-79807782 MS.gene06448:CDS
AAGATGAGGTTGAGTGGTGG+TGG 0.558791 3.2:-79807768 MS.gene06448:CDS
CCATGGAGAGAAGTGTGATT+GGG 0.569183 3.2:+79807910 None:intergenic
AGGTGTCATAAGCTTACACT+TGG 0.582162 3.2:-79807819 MS.gene06448:CDS
GTTGTTGTTGATGGTTGTGG+TGG 0.583547 3.2:+79808141 None:intergenic
CAATGGCGACATTGAAGACG+TGG 0.610640 3.2:+79807939 None:intergenic
ATAGAAGATGAGATGAGCCA+TGG 0.626380 3.2:+79807893 None:intergenic
ATGGATTCAAGTATCAGAGA+AGG 0.640872 3.2:-79807839 MS.gene06448:CDS
GTGTGATTGGGATCCAACAA+TGG 0.648346 3.2:+79807922 None:intergenic
TTACCAAAATAACTCTCAGG+AGG 0.660707 3.2:+79807696 None:intergenic
GTGCCATGAAAACTAAGCTG+AGG 0.663846 3.2:+79807973 None:intergenic
GATATGAAGATGAGGTTGAG+TGG 0.697448 3.2:-79807774 MS.gene06448:CDS
ATGAAGATGAGGTTGAGTGG+TGG 0.722579 3.2:-79807771 MS.gene06448:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGGTAAGTTTAAGAGAAATT+GGG - chr3.2:79808084-79808103 MS.gene06448:CDS 25.0%
! TTGGTAAGTTTAAGAGAAAT+TGG - chr3.2:79808083-79808102 MS.gene06448:CDS 25.0%
AACTTACCAAAATAACTCTC+AGG + chr3.2:79808073-79808092 None:intergenic 30.0%
CAGACTCTTAGATGTATTAA+TGG - chr3.2:79807905-79807924 MS.gene06448:CDS 30.0%
! AGAGTTTGAGATTCATTATC+AGG - chr3.2:79808042-79808061 MS.gene06448:CDS 30.0%
ATGGATTCAAGTATCAGAGA+AGG - chr3.2:79807924-79807943 MS.gene06448:CDS 35.0%
GGTGGTGATTATGATACTAT+TGG - chr3.2:79808013-79808032 MS.gene06448:CDS 35.0%
TCATAAGCTTACACTTGGTT+TGG - chr3.2:79807949-79807968 MS.gene06448:CDS 35.0%
TGAGGAAGATGAAGAAGATT+TGG + chr3.2:79807775-79807794 None:intergenic 35.0%
TTACCAAAATAACTCTCAGG+AGG + chr3.2:79808070-79808089 None:intergenic 35.0%
! AGAAATTGGGCTCTTCATTT+TGG - chr3.2:79808097-79808116 MS.gene06448:CDS 35.0%
! GAAATTGGGCTCTTCATTTT+GGG - chr3.2:79808098-79808117 MS.gene06448:CDS 35.0%
! TGTGAAGTTCCTTCTTTTGA+AGG + chr3.2:79807745-79807764 None:intergenic 35.0%
!! CTTGTTGTTGTTGTTGTTGA+TGG + chr3.2:79807634-79807653 None:intergenic 35.0%
!! TTCCTTCTTTTGAAGGTCTA+TGG + chr3.2:79807738-79807757 None:intergenic 35.0%
AGCTTAGGGATATGAAGATG+AGG - chr3.2:79807981-79808000 MS.gene06448:CDS 40.0%
ATAGAAGATGAGATGAGCCA+TGG + chr3.2:79807873-79807892 None:intergenic 40.0%
GATATGAAGATGAGGTTGAG+TGG - chr3.2:79807989-79808008 MS.gene06448:CDS 40.0%
GGGTTCTTGATCTTGATCTA+TGG - chr3.2:79808118-79808137 MS.gene06448:CDS 40.0%
TGCCATAGACCTTCAAAAGA+AGG - chr3.2:79807733-79807752 MS.gene06448:CDS 40.0%
TTTGGCTACTGAGAAGCTTA+GGG - chr3.2:79807967-79807986 MS.gene06448:CDS 40.0%
! AGGTGTCATAAGCTTACACT+TGG - chr3.2:79807944-79807963 MS.gene06448:CDS 40.0%
! GAACCTCCTGAGAGTTATTT+TGG - chr3.2:79808064-79808083 MS.gene06448:CDS 40.0%
!! CTTCCTCAGCTTAGTTTTCA+TGG - chr3.2:79807787-79807806 MS.gene06448:CDS 40.0%
!! GTTGTTGTTGTTGATGGTTG+TGG + chr3.2:79807628-79807647 None:intergenic 40.0%
ATGAAGATGAGGTTGAGTGG+TGG - chr3.2:79807992-79808011 MS.gene06448:CDS 45.0%
GTCTTCAATGTCGCCATTGT+TGG - chr3.2:79807828-79807847 MS.gene06448:CDS 45.0%
GTGCCATGAAAACTAAGCTG+AGG + chr3.2:79807793-79807812 None:intergenic 45.0%
GTGTGATTGGGATCCAACAA+TGG + chr3.2:79807844-79807863 None:intergenic 45.0%
GTTTGGCTACTGAGAAGCTT+AGG - chr3.2:79807966-79807985 MS.gene06448:CDS 45.0%
TATGGCACGTTTCTTCTCGA+GGG + chr3.2:79807720-79807739 None:intergenic 45.0%
! CCATGGAGAGAAGTGTGATT+GGG + chr3.2:79807856-79807875 None:intergenic 45.0%
! GGATGATGGTGTTCAATGCT+TGG + chr3.2:79807679-79807698 None:intergenic 45.0%
! TCTCGAGGGTTTTCTCGAAA+TGG + chr3.2:79807706-79807725 None:intergenic 45.0%
!! GTTGTTGTTGATGGTTGTGG+TGG + chr3.2:79807625-79807644 None:intergenic 45.0%
AAGATGAGGTTGAGTGGTGG+TGG - chr3.2:79807995-79808014 MS.gene06448:CDS 50.0%
CAATGGCGACATTGAAGACG+TGG + chr3.2:79807827-79807846 None:intergenic 50.0%
CCCAATCACACTTCTCTCCA+TGG - chr3.2:79807853-79807872 MS.gene06448:CDS 50.0%
CTATGGCACGTTTCTTCTCG+AGG + chr3.2:79807721-79807740 None:intergenic 50.0%
CTCGAAATGGAGCTGGATGA+TGG + chr3.2:79807693-79807712 None:intergenic 50.0%
! GCCATGGAGAGAAGTGTGAT+TGG + chr3.2:79807857-79807876 None:intergenic 50.0%
! GGGTTTTCTCGAAATGGAGC+TGG + chr3.2:79807700-79807719 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 79807605 79808180 79807605 ID=MS.gene06448
chr3.2 mRNA 79807605 79808180 79807605 ID=MS.gene06448.t1;Parent=MS.gene06448
chr3.2 exon 79807605 79808180 79807605 ID=MS.gene06448.t1.exon1;Parent=MS.gene06448.t1
chr3.2 CDS 79807605 79808180 79807605 ID=cds.MS.gene06448.t1;Parent=MS.gene06448.t1
Gene Sequence

>MS.gene06448

ATGGCAGACTACGAAAACCACCACAACCATCAACAACAACAACAACAAGTAGTTTCTCGTGAAACAGCTTTCCAAGCATTGAACACCATCATCCAGCTCCATTTCGAGAAAACCCTCGAGAAGAAACGTGCCATAGACCTTCAAAAGAAGGAACTTCACAAGCTTTTCCAAATCTTCTTCATCTTCCTCAGCTTAGTTTTCATGGCACAATCAATGTCACCACGTCTTCAATGTCGCCATTGTTGGATCCCAATCACACTTCTCTCCATGGCTCATCTCATCTTCTATGTGTCTGTAGCACAGACTCTTAGATGTATTAATGGATTCAAGTATCAGAGAAGGTGTCATAAGCTTACACTTGGTTTGGCTACTGAGAAGCTTAGGGATATGAAGATGAGGTTGAGTGGTGGTGGTGATTATGATACTATTGGTGATGAAGAGTTTGAGATTCATTATCAGGAACCTCCTGAGAGTTATTTTGGTAAGTTTAAGAGAAATTGGGCTCTTCATTTTGGGTTCTTGATCTTGATCTATGGTTTCATGATCTCTTCTTCTGTTGTTCTTCTATGTTTTTGA
Protein sequence

>MS.gene06448.t1

MADYENHHNHQQQQQQVVSRETAFQALNTIIQLHFEKTLEKKRAIDLQKKELHKLFQIFFIFLSLVFMAQSMSPRLQCRHCWIPITLLSMAHLIFYVSVAQTLRCINGFKYQRRCHKLTLGLATEKLRDMKMRLSGGGDYDTIGDEEFEIHYQEPPESYFGKFKRNWALHFGFLILIYGFMISSSVVLLCF