AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039143.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039143.01.T01 MTR_7g066800 98.214 112 2 0 1 112 1 112 1.89e-78 226
MsG0780039143.01.T01 MTR_4g014970 61.818 110 42 0 1 110 1 110 1.46e-49 153
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039143.01.T01 AT3G09085 68.182 110 35 0 1 110 1 110 1.33e-54 166

Find 20 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAGAAATTTGGAAGATTTC+TGG 0.136576 7:+58600860 MsG0780039143.01.T01:CDS
ATGTTTGGGTTGATGCTTAC+TGG 0.272665 7:+58601111 MsG0780039143.01.T01:CDS
TGTGTTCCTTTGTCTGGTTA+TGG 0.294973 7:+58601000 MsG0780039143.01.T01:CDS
AAGAATGTTCCAGCTACTTT+TGG 0.298755 7:+58601054 MsG0780039143.01.T01:CDS
CATCTTATAATCACACAAAA+AGG 0.341040 7:-58601091 None:intergenic
TTGTGTGATTATAAGATGTT+TGG 0.343099 7:+58601096 MsG0780039143.01.T01:CDS
TAGAAATTTGGAAGATTTCT+GGG 0.345751 7:+58600861 MsG0780039143.01.T01:CDS
TTGTTGTGTGTTCCTTTGTC+TGG 0.378568 7:+58600994 MsG0780039143.01.T01:CDS
ACAAGACATTGGCACTTTGT+TGG 0.439809 7:+58600916 MsG0780039143.01.T01:CDS
TGTGTGATTATAAGATGTTT+GGG 0.445160 7:+58601097 MsG0780039143.01.T01:CDS
GTTGATGCTTACTGGACAAA+TGG 0.469998 7:+58601119 MsG0780039143.01.T01:CDS
AAGGGATGACCAAAAGTAGC+TGG 0.516927 7:-58601063 None:intergenic
GGTAAAAGACCTGTGTTGCA+AGG 0.529580 7:+58601162 MsG0780039143.01.T01:CDS
TGTCTGGTTATGGATGTGCT+TGG 0.530622 7:+58601010 MsG0780039143.01.T01:CDS
AATCAAAACCCTTGCAACAC+AGG 0.552222 7:-58601171 None:intergenic
GTAAAAGACCTGTGTTGCAA+GGG 0.553617 7:+58601163 MsG0780039143.01.T01:CDS
ACATTGGCACTTTGTTGGAA+CGG 0.563774 7:+58600921 MsG0780039143.01.T01:CDS
GATAGAGAGATCAAGAGGCT+TGG 0.577657 7:+58601141 MsG0780039143.01.T01:CDS
AAATGGATAGAGAGATCAAG+AGG 0.622001 7:+58601136 MsG0780039143.01.T01:CDS
GCACATCCATAACCAGACAA+AGG 0.672336 7:-58601006 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CATCTTATAATCACACAAAA+AGG - Chr7:58601094-58601113 None:intergenic 25.0%
! TAGAAATTTGGAAGATTTCT+GGG + Chr7:58600861-58600880 MsG0780039143.01.T01:CDS 25.0%
! TGTGTGATTATAAGATGTTT+GGG + Chr7:58601097-58601116 MsG0780039143.01.T01:CDS 25.0%
! TTAGAAATTTGGAAGATTTC+TGG + Chr7:58600860-58600879 MsG0780039143.01.T01:CDS 25.0%
! TTGTGTGATTATAAGATGTT+TGG + Chr7:58601096-58601115 MsG0780039143.01.T01:CDS 25.0%
!!! TGTGTTCTTTTTTGTTTAGT+TGG + Chr7:58600965-58600984 MsG0780039143.01.T01:CDS 25.0%
!!! GTTCTTTTTTGTTTAGTTGG+TGG + Chr7:58600968-58600987 MsG0780039143.01.T01:CDS 30.0%
AAATGGATAGAGAGATCAAG+AGG + Chr7:58601136-58601155 MsG0780039143.01.T01:CDS 35.0%
ATCACACAAAAAGGACCAAA+AGG - Chr7:58601085-58601104 None:intergenic 35.0%
CAAAAAGAGCAACAAGACAT+TGG + Chr7:58600905-58600924 MsG0780039143.01.T01:CDS 35.0%
TCACACAAAAAGGACCAAAA+GGG - Chr7:58601084-58601103 None:intergenic 35.0%
!! AAGAATGTTCCAGCTACTTT+TGG + Chr7:58601054-58601073 MsG0780039143.01.T01:CDS 35.0%
ACAAGACATTGGCACTTTGT+TGG + Chr7:58600916-58600935 MsG0780039143.01.T01:CDS 40.0%
ACATTGGCACTTTGTTGGAA+CGG + Chr7:58600921-58600940 MsG0780039143.01.T01:CDS 40.0%
GTAAAAGACCTGTGTTGCAA+GGG + Chr7:58601163-58601182 MsG0780039143.01.T01:CDS 40.0%
GTTGATGCTTACTGGACAAA+TGG + Chr7:58601119-58601138 MsG0780039143.01.T01:CDS 40.0%
TGTGTTCCTTTGTCTGGTTA+TGG + Chr7:58601000-58601019 MsG0780039143.01.T01:CDS 40.0%
TTGTTGTGTGTTCCTTTGTC+TGG + Chr7:58600994-58601013 MsG0780039143.01.T01:CDS 40.0%
!! ATGTTTGGGTTGATGCTTAC+TGG + Chr7:58601111-58601130 MsG0780039143.01.T01:CDS 40.0%
!! CTACTTTTGGTCATCCCTTT+TGG + Chr7:58601067-58601086 MsG0780039143.01.T01:CDS 40.0%
AAGGGATGACCAAAAGTAGC+TGG - Chr7:58601066-58601085 None:intergenic 45.0%
GATAGAGAGATCAAGAGGCT+TGG + Chr7:58601141-58601160 MsG0780039143.01.T01:CDS 45.0%
GCACATCCATAACCAGACAA+AGG - Chr7:58601009-58601028 None:intergenic 45.0%
GGTAAAAGACCTGTGTTGCA+AGG + Chr7:58601162-58601181 MsG0780039143.01.T01:CDS 45.0%
TGTCTGGTTATGGATGTGCT+TGG + Chr7:58601010-58601029 MsG0780039143.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr7 gene 58600853 58601191 58600853 ID=MsG0780039143.01;Name=MsG0780039143.01
Chr7 mRNA 58600853 58601191 58600853 ID=MsG0780039143.01.T01;Parent=MsG0780039143.01;Name=MsG0780039143.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|112
Chr7 exon 58600853 58601191 58600853 ID=MsG0780039143.01.T01:exon:6778;Parent=MsG0780039143.01.T01
Chr7 CDS 58600853 58601191 58600853 ID=MsG0780039143.01.T01:cds;Parent=MsG0780039143.01.T01
Gene Sequence

>MsG0780039143.01.T01

ATGAATTTTAGAAATTTGGAAGATTTCTGGGCTTTTTATGTGAGTCAACATTCAAAAAGAGCAACAAGACATTGGCACTTTGTTGGAACGGTTTTGAGTTTATTGTTTTTGTTGTGTTCTTTTTTGTTTAGTTGGTGGTTTTTGTTGTGTGTTCCTTTGTCTGGTTATGGATGTGCTTGGTATAGTCATTTCTTTGTTGAGAAGAATGTTCCAGCTACTTTTGGTCATCCCTTTTGGTCCTTTTTGTGTGATTATAAGATGTTTGGGTTGATGCTTACTGGACAAATGGATAGAGAGATCAAGAGGCTTGGTAAAAGACCTGTGTTGCAAGGGTTTTGA

Protein sequence

>MsG0780039143.01.T01

MNFRNLEDFWAFYVSQHSKRATRHWHFVGTVLSLLFLLCSFLFSWWFLLCVPLSGYGCAWYSHFFVEKNVPATFGHPFWSFLCDYKMFGLMLTGQMDREIKRLGKRPVLQGF*