AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040607.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040607.01.T01 MTR_7g093740 96.667 60 2 0 14 73 671 730 4.39e-35 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040607.01.T01 AT3G12010 50.877 57 28 0 15 71 624 680 2.16e-15 69.3

Find 13 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACACCGCAGAGCATAAT+AGG 0.300479 7:-79889169 MsG0780040607.01.T01:CDS
TAGAAAACTCCAAAGCTAAC+TGG 0.360606 7:-79889319 MsG0780040607.01.T01:CDS
ATTCTCACACCAGTTAGCTT+TGG 0.392956 7:+79889310 None:intergenic
TAGAACTGCTGCAAGATGTT+GGG 0.475685 7:+79889223 None:intergenic
CAAGACCTCTCAAGCAGTCA+TGG 0.481279 7:+79889115 None:intergenic
TTAGAACTGCTGCAAGATGT+TGG 0.500860 7:+79889222 None:intergenic
TGCAAGATGTTGGGAGTCAT+TGG 0.503844 7:+79889232 None:intergenic
AAGCAGGCTAAGAGCATGCC+GGG 0.524342 7:-79889945 None:intergenic
CTTCTAAGAACAACGATGGT+CGG 0.535773 7:+79889267 None:intergenic
TAAGAACAACGATGGTCGGA+TGG 0.605918 7:+79889271 None:intergenic
TCATCTCATTCAGTATGCGA+TGG 0.632374 7:+79889144 None:intergenic
GCTGCTTCTAAGAACAACGA+TGG 0.684909 7:+79889263 None:intergenic
ATGGTACCTATTATGCTCTG+CGG 0.748635 7:+79889163 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTGATTAAATGTTTTCTTTG+CGG - Chr7:79889223-79889242 MsG0780040607.01.T01:CDS 20.0%
! GCAAAGAAAACATTTAATCA+AGG + Chr7:79889224-79889243 None:intergenic 25.0%
!!! TATTTGCTATCTGAAGTAAA+TGG - Chr7:79889601-79889620 MsG0780040607.01.T01:intron 25.0%
AAAAGAAAAACTCTCCTCTC+TGG - Chr7:79889156-79889175 MsG0780040607.01.T01:CDS 35.0%
AACTGAGATGTTTACGTTGT+TGG - Chr7:79889462-79889481 MsG0780040607.01.T01:intron 35.0%
ATCGAAACGTGAAAGTTTCA+AGG - Chr7:79889685-79889704 MsG0780040607.01.T01:intron 35.0%
ATTAGTAGGACTTTATGGCT+AGG - Chr7:79889179-79889198 MsG0780040607.01.T01:CDS 35.0%
GTCGATAAAATGGCATTCAA+TGG + Chr7:79889317-79889336 None:intergenic 35.0%
TAGAAAACTCCAAAGCTAAC+TGG - Chr7:79889735-79889754 MsG0780040607.01.T01:intron 35.0%
TCGAAACGTGAAAGTTTCAA+GGG - Chr7:79889686-79889705 MsG0780040607.01.T01:intron 35.0%
! AGGAGAGTTTTTCTTTTGCA+AGG + Chr7:79889153-79889172 None:intergenic 35.0%
! CTGGTGTGAGAATTATTTTC+AGG - Chr7:79889754-79889773 MsG0780040607.01.T01:intron 35.0%
! GGAGAGTTTTTCTTTTGCAA+GGG + Chr7:79889152-79889171 None:intergenic 35.0%
! TTCTTTACAGATTTTCTGCC+TGG - Chr7:79889857-79889876 MsG0780040607.01.T01:intron 35.0%
!! GTGTGAGAATTATTTTCAGG+TGG - Chr7:79889757-79889776 MsG0780040607.01.T01:intron 35.0%
!! TCTGGATTAGTAGGACTTTA+TGG - Chr7:79889174-79889193 MsG0780040607.01.T01:CDS 35.0%
!!! TTGAATGCCATTTTATCGAC+CGG - Chr7:79889317-79889336 MsG0780040607.01.T01:CDS 35.0%
AAAACACCGCAGAGCATAAT+AGG - Chr7:79889885-79889904 MsG0780040607.01.T01:intron 40.0%
AAAGTCCTACTAATCCAGAG+AGG + Chr7:79889173-79889192 None:intergenic 40.0%
AACCATGAAAAGTAACAGCC+AGG - Chr7:79889279-79889298 MsG0780040607.01.T01:CDS 40.0%
ACCATGAAAAGTAACAGCCA+GGG - Chr7:79889280-79889299 MsG0780040607.01.T01:CDS 40.0%
AGTATTGTGTCAGTCACAAG+TGG + Chr7:79889368-79889387 None:intergenic 40.0%
ATGGTACCTATTATGCTCTG+CGG + Chr7:79889894-79889913 None:intergenic 40.0%
GACTGACACAATACTAGTGA+TGG - Chr7:79889373-79889392 MsG0780040607.01.T01:intron 40.0%
GTATTGTGTCAGTCACAAGT+GGG + Chr7:79889367-79889386 None:intergenic 40.0%
GTTTACGTTGTTGGTGTAGT+TGG - Chr7:79889471-79889490 MsG0780040607.01.T01:intron 40.0%
TAGAACTGCTGCAAGATGTT+GGG + Chr7:79889834-79889853 None:intergenic 40.0%
TATTGTGTCAGTCACAAGTG+GGG + Chr7:79889366-79889385 None:intergenic 40.0%
TCATCTCATTCAGTATGCGA+TGG + Chr7:79889913-79889932 None:intergenic 40.0%
TTAATCAAGGCCATGATGCA+AGG + Chr7:79889211-79889230 None:intergenic 40.0%
TTAGAACTGCTGCAAGATGT+TGG + Chr7:79889835-79889854 None:intergenic 40.0%
TTTCGATATACACGCTCTAC+AGG + Chr7:79889672-79889691 None:intergenic 40.0%
! AATGTTTTCTTTGCGGAAGC+TGG - Chr7:79889230-79889249 MsG0780040607.01.T01:CDS 40.0%
! ATGTTTTCTTTGCGGAAGCT+GGG - Chr7:79889231-79889250 MsG0780040607.01.T01:CDS 40.0%
! ATTCTCACACCAGTTAGCTT+TGG + Chr7:79889747-79889766 None:intergenic 40.0%
! CTTCTAAGAACAACGATGGT+CGG + Chr7:79889790-79889809 None:intergenic 40.0%
!!! TACTTTTCATGGTTAGCCTG+AGG + Chr7:79889273-79889292 None:intergenic 40.0%
AATTTCGAGATCGTGTGTGC+CGG + Chr7:79889339-79889358 None:intergenic 45.0%
GGCATTCAATGGAGATGATG+TGG + Chr7:79889306-79889325 None:intergenic 45.0%
TAAGAACAACGATGGTCGGA+TGG + Chr7:79889786-79889805 None:intergenic 45.0%
TGCAAGATGTTGGGAGTCAT+TGG + Chr7:79889825-79889844 None:intergenic 45.0%
! GCTGCTTCTAAGAACAACGA+TGG + Chr7:79889794-79889813 None:intergenic 45.0%
!! ACTCTCCTCTCTGGATTAGT+AGG - Chr7:79889165-79889184 MsG0780040607.01.T01:CDS 45.0%
ATCAAGGCCATGATGCAAGG+TGG + Chr7:79889208-79889227 None:intergenic 50.0%
CGTTGTTGGTGTAGTTGGAG+AGG - Chr7:79889476-79889495 MsG0780040607.01.T01:intron 50.0%
TAGGAACCCACCTTGCATCA+TGG - Chr7:79889198-79889217 MsG0780040607.01.T01:CDS 50.0%
TCAAGGCCATGATGCAAGGT+GGG + Chr7:79889207-79889226 None:intergenic 50.0%
TGGTGTAGTTGGAGAGGCTT+TGG - Chr7:79889482-79889501 MsG0780040607.01.T01:intron 50.0%
! GTGTGTGCCGGTCGATAAAA+TGG + Chr7:79889327-79889346 None:intergenic 50.0%
!!! GCCCTGGCTGTTACTTTTCA+TGG + Chr7:79889284-79889303 None:intergenic 50.0%
!!! TCTGCGGTGTTTTTGAAGCC+AGG + Chr7:79889878-79889897 None:intergenic 50.0%
AAGAGGGTTGAGGAAGCCTC+AGG - Chr7:79889254-79889273 MsG0780040607.01.T01:CDS 55.0%
CAATGGAGATGATGTGGCCC+TGG + Chr7:79889300-79889319 None:intergenic 55.0%
CTTTGCGGAAGCTGGGAAGA+GGG - Chr7:79889238-79889257 MsG0780040607.01.T01:CDS 55.0%
GTAGTTTCGCTCCCTTCACC+CGG + Chr7:79889130-79889149 None:intergenic 55.0%
TCTTTGCGGAAGCTGGGAAG+AGG - Chr7:79889237-79889256 MsG0780040607.01.T01:CDS 55.0%
GGAAGCTGGGAAGAGGGTTG+AGG - Chr7:79889244-79889263 MsG0780040607.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 79889124 79889952 79889124 ID=MsG0780040607.01;Name=MsG0780040607.01
Chr7 mRNA 79889124 79889952 79889124 ID=MsG0780040607.01.T01;Parent=MsG0780040607.01;Name=MsG0780040607.01.T01;_AED=0.49;_eAED=0.57;_QI=0|0|0|1|0|0|2|0|73
Chr7 exon 79889946 79889952 79889946 ID=MsG0780040607.01.T01:exon:636;Parent=MsG0780040607.01.T01
Chr7 exon 79889124 79889338 79889124 ID=MsG0780040607.01.T01:exon:635;Parent=MsG0780040607.01.T01
Chr7 CDS 79889946 79889952 79889946 ID=MsG0780040607.01.T01:cds;Parent=MsG0780040607.01.T01
Chr7 CDS 79889124 79889338 79889124 ID=MsG0780040607.01.T01:cds;Parent=MsG0780040607.01.T01
Gene Sequence

>MsG0780040607.01.T01

ATGCCGGAAAACTCCAAAGCTAACTGGTGTGAGAATTATTTTCAGGTGGATACCATCCGACCATCGTTGTTCTTAGAAGCAGCTTTTGTATCCAATGACTCCCAACATCTTGCAGCAGTTCTAAGATTCTTTACAGATTTTCTGCCTGGCTTCAAAAACACCGCAGAGCATAATAGGTACCATCGCATACTGAATGAGATGAACTCTTCCATGACTGCTTGA
Protein sequence

>MsG0780040607.01.T01

MPENSKANWCENYFQVDTIRPSLFLEAAFVSNDSQHLAAVLRFFTDFLPGFKNTAEHNRYHRILNEMNSSMTA*