AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022043.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022043.01.T01 MTR_4g081200 92.952 227 11 3 1 225 1 224 2.99e-151 419
MsG0480022043.01.T01 MTR_2g082990 49.738 191 86 3 11 197 8 192 6.71e-58 182
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022043.01.T01 AT3G20600 40.933 193 87 6 11 190 13 191 2.61e-41 140
MsG0480022043.01.T01 AT3G20590 39.899 198 97 6 4 190 6 192 2.91e-34 123
MsG0480022043.01.T01 AT3G20610 36.216 185 95 7 25 197 26 199 1.47e-26 102

Find 62 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTTCTGGGTTGCTCTTTC+TGG 0.060042 4:-67291375 MsG0480022043.01.T01:CDS
CTGCCCCGTTTCGCGGGTTC+TGG 0.069782 4:-67291389 MsG0480022043.01.T01:CDS
CAACCCAGAACCCGCGAAAC+GGG 0.291265 4:+67291385 None:intergenic
TTACCAAGCCTGATCCCTTT+AGG 0.299297 4:+67291438 None:intergenic
AGTGATTGAATGAAGCATTT+TGG 0.304303 4:+67291876 None:intergenic
TGCCCCGTTTCGCGGGTTCT+GGG 0.318361 4:-67291388 MsG0480022043.01.T01:CDS
GTTGTTAGAGTGTTTGTGAT+TGG 0.357570 4:+67291818 None:intergenic
AGACACCTTTGTCTTCGTTT+TGG 0.361673 4:+67291757 None:intergenic
GCTTCAGACCCGACCCGAAC+TGG 0.379399 4:+67291411 None:intergenic
TCTGAAGCTGCCCCGTTTCG+CGG 0.386385 4:-67291396 MsG0480022043.01.T01:CDS
GCAGGTGCAGCAGTTGATGC+GGG 0.394326 4:+67291968 None:intergenic
GGCTTGGTAATGCTCCAGTT+CGG 0.396045 4:-67291425 MsG0480022043.01.T01:CDS
GCTTGGTAATGCTCCAGTTC+GGG 0.402093 4:-67291424 MsG0480022043.01.T01:CDS
GTGGAACTTAATGTCAGTTC+AGG 0.409244 4:-67291474 MsG0480022043.01.T01:CDS
TTAGAGTGTTTGTGATTGGT+TGG 0.413223 4:+67291822 None:intergenic
ACTAAACGACACCGTTTGTC+TGG 0.423254 4:-67291507 MsG0480022043.01.T01:CDS
TCTGCCGAGGCACGTGGTGG+TGG 0.430137 4:-67291612 MsG0480022043.01.T01:CDS
TTGATGCGGGGTTCCTGCGC+GGG 0.451168 4:+67291981 None:intergenic
CTGAAGCTGCCCCGTTTCGC+GGG 0.451197 4:-67291395 MsG0480022043.01.T01:CDS
CACTCCACCACCACGTGCCT+CGG 0.465177 4:+67291608 None:intergenic
GCAACCCAGAACCCGCGAAA+CGG 0.474820 4:+67291384 None:intergenic
GTAATGCTCCAGTTCGGGTC+GGG 0.485181 4:-67291419 MsG0480022043.01.T01:CDS
AGGTGAATCCTAAAGGGATC+AGG 0.497883 4:-67291446 MsG0480022043.01.T01:CDS
GGTCAGAAGGTGAATCCTAA+AGG 0.505752 4:-67291453 MsG0480022043.01.T01:CDS
GTCAGAAGGTGAATCCTAAA+GGG 0.505982 4:-67291452 MsG0480022043.01.T01:CDS
AGCAGGTGCAGCAGTTGATG+CGG 0.513768 4:+67291967 None:intergenic
CGTCAACACCACGCGTCCAC+TGG 0.520956 4:-67291694 MsG0480022043.01.T01:CDS
GCCTCACCATCCTCTTCTTG+TGG 0.523166 4:-67291920 MsG0480022043.01.T01:CDS
GGTGATGAAGCTAGTGCAGC+AGG 0.524004 4:+67291950 None:intergenic
GGTAATGCTCCAGTTCGGGT+CGG 0.527404 4:-67291420 MsG0480022043.01.T01:CDS
AACGACACCGTTTGTCTGGA+GGG 0.528137 4:-67291503 MsG0480022043.01.T01:CDS
GTAGATGGCGCGGCCCGCGC+AGG 0.530494 4:-67291994 None:intergenic
CATTTGCCCCTCCAGACAAA+CGG 0.547066 4:+67291496 None:intergenic
GAAACCATCGAGAGTGGAGT+TGG 0.554819 4:+67291671 None:intergenic
TAATGTCAGTTCAGGTCAGA+AGG 0.561149 4:-67291466 MsG0480022043.01.T01:CDS
AACCCAGAACCCGCGAAACG+GGG 0.561738 4:+67291386 None:intergenic
TTTGTCTGGAGGGGCAAATG+TGG 0.563437 4:-67291493 MsG0480022043.01.T01:CDS
AATCCTAAAGGGATCAGGCT+TGG 0.567380 4:-67291441 MsG0480022043.01.T01:CDS
AAACACTTCCTTGCACTGTA+CGG 0.569559 4:+67291583 None:intergenic
GAGGATGGTGAGGCCTGTGC+TGG 0.578419 4:+67291929 None:intergenic
TGGGGTTCTGCCGAGGCACG+TGG 0.580720 4:-67291618 MsG0480022043.01.T01:CDS
GGAGTGAACCGTACAGTGCA+AGG 0.581559 4:-67291591 MsG0480022043.01.T01:CDS
ACTAGCTTCATCACCAGCAC+AGG 0.582415 4:-67291942 MsG0480022043.01.T01:CDS
TGAGAAATGGGGTTCTGCCG+AGG 0.598645 4:-67291625 MsG0480022043.01.T01:CDS
CAGGTGCAGCAGTTGATGCG+GGG 0.599703 4:+67291969 None:intergenic
GGAGTGTGAGCCACAAGAAG+AGG 0.601930 4:+67291910 None:intergenic
TTGGTAGAAACCATCGAGAG+TGG 0.602681 4:+67291665 None:intergenic
CTGGCCAACTCCACTCTCGA+TGG 0.603518 4:-67291675 MsG0480022043.01.T01:CDS
GACGCGTGGTGTTGACGTCG+AGG 0.608775 4:+67291700 None:intergenic
AAACGACACCGTTTGTCTGG+AGG 0.617610 4:-67291504 MsG0480022043.01.T01:CDS
GGAGTTGGCCAGTGGACGCG+TGG 0.622642 4:+67291686 None:intergenic
GGTTCTGCCGAGGCACGTGG+TGG 0.625771 4:-67291615 MsG0480022043.01.T01:CDS
TCGAGAGTGGAGTTGGCCAG+TGG 0.626154 4:+67291678 None:intergenic
GAGAGCAAATGTAAGACGAA+TGG 0.627099 4:+67291725 None:intergenic
GTTGATGCGGGGTTCCTGCG+CGG 0.633498 4:+67291980 None:intergenic
ATCAACCACCGTAGATGGCG+CGG 0.634709 4:-67292004 None:intergenic
TGTGAGCCACAAGAAGAGGA+TGG 0.641535 4:+67291914 None:intergenic
GCCACAAGAAGAGGATGGTG+AGG 0.648443 4:+67291919 None:intergenic
ACGACACCGTTTGTCTGGAG+GGG 0.667289 4:-67291502 MsG0480022043.01.T01:CDS
ACTCTCGATGGTTTCTACCA+AGG 0.673268 4:-67291663 MsG0480022043.01.T01:CDS
GATGGTTTCTACCAAGGACA+TGG 0.676986 4:-67291657 MsG0480022043.01.T01:CDS
GCAAACCAAAACGAAGACAA+AGG 0.684119 4:-67291762 MsG0480022043.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTGATTGAATGAAGCATTT+TGG + Chr4:67291452-67291471 None:intergenic 30.0%
ATGGTAAAAACGCTGAGAAA+TGG - Chr4:67291687-67291706 MsG0480022043.01.T01:CDS 35.0%
TGGTAAAAACGCTGAGAAAT+GGG - Chr4:67291688-67291707 MsG0480022043.01.T01:CDS 35.0%
! GTTGTTAGAGTGTTTGTGAT+TGG + Chr4:67291510-67291529 None:intergenic 35.0%
! TTAGAGTGTTTGTGATTGGT+TGG + Chr4:67291506-67291525 None:intergenic 35.0%
!! TGGAACTTTTGTTTCTCTCT+TGG - Chr4:67291970-67291989 MsG0480022043.01.T01:CDS 35.0%
!!! AGCATTTTGGTTGTTGAGTT+CGG + Chr4:67291439-67291458 None:intergenic 35.0%
!!! GCAAGGAAGTGTTTTCTTAA+GGG - Chr4:67291751-67291770 MsG0480022043.01.T01:CDS 35.0%
!!! TGCAAGGAAGTGTTTTCTTA+AGG - Chr4:67291750-67291769 MsG0480022043.01.T01:CDS 35.0%
AAACACTTCCTTGCACTGTA+CGG + Chr4:67291745-67291764 None:intergenic 40.0%
GAGAGCAAATGTAAGACGAA+TGG + Chr4:67291603-67291622 None:intergenic 40.0%
GCAAACCAAAACGAAGACAA+AGG - Chr4:67291563-67291582 MsG0480022043.01.T01:CDS 40.0%
GGTAAAAACGCTGAGAAATG+GGG - Chr4:67291689-67291708 MsG0480022043.01.T01:CDS 40.0%
GTCAGAAGGTGAATCCTAAA+GGG - Chr4:67291873-67291892 MsG0480022043.01.T01:CDS 40.0%
GTGGAACTTAATGTCAGTTC+AGG - Chr4:67291851-67291870 MsG0480022043.01.T01:CDS 40.0%
TAATGTCAGTTCAGGTCAGA+AGG - Chr4:67291859-67291878 MsG0480022043.01.T01:CDS 40.0%
! AGACACCTTTGTCTTCGTTT+TGG + Chr4:67291571-67291590 None:intergenic 40.0%
!! GTGAGTGTTTTGTTGAGAGA+AGG + Chr4:67291482-67291501 None:intergenic 40.0%
!! GTGTTTTGTTGAGAGAAGGA+AGG + Chr4:67291478-67291497 None:intergenic 40.0%
!!! AGGAAGTGTTTTCTTAAGGG+TGG - Chr4:67291754-67291773 MsG0480022043.01.T01:CDS 40.0%
!!! CGTTTTGGTTTGCTAGTTTG+AGG + Chr4:67291556-67291575 None:intergenic 40.0%
AATCCTAAAGGGATCAGGCT+TGG - Chr4:67291884-67291903 MsG0480022043.01.T01:CDS 45.0%
ACTAAACGACACCGTTTGTC+TGG - Chr4:67291818-67291837 MsG0480022043.01.T01:CDS 45.0%
ACTCTCGATGGTTTCTACCA+AGG - Chr4:67291662-67291681 MsG0480022043.01.T01:CDS 45.0%
AGGTGAATCCTAAAGGGATC+AGG - Chr4:67291879-67291898 MsG0480022043.01.T01:CDS 45.0%
GATGGTTTCTACCAAGGACA+TGG - Chr4:67291668-67291687 MsG0480022043.01.T01:CDS 45.0%
GGTCAGAAGGTGAATCCTAA+AGG - Chr4:67291872-67291891 MsG0480022043.01.T01:CDS 45.0%
TTACCAAGCCTGATCCCTTT+AGG + Chr4:67291890-67291909 None:intergenic 45.0%
TTGGTAGAAACCATCGAGAG+TGG + Chr4:67291663-67291682 None:intergenic 45.0%
! CAGCGTTTTTACCATGTCCT+TGG + Chr4:67291682-67291701 None:intergenic 45.0%
AAACGACACCGTTTGTCTGG+AGG - Chr4:67291821-67291840 MsG0480022043.01.T01:CDS 50.0%
AACGACACCGTTTGTCTGGA+GGG - Chr4:67291822-67291841 MsG0480022043.01.T01:CDS 50.0%
CATTTGCCCCTCCAGACAAA+CGG + Chr4:67291832-67291851 None:intergenic 50.0%
GAAACCATCGAGAGTGGAGT+TGG + Chr4:67291657-67291676 None:intergenic 50.0%
TGTGAGCCACAAGAAGAGGA+TGG + Chr4:67291414-67291433 None:intergenic 50.0%
TTTGTCTGGAGGGGCAAATG+TGG - Chr4:67291832-67291851 MsG0480022043.01.T01:CDS 50.0%
! ACTAGCTTCATCACCAGCAC+AGG - Chr4:67291383-67291402 MsG0480022043.01.T01:CDS 50.0%
!! GCTTGGTAATGCTCCAGTTC+GGG - Chr4:67291901-67291920 MsG0480022043.01.T01:CDS 50.0%
!! GGCTTGGTAATGCTCCAGTT+CGG - Chr4:67291900-67291919 MsG0480022043.01.T01:CDS 50.0%
ACGACACCGTTTGTCTGGAG+GGG - Chr4:67291823-67291842 MsG0480022043.01.T01:CDS 55.0%
GCCACAAGAAGAGGATGGTG+AGG + Chr4:67291409-67291428 None:intergenic 55.0%
GCCTCACCATCCTCTTCTTG+TGG - Chr4:67291405-67291424 MsG0480022043.01.T01:CDS 55.0%
GGAGTGAACCGTACAGTGCA+AGG - Chr4:67291734-67291753 MsG0480022043.01.T01:CDS 55.0%
GGAGTGTGAGCCACAAGAAG+AGG + Chr4:67291418-67291437 None:intergenic 55.0%
GGTAATGCTCCAGTTCGGGT+CGG - Chr4:67291905-67291924 MsG0480022043.01.T01:CDS 55.0%
GGTGATGAAGCTAGTGCAGC+AGG + Chr4:67291378-67291397 None:intergenic 55.0%
GTAATGCTCCAGTTCGGGTC+GGG - Chr4:67291906-67291925 MsG0480022043.01.T01:CDS 55.0%
TGAGAAATGGGGTTCTGCCG+AGG - Chr4:67291700-67291719 MsG0480022043.01.T01:CDS 55.0%
! AGCAGGTGCAGCAGTTGATG+CGG + Chr4:67291361-67291380 None:intergenic 55.0%
!! GGGTTCTGGGTTGCTCTTTC+TGG - Chr4:67291950-67291969 MsG0480022043.01.T01:CDS 55.0%
AACCCAGAACCCGCGAAACG+GGG + Chr4:67291942-67291961 None:intergenic 60.0%
CAACCCAGAACCCGCGAAAC+GGG + Chr4:67291943-67291962 None:intergenic 60.0%
CTGGCCAACTCCACTCTCGA+TGG - Chr4:67291650-67291669 MsG0480022043.01.T01:CDS 60.0%
GCAACCCAGAACCCGCGAAA+CGG + Chr4:67291944-67291963 None:intergenic 60.0%
TCGAGAGTGGAGTTGGCCAG+TGG + Chr4:67291650-67291669 None:intergenic 60.0%
! CAGGTGCAGCAGTTGATGCG+GGG + Chr4:67291359-67291378 None:intergenic 60.0%
! GCAGGTGCAGCAGTTGATGC+GGG + Chr4:67291360-67291379 None:intergenic 60.0%
! TCTGAAGCTGCCCCGTTTCG+CGG - Chr4:67291929-67291948 MsG0480022043.01.T01:CDS 60.0%
CACTCCACCACCACGTGCCT+CGG + Chr4:67291720-67291739 None:intergenic 65.0%
CGTCAACACCACGCGTCCAC+TGG - Chr4:67291631-67291650 MsG0480022043.01.T01:CDS 65.0%
CTGAAGCTGCCCCGTTTCGC+GGG - Chr4:67291930-67291949 MsG0480022043.01.T01:CDS 65.0%
GAGGATGGTGAGGCCTGTGC+TGG + Chr4:67291399-67291418 None:intergenic 65.0%
GCTTCAGACCCGACCCGAAC+TGG + Chr4:67291917-67291936 None:intergenic 65.0%
GTTGATGCGGGGTTCCTGCG+CGG + Chr4:67291348-67291367 None:intergenic 65.0%
TGCCCCGTTTCGCGGGTTCT+GGG - Chr4:67291937-67291956 MsG0480022043.01.T01:CDS 65.0%
TTGATGCGGGGTTCCTGCGC+GGG + Chr4:67291347-67291366 None:intergenic 65.0%
!! GACGCGTGGTGTTGACGTCG+AGG + Chr4:67291628-67291647 None:intergenic 65.0%
CTGCCCCGTTTCGCGGGTTC+TGG - Chr4:67291936-67291955 MsG0480022043.01.T01:CDS 70.0%
GGAGTTGGCCAGTGGACGCG+TGG + Chr4:67291642-67291661 None:intergenic 70.0%
GGTTCTGCCGAGGCACGTGG+TGG - Chr4:67291710-67291729 MsG0480022043.01.T01:CDS 70.0%
TCTGCCGAGGCACGTGGTGG+TGG - Chr4:67291713-67291732 MsG0480022043.01.T01:CDS 70.0%
TGGGGTTCTGCCGAGGCACG+TGG - Chr4:67291707-67291726 MsG0480022043.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr4 gene 67291335 67292012 67291335 ID=MsG0480022043.01;Name=MsG0480022043.01
Chr4 mRNA 67291335 67292012 67291335 ID=MsG0480022043.01.T01;Parent=MsG0480022043.01;Name=MsG0480022043.01.T01;_AED=0.09;_eAED=0.09;_QI=0|-1|0|1|-1|1|1|0|225
Chr4 exon 67291335 67292012 67291335 ID=MsG0480022043.01.T01:exon:8232;Parent=MsG0480022043.01.T01
Chr4 CDS 67291335 67292012 67291335 ID=MsG0480022043.01.T01:cds;Parent=MsG0480022043.01.T01
Gene Sequence

>MsG0480022043.01.T01

ATGGCGCGGCCCGCGCAGGAACCCCGCATCAACTGCTGCACCTGCTGCACTAGCTTCATCACCAGCACAGGCCTCACCATCCTCTTCTTGTGGCTCACACTCCGAACTCAACAACCAAAATGCTTCATTCAATCACTCTACCTTCCTTCTCTCAACAAAACACTCACTCCAACCAATCACAAACACTCTAACAACAACAACAACACTATCATCTTCAACCTCAAACTAGCAAACCAAAACGAAGACAAAGGTGTCTACTATGACGCCATTCGTCTTACATTTGCTCTCTTCCTCGACGTCAACACCACGCGTCCACTGGCCAACTCCACTCTCGATGGTTTCTACCAAGGACATGGTAAAAACGCTGAGAAATGGGGTTCTGCCGAGGCACGTGGTGGTGGAGTGAACCGTACAGTGCAAGGAAGTGTTTTCTTAAGGGTGGAGTTTGTCACACGCGTTAAGTATAAGATTCTGTTTGTATATACTAAACGACACCGTTTGTCTGGAGGGGCAAATGTGGAACTTAATGTCAGTTCAGGTCAGAAGGTGAATCCTAAAGGGATCAGGCTTGGTAATGCTCCAGTTCGGGTCGGGTCTGAAGCTGCCCCGTTTCGCGGGTTCTGGGTTGCTCTTTCTGGAACTTTTGTTTCTCTCTTGGTTCTTAGTGCTTTTACTTGA
Protein sequence

>MsG0480022043.01.T01

MARPAQEPRINCCTCCTSFITSTGLTILFLWLTLRTQQPKCFIQSLYLPSLNKTLTPTNHKHSNNNNNTIIFNLKLANQNEDKGVYYDAIRLTFALFLDVNTTRPLANSTLDGFYQGHGKNAEKWGSAEARGGGVNRTVQGSVFLRVEFVTRVKYKILFVYTKRHRLSGGANVELNVSSGQKVNPKGIRLGNAPVRVGSEAAPFRGFWVALSGTFVSLLVLSAFT*