AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180002377.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002377.01.T01 MTR_2g038250 98.039 102 2 0 4 105 143 244 8.88e-71 211
MsG0180002377.01.T01 MTR_1g022385 98.039 102 2 0 4 105 174 275 1.56e-70 211
MsG0180002377.01.T01 MTR_4g008160 89.216 102 11 0 4 105 142 243 4.07e-65 197
MsG0180002377.01.T01 MTR_1g022375 78.750 80 17 0 16 95 77 156 1.45e-42 137
MsG0180002377.01.T01 MTR_7g059170 54.902 102 46 0 4 105 145 246 5.73e-41 135
MsG0180002377.01.T01 MTR_1g108785 53.448 58 21 4 46 97 2 59 5.92e-12 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002377.01.T01 AT2G01250 87.255 102 13 0 4 105 141 242 1.69e-64 195
MsG0180002377.01.T01 AT2G44120 85.294 102 15 0 4 105 141 242 6.06e-64 194
MsG0180002377.01.T01 AT2G44120 85.294 102 15 0 4 105 146 247 8.05e-64 194
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT3G13580 84.314 102 16 0 4 105 143 244 8.47e-63 191
MsG0180002377.01.T01 AT1G80750 50.980 102 49 1 5 105 146 247 4.52e-29 105
MsG0180002377.01.T01 AT2G01250 72.973 37 10 0 4 40 141 177 2.76e-11 57.4

Find 33 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCATTAGAAGGATGAATT+AGG 0.270598 1:-37661654 MsG0180002377.01.T01:exon
GTGTCGTTTAAGATTGATTA+TGG 0.274625 1:-37661622 MsG0180002377.01.T01:three_prime_UTR
TAGAAGGATGAATTAGGTTT+TGG 0.280297 1:-37661648 MsG0180002377.01.T01:exon
TTTCAAGCTCAAAGCTCCTT+TGG 0.284641 1:-37661750 MsG0180002377.01.T01:CDS
AGTGTTCAATTGCAGGTTCT+TGG 0.317764 1:-37661863 MsG0180002377.01.T01:intron
TTCAAGCTCAAAGCTCCTTT+GGG 0.329811 1:-37661749 MsG0180002377.01.T01:CDS
TTGATCTACAAGCGCGGTTA+TGG 0.337108 1:-37662212 MsG0180002377.01.T01:CDS
AAAACTTTCGCTGCACTTGC+AGG 0.346062 1:+37661501 None:intergenic
TCAATTCTCTAACACTCTTC+AGG 0.373375 1:+37662231 None:intergenic
GTGTTCAATTGCAGGTTCTT+GGG 0.403327 1:-37661862 MsG0180002377.01.T01:intron
ACATCAATGAACTCATTAGA+AGG 0.462677 1:-37661664 MsG0180002377.01.T01:CDS
TGAAGTGAGGTCCAACAGTC+AGG 0.464367 1:+37661798 None:intergenic
AGATAACTCTATCATTGAAC+AGG 0.482014 1:-37662159 MsG0180002377.01.T01:intron
AAGAGAAATCACTATGTTGA+AGG 0.489111 1:-37661713 MsG0180002377.01.T01:CDS
AAAGGAGCTTTGAGCTTGAA+AGG 0.504831 1:+37661752 None:intergenic
GAGAGGCAAACAACTTCCTA+TGG 0.504947 1:-37661775 MsG0180002377.01.T01:CDS
TATGTTGAAGGTGGTGATGC+TGG 0.533299 1:-37661701 MsG0180002377.01.T01:CDS
TAGAATCTGAAGTCAAATGA+AGG 0.542280 1:+37662329 None:intergenic
TTGCAGGTTCTTGGGAAACA+TGG 0.547799 1:-37661854 MsG0180002377.01.T01:intron
GCGGTTATGGAAAGGTTGAT+AGG 0.549876 1:-37662199 MsG0180002377.01.T01:CDS
TTCTTCTTCATGCCACCCAA+AGG 0.554983 1:+37661734 None:intergenic
ATCCACGAGATCCTGACTGT+TGG 0.556683 1:-37661809 MsG0180002377.01.T01:CDS
AGGTGGTGATGCTGGTAAGA+GGG 0.564495 1:-37661693 MsG0180002377.01.T01:CDS
CTTTGAGCTTGAAAGGCCAT+AGG 0.568033 1:+37661759 None:intergenic
AAGCTCAAAGCTCCTTTGGG+TGG 0.570830 1:-37661746 MsG0180002377.01.T01:CDS
TTGTTTGCCTCTCTGAAGTG+AGG 0.573961 1:+37661785 None:intergenic
GTCCAACAGTCAGGATCTCG+TGG 0.575620 1:+37661807 None:intergenic
AAGGTGGTGATGCTGGTAAG+AGG 0.583947 1:-37661694 MsG0180002377.01.T01:CDS
CTACAAGCGCGGTTATGGAA+AGG 0.599869 1:-37662207 MsG0180002377.01.T01:CDS
TGGTGATGCTGGTAAGAGGG+AGG 0.608332 1:-37661690 MsG0180002377.01.T01:CDS
AGAAATCACTATGTTGAAGG+TGG 0.637998 1:-37661710 MsG0180002377.01.T01:CDS
AGAGAATTGATCTACAAGCG+CGG 0.721136 1:-37662218 MsG0180002377.01.T01:CDS
TGTTGGACCTCACTTCAGAG+AGG 0.737396 1:-37661792 MsG0180002377.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAAAATAGAAAAATTTAAC+CGG + Chr1:37661932-37661951 None:intergenic 15.0%
!!! GAAATCTTTAAAAACAAAAC+TGG + Chr1:37662255-37662274 None:intergenic 20.0%
! GGTGATATTATTATTGTTGA+AGG - Chr1:37661898-37661917 MsG0180002377.01.T01:intron 25.0%
!!! GAATTTTAAAAACTACACAG+TGG - Chr1:37661549-37661568 MsG0180002377.01.T01:three_prime_UTR 25.0%
AAGAGAAATCACTATGTTGA+AGG - Chr1:37662111-37662130 MsG0180002377.01.T01:intron 30.0%
AATAATATCACCACCATACA+GGG + Chr1:37661890-37661909 None:intergenic 30.0%
ACATCAATGAACTCATTAGA+AGG - Chr1:37662160-37662179 MsG0180002377.01.T01:CDS 30.0%
ACTCATTAGAAGGATGAATT+AGG - Chr1:37662170-37662189 MsG0180002377.01.T01:CDS 30.0%
AGATAACTCTATCATTGAAC+AGG - Chr1:37661665-37661684 MsG0180002377.01.T01:CDS 30.0%
TAATAATATCACCACCATAC+AGG + Chr1:37661891-37661910 None:intergenic 30.0%
! TAGAAGGATGAATTAGGTTT+TGG - Chr1:37662176-37662195 MsG0180002377.01.T01:CDS 30.0%
!! GTGTCGTTTAAGATTGATTA+TGG - Chr1:37662202-37662221 MsG0180002377.01.T01:CDS 30.0%
AACAACTCACATTCTGACTT+TGG + Chr1:37661803-37661822 None:intergenic 35.0%
AATTGGGTAAAGTACAGAGT+CGG + Chr1:37661778-37661797 None:intergenic 35.0%
ACATTCTGACTTTGGCAAAT+TGG + Chr1:37661795-37661814 None:intergenic 35.0%
AGAAATCACTATGTTGAAGG+TGG - Chr1:37662114-37662133 MsG0180002377.01.T01:intron 35.0%
ATAATATCACCACCATACAG+GGG + Chr1:37661889-37661908 None:intergenic 35.0%
ATTGTTGAAGGTTATGTTGC+CGG - Chr1:37661910-37661929 MsG0180002377.01.T01:intron 35.0%
CATTCTGACTTTGGCAAATT+GGG + Chr1:37661794-37661813 None:intergenic 35.0%
CTGAACTGTATGACATAGAT+GGG - Chr1:37661739-37661758 MsG0180002377.01.T01:CDS 35.0%
TCAATTCTCTAACACTCTTC+AGG + Chr1:37661596-37661615 None:intergenic 35.0%
TCTGAACTGTATGACATAGA+TGG - Chr1:37661738-37661757 MsG0180002377.01.T01:CDS 35.0%
AGAGAATTGATCTACAAGCG+CGG - Chr1:37661606-37661625 MsG0180002377.01.T01:three_prime_UTR 40.0%
AGTGTTCAATTGCAGGTTCT+TGG - Chr1:37661961-37661980 MsG0180002377.01.T01:intron 40.0%
CTGACATAGTGTTCAATTGC+AGG - Chr1:37661954-37661973 MsG0180002377.01.T01:intron 40.0%
GTGTTCAATTGCAGGTTCTT+GGG - Chr1:37661962-37661981 MsG0180002377.01.T01:intron 40.0%
TGTGTGATCGAATGAAAGCA+GGG + Chr1:37661710-37661729 None:intergenic 40.0%
TTCAAGCTCAAAGCTCCTTT+GGG - Chr1:37662075-37662094 MsG0180002377.01.T01:intron 40.0%
TTTCAAGCTCAAAGCTCCTT+TGG - Chr1:37662074-37662093 MsG0180002377.01.T01:intron 40.0%
!! AAAGGAGCTTTGAGCTTGAA+AGG + Chr1:37662075-37662094 None:intergenic 40.0%
AAAACTTTCGCTGCACTTGC+AGG + Chr1:37662326-37662345 None:intergenic 45.0%
CTGTGTGATCGAATGAAAGC+AGG + Chr1:37661711-37661730 None:intergenic 45.0%
CTTTGAGCTTGAAAGGCCAT+AGG + Chr1:37662068-37662087 None:intergenic 45.0%
GAGAGGCAAACAACTTCCTA+TGG - Chr1:37662049-37662068 MsG0180002377.01.T01:intron 45.0%
TTCTTCTTCATGCCACCCAA+AGG + Chr1:37662093-37662112 None:intergenic 45.0%
TTGATCTACAAGCGCGGTTA+TGG - Chr1:37661612-37661631 MsG0180002377.01.T01:three_prime_UTR 45.0%
TTGCAGGTTCTTGGGAAACA+TGG - Chr1:37661970-37661989 MsG0180002377.01.T01:intron 45.0%
! GCGGTTATGGAAAGGTTGAT+AGG - Chr1:37661625-37661644 MsG0180002377.01.T01:three_prime_UTR 45.0%
! TATGTTGAAGGTGGTGATGC+TGG - Chr1:37662123-37662142 MsG0180002377.01.T01:intron 45.0%
!! TTGTTTGCCTCTCTGAAGTG+AGG + Chr1:37662042-37662061 None:intergenic 45.0%
AAGCTCAAAGCTCCTTTGGG+TGG - Chr1:37662078-37662097 MsG0180002377.01.T01:intron 50.0%
ATCCACGAGATCCTGACTGT+TGG - Chr1:37662015-37662034 MsG0180002377.01.T01:intron 50.0%
CTACAAGCGCGGTTATGGAA+AGG - Chr1:37661617-37661636 MsG0180002377.01.T01:three_prime_UTR 50.0%
CTTGACCAATGTCCCCTGTA+TGG - Chr1:37661874-37661893 MsG0180002377.01.T01:intron 50.0%
TGAAGTGAGGTCCAACAGTC+AGG + Chr1:37662029-37662048 None:intergenic 50.0%
TGTTGGACCTCACTTCAGAG+AGG - Chr1:37662032-37662051 MsG0180002377.01.T01:intron 50.0%
! AAGGTGGTGATGCTGGTAAG+AGG - Chr1:37662130-37662149 MsG0180002377.01.T01:intron 50.0%
! AGGTGGTGATGCTGGTAAGA+GGG - Chr1:37662131-37662150 MsG0180002377.01.T01:intron 50.0%
CACCACCATACAGGGGACAT+TGG + Chr1:37661882-37661901 None:intergenic 55.0%
GACCAATGTCCCCTGTATGG+TGG - Chr1:37661877-37661896 MsG0180002377.01.T01:intron 55.0%
GTCCAACAGTCAGGATCTCG+TGG + Chr1:37662020-37662039 None:intergenic 55.0%
! TGGTGATGCTGGTAAGAGGG+AGG - Chr1:37662134-37662153 MsG0180002377.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 37661496 37662350 37661496 ID=MsG0180002377.01;Name=MsG0180002377.01
Chr1 mRNA 37661496 37662350 37661496 ID=MsG0180002377.01.T01;Parent=MsG0180002377.01;Name=MsG0180002377.01.T01;_AED=0.23;_eAED=0.23;_QI=89|1|1|1|1|1|2|159|105
Chr1 exon 37662160 37662350 37662160 ID=MsG0180002377.01.T01:exon:13369;Parent=MsG0180002377.01.T01
Chr1 exon 37661496 37661870 37661496 ID=MsG0180002377.01.T01:exon:13370;Parent=MsG0180002377.01.T01
Chr1 five_prime_UTR 37662262 37662350 37662262 ID=MsG0180002377.01.T01:five_prime_utr;Parent=MsG0180002377.01.T01
Chr1 CDS 37662160 37662261 37662160 ID=MsG0180002377.01.T01:cds;Parent=MsG0180002377.01.T01
Chr1 CDS 37661655 37661870 37661655 ID=MsG0180002377.01.T01:cds;Parent=MsG0180002377.01.T01
Chr1 three_prime_UTR 37661496 37661654 37661496 ID=MsG0180002377.01.T01:three_prime_utr;Parent=MsG0180002377.01.T01
Gene Sequence

>MsG0180002377.01.T01

ATGTTGATCCTGAAGAGTGTTAGAGAATTGATCTACAAGCGCGGTTATGGAAAGGTTGATAGGCAGAGAATTGCTTTGACAGATAACTCTATCATTGAACAGGTTCTTGGGAAACATGGTATCATTTGCGTTGAAGATCTCATCCACGAGATCCTGACTGTTGGACCTCACTTCAGAGAGGCAAACAACTTCCTATGGCCTTTCAAGCTCAAAGCTCCTTTGGGTGGCATGAAGAAGAAGAGAAATCACTATGTTGAAGGTGGTGATGCTGGTAAGAGGGAGGATTACATCAATGAACTCATTAGAAGGATGAATTAG

Protein sequence

>MsG0180002377.01.T01

MLILKSVRELIYKRGYGKVDRQRIALTDNSIIEQVLGKHGIICVEDLIHEILTVGPHFREANNFLWPFKLKAPLGGMKKKRNHYVEGGDAGKREDYINELIRRMN*