AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380015603.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015603.01.T01 MTR_3g073140 98.795 166 2 0 1 166 1 166 2.36e-119 334
MsG0380015603.01.T01 MTR_4g081120 53.000 100 47 0 53 152 46 145 1.84e-34 119
MsG0380015603.01.T01 MTR_4g081120 47.692 130 68 0 23 152 36 165 2.12e-34 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015603.01.T01 AT5G14320 70.513 156 41 2 1 153 1 154 1.23e-76 226
MsG0380015603.01.T01 AT5G14320 58.268 127 48 2 1 124 1 125 1.64e-44 143
MsG0380015603.01.T01 AT1G77750 48.387 124 64 0 42 165 27 150 1.20e-37 127

Find 42 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATGTCCTGCAATTATTCT+TGG 0.215118 3:+72418928 None:intergenic
AATTCGATTCTCTTGTTGTT+TGG 0.271078 3:+72419290 None:intergenic
CAGAGGAATAAGGCATATTC+AGG 0.285946 3:-72418975 MsG0380015603.01.T01:CDS
AATTGTGTTACCTTTGACTT+TGG 0.293488 3:+72419421 None:intergenic
ATCAAGTGACTAAATTAAAA+AGG 0.325206 3:+72418853 None:intergenic
GACTTTGGAGTGTTGAGAAC+TGG 0.363379 3:+72419436 None:intergenic
GGTAAGAAGGTTACTGTTGC+TGG 0.372364 3:-72418902 MsG0380015603.01.T01:CDS
TTCAATGTTACAGAGGAATA+AGG 0.374673 3:-72418985 MsG0380015603.01.T01:CDS
AAGAAGAGCTTATTAGTCTC+AGG 0.387619 3:-72419172 MsG0380015603.01.T01:CDS
ATACATGACTGAAGGAGATT+TGG 0.390225 3:-72419135 MsG0380015603.01.T01:intron
GGGAGATAATGATAAGGATA+TGG 0.401243 3:-72419584 None:intergenic
GGAGAAGTTAGCATGGCCTT+TGG 0.412794 3:+72419474 None:intergenic
TTGCAGTACATTCATGGAGT+TGG 0.465952 3:-72419263 MsG0380015603.01.T01:CDS
TATGGAGAATAAAGTTACTA+AGG 0.474154 3:-72419204 MsG0380015603.01.T01:CDS
CAGGACATTGAAGGGTAAGA+AGG 0.478630 3:-72418915 MsG0380015603.01.T01:CDS
TTAATGCACTTAATATAAAG+AGG 0.487114 3:-72419018 MsG0380015603.01.T01:CDS
AGCGTACCAAGAATAATTGC+AGG 0.496459 3:-72418934 MsG0380015603.01.T01:CDS
ATTGAATTGTATAGGTTCAA+AGG 0.511797 3:-72419352 MsG0380015603.01.T01:intron
GAATAATTGCAGGACATTGA+AGG 0.513496 3:-72418924 MsG0380015603.01.T01:CDS
AACTGGGAAGGAAACTCGAT+TGG 0.516558 3:+72419453 None:intergenic
ATATCATGTGAACTTCTGCT+TGG 0.523221 3:-72418734 MsG0380015603.01.T01:three_prime_UTR
ATTGTGTGCGTTCGTGTTGG+TGG 0.534997 3:-72419323 MsG0380015603.01.T01:CDS
AATAATTGCAGGACATTGAA+GGG 0.549157 3:-72418923 MsG0380015603.01.T01:CDS
ATTGAGAGTGAAGGTGCCAC+AGG 0.552065 3:+72419502 None:intergenic
ACTTAATATAAAGAGGTTGA+AGG 0.557426 3:-72419011 MsG0380015603.01.T01:CDS
TAATGATAAGGATATGGCTA+TGG 0.563231 3:-72419578 None:intergenic
AACATTGTGTGCGTTCGTGT+TGG 0.564683 3:-72419326 MsG0380015603.01.T01:CDS
GTGCGTTCGTGTTGGTGGTG+TGG 0.576835 3:-72419318 MsG0380015603.01.T01:CDS
TTGGTACGCTGTCCTCTACA+AGG 0.578588 3:+72418947 None:intergenic
AGAGGAATAAGGCATATTCA+GGG 0.580912 3:-72418974 MsG0380015603.01.T01:CDS
ACTTTGGAGTGTTGAGAACT+GGG 0.582387 3:+72419437 None:intergenic
TCTCAACACTCCAAAGTCAA+AGG 0.589008 3:-72419431 MsG0380015603.01.T01:intron
TGGAGTGTTGAGAACTGGGA+AGG 0.596347 3:+72419441 None:intergenic
GTTAACAAATACATGACTGA+AGG 0.596392 3:-72419143 MsG0380015603.01.T01:CDS
CTCGATTGGAGAAGTTAGCA+TGG 0.611741 3:+72419467 None:intergenic
TCACTCTCAATCATCTCCAA+AGG 0.619107 3:-72419490 MsG0380015603.01.T01:CDS
ATTCAGGGACTTCCTTGTAG+AGG 0.621863 3:-72418959 MsG0380015603.01.T01:CDS
AGTACATTCATGGAGTTGGA+AGG 0.622828 3:-72419259 MsG0380015603.01.T01:CDS
AGAAGAGCTTATTAGTCTCA+GGG 0.625713 3:-72419171 MsG0380015603.01.T01:CDS
AAGGAGATTCAATGTTACAG+AGG 0.654230 3:-72418992 MsG0380015603.01.T01:CDS
TTGGAGATGATTGAGAGTGA+AGG 0.661623 3:+72419493 None:intergenic
ACAAACACTCTCAATGCCTG+TGG 0.676701 3:-72419518 MsG0380015603.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTGTTTTGTAATTGTAA+TGG - Chr3:72419206-72419225 MsG0380015603.01.T01:CDS 15.0%
!! ATCAAGTGACTAAATTAAAA+AGG + Chr3:72419427-72419446 None:intergenic 20.0%
!! TTAATGCACTTAATATAAAG+AGG - Chr3:72419259-72419278 MsG0380015603.01.T01:CDS 20.0%
!!! AGAGAAAAAAGAAAATGTTT+TGG - Chr3:72419456-72419475 MsG0380015603.01.T01:CDS 20.0%
! ACTTAATATAAAGAGGTTGA+AGG - Chr3:72419266-72419285 MsG0380015603.01.T01:CDS 25.0%
! ATTGAATTGTATAGGTTCAA+AGG - Chr3:72418925-72418944 MsG0380015603.01.T01:CDS 25.0%
! TATGGAGAATAAAGTTACTA+AGG - Chr3:72419073-72419092 MsG0380015603.01.T01:intron 25.0%
! TGATTCTGATTGAATTGTAT+AGG - Chr3:72418917-72418936 MsG0380015603.01.T01:CDS 25.0%
!!! GATTTTAACTGATATCAGTA+TGG - Chr3:72419055-72419074 MsG0380015603.01.T01:intron 25.0%
!!! TGCGATTGTTTTGATTAAAT+TGG - Chr3:72419483-72419502 MsG0380015603.01.T01:CDS 25.0%
AAGTCAAAGGTAACACAATT+AGG - Chr3:72418859-72418878 MsG0380015603.01.T01:three_prime_UTR 30.0%
AATAATTGCAGGACATTGAA+GGG - Chr3:72419354-72419373 MsG0380015603.01.T01:intron 30.0%
AGTCAAAGGTAACACAATTA+GGG - Chr3:72418860-72418879 MsG0380015603.01.T01:three_prime_UTR 30.0%
ATCAGAATCAGAATGGAATT+TGG + Chr3:72418907-72418926 None:intergenic 30.0%
CAATTCAATCAGAATCAGAA+TGG + Chr3:72418914-72418933 None:intergenic 30.0%
GTTAACAAATACATGACTGA+AGG - Chr3:72419134-72419153 MsG0380015603.01.T01:intron 30.0%
TTCAATGTTACAGAGGAATA+AGG - Chr3:72419292-72419311 MsG0380015603.01.T01:CDS 30.0%
TTGTTTGTGAATTTCAGAGA+AGG - Chr3:72419235-72419254 MsG0380015603.01.T01:CDS 30.0%
! AATTGTGTTACCTTTGACTT+TGG + Chr3:72418859-72418878 None:intergenic 30.0%
!! AATTCGATTCTCTTGTTGTT+TGG + Chr3:72418990-72419009 None:intergenic 30.0%
AAGGAGATTCAATGTTACAG+AGG - Chr3:72419285-72419304 MsG0380015603.01.T01:CDS 35.0%
AGAGGAATAAGGCATATTCA+GGG - Chr3:72419303-72419322 MsG0380015603.01.T01:CDS 35.0%
ATACATGACTGAAGGAGATT+TGG - Chr3:72419142-72419161 MsG0380015603.01.T01:CDS 35.0%
ATATCATGTGAACTTCTGCT+TGG - Chr3:72419543-72419562 MsG0380015603.01.T01:exon 35.0%
CAATGTCCTGCAATTATTCT+TGG + Chr3:72419352-72419371 None:intergenic 35.0%
GAATAATTGCAGGACATTGA+AGG - Chr3:72419353-72419372 MsG0380015603.01.T01:intron 35.0%
TCGCAGTTGAACAGAAAAAA+TGG - Chr3:72418735-72418754 MsG0380015603.01.T01:three_prime_UTR 35.0%
! AAGAAGAGCTTATTAGTCTC+AGG - Chr3:72419105-72419124 MsG0380015603.01.T01:intron 35.0%
! AGAAGAGCTTATTAGTCTCA+GGG - Chr3:72419106-72419125 MsG0380015603.01.T01:intron 35.0%
! TTTTCGTTGCAGTACATTCA+TGG - Chr3:72419008-72419027 MsG0380015603.01.T01:CDS 35.0%
AGCGTACCAAGAATAATTGC+AGG - Chr3:72419343-72419362 MsG0380015603.01.T01:intron 40.0%
AGTACATTCATGGAGTTGGA+AGG - Chr3:72419018-72419037 MsG0380015603.01.T01:CDS 40.0%
CAGAGGAATAAGGCATATTC+AGG - Chr3:72419302-72419321 MsG0380015603.01.T01:CDS 40.0%
TCACTCTCAATCATCTCCAA+AGG - Chr3:72418787-72418806 MsG0380015603.01.T01:three_prime_UTR 40.0%
TCTCAACACTCCAAAGTCAA+AGG - Chr3:72418846-72418865 MsG0380015603.01.T01:three_prime_UTR 40.0%
TTGCAGTACATTCATGGAGT+TGG - Chr3:72419014-72419033 MsG0380015603.01.T01:CDS 40.0%
TTGGAGATGATTGAGAGTGA+AGG + Chr3:72418787-72418806 None:intergenic 40.0%
!! ACTTTGGAGTGTTGAGAACT+GGG + Chr3:72418843-72418862 None:intergenic 40.0%
AACATTGTGTGCGTTCGTGT+TGG - Chr3:72418951-72418970 MsG0380015603.01.T01:CDS 45.0%
AACTGGGAAGGAAACTCGAT+TGG + Chr3:72418827-72418846 None:intergenic 45.0%
ACAAACACTCTCAATGCCTG+TGG - Chr3:72418759-72418778 MsG0380015603.01.T01:three_prime_UTR 45.0%
ATTCAGGGACTTCCTTGTAG+AGG - Chr3:72419318-72419337 MsG0380015603.01.T01:CDS 45.0%
CAGGACATTGAAGGGTAAGA+AGG - Chr3:72419362-72419381 MsG0380015603.01.T01:intron 45.0%
CTCGATTGGAGAAGTTAGCA+TGG + Chr3:72418813-72418832 None:intergenic 45.0%
GGTAAGAAGGTTACTGTTGC+TGG - Chr3:72419375-72419394 MsG0380015603.01.T01:intron 45.0%
!! GACTTTGGAGTGTTGAGAAC+TGG + Chr3:72418844-72418863 None:intergenic 45.0%
ATTGTGTGCGTTCGTGTTGG+TGG - Chr3:72418954-72418973 MsG0380015603.01.T01:CDS 50.0%
GGAGAAGTTAGCATGGCCTT+TGG + Chr3:72418806-72418825 None:intergenic 50.0%
TTGGTACGCTGTCCTCTACA+AGG + Chr3:72419333-72419352 None:intergenic 50.0%
!! ATTGAGAGTGAAGGTGCCAC+AGG + Chr3:72418778-72418797 None:intergenic 50.0%
!! TGGAGTGTTGAGAACTGGGA+AGG + Chr3:72418839-72418858 None:intergenic 50.0%
!! GTGCGTTCGTGTTGGTGGTG+TGG - Chr3:72418959-72418978 MsG0380015603.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 72418703 72419596 72418703 ID=MsG0380015603.01;Name=MsG0380015603.01
Chr3 mRNA 72418703 72419596 72418703 ID=MsG0380015603.01.T01;Parent=MsG0380015603.01;Name=MsG0380015603.01.T01;_AED=0.19;_eAED=0.19;_QI=51|1|1|1|1|1|3|183|166
Chr3 exon 72418703 72419047 72418703 ID=MsG0380015603.01.T01:exon:24051;Parent=MsG0380015603.01.T01
Chr3 exon 72419136 72419360 72419136 ID=MsG0380015603.01.T01:exon:24050;Parent=MsG0380015603.01.T01
Chr3 exon 72419432 72419596 72419432 ID=MsG0380015603.01.T01:exon:24049;Parent=MsG0380015603.01.T01
Chr3 five_prime_UTR 72419546 72419596 72419546 ID=MsG0380015603.01.T01:five_prime_utr;Parent=MsG0380015603.01.T01
Chr3 CDS 72419432 72419545 72419432 ID=MsG0380015603.01.T01:cds;Parent=MsG0380015603.01.T01
Chr3 CDS 72419136 72419360 72419136 ID=MsG0380015603.01.T01:cds;Parent=MsG0380015603.01.T01
Chr3 CDS 72418886 72419047 72418886 ID=MsG0380015603.01.T01:cds;Parent=MsG0380015603.01.T01
Chr3 three_prime_UTR 72418703 72418885 72418703 ID=MsG0380015603.01.T01:three_prime_utr;Parent=MsG0380015603.01.T01
Gene Sequence

>MsG0380015603.01.T01

ATGGTACAAACACTCTCAATGCCTGTGGCACCTTCACTCTCAATCATCTCCAAAGGCCATGCTAACTTCTCCAATCGAGTTTCCTTCCCAGTTCTCAACACTCCAAAGTCAAAGGTTCAAAGGCTAAACATTGTGTGCGTTCGTGTTGGTGGTGTGGAAATTCCAAACAACAAGAGAATCGAATTTTCGTTGCAGTACATTCATGGAGTTGGAAGGAACAGAGCGAGACAGATTTTAACTGATATCAGTATGGAGAATAAAGTTACTAAGGAATTGAGTGAAGAAGAGCTTATTAGTCTCAGGGATGAAGTTAACAAATACATGACTGAAGGAGATTTGAGAAGGTTTAATGCACTTAATATAAAGAGGTTGAAGGAGATTCAATGTTACAGAGGAATAAGGCATATTCAGGGACTTCCTTGTAGAGGACAGCGTACCAAGAATAATTGCAGGACATTGAAGGGTAAGAAGGTTACTGTTGCTGGCAAGAAGAAAAAGTAA

Protein sequence

>MsG0380015603.01.T01

MVQTLSMPVAPSLSIISKGHANFSNRVSFPVLNTPKSKVQRLNIVCVRVGGVEIPNNKRIEFSLQYIHGVGRNRARQILTDISMENKVTKELSEEELISLRDEVNKYMTEGDLRRFNALNIKRLKEIQCYRGIRHIQGLPCRGQRTKNNCRTLKGKKVTVAGKKKK*