AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022466.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022466.01.T01 MTR_4g089080 97.927 193 4 0 1 193 1 193 4.36e-134 373
MsG0480022466.01.T01 MTR_3g026020 39.429 175 93 4 25 191 18 187 6.94e-20 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022466.01.T01 AT1G74730 65.625 192 64 2 3 193 8 198 7.57e-67 203
MsG0480022466.01.T01 AT5G08050 40.000 125 67 2 72 193 39 158 6.70e-15 69.3

Find 61 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGGCTGTTGGGTTGTTTGC+TGG 0.240768 4:-72874974 MsG0480022466.01.T01:CDS
TGTTGTTCTCGGCGGGTTGC+AGG 0.251096 4:-72874948 MsG0480022466.01.T01:CDS
CTCTTGGTGTTGGGGCTGTT+GGG 0.261115 4:-72874985 MsG0480022466.01.T01:CDS
TTGTGTATGTACCTTCTTCT+TGG 0.269616 4:+72875865 None:intergenic
GCTCTTGGTGTTGGGGCTGT+TGG 0.285475 4:-72874986 MsG0480022466.01.T01:CDS
TACTACTCTTGTTGTAGTTC+AGG 0.286824 4:-72875023 MsG0480022466.01.T01:CDS
TCGCTGCTGCTCTTGGTGTT+GGG 0.299413 4:-72874994 MsG0480022466.01.T01:CDS
TCTGGCGCTTCCGACGCTTT+TGG 0.312429 4:-72875083 MsG0480022466.01.T01:CDS
GTCGCTGCTGCTCTTGGTGT+TGG 0.327834 4:-72874995 MsG0480022466.01.T01:CDS
TCCTTCCGTCTTGGCTTCTC+TGG 0.328777 4:-72875101 MsG0480022466.01.T01:CDS
GAAGACGGTGAAAGGTTTAT+TGG 0.335357 4:+72875898 None:intergenic
TGAACAAGTACAACGATAAC+TGG 0.365581 4:-72875357 MsG0480022466.01.T01:CDS
TGTGTATGTACCTTCTTCTT+GGG 0.376534 4:+72875866 None:intergenic
TTTGCTGGATCTGTTGTTCT+CGG 0.382286 4:-72874959 MsG0480022466.01.T01:CDS
TTATCCAAAGCTGAAGAATT+CGG 0.394470 4:-72875217 MsG0480022466.01.T01:CDS
GACGCCGAATTCTTCAGCTT+TGG 0.394886 4:+72875213 None:intergenic
CGCAGTCTCTCCTTCCGTCT+TGG 0.401430 4:-72875110 MsG0480022466.01.T01:CDS
GCTGTTGTCGCTGCTGCTCT+TGG 0.417121 4:-72875001 MsG0480022466.01.T01:CDS
CTGGATCTGTTGTTCTCGGC+GGG 0.425288 4:-72874955 MsG0480022466.01.T01:CDS
AAGGTTTATTGGAGGGAGTA+GGG 0.427009 4:+72875909 None:intergenic
CGCTGCTGCTCTTGGTGTTG+GGG 0.467142 4:-72874993 MsG0480022466.01.T01:CDS
TCATCTCATTATATAATACA+AGG 0.475880 4:-72874807 MsG0480022466.01.T01:three_prime_UTR
TGGAGAGCTGAGGTTGGAGC+AGG 0.490180 4:+72875983 None:intergenic
CGCCATGGCTCCCAAGAAGA+AGG 0.494856 4:-72875876 MsG0480022466.01.T01:intron
AAAGGTTTATTGGAGGGAGT+AGG 0.498790 4:+72875908 None:intergenic
TACCTTCTTCTTGGGAGCCA+TGG 0.501630 4:+72875874 None:intergenic
AACTGGAAGAAACAATGGTT+CGG 0.517807 4:-72875340 MsG0480022466.01.T01:CDS
TTATATAATGAGATGAAGAA+AGG 0.522716 4:+72874814 None:intergenic
CTTGGGAGCCATGGCGAAGA+CGG 0.523930 4:+72875883 None:intergenic
AAGAAACAATGGTTCGGAGC+AGG 0.525520 4:-72875334 MsG0480022466.01.T01:CDS
GCCAGAGAAGCCAAGACGGA+AGG 0.526449 4:+72875100 None:intergenic
AGCGATAGTGACGGAGGGTG+CGG 0.535126 4:+72875936 None:intergenic
ACAAGAGTAGTAGAATCATC+AGG 0.544351 4:+72875034 None:intergenic
ACCTTTCACCGTCTTCGCCA+TGG 0.548618 4:-72875891 MsG0480022466.01.T01:CDS
ACGGTGAAAGGTTTATTGGA+GGG 0.551755 4:+72875902 None:intergenic
GACGGTGAAAGGTTTATTGG+AGG 0.551953 4:+72875901 None:intergenic
AGGAAGCGAAGAAGTAGAAG+TGG 0.553396 4:-72875299 MsG0480022466.01.T01:CDS
CTCTCTTCAATCGAGAAACT+AGG 0.554038 4:-72875187 MsG0480022466.01.T01:CDS
GCCATGGCGAAGACGGTGAA+AGG 0.555013 4:+72875890 None:intergenic
AAGCGCCAGAGAAGCCAAGA+CGG 0.557107 4:+72875096 None:intergenic
TGTTCTCGGCGGGTTGCAGG+AGG 0.559794 4:-72874945 MsG0480022466.01.T01:CDS
GGAGGGTGCGGTGGTTAGTG+TGG 0.562291 4:+72875948 None:intergenic
TTTGGCTGCTGTTGCGACGG+TGG 0.563007 4:-72875065 MsG0480022466.01.T01:CDS
TAGTGTGGATGTGTTGAAGA+TGG 0.568146 4:+72875963 None:intergenic
CATCAATCAATCATCATCCA+TGG 0.577265 4:-72876011 MsG0480022466.01.T01:exon
TGAAGATGGAGAGCTGAGGT+TGG 0.585555 4:+72875977 None:intergenic
GGAAACGATCGCACATGAAG+AGG 0.588048 4:-72876107 None:intergenic
GGTTGGAGCAGGAACAGCCA+TGG 0.616976 4:+72875994 None:intergenic
GCTGGATCTGTTGTTCTCGG+CGG 0.618325 4:-72874956 MsG0480022466.01.T01:CDS
ACGATAACTGGAAGAAACAA+TGG 0.622411 4:-72875345 MsG0480022466.01.T01:CDS
CAAGACGGAAGGAGAGACTG+CGG 0.624177 4:+72875111 None:intergenic
GATAGTGACGGAGGGTGCGG+TGG 0.630396 4:+72875939 None:intergenic
TAGGGAATGAGCGATAGTGA+CGG 0.635156 4:+72875927 None:intergenic
GCAACAGCAGCCAAAAGCGT+CGG 0.640980 4:+72875073 None:intergenic
GGAATGAGCGATAGTGACGG+AGG 0.658654 4:+72875930 None:intergenic
GAATGAGCGATAGTGACGGA+GGG 0.663461 4:+72875931 None:intergenic
CATCTCATTATATAATACAA+GGG 0.670501 4:-72874806 MsG0480022466.01.T01:three_prime_UTR
GGAGCAGGAATATTCTACGA+AGG 0.698664 4:-72875319 MsG0480022466.01.T01:CDS
TGCAATCTCAACTGCCACGT+AGG 0.711060 4:+72876053 None:intergenic
GTGTTGAAGATGGAGAGCTG+AGG 0.722843 4:+72875973 None:intergenic
ACTCTATTGATTGTCCTACG+TGG 0.755869 4:-72876067 MsG0480022466.01.T01:five_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTTAATTATTATAATTAT+AGG + Chr4:72875169-72875188 None:intergenic 0.0%
!! TAACTATTAATTTAATGAAT+TGG + Chr4:72875107-72875126 None:intergenic 10.0%
!! TTTATTTGAATTTATGTTAA+TGG - Chr4:72875483-72875502 MsG0480022466.01.T01:intron 10.0%
!! AAAAATAATGATGAAAATGA+TGG + Chr4:72875038-72875057 None:intergenic 15.0%
!!! CATTTTCATCATTATTTTTA+AGG - Chr4:72875039-72875058 MsG0480022466.01.T01:CDS 15.0%
!! CATCTCATTATATAATACAA+GGG - Chr4:72876067-72876086 MsG0480022466.01.T01:five_prime_UTR 20.0%
!! TCATCTCATTATATAATACA+AGG - Chr4:72876066-72876085 MsG0480022466.01.T01:five_prime_UTR 20.0%
!! TTATATAATGAGATGAAGAA+AGG + Chr4:72876062-72876081 None:intergenic 20.0%
!!! TATTTTTAAGGCAAATTCTA+TGG - Chr4:72875051-72875070 MsG0480022466.01.T01:CDS 20.0%
!!! TGAATTTATGTTAATGGATA+TGG - Chr4:72875489-72875508 MsG0480022466.01.T01:intron 20.0%
! ACTCAAAAATTTGAGTGTAT+TGG - Chr4:72875077-72875096 MsG0480022466.01.T01:CDS 25.0%
! TTAAAAATAGGGAACTTCTA+CGG + Chr4:72875454-72875473 None:intergenic 25.0%
!! TTTATGTTAATGGATATGGA+AGG - Chr4:72875493-72875512 MsG0480022466.01.T01:intron 25.0%
!!! GATTTTTATAGTAAGAGTAC+CGG - Chr4:72875406-72875425 MsG0480022466.01.T01:intron 25.0%
AATTACAACAAAAACAACCG+CGG + Chr4:72875982-72876001 None:intergenic 30.0%
TTATCCAAAGCTGAAGAATT+CGG - Chr4:72875656-72875675 MsG0480022466.01.T01:intron 30.0%
!!! GAAACTAGGACTTTTTTCTA+AGG - Chr4:72875700-72875719 MsG0480022466.01.T01:intron 30.0%
AACTGGAAGAAACAATGGTT+CGG - Chr4:72875533-72875552 MsG0480022466.01.T01:intron 35.0%
ACAAGAGTAGTAGAATCATC+AGG + Chr4:72875842-72875861 None:intergenic 35.0%
ACGATAACTGGAAGAAACAA+TGG - Chr4:72875528-72875547 MsG0480022466.01.T01:intron 35.0%
CATCAATCAATCATCATCCA+TGG - Chr4:72874862-72874881 MsG0480022466.01.T01:three_prime_UTR 35.0%
TGAACAAGTACAACGATAAC+TGG - Chr4:72875516-72875535 MsG0480022466.01.T01:intron 35.0%
TGTGTATGTACCTTCTTCTT+GGG + Chr4:72875010-72875029 None:intergenic 35.0%
TTAAGCAACGTTGAAAAAGC+AGG - Chr4:72875629-72875648 MsG0480022466.01.T01:intron 35.0%
TTGTGTATGTACCTTCTTCT+TGG + Chr4:72875011-72875030 None:intergenic 35.0%
! TACTACTCTTGTTGTAGTTC+AGG - Chr4:72875850-72875869 MsG0480022466.01.T01:intron 35.0%
!! AGTACACATGTTTTTAACCG+CGG - Chr4:72875962-72875981 MsG0480022466.01.T01:CDS 35.0%
!!! ACTAGGACTTTTTTCTAAGG+CGG - Chr4:72875703-72875722 MsG0480022466.01.T01:intron 35.0%
AAAGGTTTATTGGAGGGAGT+AGG + Chr4:72874968-72874987 None:intergenic 40.0%
AAGGTTTATTGGAGGGAGTA+GGG + Chr4:72874967-72874986 None:intergenic 40.0%
ACCTGCAAATTAAGGTGTAC+CGG + Chr4:72875428-72875447 None:intergenic 40.0%
ACGGTGAAAGGTTTATTGGA+GGG + Chr4:72874974-72874993 None:intergenic 40.0%
CTCTCTTCAATCGAGAAACT+AGG - Chr4:72875686-72875705 MsG0480022466.01.T01:intron 40.0%
GAAGACGGTGAAAGGTTTAT+TGG + Chr4:72874978-72874997 None:intergenic 40.0%
TACGGTACACCTGCAAATTA+AGG + Chr4:72875436-72875455 None:intergenic 40.0%
TAGTGTGGATGTGTTGAAGA+TGG + Chr4:72874913-72874932 None:intergenic 40.0%
TTTGCTGGATCTGTTGTTCT+CGG - Chr4:72875914-72875933 MsG0480022466.01.T01:CDS 40.0%
! ACTCTATTGATTGTCCTACG+TGG - Chr4:72874806-72874825 MsG0480022466.01.T01:three_prime_UTR 40.0%
!!! TTTTCTAAGGCGGAAGAACT+TGG - Chr4:72875713-72875732 MsG0480022466.01.T01:intron 40.0%
AGGAAGCGAAGAAGTAGAAG+TGG - Chr4:72875574-72875593 MsG0480022466.01.T01:intron 45.0%
GACGGTGAAAGGTTTATTGG+AGG + Chr4:72874975-72874994 None:intergenic 45.0%
GGAGCAGGAATATTCTACGA+AGG - Chr4:72875554-72875573 MsG0480022466.01.T01:intron 45.0%
TAGGGAATGAGCGATAGTGA+CGG + Chr4:72874949-72874968 None:intergenic 45.0%
! AAGAAACAATGGTTCGGAGC+AGG - Chr4:72875539-72875558 MsG0480022466.01.T01:intron 45.0%
!! ACCGGTACACCTTAATTTGC+AGG - Chr4:72875424-72875443 MsG0480022466.01.T01:intron 45.0%
!! AAATTGTATAAATTAAAAAT+AGG + Chr4:72875466-72875485 None:intergenic 5.0%
!! AATTGTATAAATTAAAAATA+GGG + Chr4:72875465-72875484 None:intergenic 5.0%
GACGCCGAATTCTTCAGCTT+TGG + Chr4:72875663-72875682 None:intergenic 50.0%
GTGTTGAAGATGGAGAGCTG+AGG + Chr4:72874903-72874922 None:intergenic 50.0%
TACCTTCTTCTTGGGAGCCA+TGG + Chr4:72875002-72875021 None:intergenic 50.0%
TGAAGATGGAGAGCTGAGGT+TGG + Chr4:72874899-72874918 None:intergenic 50.0%
TGCAATCTCAACTGCCACGT+AGG + Chr4:72874823-72874842 None:intergenic 50.0%
! GAATGAGCGATAGTGACGGA+GGG + Chr4:72874945-72874964 None:intergenic 50.0%
AAGCGCCAGAGAAGCCAAGA+CGG + Chr4:72875780-72875799 None:intergenic 55.0%
ACCTTTCACCGTCTTCGCCA+TGG - Chr4:72874982-72875001 MsG0480022466.01.T01:CDS 55.0%
CAAGACGGAAGGAGAGACTG+CGG + Chr4:72875765-72875784 None:intergenic 55.0%
CTGGATCTGTTGTTCTCGGC+GGG - Chr4:72875918-72875937 MsG0480022466.01.T01:CDS 55.0%
GCTGGATCTGTTGTTCTCGG+CGG - Chr4:72875917-72875936 MsG0480022466.01.T01:CDS 55.0%
GGAATGAGCGATAGTGACGG+AGG + Chr4:72874946-72874965 None:intergenic 55.0%
TCCTTCCGTCTTGGCTTCTC+TGG - Chr4:72875772-72875791 MsG0480022466.01.T01:intron 55.0%
! GCAACAGCAGCCAAAAGCGT+CGG + Chr4:72875803-72875822 None:intergenic 55.0%
!! CTCTTGGTGTTGGGGCTGTT+GGG - Chr4:72875888-72875907 MsG0480022466.01.T01:CDS 55.0%
!! GCTTTTGGCTGCTGTTGCGA+CGG - Chr4:72875805-72875824 MsG0480022466.01.T01:intron 55.0%
!! TCGCTGCTGCTCTTGGTGTT+GGG - Chr4:72875879-72875898 MsG0480022466.01.T01:CDS 55.0%
CGCAGTCTCTCCTTCCGTCT+TGG - Chr4:72875763-72875782 MsG0480022466.01.T01:intron 60.0%
CGCCATGGCTCCCAAGAAGA+AGG - Chr4:72874997-72875016 MsG0480022466.01.T01:CDS 60.0%
CTTGGGAGCCATGGCGAAGA+CGG + Chr4:72874993-72875012 None:intergenic 60.0%
GCCAGAGAAGCCAAGACGGA+AGG + Chr4:72875776-72875795 None:intergenic 60.0%
GCCATGGCGAAGACGGTGAA+AGG + Chr4:72874986-72875005 None:intergenic 60.0%
GCTGTTGTCGCTGCTGCTCT+TGG - Chr4:72875872-72875891 MsG0480022466.01.T01:intron 60.0%
GGTTGGAGCAGGAACAGCCA+TGG + Chr4:72874882-72874901 None:intergenic 60.0%
TGGAGAGCTGAGGTTGGAGC+AGG + Chr4:72874893-72874912 None:intergenic 60.0%
TTTGGCTGCTGTTGCGACGG+TGG - Chr4:72875808-72875827 MsG0480022466.01.T01:intron 60.0%
! AGCGATAGTGACGGAGGGTG+CGG + Chr4:72874940-72874959 None:intergenic 60.0%
! GGGGCTGTTGGGTTGTTTGC+TGG - Chr4:72875899-72875918 MsG0480022466.01.T01:CDS 60.0%
! GTCGCTGCTGCTCTTGGTGT+TGG - Chr4:72875878-72875897 MsG0480022466.01.T01:CDS 60.0%
! TCTGGCGCTTCCGACGCTTT+TGG - Chr4:72875790-72875809 MsG0480022466.01.T01:intron 60.0%
!! CGCTGCTGCTCTTGGTGTTG+GGG - Chr4:72875880-72875899 MsG0480022466.01.T01:CDS 60.0%
!! GCTCTTGGTGTTGGGGCTGT+TGG - Chr4:72875887-72875906 MsG0480022466.01.T01:CDS 60.0%
!! TGTTGTTCTCGGCGGGTTGC+AGG - Chr4:72875925-72875944 MsG0480022466.01.T01:CDS 60.0%
! GATAGTGACGGAGGGTGCGG+TGG + Chr4:72874937-72874956 None:intergenic 65.0%
! GGAGGGTGCGGTGGTTAGTG+TGG + Chr4:72874928-72874947 None:intergenic 65.0%
!! TGTTCTCGGCGGGTTGCAGG+AGG - Chr4:72875928-72875947 MsG0480022466.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 72874772 72876123 72874772 ID=MsG0480022466.01;Name=MsG0480022466.01
Chr4 mRNA 72874772 72876123 72874772 ID=MsG0480022466.01.T01;Parent=MsG0480022466.01;Name=MsG0480022466.01.T01;_AED=0.49;_eAED=0.49;_QI=109|1|1|1|1|1|2|165|193
Chr4 exon 72874772 72875380 72874772 ID=MsG0480022466.01.T01:exon:10201;Parent=MsG0480022466.01.T01
Chr4 exon 72875877 72876123 72875877 ID=MsG0480022466.01.T01:exon:10200;Parent=MsG0480022466.01.T01
Chr4 five_prime_UTR 72876015 72876123 72876015 ID=MsG0480022466.01.T01:five_prime_utr;Parent=MsG0480022466.01.T01
Chr4 CDS 72875877 72876014 72875877 ID=MsG0480022466.01.T01:cds;Parent=MsG0480022466.01.T01
Chr4 CDS 72874937 72875380 72874937 ID=MsG0480022466.01.T01:cds;Parent=MsG0480022466.01.T01
Chr4 three_prime_UTR 72874772 72874936 72874772 ID=MsG0480022466.01.T01:three_prime_utr;Parent=MsG0480022466.01.T01
Gene Sequence

>MsG0480022466.01.T01

ATGGCTGTTCCTGCTCCAACCTCAGCTCTCCATCTTCAACACATCCACACTAACCACCGCACCCTCCGTCACTATCGCTCATTCCCTACTCCCTCCAATAAACCTTTCACCGTCTTCGCCATGGCTCCCAAGAAGAAGGTGAACAAGTACAACGATAACTGGAAGAAACAATGGTTCGGAGCAGGAATATTCTACGAAGGAAGCGAAGAAGTAGAAGTGGACGTATTCAAGAAACTCGAGAAACGCAAAGTTTTAAGCAACGTTGAAAAAGCAGGATTATTATCCAAAGCTGAAGAATTCGGCGTCACGCTCTCTTCAATCGAGAAACTAGGACTTTTTTCTAAGGCGGAAGAACTTGGCTTACTCAGCTTATTAGAGAAACTCGCCGCAGTCTCTCCTTCCGTCTTGGCTTCTCTGGCGCTTCCGACGCTTTTGGCTGCTGTTGCGACGGTGGTTCTTGTTCCTGATGATTCTACTACTCTTGTTGTAGTTCAGGCTGTTGTCGCTGCTGCTCTTGGTGTTGGGGCTGTTGGGTTGTTTGCTGGATCTGTTGTTCTCGGCGGGTTGCAGGAGGCTGATTGA

Protein sequence

>MsG0480022466.01.T01

MAVPAPTSALHLQHIHTNHRTLRHYRSFPTPSNKPFTVFAMAPKKKVNKYNDNWKKQWFGAGIFYEGSEEVEVDVFKKLEKRKVLSNVEKAGLLSKAEEFGVTLSSIEKLGLFSKAEELGLLSLLEKLAAVSPSVLASLALPTLLAAVATVVLVPDDSTTLVVVQAVVAAALGVGAVGLFAGSVVLGGLQEAD*