AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004311.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004311.01.T01 MTR_1g076840 96.241 133 3 1 3 135 2 132 5.63e-91 259
MsG0180004311.01.T01 MTR_6g060170 82.474 97 17 0 39 135 2 98 1.77e-57 174
MsG0180004311.01.T01 MTR_1g069370 60.440 91 36 0 45 135 9 99 4.77e-38 125
MsG0180004311.01.T01 MTR_7g099200 59.341 91 37 0 45 135 5 95 2.80e-37 123
MsG0180004311.01.T01 MTR_6g059920 53.763 93 43 0 40 132 33 125 1.59e-30 106
MsG0180004311.01.T01 MTR_5g005820 51.087 92 45 0 40 131 2 93 2.54e-26 95.1
MsG0180004311.01.T01 MTR_6g060000 86.047 43 6 0 76 118 19 61 3.78e-22 83.6
MsG0180004311.01.T01 MTR_6g060090 68.000 50 14 1 68 117 9 56 2.28e-18 73.6
MsG0180004311.01.T01 MTR_1g086000 32.500 80 54 0 37 116 39 118 1.45e-12 61.2
MsG0180004311.01.T01 MTR_6g060030 55.172 58 8 1 96 135 7 64 1.68e-12 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004311.01.T01 AT4G10300 67.669 133 39 3 6 135 3 134 1.07e-59 181
MsG0180004311.01.T01 AT3G04300 56.044 91 40 0 45 135 1 91 1.72e-35 118
MsG0180004311.01.T01 AT4G28703 48.454 97 41 1 47 134 8 104 5.09e-29 102
MsG0180004311.01.T01 AT4G10280 48.454 97 47 1 42 135 43 139 1.60e-26 97.1
MsG0180004311.01.T01 AT4G10290 43.617 94 50 1 42 132 15 108 3.39e-20 80.1
MsG0180004311.01.T01 AT2G32180 30.380 79 55 0 41 119 40 118 1.02e-11 58.9
MsG0180004311.01.T01 AT2G32180 30.380 79 55 0 41 119 40 118 1.02e-11 58.9
MsG0180004311.01.T01 AT2G32650 30.380 79 55 0 41 119 40 118 1.12e-11 58.5
MsG0180004311.01.T01 AT2G32650 30.380 79 55 0 41 119 40 118 1.12e-11 58.5

Find 35 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGTACAACTCATCCCTTT+TGG 0.324093 1:-76344074 None:intergenic
TGAAATTTCTGCTGGTGATT+TGG 0.359064 1:+76344043 MsG0180004311.01.T01:CDS
AACAGAGACATGCTATCTTT+TGG 0.368243 1:+76343977 MsG0180004311.01.T01:CDS
GTCCTTCATCTTCATACATT+AGG 0.376446 1:-76344157 None:intergenic
CAAAAGGGATGAGTTGTACT+TGG 0.379437 1:+76344075 MsG0180004311.01.T01:CDS
CTTGGTAGCAGTCAAATGTT+TGG 0.389927 1:-76343373 None:intergenic
ACAACTCTTCTCCTTGTTGA+AGG 0.406999 1:-76343417 None:intergenic
AGCTCACTCAACTTGGTGTT+AGG 0.443465 1:+76343499 MsG0180004311.01.T01:CDS
AACACCAAGTTGAGTGAGCT+TGG 0.455326 1:-76343496 None:intergenic
AGTTGAGTGAGCTTGGACTC+AGG 0.458878 1:-76343489 None:intergenic
GGCAAAGTTACACTTACCTT+GGG 0.470688 1:-76343396 None:intergenic
CACTCCTAGTGGGGCTAATG+AGG 0.472036 1:+76344016 MsG0180004311.01.T01:CDS
TATGTCCATGGAAAATTACT+TGG 0.480875 1:-76343948 None:intergenic
CTCAACTTGGTGTTAGGCAG+TGG 0.492268 1:+76343505 MsG0180004311.01.T01:CDS
TGTACTTGGGATGTTTCTGT+TGG 0.499364 1:+76344089 MsG0180004311.01.T01:CDS
AGGCAAAGTTACACTTACCT+TGG 0.501016 1:-76343397 None:intergenic
TTGGGATGTTTCTGTTGGTG+TGG 0.510879 1:+76344094 MsG0180004311.01.T01:CDS
GAGTCCAAGCTCACTCAACT+TGG 0.526860 1:+76343492 MsG0180004311.01.T01:CDS
CATTCTGTTGCAATTTACAA+TGG 0.540971 1:+76343311 None:intergenic
AGTTACACTTACCTTGGGCT+TGG 0.544555 1:-76343391 None:intergenic
AGTCAAATGTTTGGTTTGTG+AGG 0.547845 1:-76343364 None:intergenic
GCAGCTGTCACAGAGAAACT+TGG 0.559175 1:+76343444 MsG0180004311.01.T01:CDS
GTCCATGGAAAATTACTTGG+AGG 0.564369 1:-76343945 None:intergenic
AAGTGAAGGTCACTCCTAGT+GGG 0.564562 1:+76344006 MsG0180004311.01.T01:CDS
AAAGTGAAGGTCACTCCTAG+TGG 0.587646 1:+76344005 MsG0180004311.01.T01:CDS
GAGGCAGTTGAAATTTCTGC+TGG 0.589901 1:+76344035 MsG0180004311.01.T01:CDS
TGAGTGAGCTTGGACTCAGG+AGG 0.606187 1:-76343486 None:intergenic
AAAAGGGATGAGTTGTACTT+GGG 0.609307 1:+76344076 MsG0180004311.01.T01:CDS
ATGGCATCATCATCATGTGT+AGG 0.613363 1:+76343330 MsG0180004311.01.T01:CDS
GTGTAACTTTGCCTTCAACA+AGG 0.618419 1:+76343406 MsG0180004311.01.T01:CDS
TCTGTTGCATCATATGTCCA+TGG 0.622988 1:-76343960 None:intergenic
GAGTGAGCTTGGACTCAGGA+GGG 0.632998 1:-76343485 None:intergenic
ACTGCCTCATTAGCCCCACT+AGG 0.662701 1:-76344020 None:intergenic
TTTGACTGCTACCAAGCCCA+AGG 0.672230 1:+76343380 MsG0180004311.01.T01:CDS
AGTGAAGGTCACTCCTAGTG+GGG 0.682734 1:+76344007 MsG0180004311.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATTTTTATATTAATGAAAA+AGG + Chr1:76343637-76343656 MsG0180004311.01.T01:intron 10.0%
!! ACAACATAAAAAATCTTTCA+CGG + Chr1:76343834-76343853 MsG0180004311.01.T01:intron 20.0%
!! TACAGTTAAAGTCATATATA+TGG - Chr1:76343762-76343781 None:intergenic 20.0%
!!! AAACGTTTTTTATGATTTGA+CGG + Chr1:76343797-76343816 MsG0180004311.01.T01:intron 20.0%
!!! TTTTCTTACATTTTTTCTCA+TGG + Chr1:76343602-76343621 MsG0180004311.01.T01:intron 20.0%
! AAGAAATGTGGTATTTACTT+GGG - Chr1:76343531-76343550 None:intergenic 25.0%
! AAGAAGATAATGAAGAAATG+TGG - Chr1:76343543-76343562 None:intergenic 25.0%
! ATATGACTTTAACTGTAGTT+AGG + Chr1:76343765-76343784 MsG0180004311.01.T01:intron 25.0%
! TGGTGTAAATAAAAACAGAT+GGG + Chr1:76343917-76343936 MsG0180004311.01.T01:intron 25.0%
! TTAACGAGATTAATACACTA+TGG + Chr1:76343715-76343734 MsG0180004311.01.T01:intron 25.0%
! TTAGAATAATAGACATGATG+AGG - Chr1:76343574-76343593 None:intergenic 25.0%
! TTGGTGTAAATAAAAACAGA+TGG + Chr1:76343916-76343935 MsG0180004311.01.T01:intron 25.0%
GAAGAAATGTGGTATTTACT+TGG - Chr1:76343532-76343551 None:intergenic 30.0%
GGTGTAAATAAAAACAGATG+GGG + Chr1:76343918-76343937 MsG0180004311.01.T01:intron 30.0%
TATGTCCATGGAAAATTACT+TGG - Chr1:76343951-76343970 None:intergenic 30.0%
!! ATTTGGTTGTTTTCCCAAAA+GGG + Chr1:76344060-76344079 MsG0180004311.01.T01:CDS 30.0%
!!! TCTTACATTTTTTCTCATGG+TGG + Chr1:76343605-76343624 MsG0180004311.01.T01:intron 30.0%
AAAAGGGATGAGTTGTACTT+GGG + Chr1:76344076-76344095 MsG0180004311.01.T01:CDS 35.0%
TGAAATTTCTGCTGGTGATT+TGG + Chr1:76344043-76344062 MsG0180004311.01.T01:CDS 35.0%
! AACAGAGACATGCTATCTTT+TGG + Chr1:76343977-76343996 MsG0180004311.01.T01:CDS 35.0%
! AAGTACAACTCATCCCTTTT+GGG - Chr1:76344076-76344095 None:intergenic 35.0%
! TGACTGTGTACACACATTTT+TGG + Chr1:76343897-76343916 MsG0180004311.01.T01:intron 35.0%
!! AGTCAAATGTTTGGTTTGTG+AGG - Chr1:76343367-76343386 None:intergenic 35.0%
!! GATTTGGTTGTTTTCCCAAA+AGG + Chr1:76344059-76344078 MsG0180004311.01.T01:CDS 35.0%
!! TCTTTTGGAAGGAAAAGTGA+AGG + Chr1:76343992-76344011 MsG0180004311.01.T01:CDS 35.0%
ACAACTCTTCTCCTTGTTGA+AGG - Chr1:76343420-76343439 None:intergenic 40.0%
ACTAGAAGAGCAACTAGCAT+AGG - Chr1:76343696-76343715 None:intergenic 40.0%
AGGCAAAGTTACACTTACCT+TGG - Chr1:76343400-76343419 None:intergenic 40.0%
ATGGCATCATCATCATGTGT+AGG + Chr1:76343330-76343349 MsG0180004311.01.T01:CDS 40.0%
CAAAAGGGATGAGTTGTACT+TGG + Chr1:76344075-76344094 MsG0180004311.01.T01:CDS 40.0%
CTAGAAGAGCAACTAGCATA+GGG - Chr1:76343695-76343714 None:intergenic 40.0%
GGCAAAGTTACACTTACCTT+GGG - Chr1:76343399-76343418 None:intergenic 40.0%
GTCCATGGAAAATTACTTGG+AGG - Chr1:76343948-76343967 None:intergenic 40.0%
GTGTAACTTTGCCTTCAACA+AGG + Chr1:76343406-76343425 MsG0180004311.01.T01:CDS 40.0%
TCTGTTGCATCATATGTCCA+TGG - Chr1:76343963-76343982 None:intergenic 40.0%
! CAAGTACAACTCATCCCTTT+TGG - Chr1:76344077-76344096 None:intergenic 40.0%
! CTTGGTAGCAGTCAAATGTT+TGG - Chr1:76343376-76343395 None:intergenic 40.0%
! GAGACATGCTATCTTTTGGA+AGG + Chr1:76343981-76344000 MsG0180004311.01.T01:CDS 40.0%
! GTCCTCCAAGTAATTTTCCA+TGG + Chr1:76343943-76343962 MsG0180004311.01.T01:CDS 40.0%
! TGTACTTGGGATGTTTCTGT+TGG + Chr1:76344089-76344108 MsG0180004311.01.T01:CDS 40.0%
AAAGTGAAGGTCACTCCTAG+TGG + Chr1:76344005-76344024 MsG0180004311.01.T01:CDS 45.0%
AAGTGAAGGTCACTCCTAGT+GGG + Chr1:76344006-76344025 MsG0180004311.01.T01:CDS 45.0%
AGTTACACTTACCTTGGGCT+TGG - Chr1:76343394-76343413 None:intergenic 45.0%
GAGGCAGTTGAAATTTCTGC+TGG + Chr1:76344035-76344054 MsG0180004311.01.T01:CDS 45.0%
! AACACCAAGTTGAGTGAGCT+TGG - Chr1:76343499-76343518 None:intergenic 45.0%
! TTGGGATGTTTCTGTTGGTG+TGG + Chr1:76344094-76344113 MsG0180004311.01.T01:CDS 45.0%
!! AGCTCACTCAACTTGGTGTT+AGG + Chr1:76343499-76343518 MsG0180004311.01.T01:CDS 45.0%
AGTGAAGGTCACTCCTAGTG+GGG + Chr1:76344007-76344026 MsG0180004311.01.T01:CDS 50.0%
AGTTGAGTGAGCTTGGACTC+AGG - Chr1:76343492-76343511 None:intergenic 50.0%
GAGTCCAAGCTCACTCAACT+TGG + Chr1:76343492-76343511 MsG0180004311.01.T01:CDS 50.0%
GCAGCTGTCACAGAGAAACT+TGG + Chr1:76343444-76343463 MsG0180004311.01.T01:CDS 50.0%
TTTGACTGCTACCAAGCCCA+AGG + Chr1:76343380-76343399 MsG0180004311.01.T01:CDS 50.0%
!! CTCAACTTGGTGTTAGGCAG+TGG + Chr1:76343505-76343524 MsG0180004311.01.T01:CDS 50.0%
ACTGCCTCATTAGCCCCACT+AGG - Chr1:76344023-76344042 None:intergenic 55.0%
CACTCCTAGTGGGGCTAATG+AGG + Chr1:76344016-76344035 MsG0180004311.01.T01:CDS 55.0%
GAGTGAGCTTGGACTCAGGA+GGG - Chr1:76343488-76343507 None:intergenic 55.0%
TGAGTGAGCTTGGACTCAGG+AGG - Chr1:76343489-76343508 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 76343321 76344166 76343321 ID=MsG0180004311.01;Name=MsG0180004311.01
Chr1 mRNA 76343321 76344166 76343321 ID=MsG0180004311.01.T01;Parent=MsG0180004311.01;Name=MsG0180004311.01.T01;_AED=0.49;_eAED=0.49;_QI=9|1|1|1|1|1|2|27|135
Chr1 exon 76343321 76343532 76343321 ID=MsG0180004311.01.T01:exon:14800;Parent=MsG0180004311.01.T01
Chr1 exon 76343935 76344166 76343935 ID=MsG0180004311.01.T01:exon:14801;Parent=MsG0180004311.01.T01
Chr1 five_prime_UTR 76343321 76343329 76343321 ID=MsG0180004311.01.T01:five_prime_utr;Parent=MsG0180004311.01.T01
Chr1 CDS 76343330 76343532 76343330 ID=MsG0180004311.01.T01:cds;Parent=MsG0180004311.01.T01
Chr1 CDS 76343935 76344139 76343935 ID=MsG0180004311.01.T01:cds;Parent=MsG0180004311.01.T01
Chr1 three_prime_UTR 76344140 76344166 76344140 ID=MsG0180004311.01.T01:three_prime_utr;Parent=MsG0180004311.01.T01
Gene Sequence

>MsG0180004311.01.T01

ATGGCATCATCATCATGTGTAGGAACTCTATTTTCCTCACAAACCAAACATTTGACTGCTACCAAGCCCAAGGTAAGTGTAACTTTGCCTTCAACAAGGAGAAGAGTTGTAAGAGCAGCTGTCACAGAGAAACTTGGCATCAAGATTGAGAGCAACCCTCCTGAGTCCAAGCTCACTCAACTTGGTGTTAGGCAGTGGCCCAAATGGGGTTGTCCTCCAAGTAATTTTCCATGGACATATGATGCAACAGAGACATGCTATCTTTTGGAAGGAAAAGTGAAGGTCACTCCTAGTGGGGCTAATGAGGCAGTTGAAATTTCTGCTGGTGATTTGGTTGTTTTCCCAAAAGGGATGAGTTGTACTTGGGATGTTTCTGTTGGTGTGGATAAGCACTATAAATTTGAATAA

Protein sequence

>MsG0180004311.01.T01

MASSSCVGTLFSSQTKHLTATKPKVSVTLPSTRRRVVRAAVTEKLGIKIESNPPESKLTQLGVRQWPKWGCPPSNFPWTYDATETCYLLEGKVKVTPSGANEAVEISAGDLVVFPKGMSCTWDVSVGVDKHYKFE*