AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013472.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013472.01.T01 MTR_3g053890 96.552 116 4 0 12 127 286 401 2.54e-76 231
MsG0380013472.01.T01 MTR_5g090070 85.345 116 17 0 12 127 286 401 1.47e-66 206
MsG0380013472.01.T01 MTR_5g094410 82.051 117 20 1 12 127 234 350 9.20e-63 195
MsG0380013472.01.T01 MTR_5g067370 80.000 100 20 0 28 127 244 343 2.40e-51 166
MsG0380013472.01.T01 MTR_3g053890 93.333 75 5 0 12 86 286 360 2.37e-45 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013472.01.T01 AT2G13360 87.931 116 14 0 12 127 286 401 1.54e-70 216
MsG0380013472.01.T01 AT2G13360 87.931 116 14 0 12 127 286 401 1.54e-70 216
MsG0380013472.01.T01 AT2G13360 87.931 116 14 0 12 127 286 401 1.54e-70 216

Find 41 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCTCTTGCAACAAATATT+AGG 0.133896 3:-38971732 MsG0380013472.01.T01:three_prime_UTR
CAACTATTGGGTTGTCTTGC+TGG 0.175642 3:-38972110 MsG0380013472.01.T01:CDS
GGACACCAAATTCTCTTTAT+AGG 0.178693 3:-38971768 MsG0380013472.01.T01:three_prime_UTR
TGTTGGTTACCCAGTAAAAT+TGG 0.196012 3:-38972066 MsG0380013472.01.T01:CDS
TTCTCTTGCAACAAATATTA+GGG 0.281198 3:-38971731 MsG0380013472.01.T01:three_prime_UTR
TCCATAAAAGTCTCAAATAA+AGG 0.371861 3:+38971788 None:intergenic
TACAATTTGAGCTTAGGTTT+GGG 0.376409 3:-38972926 MsG0380013472.01.T01:CDS
ATATTCCTCTCATTCCTTCA+AGG 0.379866 3:-38972004 MsG0380013472.01.T01:CDS
ATACAATTTGAGCTTAGGTT+TGG 0.393748 3:-38972927 MsG0380013472.01.T01:CDS
AAAAGATACAATTTGAGCTT+AGG 0.398290 3:-38972932 MsG0380013472.01.T01:CDS
AATCTGATAGGTGGTCAATA+TGG 0.412398 3:-38973088 MsG0380013472.01.T01:CDS
TTGGGACTAAACAAAGTTGC+TGG 0.415993 3:-38972908 MsG0380013472.01.T01:CDS
GTTAAGTCAATGAATCTGAT+AGG 0.422320 3:-38973100 None:intergenic
CTTCAAGGATTTGAGTTACA+TGG 0.423165 3:-38971989 MsG0380013472.01.T01:exon
TTTGAAGAATTGCACACAAA+AGG 0.438210 3:-38973035 MsG0380013472.01.T01:CDS
CATGTAACTCAAATCCTTGA+AGG 0.438228 3:+38971990 None:intergenic
GTTGTTCCTCCTTACATTGA+CGG 0.446006 3:-38972980 MsG0380013472.01.T01:CDS
GTTGGTTACCCAGTAAAATT+GGG 0.446538 3:-38972065 MsG0380013472.01.T01:CDS
ACGGTGCTGAAGTTGTTAGA+AGG 0.464067 3:-38972961 MsG0380013472.01.T01:CDS
CAGACTTGCTGTGGAGGCAT+GGG 0.471086 3:-38973059 MsG0380013472.01.T01:CDS
ATTGGGTTGTCTTGCTGGTG+TGG 0.485766 3:-38972105 MsG0380013472.01.T01:CDS
ACTTCAGCACCGTCAATGTA+AGG 0.505077 3:+38972971 None:intergenic
ACAGACTTGCTGTGGAGGCA+TGG 0.510945 3:-38973060 MsG0380013472.01.T01:CDS
ACTAAACAAAGTTGCTGGAA+AGG 0.522582 3:-38972903 MsG0380013472.01.T01:CDS
GTCTTCAAGAGAGTTCCAAA+AGG 0.530816 3:+38971889 None:intergenic
TCTTCAAGAGAGTTCCAAAA+GGG 0.536254 3:+38971890 None:intergenic
ATATCATAATGAGACAGAAA+AGG 0.557156 3:+38971948 None:intergenic
CTGAAGTTGTTAGAAGGGCA+TGG 0.559985 3:-38972955 MsG0380013472.01.T01:CDS
CGGTGCTGAAGTTGTTAGAA+GGG 0.565477 3:-38972960 MsG0380013472.01.T01:CDS
TACCCAGTAAAATTGGGAAG+TGG 0.568031 3:-38972059 MsG0380013472.01.T01:CDS
ATTGTTCTGTAAGTATGCAC+TGG 0.576598 3:+38972025 None:intergenic
GCAACAAATTCTAATATACA+TGG 0.585056 3:+38971818 None:intergenic
CAAATCCTTGAAGGAATGAG+AGG 0.585795 3:+38971999 None:intergenic
TGGTAAATACAGACTTGCTG+TGG 0.606808 3:-38973068 MsG0380013472.01.T01:CDS
AGACTTGCTGTGGAGGCATG+GGG 0.607099 3:-38973058 MsG0380013472.01.T01:CDS
TAAATACAGACTTGCTGTGG+AGG 0.610487 3:-38973065 MsG0380013472.01.T01:CDS
GAGATGATACTCAGAGATGT+TGG 0.631831 3:-38972083 MsG0380013472.01.T01:CDS
ATTGCACACAAAAGGAAGAG+TGG 0.645383 3:-38973027 MsG0380013472.01.T01:CDS
AAGTCAATGAATCTGATAGG+TGG 0.673776 3:-38973097 None:intergenic
ACATCTTGGCAACTTGAACG+AGG 0.675450 3:-38972867 MsG0380013472.01.T01:intron
TCAGCACCGTCAATGTAAGG+AGG 0.705659 3:+38972974 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATAAATATTTACGTGTAT+TGG + Chr3:38972254-38972273 None:intergenic 15.0%
!!! AATTTGAAGTTTAAAAATCA+AGG - Chr3:38972193-38972212 MsG0380013472.01.T01:intron 15.0%
!! AAGTATAACTTGAACATATT+AGG + Chr3:38972158-38972177 None:intergenic 20.0%
!! TAAAGAATTAGCAATTTCAA+TGG + Chr3:38972626-38972645 None:intergenic 20.0%
!!! ATTTTCCTATAAAGAGAATT+TGG + Chr3:38973013-38973032 None:intergenic 20.0%
!!! TCTTTTCCTAAAATACTTAT+CGG - Chr3:38972521-38972540 MsG0380013472.01.T01:intron 20.0%
!!! TGTATTATTTTTTTCCCTTT+TGG - Chr3:38972869-38972888 MsG0380013472.01.T01:CDS 20.0%
!!! TTAATACCGATAAGTATTTT+AGG + Chr3:38972530-38972549 None:intergenic 20.0%
!!! TTGTTGTTAACTATATGTAT+CGG + Chr3:38972006-38972025 None:intergenic 20.0%
! AAAAGATACAATTTGAGCTT+AGG - Chr3:38971841-38971860 MsG0380013472.01.T01:three_prime_UTR 25.0%
! ATATCATAATGAGACAGAAA+AGG + Chr3:38972828-38972847 None:intergenic 25.0%
! GCAACAAATTCTAATATACA+TGG + Chr3:38972958-38972977 None:intergenic 25.0%
! GCATTATGAGAATAATATCA+AGG - Chr3:38972592-38972611 MsG0380013472.01.T01:intron 25.0%
! TCCATAAAAGTCTCAAATAA+AGG + Chr3:38972988-38973007 None:intergenic 25.0%
! TTCTCTTGCAACAAATATTA+GGG - Chr3:38973042-38973061 MsG0380013472.01.T01:CDS 25.0%
!! AACTTGTTCTTAATTCTTCT+TGG - Chr3:38972348-38972367 MsG0380013472.01.T01:intron 25.0%
!!! ACCTTTATTTGAGACTTTTA+TGG - Chr3:38972984-38973003 MsG0380013472.01.T01:CDS 25.0%
!!! TTTTTTCAGTTGCAACTATT+GGG - Chr3:38972651-38972670 MsG0380013472.01.T01:intron 25.0%
!!! TTTTTTTCAGTTGCAACTAT+TGG - Chr3:38972650-38972669 MsG0380013472.01.T01:intron 25.0%
AAAATCAAGGTTCATGTCAA+AGG - Chr3:38972206-38972225 MsG0380013472.01.T01:intron 30.0%
ATACAATTTGAGCTTAGGTT+TGG - Chr3:38971846-38971865 MsG0380013472.01.T01:three_prime_UTR 30.0%
ATTCTTTCTCTCTATGGTAA+GGG - Chr3:38972306-38972325 MsG0380013472.01.T01:intron 30.0%
CTTCTCTTGCAACAAATATT+AGG - Chr3:38973041-38973060 MsG0380013472.01.T01:CDS 30.0%
TACAATTTGAGCTTAGGTTT+GGG - Chr3:38971847-38971866 MsG0380013472.01.T01:three_prime_UTR 30.0%
TGAATCATTCTTTCTCTCTA+TGG - Chr3:38972300-38972319 MsG0380013472.01.T01:intron 30.0%
TTGTTAACTATATGTATCGG+TGG + Chr3:38972003-38972022 None:intergenic 30.0%
TTTGAAGAATTGCACACAAA+AGG - Chr3:38971738-38971757 MsG0380013472.01.T01:three_prime_UTR 30.0%
! TGTGACAAAACACATTGTTT+TGG - Chr3:38972107-38972126 MsG0380013472.01.T01:CDS 30.0%
!!! AAACACATTGTTTTGGCTTA+CGG - Chr3:38972114-38972133 MsG0380013472.01.T01:CDS 30.0%
!!! TAGCATTGTACTTTTGAAGT+AGG + Chr3:38972424-38972443 None:intergenic 30.0%
AATCTGATAGGTGGTCAATA+TGG - Chr3:38971685-38971704 MsG0380013472.01.T01:three_prime_UTR 35.0%
ACTAAACAAAGTTGCTGGAA+AGG - Chr3:38971870-38971889 MsG0380013472.01.T01:three_prime_UTR 35.0%
ATATTCCTCTCATTCCTTCA+AGG - Chr3:38972769-38972788 MsG0380013472.01.T01:intron 35.0%
ATTGTTCTGTAAGTATGCAC+TGG + Chr3:38972751-38972770 None:intergenic 35.0%
CACATAGCTATCAAGAGTTT+AGG + Chr3:38971944-38971963 None:intergenic 35.0%
CATATTAGGAAGACCCTAAA+AGG + Chr3:38972144-38972163 None:intergenic 35.0%
CATGTAACTCAAATCCTTGA+AGG + Chr3:38972786-38972805 None:intergenic 35.0%
CATTCTTTCTCTCTATGGTA+AGG - Chr3:38972305-38972324 MsG0380013472.01.T01:intron 35.0%
CCAGGATGGTTAGAATTTAA+AGG + Chr3:38972384-38972403 None:intergenic 35.0%
CCTTTAAATTCTAACCATCC+TGG - Chr3:38972381-38972400 MsG0380013472.01.T01:intron 35.0%
GGACACCAAATTCTCTTTAT+AGG - Chr3:38973005-38973024 MsG0380013472.01.T01:CDS 35.0%
GTTGGTTACCCAGTAAAATT+GGG - Chr3:38972708-38972727 MsG0380013472.01.T01:intron 35.0%
TCTTCAAGAGAGTTCCAAAA+GGG + Chr3:38972886-38972905 None:intergenic 35.0%
TTACGTTTCAGTGTTGTATC+AGG - Chr3:38972046-38972065 MsG0380013472.01.T01:CDS 35.0%
! AAAAGTACATCTAACCAGGA+TGG + Chr3:38972398-38972417 None:intergenic 35.0%
! CTTCAAGGATTTGAGTTACA+TGG - Chr3:38972784-38972803 MsG0380013472.01.T01:intron 35.0%
! GACAAAAAGTACATCTAACC+AGG + Chr3:38972402-38972421 None:intergenic 35.0%
! GTTTTCAGAATTGGACATCT+TGG - Chr3:38971892-38971911 MsG0380013472.01.T01:three_prime_UTR 35.0%
! TGTTGGTTACCCAGTAAAAT+TGG - Chr3:38972707-38972726 MsG0380013472.01.T01:intron 35.0%
! TTAACTATATGTATCGGTGG+CGG + Chr3:38972000-38972019 None:intergenic 35.0%
ATTGCACACAAAAGGAAGAG+TGG - Chr3:38971746-38971765 MsG0380013472.01.T01:three_prime_UTR 40.0%
CAAATCCTTGAAGGAATGAG+AGG + Chr3:38972777-38972796 None:intergenic 40.0%
GAGATGATACTCAGAGATGT+TGG - Chr3:38972690-38972709 MsG0380013472.01.T01:intron 40.0%
GGCTCCAATTTCATCTATCA+GGG + Chr3:38971967-38971986 None:intergenic 40.0%
GTCTTCAAGAGAGTTCCAAA+AGG + Chr3:38972887-38972906 None:intergenic 40.0%
GTTGTTCCTCCTTACATTGA+CGG - Chr3:38971793-38971812 MsG0380013472.01.T01:three_prime_UTR 40.0%
TAATGTGTCAATGTCGTGTC+TGG - Chr3:38972547-38972566 MsG0380013472.01.T01:intron 40.0%
TACCCAGTAAAATTGGGAAG+TGG - Chr3:38972714-38972733 MsG0380013472.01.T01:intron 40.0%
TGTGCCCTGATAGATGAAAT+TGG - Chr3:38971960-38971979 MsG0380013472.01.T01:three_prime_UTR 40.0%
TGTTAGTGTCTGTGCTTCAT+AGG - Chr3:38972570-38972589 MsG0380013472.01.T01:intron 40.0%
TTGGGACTAAACAAAGTTGC+TGG - Chr3:38971865-38971884 MsG0380013472.01.T01:three_prime_UTR 40.0%
! ACTCCACTTCCCAATTTTAC+TGG + Chr3:38972720-38972739 None:intergenic 40.0%
! CTCCACTTCCCAATTTTACT+GGG + Chr3:38972719-38972738 None:intergenic 40.0%
! GCTGGAAAGGTTTTCAGAAT+TGG - Chr3:38971883-38971902 MsG0380013472.01.T01:three_prime_UTR 40.0%
!! TAAATACAGACTTGCTGTGG+AGG - Chr3:38971708-38971727 MsG0380013472.01.T01:three_prime_UTR 40.0%
!! TGGTAAATACAGACTTGCTG+TGG - Chr3:38971705-38971724 MsG0380013472.01.T01:three_prime_UTR 40.0%
ACATCTTGGCAACTTGAACG+AGG - Chr3:38971906-38971925 MsG0380013472.01.T01:three_prime_UTR 45.0%
ACTTCAGCACCGTCAATGTA+AGG + Chr3:38971805-38971824 None:intergenic 45.0%
CACATGAGTCAATGTCGAGT+TGG + Chr3:38972486-38972505 None:intergenic 45.0%
CGGCTCCAATTTCATCTATC+AGG + Chr3:38971968-38971987 None:intergenic 45.0%
CTGAAGTTGTTAGAAGGGCA+TGG - Chr3:38971818-38971837 MsG0380013472.01.T01:three_prime_UTR 45.0%
! ACGGTGCTGAAGTTGTTAGA+AGG - Chr3:38971812-38971831 MsG0380013472.01.T01:three_prime_UTR 45.0%
! CAACTATTGGGTTGTCTTGC+TGG - Chr3:38972663-38972682 MsG0380013472.01.T01:intron 45.0%
! CGGTGCTGAAGTTGTTAGAA+GGG - Chr3:38971813-38971832 MsG0380013472.01.T01:three_prime_UTR 45.0%
! GGCTTACGGCTTACCTTTTA+GGG - Chr3:38972128-38972147 MsG0380013472.01.T01:intron 45.0%
! TGGCTTACGGCTTACCTTTT+AGG - Chr3:38972127-38972146 MsG0380013472.01.T01:intron 45.0%
TCAGCACCGTCAATGTAAGG+AGG + Chr3:38971802-38971821 None:intergenic 50.0%
! ATTGGGTTGTCTTGCTGGTG+TGG - Chr3:38972668-38972687 MsG0380013472.01.T01:intron 50.0%
!! ATATGTATCGGTGGCGGACA+CGG + Chr3:38971994-38972013 None:intergenic 50.0%
!! ACAGACTTGCTGTGGAGGCA+TGG - Chr3:38971713-38971732 MsG0380013472.01.T01:three_prime_UTR 55.0%
!! AGACTTGCTGTGGAGGCATG+GGG - Chr3:38971715-38971734 MsG0380013472.01.T01:three_prime_UTR 55.0%
!! CAGACTTGCTGTGGAGGCAT+GGG - Chr3:38971714-38971733 MsG0380013472.01.T01:three_prime_UTR 55.0%
!! ATCGGTGGCGGACACGGATA+CGG + Chr3:38971988-38972007 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 38971682 38973113 38971682 ID=MsG0380013472.01;Name=MsG0380013472.01
Chr3 mRNA 38971682 38973113 38971682 ID=MsG0380013472.01.T01;Parent=MsG0380013472.01;Name=MsG0380013472.01.T01;_AED=0.47;_eAED=0.49;_QI=0|1|0.5|1|1|1|2|316|127
Chr3 exon 38971682 38972135 38971682 ID=MsG0380013472.01.T01:exon:27013;Parent=MsG0380013472.01.T01
Chr3 exon 38972868 38973113 38972868 ID=MsG0380013472.01.T01:exon:27012;Parent=MsG0380013472.01.T01
Chr3 CDS 38972868 38973113 38972868 ID=MsG0380013472.01.T01:cds;Parent=MsG0380013472.01.T01
Chr3 CDS 38971998 38972135 38971998 ID=MsG0380013472.01.T01:cds;Parent=MsG0380013472.01.T01
Chr3 three_prime_UTR 38971682 38971997 38971682 ID=MsG0380013472.01.T01:three_prime_utr;Parent=MsG0380013472.01.T01
Gene Sequence

>MsG0380013472.01.T01

ATGAATCTGATAGGTGGTCAATATGGTAAATACAGACTTGCTGTGGAGGCATGGGGTTTGAAGAATTGCACACAAAAGGAAGAGTGGTTCAGTGACACAGTGACTGCTGTTGTTGTTCCTCCTTACATTGACGGTGCTGAAGTTGTTAGAAGGGCATGGAAAAGATACAATTTGAGCTTAGGTTTGGGACTAAACAAAGTTGCTGGAAAGGTTTTCAGAATTGGACATCTTGGCAACTTGAACGAGTTGCAACTATTGGGTTGTCTTGCTGGTGTGGAGATGATACTCAGAGATGTTGGTTACCCAGTAAAATTGGGAAGTGGAGTTGCTGCTGCCAGTGCATACTTACAGAACAATATTCCTCTCATTCCTTCAAGGATTTGA

Protein sequence

>MsG0380013472.01.T01

MNLIGGQYGKYRLAVEAWGLKNCTQKEEWFSDTVTAVVVPPYIDGAEVVRRAWKRYNLSLGLGLNKVAGKVFRIGHLGNLNELQLLGCLAGVEMILRDVGYPVKLGSGVAAASAYLQNNIPLIPSRI*