AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027228.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027228.01.T01 MTR_6g472100 97.554 368 5 2 1 364 1 368 0.0 716
MsG0580027228.01.T01 MTR_6g046300 95.556 45 1 1 223 267 36 79 1.31e-19 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027228.01.T01 AT3G25590 36.465 447 146 19 1 347 1 409 1.80e-53 182

Find 62 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAGAGGTGGAGCTATATT+TGG 0.183362 5:-56676302 MsG0580027228.01.T01:CDS
GGAGAATTGGGAAACTATTT+AGG 0.222773 5:-56676439 MsG0580027228.01.T01:CDS
TAGAAGAAATCACTTCTTCT+TGG 0.257265 5:+56676152 None:intergenic
TTCTTCTATGAATATGAAAA+TGG 0.271087 5:-56676137 MsG0580027228.01.T01:CDS
GGTGGTGGTGGTGGAGGTGA+TGG 0.288439 5:-56675912 MsG0580027228.01.T01:CDS
GCAGATACACTCTCAGCTTT+TGG 0.291697 5:-56675975 MsG0580027228.01.T01:CDS
ATTTCAGCATTTGAATTCTA+AGG 0.291707 5:-56676549 MsG0580027228.01.T01:CDS
TTCTTCTTTCTCTTGCATCT+TGG 0.305233 5:+56676526 None:intergenic
CATCCTTCTTCTTCTTCCTC+TGG 0.311669 5:-56676761 MsG0580027228.01.T01:CDS
TTAGAATTCAAATGCTGAAA+TGG 0.334316 5:+56676551 None:intergenic
TCAAATATCATTCAAGTTCA+AGG 0.341466 5:-56675809 MsG0580027228.01.T01:CDS
ATTTCTGCAGCTAGAAGTTC+AGG 0.351861 5:-56676233 MsG0580027228.01.T01:CDS
GATGCTGCTGGTGGTGGTGG+TGG 0.362552 5:-56675921 MsG0580027228.01.T01:CDS
TTTGGTCAAGCTTGTGTGTT+CGG 0.397951 5:-56676708 MsG0580027228.01.T01:CDS
TAGAATTCAAATGCTGAAAT+GGG 0.399760 5:+56676552 None:intergenic
TTACTGTCTTAAAGAACGTT+TGG 0.432017 5:-56676726 MsG0580027228.01.T01:CDS
CATGATGCTGCTGGTGGTGG+TGG 0.442464 5:-56675924 MsG0580027228.01.T01:CDS
GGTGGTGGTGGAGGTGATGG+AGG 0.453840 5:-56675909 MsG0580027228.01.T01:CDS
CCTTCTTCTTCTTCCTCTGG+AGG 0.468678 5:-56676758 MsG0580027228.01.T01:CDS
TGGTAGAAAGAGTGGTGTAA+TGG 0.474028 5:-56676117 MsG0580027228.01.T01:CDS
ATCATCATGGAGGTGTTTCA+AGG 0.475029 5:-56676343 MsG0580027228.01.T01:CDS
GCAAGAGAAAGAAGAAGAAG+AGG 0.479357 5:-56676519 MsG0580027228.01.T01:CDS
AATAAGAAGAACAAGGATTG+TGG 0.479715 5:-56676413 MsG0580027228.01.T01:CDS
TTGATGGAAGCAGCTACAAT+AGG 0.481008 5:-56676091 MsG0580027228.01.T01:CDS
GAAAGAAGAAGAAGAGGTTG+TGG 0.494932 5:-56676513 MsG0580027228.01.T01:CDS
GGTGGTTTGATGTTAGAATC+TGG 0.497991 5:-56676203 MsG0580027228.01.T01:CDS
TGAATGAAAGAGGAATTAAG+AGG 0.498145 5:-56675869 MsG0580027228.01.T01:CDS
AACAGAGCATGAATTTCGAT+TGG 0.499202 5:+56676634 None:intergenic
AAGCTTGTGTGTTCGGATTG+TGG 0.512018 5:-56676701 MsG0580027228.01.T01:CDS
ACACATGATGCTGCTGGTGG+TGG 0.522185 5:-56675927 MsG0580027228.01.T01:CDS
AAAGTATTAAGGGTTGGAGA+TGG 0.524569 5:-56675836 MsG0580027228.01.T01:CDS
AGTGGTGTAATGGAAATTGA+TGG 0.532033 5:-56676107 MsG0580027228.01.T01:CDS
GAAGAAGGATGCTTCTTACA+TGG 0.543996 5:+56676773 None:intergenic
GTTTGATGTTAGAATCTGGT+AGG 0.549457 5:-56676199 MsG0580027228.01.T01:CDS
CCTCCAGAGGAAGAAGAAGA+AGG 0.551602 5:+56676758 None:intergenic
GAATGAAAGAGGAATTAAGA+GGG 0.561877 5:-56675868 MsG0580027228.01.T01:CDS
GCTAGAAGTTCAGGTGTGAA+TGG 0.567727 5:-56676224 MsG0580027228.01.T01:CDS
TTAGAATCTGGTAGGAGAAG+TGG 0.568091 5:-56676191 MsG0580027228.01.T01:CDS
AAGGATTGTGGAAGAAGTGT+TGG 0.573763 5:-56676401 MsG0580027228.01.T01:CDS
TCGAAATTCATGCTCTGTTG+AGG 0.575005 5:-56676630 MsG0580027228.01.T01:CDS
GCTATATTTGGATCTGAAGA+TGG 0.581428 5:-56676290 MsG0580027228.01.T01:CDS
ATGTGGATGGTTGATCATCA+TGG 0.586021 5:-56676356 MsG0580027228.01.T01:CDS
TAGGAAGAATAAGAAGAACA+AGG 0.590362 5:-56676420 MsG0580027228.01.T01:CDS
TATGAAAATGGTAGAAAGAG+TGG 0.593424 5:-56676125 MsG0580027228.01.T01:CDS
AGATCTCTCTGTAGTTTCAG+AGG 0.594381 5:-56676317 MsG0580027228.01.T01:CDS
AGGTTCACTATGAATGAAAG+AGG 0.598015 5:-56675879 MsG0580027228.01.T01:CDS
AATTCATGCTCTGTTGAGGT+AGG 0.600288 5:-56676626 MsG0580027228.01.T01:CDS
TTGATGAGAAGAATGAGATG+TGG 0.604022 5:-56676373 MsG0580027228.01.T01:CDS
GAGGTGATGGAGGTTCATGT+AGG 0.609166 5:-56675899 MsG0580027228.01.T01:CDS
TCTCTCTGTAGTTTCAGAGG+TGG 0.613367 5:-56676314 MsG0580027228.01.T01:CDS
TCTGTTGAGGTAGGAAGTGT+TGG 0.616434 5:-56676617 MsG0580027228.01.T01:CDS
AGAAGTTCAGGTGTGAATGG+TGG 0.616507 5:-56676221 MsG0580027228.01.T01:CDS
GTAAGCACAGATTCCTCCAG+AGG 0.616971 5:+56676745 None:intergenic
TGAAGCTTATAGCAATGACA+TGG 0.617179 5:-56676825 MsG0580027228.01.T01:CDS
GTTCGGATTGTGGAGAACAA+AGG 0.618797 5:-56676691 MsG0580027228.01.T01:CDS
ATTGTGGAAGAAGTGTTGGT+GGG 0.627755 5:-56676397 MsG0580027228.01.T01:CDS
GATTGTGGAAGAAGTGTTGG+TGG 0.630919 5:-56676398 MsG0580027228.01.T01:CDS
ATGACACATGATGCTGCTGG+TGG 0.643944 5:-56675930 MsG0580027228.01.T01:CDS
TGAGAAGAATGAGATGTGGA+TGG 0.655301 5:-56676369 MsG0580027228.01.T01:CDS
TTCATGACACATGATGCTGC+TGG 0.664420 5:-56675933 MsG0580027228.01.T01:CDS
ATATTTGGATCTGAAGATGG+TGG 0.728625 5:-56676287 MsG0580027228.01.T01:CDS
TGGATGGTTGATCATCATGG+AGG 0.776999 5:-56676353 MsG0580027228.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTCATCTGAATCAAAAA+TGG - Chr5:56676627-56676646 MsG0580027228.01.T01:CDS 20.0%
!! TTCTTCTATGAATATGAAAA+TGG - Chr5:56676487-56676506 MsG0580027228.01.T01:CDS 20.0%
!!! ATATAAAAAGACATGGTTTT+TGG - Chr5:56676164-56676183 MsG0580027228.01.T01:CDS 20.0%
!!! GAAAGAAGAAAAAGTATTAA+GGG - Chr5:56676778-56676797 MsG0580027228.01.T01:CDS 20.0%
! ATTTCAGCATTTGAATTCTA+AGG - Chr5:56676075-56676094 MsG0580027228.01.T01:CDS 25.0%
! TAGAATTCAAATGCTGAAAT+GGG + Chr5:56676075-56676094 None:intergenic 25.0%
! TTAGAATTCAAATGCTGAAA+TGG + Chr5:56676076-56676095 None:intergenic 25.0%
!! TCAAATATCATTCAAGTTCA+AGG - Chr5:56676815-56676834 MsG0580027228.01.T01:CDS 25.0%
!! TGTGTTGATATAAAAAGACA+TGG - Chr5:56676157-56676176 MsG0580027228.01.T01:CDS 25.0%
!!! GGAAAGAAGAAAAAGTATTA+AGG - Chr5:56676777-56676796 MsG0580027228.01.T01:CDS 25.0%
AATAAGAAGAACAAGGATTG+TGG - Chr5:56676211-56676230 MsG0580027228.01.T01:CDS 30.0%
GAATGAAAGAGGAATTAAGA+GGG - Chr5:56676756-56676775 MsG0580027228.01.T01:CDS 30.0%
TAGAAGAAATCACTTCTTCT+TGG + Chr5:56676475-56676494 None:intergenic 30.0%
TAGGAAGAATAAGAAGAACA+AGG - Chr5:56676204-56676223 MsG0580027228.01.T01:CDS 30.0%
TATGAAAATGGTAGAAAGAG+TGG - Chr5:56676499-56676518 MsG0580027228.01.T01:CDS 30.0%
TGAATGAAAGAGGAATTAAG+AGG - Chr5:56676755-56676774 MsG0580027228.01.T01:CDS 30.0%
TTACTGTCTTAAAGAACGTT+TGG - Chr5:56675898-56675917 MsG0580027228.01.T01:CDS 30.0%
! CTAAGAGAGAGTGATTTTAA+AGG - Chr5:56676568-56676587 MsG0580027228.01.T01:CDS 30.0%
!! GAAGAAAAAGTATTAAGGGT+TGG - Chr5:56676782-56676801 MsG0580027228.01.T01:CDS 30.0%
AACAGAGCATGAATTTCGAT+TGG + Chr5:56675993-56676012 None:intergenic 35.0%
AGGTTCACTATGAATGAAAG+AGG - Chr5:56676745-56676764 MsG0580027228.01.T01:CDS 35.0%
ATATTTGGATCTGAAGATGG+TGG - Chr5:56676337-56676356 MsG0580027228.01.T01:CDS 35.0%
GCTATATTTGGATCTGAAGA+TGG - Chr5:56676334-56676353 MsG0580027228.01.T01:CDS 35.0%
GGAGAATTGGGAAACTATTT+AGG - Chr5:56676185-56676204 MsG0580027228.01.T01:CDS 35.0%
GTTTGATGTTAGAATCTGGT+AGG - Chr5:56676425-56676444 MsG0580027228.01.T01:CDS 35.0%
TGAAGCTTATAGCAATGACA+TGG - Chr5:56675799-56675818 MsG0580027228.01.T01:CDS 35.0%
TTCTTCTTTCTCTTGCATCT+TGG + Chr5:56676101-56676120 None:intergenic 35.0%
TTGATGAGAAGAATGAGATG+TGG - Chr5:56676251-56676270 MsG0580027228.01.T01:CDS 35.0%
! AAAGTATTAAGGGTTGGAGA+TGG - Chr5:56676788-56676807 MsG0580027228.01.T01:CDS 35.0%
! AGTGGTGTAATGGAAATTGA+TGG - Chr5:56676517-56676536 MsG0580027228.01.T01:CDS 35.0%
!! AGACATGGTTTTTGGAGAAT+TGG - Chr5:56676172-56676191 MsG0580027228.01.T01:CDS 35.0%
!! AGAGAGTGATTTTAAAGGCA+TGG - Chr5:56676573-56676592 MsG0580027228.01.T01:CDS 35.0%
!! GACATGGTTTTTGGAGAATT+GGG - Chr5:56676173-56676192 MsG0580027228.01.T01:CDS 35.0%
AATTCATGCTCTGTTGAGGT+AGG - Chr5:56675998-56676017 MsG0580027228.01.T01:CDS 40.0%
AGATCTCTCTGTAGTTTCAG+AGG - Chr5:56676307-56676326 MsG0580027228.01.T01:CDS 40.0%
ATGTGGATGGTTGATCATCA+TGG - Chr5:56676268-56676287 MsG0580027228.01.T01:CDS 40.0%
ATTTCTGCAGCTAGAAGTTC+AGG - Chr5:56676391-56676410 MsG0580027228.01.T01:CDS 40.0%
GAAAGAAGAAGAAGAGGTTG+TGG - Chr5:56676111-56676130 MsG0580027228.01.T01:CDS 40.0%
GAAGAAGGATGCTTCTTACA+TGG + Chr5:56675854-56675873 None:intergenic 40.0%
GCAAGAGAAAGAAGAAGAAG+AGG - Chr5:56676105-56676124 MsG0580027228.01.T01:CDS 40.0%
GGTGGTTTGATGTTAGAATC+TGG - Chr5:56676421-56676440 MsG0580027228.01.T01:CDS 40.0%
TCGAAATTCATGCTCTGTTG+AGG - Chr5:56675994-56676013 MsG0580027228.01.T01:CDS 40.0%
TGAGAAGAATGAGATGTGGA+TGG - Chr5:56676255-56676274 MsG0580027228.01.T01:CDS 40.0%
TGGTAGAAAGAGTGGTGTAA+TGG - Chr5:56676507-56676526 MsG0580027228.01.T01:CDS 40.0%
TTAGAATCTGGTAGGAGAAG+TGG - Chr5:56676433-56676452 MsG0580027228.01.T01:CDS 40.0%
TTCAGAGGTGGAGCTATATT+TGG - Chr5:56676322-56676341 MsG0580027228.01.T01:CDS 40.0%
TTGATGGAAGCAGCTACAAT+AGG - Chr5:56676533-56676552 MsG0580027228.01.T01:CDS 40.0%
TTTGGTCAAGCTTGTGTGTT+CGG - Chr5:56675916-56675935 MsG0580027228.01.T01:CDS 40.0%
! AAGGATTGTGGAAGAAGTGT+TGG - Chr5:56676223-56676242 MsG0580027228.01.T01:CDS 40.0%
!! ATCATCATGGAGGTGTTTCA+AGG - Chr5:56676281-56676300 MsG0580027228.01.T01:CDS 40.0%
!! ATTGTGGAAGAAGTGTTGGT+GGG - Chr5:56676227-56676246 MsG0580027228.01.T01:CDS 40.0%
!! GGTGGTGATTCAGTTTTATC+AGG - Chr5:56676355-56676374 MsG0580027228.01.T01:CDS 40.0%
!! TCAGCTTTTGGAAGCATAAG+AGG - Chr5:56676661-56676680 MsG0580027228.01.T01:CDS 40.0%
AAGCTTGTGTGTTCGGATTG+TGG - Chr5:56675923-56675942 MsG0580027228.01.T01:CDS 45.0%
AGAAGTTCAGGTGTGAATGG+TGG - Chr5:56676403-56676422 MsG0580027228.01.T01:CDS 45.0%
CATCCTTCTTCTTCTTCCTC+TGG - Chr5:56675863-56675882 MsG0580027228.01.T01:CDS 45.0%
GCTAGAAGTTCAGGTGTGAA+TGG - Chr5:56676400-56676419 MsG0580027228.01.T01:CDS 45.0%
GTTCGGATTGTGGAGAACAA+AGG - Chr5:56675933-56675952 MsG0580027228.01.T01:CDS 45.0%
TCTCTCTGTAGTTTCAGAGG+TGG - Chr5:56676310-56676329 MsG0580027228.01.T01:CDS 45.0%
TGGATGGTTGATCATCATGG+AGG - Chr5:56676271-56676290 MsG0580027228.01.T01:CDS 45.0%
TTCATGACACATGATGCTGC+TGG - Chr5:56676691-56676710 MsG0580027228.01.T01:CDS 45.0%
! GCAGATACACTCTCAGCTTT+TGG - Chr5:56676649-56676668 MsG0580027228.01.T01:CDS 45.0%
! TCTGTTGAGGTAGGAAGTGT+TGG - Chr5:56676007-56676026 MsG0580027228.01.T01:CDS 45.0%
!! GATTGTGGAAGAAGTGTTGG+TGG - Chr5:56676226-56676245 MsG0580027228.01.T01:CDS 45.0%
!! GCTTTTGGAAGCATAAGAGG+TGG - Chr5:56676664-56676683 MsG0580027228.01.T01:CDS 45.0%
ATGACACATGATGCTGCTGG+TGG - Chr5:56676694-56676713 MsG0580027228.01.T01:CDS 50.0%
CCTCCAGAGGAAGAAGAAGA+AGG + Chr5:56675869-56675888 None:intergenic 50.0%
CCTTCTTCTTCTTCCTCTGG+AGG - Chr5:56675866-56675885 MsG0580027228.01.T01:CDS 50.0%
GTAAGCACAGATTCCTCCAG+AGG + Chr5:56675882-56675901 None:intergenic 50.0%
!! GAGGTGATGGAGGTTCATGT+AGG - Chr5:56676725-56676744 MsG0580027228.01.T01:CDS 50.0%
ACACATGATGCTGCTGGTGG+TGG - Chr5:56676697-56676716 MsG0580027228.01.T01:CDS 55.0%
!! CATGATGCTGCTGGTGGTGG+TGG - Chr5:56676700-56676719 MsG0580027228.01.T01:CDS 60.0%
!! GATGCTGCTGGTGGTGGTGG+TGG - Chr5:56676703-56676722 MsG0580027228.01.T01:CDS 65.0%
!! GGTGGTGGTGGAGGTGATGG+AGG - Chr5:56676715-56676734 MsG0580027228.01.T01:CDS 65.0%
!! GGTGGTGGTGGTGGAGGTGA+TGG - Chr5:56676712-56676731 MsG0580027228.01.T01:CDS 65.0%
!! GCTGCTGGTGGTGGTGGTGG+AGG - Chr5:56676706-56676725 MsG0580027228.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr5 gene 56675776 56676870 56675776 ID=MsG0580027228.01;Name=MsG0580027228.01
Chr5 mRNA 56675776 56676870 56675776 ID=MsG0580027228.01.T01;Parent=MsG0580027228.01;Name=MsG0580027228.01.T01;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|364
Chr5 exon 56675776 56676870 56675776 ID=MsG0580027228.01.T01:exon:42109;Parent=MsG0580027228.01.T01
Chr5 CDS 56675776 56676870 56675776 ID=MsG0580027228.01.T01:cds;Parent=MsG0580027228.01.T01
Gene Sequence

>MsG0580027228.01.T01

ATGAAGGAGAAAAACAAAGGTGTTGAAGCTTATAGCAATGACATGGATTGCTACTATTCTACTTCTGATTTTCTTCCATGTAAGAAGCATCCTTCTTCTTCTTCCTCTGGAGGAATCTGTGCTTACTGTCTTAAAGAACGTTTGGTCAAGCTTGTGTGTTCGGATTGTGGAGAACAAAGGCTTTCTTCTTGTTCATGCTCTGATGAGATCACTTCCAATCGAAATTCATGCTCTGTTGAGGTAGGAAGTGTTGGAAGAGTCTCATTTCTTATTGAGAATGAAAAGAATGAGACAAACCCATTTCAGCATTTGAATTCTAAGGCCAAGATGCAAGAGAAAGAAGAAGAAGAGGTTGTGGTGCTTAAGAGAAGTAGTAGCAGTTGTGTTGATATAAAAAGACATGGTTTTTGGAGAATTGGGAAACTATTTAGGAAGAATAAGAAGAACAAGGATTGTGGAAGAAGTGTTGGTGGGTTTGATGAGAAGAATGAGATGTGGATGGTTGATCATCATGGAGGTGTTTCAAGGTCAAGATCTCTCTGTAGTTTCAGAGGTGGAGCTATATTTGGATCTGAAGATGGTGGTGATTCAGTTTTATCAGGTGCTAGAAGCTCTATTTCTGCAGCTAGAAGTTCAGGTGTGAATGGTGGTTTGATGTTAGAATCTGGTAGGAGAAGTGGTTACAGTGAAGCTGAACCAAGAAGAAGTGATTTCTTCTATGAATATGAAAATGGTAGAAAGAGTGGTGTAATGGAAATTGATGGAAGCAGCTACAATAGGCGTGTGTTTTCACTAAGAGAGAGTGATTTTAAAGGCATGGATGAGTCTAGTTTTATTGATTTGAAGCTTGATTATTCATCTGAATCAAAAATGGCAGATACACTCTCAGCTTTTGGAAGCATAAGAGGTGGAAATTTCATGACACATGATGCTGCTGGTGGTGGTGGTGGAGGTGATGGAGGTTCATGTAGGTTCACTATGAATGAAAGAGGAATTAAGAGGGAAAGAAGAAAAAGTATTAAGGGTTGGAGATGGATTTTCAAATATCATTCAAGTTCAAGGAAAAGAGATCAAGACCTTATGTTCAAAACCTAA

Protein sequence

>MsG0580027228.01.T01

MKEKNKGVEAYSNDMDCYYSTSDFLPCKKHPSSSSSGGICAYCLKERLVKLVCSDCGEQRLSSCSCSDEITSNRNSCSVEVGSVGRVSFLIENEKNETNPFQHLNSKAKMQEKEEEEVVVLKRSSSSCVDIKRHGFWRIGKLFRKNKKNKDCGRSVGGFDEKNEMWMVDHHGGVSRSRSLCSFRGGAIFGSEDGGDSVLSGARSSISAARSSGVNGGLMLESGRRSGYSEAEPRRSDFFYEYENGRKSGVMEIDGSSYNRRVFSLRESDFKGMDESSFIDLKLDYSSESKMADTLSAFGSIRGGNFMTHDAAGGGGGGDGGSCRFTMNERGIKRERRKSIKGWRWIFKYHSSSRKRDQDLMFKT*