AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010356.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010356.01.T01 MTR_2g082660 93.448 290 19 0 3 292 52 341 2.27e-179 498
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010356.01.T01 AT3G20680 62.313 268 91 5 30 292 76 338 7.98e-112 327

Find 67 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCCTCAAATGCCCATTT+TGG 0.175377 2:-68469459 None:intergenic
CAAATGATTAAGATCTTAAT+TGG 0.241018 2:-68469219 None:intergenic
TCCTTTGAGATGGGTGGGTT+AGG 0.269222 2:-68468994 None:intergenic
TGGTAATGTTGAATCCAAAA+TGG 0.275815 2:+68469445 MsG0280010356.01.T01:CDS
TCAGAAGAATTCAAGATTCT+TGG 0.275876 2:-68469342 None:intergenic
CCTTTGAGATGGGTGGGTTA+GGG 0.279888 2:-68468993 None:intergenic
CGGGATTTCAATCCGAAATC+TGG 0.279998 2:-68469115 None:intergenic
CTCAATAACCCTAAACTAAT+AGG 0.316549 2:+68469069 MsG0280010356.01.T01:CDS
CAATTAAGATCTTAATCATT+TGG 0.318601 2:+68469220 MsG0280010356.01.T01:CDS
AACTGAAGCAACCCAGATTT+CGG 0.319303 2:+68469103 MsG0280010356.01.T01:CDS
TTCAACATTACCACTGGCTT+TGG 0.329154 2:-68469435 None:intergenic
AACTTTGCAGACTTCGTTAT+CGG 0.335874 2:-68469741 None:intergenic
GGTTGTTGAAAGGGATGTTT+TGG 0.337358 2:-68469034 None:intergenic
TAGGGGAAGGGAGTGAGGAC+TGG 0.357226 2:-68468975 None:intergenic
TAAATTGTCAGTGGTGAAAA+TGG 0.381839 2:+68469395 MsG0280010356.01.T01:CDS
TTCAAGGTTAGGCCAACTAT+TGG 0.384714 2:+68469675 MsG0280010356.01.T01:CDS
TGGGTTAGGGGAAGGGAGTG+AGG 0.398727 2:-68468980 None:intergenic
GTTATTGAGAGGCTTCTCTA+AGG 0.403019 2:-68469055 None:intergenic
GAGTGAGGACTGGGTGGATG+TGG 0.412300 2:-68468965 None:intergenic
GCCGGATTCAGTTTGTAAAC+TGG 0.416927 2:+68469152 MsG0280010356.01.T01:CDS
CAGAAGAATTCAAGATTCTT+GGG 0.420343 2:-68469341 None:intergenic
TGGTTTCTTCATTCAAGGTT+AGG 0.422073 2:+68469664 MsG0280010356.01.T01:CDS
AGGGGAAGGGAGTGAGGACT+GGG 0.431464 2:-68468974 None:intergenic
AGATGGGTGGGTTAGGGGAA+GGG 0.431709 2:-68468987 None:intergenic
GAAGGTGGTTTCTTCATTCA+AGG 0.435414 2:+68469659 MsG0280010356.01.T01:CDS
GGGTTGTGAGTGCAGAGAAA+TGG 0.450689 2:+68469607 MsG0280010356.01.T01:CDS
GGAAGGGAGTGAGGACTGGG+TGG 0.455604 2:-68468971 None:intergenic
GAATCCAAAATGGGCATTTG+AGG 0.461750 2:+68469455 MsG0280010356.01.T01:CDS
GAGATGGGTGGGTTAGGGGA+AGG 0.465818 2:-68468988 None:intergenic
GGTAATGTTGAATCCAAAAT+GGG 0.468160 2:+68469446 MsG0280010356.01.T01:CDS
CTTTGAGATGGGTGGGTTAG+GGG 0.469018 2:-68468992 None:intergenic
CAATGTCAATGTGTTCAACT+TGG 0.469067 2:-68469299 None:intergenic
GCATCTTCCTTTGAGATGGG+TGG 0.470249 2:-68469000 None:intergenic
GCCAGTTTACAAACTGAATC+CGG 0.472712 2:-68469153 None:intergenic
CAGATTTCGGATTGAAATCC+CGG 0.473163 2:+68469116 MsG0280010356.01.T01:CDS
CATCTTCCTTTGAGATGGGT+GGG 0.484840 2:-68468999 None:intergenic
GACATACCAATCAAAAGAAA+AGG 0.487141 2:+68469192 MsG0280010356.01.T01:CDS
TTATGGGATTGGAGGTGAGA+GGG 0.488371 2:+68469538 MsG0280010356.01.T01:CDS
GGATGTGGATGTAGCTTTGA+GGG 0.492657 2:-68468950 None:intergenic
CTTCTCTAAGGTTGTTGAAA+GGG 0.495706 2:-68469043 None:intergenic
ATCTCAACTTCGCCAATAGT+TGG 0.501904 2:-68469687 None:intergenic
TGGATGTGGATGTAGCTTTG+AGG 0.508505 2:-68468951 None:intergenic
TTTGGATTCAACATTACCAC+TGG 0.509160 2:-68469441 None:intergenic
TGGAATGTTCTTGTTGAAGA+AGG 0.509369 2:+68469627 MsG0280010356.01.T01:CDS
TGTAGCTTTGAGGGAACAGT+AGG 0.516404 2:-68468941 None:intergenic
TATGGCATCTTCCTTTGAGA+TGG 0.518876 2:-68469004 None:intergenic
TGCAAAGTTCATCAAGGGAT+TGG 0.520175 2:+68469755 MsG0280010356.01.T01:CDS
CCCGGTCATCGATGACTCGC+CGG 0.521804 2:+68469134 MsG0280010356.01.T01:CDS
GGATTGGTGTCGAATGTGAC+AGG 0.523214 2:+68469771 MsG0280010356.01.T01:CDS
TCCGGCGAGTCATCGATGAC+CGG 0.527988 2:-68469135 None:intergenic
GGGATATTGAGCAAAAGAAA+AGG 0.530064 2:+68469558 MsG0280010356.01.T01:CDS
GGGATTTCAATCCGAAATCT+GGG 0.530276 2:-68469114 None:intergenic
AATCTTGAATTCTTCTGATG+TGG 0.534326 2:+68469347 MsG0280010356.01.T01:CDS
ACTGACAATTTAGAACTCTC+TGG 0.544169 2:-68469384 None:intergenic
CCGGCGAGTCATCGATGACC+GGG 0.544538 2:-68469134 None:intergenic
ATGGCATCTTCCTTTGAGAT+GGG 0.551979 2:-68469003 None:intergenic
GCTTCTCTAAGGTTGTTGAA+AGG 0.554793 2:-68469044 None:intergenic
CCCTAACCCACCCATCTCAA+AGG 0.566184 2:+68468993 MsG0280010356.01.T01:CDS
GAAGTCTGCAAAGTTCATCA+AGG 0.566362 2:+68469749 MsG0280010356.01.T01:CDS
TTTATGGGATTGGAGGTGAG+AGG 0.570935 2:+68469537 MsG0280010356.01.T01:CDS
TGTTCTTGTTGAAGAAGGTG+AGG 0.596063 2:+68469632 MsG0280010356.01.T01:CDS
ATTAGTTTAGGGTTATTGAG+AGG 0.602575 2:-68469066 None:intergenic
AGAAGGTGAGGAAATGAAGG+TGG 0.605802 2:+68469644 MsG0280010356.01.T01:CDS
TGAAGAAGGTGAGGAAATGA+AGG 0.617329 2:+68469641 MsG0280010356.01.T01:CDS
AAGTCTGCAAAGTTCATCAA+GGG 0.617375 2:+68469750 MsG0280010356.01.T01:CDS
AGAGAGTTCTAAATTGTCAG+TGG 0.670269 2:+68469386 MsG0280010356.01.T01:CDS
GTAGCTTTGAGGGAACAGTA+GGG 0.677291 2:-68468940 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAATGATTAAGATCTTAAT+TGG - Chr2:68469222-68469241 None:intergenic 20.0%
!! CAATTAAGATCTTAATCATT+TGG + Chr2:68469220-68469239 MsG0280010356.01.T01:CDS 20.0%
!!! GATTGTTTTGTATAATTTGA+TGG + Chr2:68469707-68469726 MsG0280010356.01.T01:CDS 20.0%
!! GAAGTGGTTTATTCTTTTAT+GGG + Chr2:68469522-68469541 MsG0280010356.01.T01:CDS 25.0%
!! TGAAGTGGTTTATTCTTTTA+TGG + Chr2:68469521-68469540 MsG0280010356.01.T01:CDS 25.0%
!!! TGATTTTGCCTATTAGTTTA+GGG - Chr2:68469080-68469099 None:intergenic 25.0%
!!! TTGATTTTGCCTATTAGTTT+AGG - Chr2:68469081-68469100 None:intergenic 25.0%
AATCTTGAATTCTTCTGATG+TGG + Chr2:68469347-68469366 MsG0280010356.01.T01:CDS 30.0%
CAGAAGAATTCAAGATTCTT+GGG - Chr2:68469344-68469363 None:intergenic 30.0%
CTCAATAACCCTAAACTAAT+AGG + Chr2:68469069-68469088 MsG0280010356.01.T01:CDS 30.0%
GACATACCAATCAAAAGAAA+AGG + Chr2:68469192-68469211 MsG0280010356.01.T01:CDS 30.0%
GGTAATGTTGAATCCAAAAT+GGG + Chr2:68469446-68469465 MsG0280010356.01.T01:CDS 30.0%
TAAATTGTCAGTGGTGAAAA+TGG + Chr2:68469395-68469414 MsG0280010356.01.T01:CDS 30.0%
TCAGAAGAATTCAAGATTCT+TGG - Chr2:68469345-68469364 None:intergenic 30.0%
TTTGAGGAAGAGAAAAACTT+TGG + Chr2:68469471-68469490 MsG0280010356.01.T01:CDS 30.0%
! AAAAACTTTGGTGATCTAAG+TGG + Chr2:68469483-68469502 MsG0280010356.01.T01:CDS 30.0%
! ATTAGTTTAGGGTTATTGAG+AGG - Chr2:68469069-68469088 None:intergenic 30.0%
! GGTTTATTCTTTTATGGGAT+TGG + Chr2:68469527-68469546 MsG0280010356.01.T01:CDS 30.0%
! TGGTAATGTTGAATCCAAAA+TGG + Chr2:68469445-68469464 MsG0280010356.01.T01:CDS 30.0%
! TTATTCTTTTATGGGATTGG+AGG + Chr2:68469530-68469549 MsG0280010356.01.T01:CDS 30.0%
!! AAACTGGCTCTTGATATTTT+TGG + Chr2:68469168-68469187 MsG0280010356.01.T01:CDS 30.0%
!! AACTGGCTCTTGATATTTTT+GGG + Chr2:68469169-68469188 MsG0280010356.01.T01:CDS 30.0%
!! TTTTGTGAGTTCTTTTGAAG+TGG + Chr2:68469506-68469525 MsG0280010356.01.T01:CDS 30.0%
!!! ATTGCAGCTTTTTTTAAGCT+AGG - Chr2:68469252-68469271 None:intergenic 30.0%
!!! ATTTTTAAGTGTGTGAGAGA+TGG + Chr2:68469585-68469604 MsG0280010356.01.T01:CDS 30.0%
!!! GCTTTTTTTAAGCTAGGATT+AGG - Chr2:68469246-68469265 None:intergenic 30.0%
!!! TTTTTAAGTGTGTGAGAGAT+GGG + Chr2:68469586-68469605 MsG0280010356.01.T01:CDS 30.0%
AACTTTGCAGACTTCGTTAT+CGG - Chr2:68469744-68469763 None:intergenic 35.0%
AAGTCTGCAAAGTTCATCAA+GGG + Chr2:68469750-68469769 MsG0280010356.01.T01:CDS 35.0%
CAATGTCAATGTGTTCAACT+TGG - Chr2:68469302-68469321 None:intergenic 35.0%
GGGATATTGAGCAAAAGAAA+AGG + Chr2:68469558-68469577 MsG0280010356.01.T01:CDS 35.0%
TGGAATGTTCTTGTTGAAGA+AGG + Chr2:68469627-68469646 MsG0280010356.01.T01:CDS 35.0%
TGGTTTCTTCATTCAAGGTT+AGG + Chr2:68469664-68469683 MsG0280010356.01.T01:CDS 35.0%
TTTGGATTCAACATTACCAC+TGG - Chr2:68469444-68469463 None:intergenic 35.0%
! ACTGACAATTTAGAACTCTC+TGG - Chr2:68469387-68469406 None:intergenic 35.0%
! GGAGAACCTTTTCTTTTGAT+TGG - Chr2:68469201-68469220 None:intergenic 35.0%
!! ACTGGCTCTTGATATTTTTG+GGG + Chr2:68469170-68469189 MsG0280010356.01.T01:CDS 35.0%
!! AGAGAGTTCTAAATTGTCAG+TGG + Chr2:68469386-68469405 MsG0280010356.01.T01:CDS 35.0%
!! CTTCTCTAAGGTTGTTGAAA+GGG - Chr2:68469046-68469065 None:intergenic 35.0%
!! TTGCTTTTGAGTCTCATTCA+AGG + Chr2:68469274-68469293 MsG0280010356.01.T01:CDS 35.0%
!! TTTTAAGTGTGTGAGAGATG+GGG + Chr2:68469587-68469606 MsG0280010356.01.T01:CDS 35.0%
AACTGAAGCAACCCAGATTT+CGG + Chr2:68469103-68469122 MsG0280010356.01.T01:CDS 40.0%
ATCTCAACTTCGCCAATAGT+TGG - Chr2:68469690-68469709 None:intergenic 40.0%
CAGATTTCGGATTGAAATCC+CGG + Chr2:68469116-68469135 MsG0280010356.01.T01:CDS 40.0%
GAAGGTGGTTTCTTCATTCA+AGG + Chr2:68469659-68469678 MsG0280010356.01.T01:CDS 40.0%
GAAGTCTGCAAAGTTCATCA+AGG + Chr2:68469749-68469768 MsG0280010356.01.T01:CDS 40.0%
GAATCCAAAATGGGCATTTG+AGG + Chr2:68469455-68469474 MsG0280010356.01.T01:CDS 40.0%
GCCAGTTTACAAACTGAATC+CGG - Chr2:68469156-68469175 None:intergenic 40.0%
GGGATTTCAATCCGAAATCT+GGG - Chr2:68469117-68469136 None:intergenic 40.0%
GTTATTGAGAGGCTTCTCTA+AGG - Chr2:68469058-68469077 None:intergenic 40.0%
TGAAGAAGGTGAGGAAATGA+AGG + Chr2:68469641-68469660 MsG0280010356.01.T01:CDS 40.0%
TGCAAAGTTCATCAAGGGAT+TGG + Chr2:68469755-68469774 MsG0280010356.01.T01:CDS 40.0%
TGTTCTTGTTGAAGAAGGTG+AGG + Chr2:68469632-68469651 MsG0280010356.01.T01:CDS 40.0%
TTCAAGGTTAGGCCAACTAT+TGG + Chr2:68469675-68469694 MsG0280010356.01.T01:CDS 40.0%
! GGTTGTTGAAAGGGATGTTT+TGG - Chr2:68469037-68469056 None:intergenic 40.0%
! TATGGCATCTTCCTTTGAGA+TGG - Chr2:68469007-68469026 None:intergenic 40.0%
! TCTTCCTCAAATGCCCATTT+TGG - Chr2:68469462-68469481 None:intergenic 40.0%
! TGCTTTTAATCCAAAGCCAG+TGG + Chr2:68469425-68469444 MsG0280010356.01.T01:CDS 40.0%
! TTCTGATGTGGCAGTGTTTT+TGG + Chr2:68469359-68469378 MsG0280010356.01.T01:CDS 40.0%
!! ATGGCATCTTCCTTTGAGAT+GGG - Chr2:68469006-68469025 None:intergenic 40.0%
!! GCTTCTCTAAGGTTGTTGAA+AGG - Chr2:68469047-68469066 None:intergenic 40.0%
!! TTCAACATTACCACTGGCTT+TGG - Chr2:68469438-68469457 None:intergenic 40.0%
!!! GGATGTTTTGGCTTGAAGTA+TGG - Chr2:68469025-68469044 None:intergenic 40.0%
AGAAGGTGAGGAAATGAAGG+TGG + Chr2:68469644-68469663 MsG0280010356.01.T01:CDS 45.0%
CGGGATTTCAATCCGAAATC+TGG - Chr2:68469118-68469137 None:intergenic 45.0%
GCCGGATTCAGTTTGTAAAC+TGG + Chr2:68469152-68469171 MsG0280010356.01.T01:CDS 45.0%
TTATGGGATTGGAGGTGAGA+GGG + Chr2:68469538-68469557 MsG0280010356.01.T01:CDS 45.0%
TTTATGGGATTGGAGGTGAG+AGG + Chr2:68469537-68469556 MsG0280010356.01.T01:CDS 45.0%
! TGGATGTGGATGTAGCTTTG+AGG - Chr2:68468954-68468973 None:intergenic 45.0%
!! AGGGAACAGTAGGGTTTTGA+GGG - Chr2:68468934-68468953 None:intergenic 45.0%
!! CATCTTCCTTTGAGATGGGT+GGG - Chr2:68469002-68469021 None:intergenic 45.0%
!! GGATGTGGATGTAGCTTTGA+GGG - Chr2:68468953-68468972 None:intergenic 45.0%
!! GTAGCTTTGAGGGAACAGTA+GGG - Chr2:68468943-68468962 None:intergenic 45.0%
!! TGTAGCTTTGAGGGAACAGT+AGG - Chr2:68468944-68468963 None:intergenic 45.0%
GGGTTGTGAGTGCAGAGAAA+TGG + Chr2:68469607-68469626 MsG0280010356.01.T01:CDS 50.0%
! GAGGGAACAGTAGGGTTTTG+AGG - Chr2:68468935-68468954 None:intergenic 50.0%
!! CCTTTGAGATGGGTGGGTTA+GGG - Chr2:68468996-68469015 None:intergenic 50.0%
!! CTTTGAGATGGGTGGGTTAG+GGG - Chr2:68468995-68469014 None:intergenic 50.0%
!! GCATCTTCCTTTGAGATGGG+TGG - Chr2:68469003-68469022 None:intergenic 50.0%
!! GGATTGGTGTCGAATGTGAC+AGG + Chr2:68469771-68469790 MsG0280010356.01.T01:CDS 50.0%
!! TCCTTTGAGATGGGTGGGTT+AGG - Chr2:68468997-68469016 None:intergenic 50.0%
CCCTAACCCACCCATCTCAA+AGG + Chr2:68468993-68469012 MsG0280010356.01.T01:CDS 55.0%
!! AGATGGGTGGGTTAGGGGAA+GGG - Chr2:68468990-68469009 None:intergenic 55.0%
AGGGGAAGGGAGTGAGGACT+GGG - Chr2:68468977-68468996 None:intergenic 60.0%
GAGTGAGGACTGGGTGGATG+TGG - Chr2:68468968-68468987 None:intergenic 60.0%
TAGGGGAAGGGAGTGAGGAC+TGG - Chr2:68468978-68468997 None:intergenic 60.0%
TCCGGCGAGTCATCGATGAC+CGG - Chr2:68469138-68469157 None:intergenic 60.0%
! TGGGTTAGGGGAAGGGAGTG+AGG - Chr2:68468983-68469002 None:intergenic 60.0%
!! GAGATGGGTGGGTTAGGGGA+AGG - Chr2:68468991-68469010 None:intergenic 60.0%
CCCGGTCATCGATGACTCGC+CGG + Chr2:68469134-68469153 MsG0280010356.01.T01:CDS 65.0%
CCGGCGAGTCATCGATGACC+GGG - Chr2:68469137-68469156 None:intergenic 65.0%
GGAAGGGAGTGAGGACTGGG+TGG - Chr2:68468974-68468993 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 68468925 68469803 68468925 ID=MsG0280010356.01;Name=MsG0280010356.01
Chr2 mRNA 68468925 68469803 68468925 ID=MsG0280010356.01.T01;Parent=MsG0280010356.01;Name=MsG0280010356.01.T01;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|292
Chr2 exon 68468925 68469803 68468925 ID=MsG0280010356.01.T01:exon:5826;Parent=MsG0280010356.01.T01
Chr2 CDS 68468925 68469803 68468925 ID=MsG0280010356.01.T01:cds;Parent=MsG0280010356.01.T01
Gene Sequence

>MsG0280010356.01.T01

ATGCATCCCTCAAAACCCTACTGTTCCCTCAAAGCTACATCCACATCCACCCAGTCCTCACTCCCTTCCCCTAACCCACCCATCTCAAAGGAAGATGCCATACTTCAAGCCAAAACATCCCTTTCAACAACCTTAGAGAAGCCTCTCAATAACCCTAAACTAATAGGCAAAATCAAGAAACTGAAGCAACCCAGATTTCGGATTGAAATCCCGGTCATCGATGACTCGCCGGATTCAGTTTGTAAACTGGCTCTTGATATTTTTGGGGACATACCAATCAAAAGAAAAGGTTCTCCAATTAAGATCTTAATCATTTGGCCTAATCCTAGCTTAAAAAAAGCTGCAATTGTTGCTTTTGAGTCTCATTCAAGGAACCAAGTTGAACACATTGACATTGTTTCAGTTGATAAAACTGACCCAAGAATCTTGAATTCTTCTGATGTGGCAGTGTTTTTGGTGCCAGAGAGTTCTAAATTGTCAGTGGTGAAAATGGTGAGTGATGCTTTTAATCCAAAGCCAGTGGTAATGTTGAATCCAAAATGGGCATTTGAGGAAGAGAAAAACTTTGGTGATCTAAGTGGTTTTGTGAGTTCTTTTGAAGTGGTTTATTCTTTTATGGGATTGGAGGTGAGAGGGATATTGAGCAAAAGAAAAGGTGTGATTTTTAAGTGTGTGAGAGATGGGGTTGTGAGTGCAGAGAAATGGAATGTTCTTGTTGAAGAAGGTGAGGAAATGAAGGTGGTTTCTTCATTCAAGGTTAGGCCAACTATTGGCGAAGTTGAGATTGTTTTGTATAATTTGATGGCTGTTAATTCGCCGATAACGAAGTCTGCAAAGTTCATCAAGGGATTGGTGTCGAATGTGACAGGCAAAAAGTAA

Protein sequence

>MsG0280010356.01.T01

MHPSKPYCSLKATSTSTQSSLPSPNPPISKEDAILQAKTSLSTTLEKPLNNPKLIGKIKKLKQPRFRIEIPVIDDSPDSVCKLALDIFGDIPIKRKGSPIKILIIWPNPSLKKAAIVAFESHSRNQVEHIDIVSVDKTDPRILNSSDVAVFLVPESSKLSVVKMVSDAFNPKPVVMLNPKWAFEEEKNFGDLSGFVSSFEVVYSFMGLEVRGILSKRKGVIFKCVRDGVVSAEKWNVLVEEGEEMKVVSSFKVRPTIGEVEIVLYNLMAVNSPITKSAKFIKGLVSNVTGKK*