AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004320.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004320.01.T01 MTR_7g100040 80.851 188 15 1 17 183 31 218 6.68e-104 307
MsG0180004320.01.T01 MTR_7g100040 80.851 188 15 1 17 183 153 340 9.70e-103 308
MsG0180004320.01.T01 MTR_8g010330 68.817 186 38 1 17 182 145 330 2.05e-80 249
MsG0180004320.01.T01 MTR_6g022610 58.197 122 27 2 60 161 21 138 3.46e-38 128
MsG0180004320.01.T01 MTR_6g022610 49.451 91 22 2 71 141 1 87 5.79e-19 78.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004320.01.T01 AT5G14520 58.333 168 58 3 25 180 160 327 1.06e-59 196

Find 40 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGCTTAGATTCAACTAAT+TGG 0.167597 1:+76386009 None:intergenic
AAAACATTTGTATCTGTTAA+AGG 0.196641 1:-76386611 MsG0180004320.01.T01:CDS
AAGTATTATTGCAGCATAAT+AGG 0.276902 1:+76386715 None:intergenic
GGGAGGATACTTCAAATTAA+TGG 0.282031 1:+76386228 None:intergenic
TGATCCTCGCTTGGAGGCCT+TGG 0.332079 1:-76386200 MsG0180004320.01.T01:CDS
TTGCTTAGATTCAACTAATT+GGG 0.386830 1:+76386010 None:intergenic
AGTGCACCAGGTTCATTAGA+AGG 0.391714 1:+76385909 None:intergenic
GGTTTGTGCCCCATCTTGCT+TGG 0.395071 1:+76385980 None:intergenic
AACTCCTCATTCATTGCAGC+AGG 0.430168 1:-76386465 MsG0180004320.01.T01:CDS
TGTCTGCCTATGTTCTAGAT+TGG 0.431169 1:-76386678 MsG0180004320.01.T01:CDS
ATTAGTTGAATCTAAGCAAA+TGG 0.445263 1:-76386006 MsG0180004320.01.T01:CDS
TGCAGAAAGTTTAGCATAGT+GGG 0.449319 1:+76386419 None:intergenic
TCAAATTAATGGAATGATAG+AGG 0.462893 1:+76386239 None:intergenic
TCCCATGTGTGATCCTCGCT+TGG 0.470671 1:-76386209 MsG0180004320.01.T01:CDS
AAACTTTCTGCAACTCTATG+AGG 0.471841 1:-76386408 MsG0180004320.01.T01:intron
TTGCAGAAAGTTTAGCATAG+TGG 0.480844 1:+76386418 None:intergenic
CAAATGGAGTCCAAGCAAGA+TGG 0.482198 1:-76385990 MsG0180004320.01.T01:CDS
GTTCTAGATTGGCGCATGAA+TGG 0.487779 1:-76386667 MsG0180004320.01.T01:CDS
AAATGGAGTCCAAGCAAGAT+GGG 0.497772 1:-76385989 MsG0180004320.01.T01:CDS
CATGTGTGATCCTCGCTTGG+AGG 0.500787 1:-76386206 MsG0180004320.01.T01:CDS
TTTGTGCAGGCTGAAGTTGA+GGG 0.530560 1:-76386506 MsG0180004320.01.T01:intron
CATGCGCCAATCTAGAACAT+AGG 0.530613 1:+76386672 None:intergenic
CGCTTGGAGGCCTTGGCAGT+AGG 0.533143 1:-76386193 MsG0180004320.01.T01:intron
GTTTGTGCAGGCTGAAGTTG+AGG 0.542586 1:-76386507 MsG0180004320.01.T01:intron
CAACTTCCTTCTAATGAACC+TGG 0.554422 1:-76385915 MsG0180004320.01.T01:CDS
ACAAGCTGCATTAGTGCACC+AGG 0.562700 1:+76385897 None:intergenic
ATTGCAGCAGGTTGTGTCCG+AGG 0.578968 1:-76386453 MsG0180004320.01.T01:CDS
AGTTGCAGGCGAAGGTGAAG+AGG 0.592188 1:-76385868 MsG0180004320.01.T01:CDS
ACAACCTGCTGCAATGAATG+AGG 0.592823 1:+76386461 None:intergenic
CTCCAAGCGAGGATCACACA+TGG 0.600681 1:+76386207 None:intergenic
ACTGCCAAGGCCTCCAAGCG+AGG 0.602119 1:+76386196 None:intergenic
AGTGGGGATGTCAACATCCT+CGG 0.602285 1:+76386436 None:intergenic
TGTTAAAGGCATATACTACC+AGG 0.641728 1:-76386597 MsG0180004320.01.T01:intron
TCAAACAGTACCTACTGCCA+AGG 0.650911 1:+76386183 None:intergenic
GCAGAAAGTTTAGCATAGTG+GGG 0.653495 1:+76386420 None:intergenic
AATGGAGTCCAAGCAAGATG+GGG 0.662049 1:-76385988 MsG0180004320.01.T01:CDS
TCCAAGCGAGGATCACACAT+GGG 0.674691 1:+76386208 None:intergenic
AAATTGACAAGACAAAGAAG+AGG 0.674846 1:+76386265 None:intergenic
TTGAGGGTCAGAAAATAACA+TGG 0.681160 1:-76386490 MsG0180004320.01.T01:CDS
AAGCGAGGATCACACATGGG+AGG 0.694517 1:+76386211 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATAATTAACATAATCAA+TGG + Chr1:76386035-76386054 None:intergenic 10.0%
!! ATGTTTAAGAAATTAGTATA+TGG + Chr1:76386290-76386309 None:intergenic 15.0%
!! TGTAATTGAATAACTAAATT+TGG + Chr1:76386259-76386278 None:intergenic 15.0%
!! AAAACATTTGTATCTGTTAA+AGG - Chr1:76385983-76386002 MsG0180004320.01.T01:CDS 20.0%
!! GTTTGATAAGAAAATTAATC+AGG + Chr1:76386491-76386510 None:intergenic 20.0%
!!! TAGTTCAGATTTTTCATTTT+GGG + Chr1:76386638-76386657 None:intergenic 20.0%
!!! TTAGTTCAGATTTTTCATTT+TGG + Chr1:76386639-76386658 None:intergenic 20.0%
! AAGTATTATTGCAGCATAAT+AGG + Chr1:76385882-76385901 None:intergenic 25.0%
! ATTAGTTGAATCTAAGCAAA+TGG - Chr1:76386588-76386607 MsG0180004320.01.T01:intron 25.0%
! GCATTGTCAAGATATTTAAA+TGG - Chr1:76386526-76386545 MsG0180004320.01.T01:intron 25.0%
! TCAAATTAATGGAATGATAG+AGG + Chr1:76386358-76386377 None:intergenic 25.0%
! TTGCTTAGATTCAACTAATT+GGG + Chr1:76386587-76386606 None:intergenic 25.0%
! TTTGCTTAGATTCAACTAAT+TGG + Chr1:76386588-76386607 None:intergenic 25.0%
AAATTGACAAGACAAAGAAG+AGG + Chr1:76386332-76386351 None:intergenic 30.0%
ACATAATCAATGGCTACAAA+CGG + Chr1:76386025-76386044 None:intergenic 30.0%
ATTTATTACGTTGTTTGTGC+AGG - Chr1:76386075-76386094 MsG0180004320.01.T01:intron 30.0%
AAACTTTCTGCAACTCTATG+AGG - Chr1:76386186-76386205 MsG0180004320.01.T01:intron 35.0%
GGGAGGATACTTCAAATTAA+TGG + Chr1:76386369-76386388 None:intergenic 35.0%
TGCAGAAAGTTTAGCATAGT+GGG + Chr1:76386178-76386197 None:intergenic 35.0%
TTGAGGGTCAGAAAATAACA+TGG - Chr1:76386104-76386123 MsG0180004320.01.T01:intron 35.0%
TTGCAGAAAGTTTAGCATAG+TGG + Chr1:76386179-76386198 None:intergenic 35.0%
! TGTTAAAGGCATATACTACC+AGG - Chr1:76385997-76386016 MsG0180004320.01.T01:CDS 35.0%
AAATGGAGTCCAAGCAAGAT+GGG - Chr1:76386605-76386624 MsG0180004320.01.T01:CDS 40.0%
ACTTGAATTGCTGCAAAGCT+TGG - Chr1:76386457-76386476 MsG0180004320.01.T01:CDS 40.0%
AGAATTCAGTATAGCAGGTC+AGG + Chr1:76386557-76386576 None:intergenic 40.0%
CAACTTCCTTCTAATGAACC+TGG - Chr1:76386679-76386698 MsG0180004320.01.T01:CDS 40.0%
GCAGAAAGTTTAGCATAGTG+GGG + Chr1:76386177-76386196 None:intergenic 40.0%
GCTTCAGAATTCAGTATAGC+AGG + Chr1:76386562-76386581 None:intergenic 40.0%
! TGTCTGCCTATGTTCTAGAT+TGG - Chr1:76385916-76385935 MsG0180004320.01.T01:CDS 40.0%
!! CAGCTTGTTGAAAAAGTTGC+AGG - Chr1:76386712-76386731 MsG0180004320.01.T01:CDS 40.0%
AACTCCTCATTCATTGCAGC+AGG - Chr1:76386129-76386148 MsG0180004320.01.T01:intron 45.0%
AATGGAGTCCAAGCAAGATG+GGG - Chr1:76386606-76386625 MsG0180004320.01.T01:CDS 45.0%
ACAACCTGCTGCAATGAATG+AGG + Chr1:76386136-76386155 None:intergenic 45.0%
AGTGCACCAGGTTCATTAGA+AGG + Chr1:76386688-76386707 None:intergenic 45.0%
CAAATGGAGTCCAAGCAAGA+TGG - Chr1:76386604-76386623 MsG0180004320.01.T01:CDS 45.0%
GTTGAAAAAGTTGCAGGCGA+AGG - Chr1:76386718-76386737 MsG0180004320.01.T01:CDS 45.0%
TCAAACAGTACCTACTGCCA+AGG + Chr1:76386414-76386433 None:intergenic 45.0%
TTTGTGCAGGCTGAAGTTGA+GGG - Chr1:76386088-76386107 MsG0180004320.01.T01:intron 45.0%
! CATGCGCCAATCTAGAACAT+AGG + Chr1:76385925-76385944 None:intergenic 45.0%
! GTTCTAGATTGGCGCATGAA+TGG - Chr1:76385927-76385946 MsG0180004320.01.T01:CDS 45.0%
ACAAGCTGCATTAGTGCACC+AGG + Chr1:76386700-76386719 None:intergenic 50.0%
AGTGGGGATGTCAACATCCT+CGG + Chr1:76386161-76386180 None:intergenic 50.0%
CAATGGCTACAAACGGTACC+TGG + Chr1:76386018-76386037 None:intergenic 50.0%
GTTTGTGCAGGCTGAAGTTG+AGG - Chr1:76386087-76386106 MsG0180004320.01.T01:intron 50.0%
TCCAAGCGAGGATCACACAT+GGG + Chr1:76386389-76386408 None:intergenic 50.0%
AAGCGAGGATCACACATGGG+AGG + Chr1:76386386-76386405 None:intergenic 55.0%
AGTTGCAGGCGAAGGTGAAG+AGG - Chr1:76386726-76386745 MsG0180004320.01.T01:CDS 55.0%
ATTGCAGCAGGTTGTGTCCG+AGG - Chr1:76386141-76386160 MsG0180004320.01.T01:intron 55.0%
CATGTGTGATCCTCGCTTGG+AGG - Chr1:76386388-76386407 MsG0180004320.01.T01:intron 55.0%
CTCCAAGCGAGGATCACACA+TGG + Chr1:76386390-76386409 None:intergenic 55.0%
GGTTTGTGCCCCATCTTGCT+TGG + Chr1:76386617-76386636 None:intergenic 55.0%
TCCCATGTGTGATCCTCGCT+TGG - Chr1:76386385-76386404 MsG0180004320.01.T01:intron 55.0%
TGATCCTCGCTTGGAGGCCT+TGG - Chr1:76386394-76386413 MsG0180004320.01.T01:intron 60.0%
ACTGCCAAGGCCTCCAAGCG+AGG + Chr1:76386401-76386420 None:intergenic 65.0%
CGCTTGGAGGCCTTGGCAGT+AGG - Chr1:76386401-76386420 MsG0180004320.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 76385854 76386762 76385854 ID=MsG0180004320.01;Name=MsG0180004320.01
Chr1 mRNA 76385854 76386762 76385854 ID=MsG0180004320.01.T01;Parent=MsG0180004320.01;Name=MsG0180004320.01.T01;_AED=0.54;_eAED=0.54;_QI=0|0|0|1|1|1|4|0|183
Chr1 exon 76386598 76386762 76386598 ID=MsG0180004320.01.T01:exon:12646;Parent=MsG0180004320.01.T01
Chr1 exon 76386409 76386519 76386409 ID=MsG0180004320.01.T01:exon:12645;Parent=MsG0180004320.01.T01
Chr1 exon 76386194 76386287 76386194 ID=MsG0180004320.01.T01:exon:12644;Parent=MsG0180004320.01.T01
Chr1 exon 76385854 76386035 76385854 ID=MsG0180004320.01.T01:exon:12643;Parent=MsG0180004320.01.T01
Chr1 CDS 76386598 76386762 76386598 ID=MsG0180004320.01.T01:cds;Parent=MsG0180004320.01.T01
Chr1 CDS 76386409 76386519 76386409 ID=MsG0180004320.01.T01:cds;Parent=MsG0180004320.01.T01
Chr1 CDS 76386194 76386287 76386194 ID=MsG0180004320.01.T01:cds;Parent=MsG0180004320.01.T01
Chr1 CDS 76385854 76386035 76385854 ID=MsG0180004320.01.T01:cds;Parent=MsG0180004320.01.T01
Gene Sequence

>MsG0180004320.01.T01

ATGCATTTTAAAAACAAAAGTGCAACCTATTATGCTGCAATAATACTTATCTCATTTGTTATTGTCTGCCTATGTTCTAGATTGGCGCATGAATGGCAAGCATTCATATCTCATACTCACAAGTTAAGAAAAACATTTGTATCTGTTAAAGGCATATACTACCAGGCTGAAGTTGAGGGTCAGAAAATAACATGGTTAACTCCTCATTCATTGCAGCAGGTTGTGTCCGAGGATGTTGACATCCCCACTATGCTAAACTTTCTGCAACTCTATGAGCCTCTTCTTTGTCTTGTCAATTTTCACCTCTATCATTCCATTAATTTGAAGTATCCTCCCATGTGTGATCCTCGCTTGGAGGCCTTGGCAGTAGCTTCCCAATTAGTTGAATCTAAGCAAATGGAGTCCAAGCAAGATGGGGCACAAACCCAAAATGAAAAATCTGAACTAAGACTTGCTCAACTTCAACATCAACTTCCTTCTAATGAACCTGGTGCACTAATGCAGCTTGTTGAAAAAGTTGCAGGCGAAGGTGAAGAGGAATATGATCAATAG

Protein sequence

>MsG0180004320.01.T01

MHFKNKSATYYAAIILISFVIVCLCSRLAHEWQAFISHTHKLRKTFVSVKGIYYQAEVEGQKITWLTPHSLQQVVSEDVDIPTMLNFLQLYEPLLCLVNFHLYHSINLKYPPMCDPRLEALAVASQLVESKQMESKQDGAQTQNEKSELRLAQLQHQLPSNEPGALMQLVEKVAGEGEEEYDQ*