AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036677.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036677.01.T01 MTR_4g051110 94.419 215 12 0 1 215 13 227 7.49e-152 424
MsG0780036677.01.T01 MTR_0002s0530 75.229 218 52 1 1 218 13 228 4.44e-118 348
MsG0780036677.01.T01 MTR_0002s0530 82.716 81 14 0 213 293 282 362 1.78e-39 144
MsG0780036677.01.T01 MTR_7g116690 76.279 215 25 2 1 215 13 201 2.11e-112 323
MsG0780036677.01.T01 MTR_4g051103 96.296 81 3 0 213 293 28 108 1.02e-47 160
MsG0780036677.01.T01 MTR_3g029550 79.747 79 11 1 215 293 4 77 2.39e-35 127
MsG0780036677.01.T01 MTR_4g046723 63.830 94 10 1 1 94 13 82 1.12e-31 119
MsG0780036677.01.T01 MTR_7g116680 66.667 81 3 1 213 293 102 158 8.07e-25 100
MsG0780036677.01.T01 MTR_3g029540 93.023 43 3 0 159 201 44 86 4.65e-23 90.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036677.01.T01 ATCG00160 86.977 215 28 0 1 215 13 227 1.81e-137 388
MsG0780036677.01.T01 ATCG00150 87.654 81 10 0 213 293 32 112 8.98e-43 147

Find 49 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTCACTTGGAAACATATC+TGG 0.218342 7:+11748291 MsG0780036677.01.T01:CDS
GGTATGTGGGTTCCGTTTAT+TGG 0.228686 7:+11749088 MsG0780036677.01.T01:CDS
TTACGCTTTGACGATATAAA+AGG 0.253181 7:-11747953 None:intergenic
ATGGAAGCTAGAGTTCATTT+TGG 0.305753 7:+11747896 MsG0780036677.01.T01:CDS
CTCAAGTACTTATTACCTCT+TGG 0.341108 7:+11748924 MsG0780036677.01.T01:CDS
ATCAACGATTATTACAATAT+CGG 0.341941 7:-11748341 None:intergenic
TTTATCAGAAGCTTGTGATT+TGG 0.358806 7:+11748015 MsG0780036677.01.T01:CDS
ATCGAAATATCTGCTAGATC+TGG 0.363586 7:-11748445 None:intergenic
TTAATTTGTTAAGAATTAAT+CGG 0.369424 7:-11748498 None:intergenic
ACTCAGATTGGAGAAGAATA+TGG 0.386831 7:+11749067 MsG0780036677.01.T01:CDS
CTTCGAGAATGTATCACTTT+GGG 0.388824 7:+11748385 MsG0780036677.01.T01:CDS
GGAAAACAATTCTTAATTGT+TGG 0.390734 7:+11748058 MsG0780036677.01.T01:CDS
AAACGAGACTTCGTAAGTTC+AGG 0.412190 7:+11748191 MsG0780036677.01.T01:CDS
TCAAGTACTTATTACCTCTT+GGG 0.428139 7:+11748925 MsG0780036677.01.T01:CDS
TGATCAGCAAGAAGAATATA+CGG 0.437056 7:+11748360 MsG0780036677.01.T01:CDS
AGAAACAAAGTTCCAATAAA+CGG 0.439134 7:-11749100 None:intergenic
TCGGAGGTATGTTAACGAAT+TGG 0.448395 7:+11748158 MsG0780036677.01.T01:CDS
CCGGACGTTGGAATAGTTTG+CGG 0.455395 7:-11748995 None:intergenic
TTGGCCATGATACTCGGAAA+TGG 0.459897 7:+11747915 MsG0780036677.01.T01:CDS
CAAGAGACAATTATCTCACT+TGG 0.471868 7:+11748279 MsG0780036677.01.T01:CDS
TCACGTCTCGGATGAATTCA+AGG 0.477047 7:-11749039 None:intergenic
TCTTCGAGAATGTATCACTT+TGG 0.477646 7:+11748384 MsG0780036677.01.T01:CDS
AACGAGACTTCGTAAGTTCA+GGG 0.478021 7:+11748192 MsG0780036677.01.T01:CDS
TCAACGATTATTACAATATC+GGG 0.480431 7:-11748340 None:intergenic
TTGAGAACGGAGCAAAAGAC+AGG 0.482432 7:+11748217 MsG0780036677.01.T01:CDS
ATATCTATTAAACAAATCGT+TGG 0.487363 7:-11748412 None:intergenic
GATTCCATTTCCGAGTATCA+TGG 0.488914 7:-11747919 None:intergenic
GACGTGAGCAAAACTCAGAT+TGG 0.510359 7:+11749055 MsG0780036677.01.T01:CDS
GCTATAGCATCATCATTAGC+TGG 0.518853 7:-11748469 None:intergenic
TTGGAGAAGAATATGGTATG+TGG 0.520190 7:+11749074 MsG0780036677.01.T01:CDS
TCGAAATATCTGCTAGATCT+GGG 0.525094 7:-11748444 None:intergenic
TTTATATCGTCAAAGCGTAA+AGG 0.525214 7:+11747956 MsG0780036677.01.T01:CDS
CCGCAAACTATTCCAACGTC+CGG 0.541897 7:+11748995 MsG0780036677.01.T01:CDS
AAGAAATTCTGACCGGACGT+TGG 0.546490 7:-11749007 None:intergenic
TGGAGAAGAATATGGTATGT+GGG 0.551328 7:+11749075 MsG0780036677.01.T01:CDS
GATATAAAAGGTGCCATTCG+AGG 0.557846 7:-11747941 None:intergenic
TCTCACTTGGAAACATATCT+GGG 0.573571 7:+11748292 MsG0780036677.01.T01:CDS
GGGTGGCATAAAATATATGA+CGG 0.585418 7:+11748312 MsG0780036677.01.T01:CDS
TAAGTTCAGGGACTTGAGAA+CGG 0.589134 7:+11748204 MsG0780036677.01.T01:CDS
AGCAGCTGATTCAGTAACAC+GGG 0.599835 7:+11748093 MsG0780036677.01.T01:CDS
GGTGGCATAAAATATATGAC+GGG 0.610359 7:+11748313 MsG0780036677.01.T01:CDS
ATATTCAAAGAAATTCTGAC+CGG 0.632509 7:-11749014 None:intergenic
TCGGAAATGGAATCCTCGAA+TGG 0.635386 7:+11747928 MsG0780036677.01.T01:CDS
AAGCAGCTGATTCAGTAACA+CGG 0.651030 7:+11748092 MsG0780036677.01.T01:CDS
GATAGCAATTACAACCCAAG+AGG 0.659110 7:-11748939 None:intergenic
TGAGAACGGAGCAAAAGACA+GGG 0.670658 7:+11748218 MsG0780036677.01.T01:CDS
CACTTGGAAACATATCTGGG+TGG 0.689077 7:+11748295 MsG0780036677.01.T01:CDS
GTGGCATAAAATATATGACG+GGG 0.737363 7:+11748314 MsG0780036677.01.T01:CDS
TAATTGTCTCTTGAACATAG+CGG 0.783646 7:-11748269 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATATATATATACTTGAAA+GGG - Chr7:11748742-11748761 None:intergenic 10.0%
!! TATATATATATATACTTGAA+AGG - Chr7:11748743-11748762 None:intergenic 10.0%
!!! GATAAATAAATTTTTAGATT+TGG + Chr7:11748578-11748597 MsG0780036677.01.T01:intron 10.0%
!!! TTAATTTGTTAAGAATTAAT+CGG - Chr7:11748501-11748520 None:intergenic 10.0%
!! GTCATTATGTTAATAAAAAA+TGG + Chr7:11748134-11748153 MsG0780036677.01.T01:CDS 15.0%
!!! AATAAATTTTTAGATTTGGT+TGG + Chr7:11748582-11748601 MsG0780036677.01.T01:intron 15.0%
!!! ATAAATATTTTGTGATTAGT+AGG + Chr7:11748658-11748677 MsG0780036677.01.T01:intron 15.0%
!!! ATAAATTTTTAGATTTGGTT+GGG + Chr7:11748583-11748602 MsG0780036677.01.T01:intron 15.0%
!!! TATTTATTTTTGTTTCGAAT+TGG + Chr7:11749122-11749141 MsG0780036677.01.T01:CDS 15.0%
!! ATATCTATTAAACAAATCGT+TGG - Chr7:11748415-11748434 None:intergenic 20.0%
!! ATCAACGATTATTACAATAT+CGG - Chr7:11748344-11748363 None:intergenic 20.0%
!! TATGTTAATAAAAAATGGCT+CGG + Chr7:11748139-11748158 MsG0780036677.01.T01:CDS 20.0%
!!! ATTAATTTTTGCAATTTGTG+AGG + Chr7:11748516-11748535 MsG0780036677.01.T01:intron 20.0%
!!! TTAATTTTTGCAATTTGTGA+GGG + Chr7:11748517-11748536 MsG0780036677.01.T01:intron 20.0%
! AACATTTCTATTGGCAAATA+GGG + Chr7:11748885-11748904 MsG0780036677.01.T01:intron 25.0%
! AAGGAAATGAAAGTCAAATA+AGG + Chr7:11748694-11748713 MsG0780036677.01.T01:intron 25.0%
! AGAAACAAAGTTCCAATAAA+CGG - Chr7:11749103-11749122 None:intergenic 25.0%
! AGTAGGTATTCAAATAGAAA+AGG + Chr7:11748675-11748694 MsG0780036677.01.T01:intron 25.0%
! ATATATATATATAGAGGGCA+GGG + Chr7:11748788-11748807 MsG0780036677.01.T01:intron 25.0%
! ATATTCAAAGAAATTCTGAC+CGG - Chr7:11749017-11749036 None:intergenic 25.0%
! ATGAAAGTCAAATAAGGAAA+TGG + Chr7:11748700-11748719 MsG0780036677.01.T01:intron 25.0%
! GGAAAACAATTCTTAATTGT+TGG + Chr7:11748058-11748077 MsG0780036677.01.T01:CDS 25.0%
! TATATATATATATAGAGGGC+AGG + Chr7:11748787-11748806 MsG0780036677.01.T01:intron 25.0%
! TCAACGATTATTACAATATC+GGG - Chr7:11748343-11748362 None:intergenic 25.0%
AAGTAGGTCAACATTTCTAT+TGG + Chr7:11748876-11748895 MsG0780036677.01.T01:intron 30.0%
ACATTTCTATTGGCAAATAG+GGG + Chr7:11748886-11748905 MsG0780036677.01.T01:intron 30.0%
CAACATTTCTATTGGCAAAT+AGG + Chr7:11748884-11748903 MsG0780036677.01.T01:intron 30.0%
TAATTGTCTCTTGAACATAG+CGG - Chr7:11748272-11748291 None:intergenic 30.0%
TCAAGTACTTATTACCTCTT+GGG + Chr7:11748925-11748944 MsG0780036677.01.T01:CDS 30.0%
TGATCAGCAAGAAGAATATA+CGG + Chr7:11748360-11748379 MsG0780036677.01.T01:CDS 30.0%
TTACGCTTTGACGATATAAA+AGG - Chr7:11747956-11747975 None:intergenic 30.0%
TTTATATCGTCAAAGCGTAA+AGG + Chr7:11747956-11747975 MsG0780036677.01.T01:CDS 30.0%
TTTATCAGAAGCTTGTGATT+TGG + Chr7:11748015-11748034 MsG0780036677.01.T01:CDS 30.0%
! CGGATTTCTAAAAACTAGAA+TGG - Chr7:11748978-11748997 None:intergenic 30.0%
!! AATTTTTAGATTTGGTTGGG+CGG + Chr7:11748586-11748605 MsG0780036677.01.T01:intron 30.0%
ACTCAGATTGGAGAAGAATA+TGG + Chr7:11749067-11749086 MsG0780036677.01.T01:CDS 35.0%
ATCGAAATATCTGCTAGATC+TGG - Chr7:11748448-11748467 None:intergenic 35.0%
ATCTCACTTGGAAACATATC+TGG + Chr7:11748291-11748310 MsG0780036677.01.T01:CDS 35.0%
CAAGAGACAATTATCTCACT+TGG + Chr7:11748279-11748298 MsG0780036677.01.T01:CDS 35.0%
CGGTCATAGATTTATGGAAT+CGG + Chr7:11748606-11748625 MsG0780036677.01.T01:intron 35.0%
CTCAAGTACTTATTACCTCT+TGG + Chr7:11748924-11748943 MsG0780036677.01.T01:CDS 35.0%
CTTCGAGAATGTATCACTTT+GGG + Chr7:11748385-11748404 MsG0780036677.01.T01:CDS 35.0%
GGGTGGCATAAAATATATGA+CGG + Chr7:11748312-11748331 MsG0780036677.01.T01:CDS 35.0%
GGTGGCATAAAATATATGAC+GGG + Chr7:11748313-11748332 MsG0780036677.01.T01:CDS 35.0%
GTGGCATAAAATATATGACG+GGG + Chr7:11748314-11748333 MsG0780036677.01.T01:CDS 35.0%
TCGAAATATCTGCTAGATCT+GGG - Chr7:11748447-11748466 None:intergenic 35.0%
TCTCACTTGGAAACATATCT+GGG + Chr7:11748292-11748311 MsG0780036677.01.T01:CDS 35.0%
TCTTCGAGAATGTATCACTT+TGG + Chr7:11748384-11748403 MsG0780036677.01.T01:CDS 35.0%
TGGAGAAGAATATGGTATGT+GGG + Chr7:11749075-11749094 MsG0780036677.01.T01:CDS 35.0%
TTGGAGAAGAATATGGTATG+TGG + Chr7:11749074-11749093 MsG0780036677.01.T01:CDS 35.0%
! ATGGAAGCTAGAGTTCATTT+TGG + Chr7:11747896-11747915 MsG0780036677.01.T01:CDS 35.0%
! GTTAATAAAAAATGGCTCGG+AGG + Chr7:11748142-11748161 MsG0780036677.01.T01:CDS 35.0%
!! TTCATTTTGGCCATGATACT+CGG + Chr7:11747909-11747928 MsG0780036677.01.T01:CDS 35.0%
AAACGAGACTTCGTAAGTTC+AGG + Chr7:11748191-11748210 MsG0780036677.01.T01:CDS 40.0%
AACGAGACTTCGTAAGTTCA+GGG + Chr7:11748192-11748211 MsG0780036677.01.T01:CDS 40.0%
GATAGCAATTACAACCCAAG+AGG - Chr7:11748942-11748961 None:intergenic 40.0%
GATATATCTGCTGTCGAAGT+AGG + Chr7:11748860-11748879 MsG0780036677.01.T01:intron 40.0%
GATTCCATTTCCGAGTATCA+TGG - Chr7:11747922-11747941 None:intergenic 40.0%
GCTATAGCATCATCATTAGC+TGG - Chr7:11748472-11748491 None:intergenic 40.0%
TAAGTTCAGGGACTTGAGAA+CGG + Chr7:11748204-11748223 MsG0780036677.01.T01:CDS 40.0%
! AACATAGCGGCATCTCTTTT+TGG - Chr7:11748259-11748278 None:intergenic 40.0%
! AAGCAGCTGATTCAGTAACA+CGG + Chr7:11748092-11748111 MsG0780036677.01.T01:CDS 40.0%
! GTTTTTGATGCAGCAAGCAT+GGG + Chr7:11748037-11748056 MsG0780036677.01.T01:CDS 40.0%
! TCGGAGGTATGTTAACGAAT+TGG + Chr7:11748158-11748177 MsG0780036677.01.T01:CDS 40.0%
!! GATATAAAAGGTGCCATTCG+AGG - Chr7:11747944-11747963 None:intergenic 40.0%
AAGAAATTCTGACCGGACGT+TGG - Chr7:11749010-11749029 None:intergenic 45.0%
CACTTGGAAACATATCTGGG+TGG + Chr7:11748295-11748314 MsG0780036677.01.T01:CDS 45.0%
GACGTGAGCAAAACTCAGAT+TGG + Chr7:11749055-11749074 MsG0780036677.01.T01:CDS 45.0%
GGTATGTGGGTTCCGTTTAT+TGG + Chr7:11749088-11749107 MsG0780036677.01.T01:CDS 45.0%
GTTGGGCGGTCATAGATTTA+TGG + Chr7:11748600-11748619 MsG0780036677.01.T01:intron 45.0%
TCACGTCTCGGATGAATTCA+AGG - Chr7:11749042-11749061 None:intergenic 45.0%
TCGGAAATGGAATCCTCGAA+TGG + Chr7:11747928-11747947 MsG0780036677.01.T01:CDS 45.0%
TGAGAACGGAGCAAAAGACA+GGG + Chr7:11748218-11748237 MsG0780036677.01.T01:CDS 45.0%
TTGAGAACGGAGCAAAAGAC+AGG + Chr7:11748217-11748236 MsG0780036677.01.T01:CDS 45.0%
TTGGCCATGATACTCGGAAA+TGG + Chr7:11747915-11747934 MsG0780036677.01.T01:CDS 45.0%
! AGCAGCTGATTCAGTAACAC+GGG + Chr7:11748093-11748112 MsG0780036677.01.T01:CDS 45.0%
! GGTTTTTGATGCAGCAAGCA+TGG + Chr7:11748036-11748055 MsG0780036677.01.T01:CDS 45.0%
! TCTGAGTTTTGCTCACGTCT+CGG - Chr7:11749054-11749073 None:intergenic 45.0%
!! ATATATATATATATATATAG+AGG + Chr7:11748782-11748801 MsG0780036677.01.T01:intron 5.0%
!! TATATATATATATATATAGA+GGG + Chr7:11748783-11748802 MsG0780036677.01.T01:intron 5.0%
CCGCAAACTATTCCAACGTC+CGG + Chr7:11748995-11749014 MsG0780036677.01.T01:CDS 50.0%
CCGGACGTTGGAATAGTTTG+CGG - Chr7:11748998-11749017 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 11747893 11749147 11747893 ID=MsG0780036677.01;Name=MsG0780036677.01
Chr7 mRNA 11747893 11749147 11747893 ID=MsG0780036677.01.T01;Parent=MsG0780036677.01;Name=MsG0780036677.01.T01;_AED=0.37;_eAED=0.37;_QI=0|0|0|1|1|1|2|0|293
Chr7 exon 11747893 11748532 11747893 ID=MsG0780036677.01.T01:exon:2183;Parent=MsG0780036677.01.T01
Chr7 exon 11748906 11749147 11748906 ID=MsG0780036677.01.T01:exon:2184;Parent=MsG0780036677.01.T01
Chr7 CDS 11747893 11748532 11747893 ID=MsG0780036677.01.T01:cds;Parent=MsG0780036677.01.T01
Chr7 CDS 11748906 11749147 11748906 ID=MsG0780036677.01.T01:cds;Parent=MsG0780036677.01.T01
Gene Sequence

>MsG0780036677.01.T01

ATGATGGAAGCTAGAGTTCATTTTGGCCATGATACTCGGAAATGGAATCCTCGAATGGCACCTTTTATATCGTCAAAGCGTAAAGGTATTCATATTACAAATCTTACTCGAACTGCTCGTTTTTTATCAGAAGCTTGTGATTTGGTTTTTGATGCAGCAAGCATGGGAAAACAATTCTTAATTGTTGGTACAAAAAAAAAAGCAGCTGATTCAGTAACACGGGCTGCAATAAGAGCTCGATGTCATTATGTTAATAAAAAATGGCTCGGAGGTATGTTAACGAATTGGTATACTACAGAAACGAGACTTCGTAAGTTCAGGGACTTGAGAACGGAGCAAAAGACAGGGAAACTGAACTCTCTTCCAAAAAGAGATGCCGCTATGTTCAAGAGACAATTATCTCACTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATAGATATAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAATTTTTGCAATTTGGGATTTTCAAGTGCATGCTCAAGTACTTATTACCTCTTGGGTTGTAATTGCTATCTTATTAATTTCAACCATTCTAGTTTTTAGAAATCCGCAAACTATTCCAACGTCCGGTCAGAATTTCTTTGAATATGTCCTTGAATTCATCCGAGACGTGAGCAAAACTCAGATTGGAGAAGAATATGGTATGTGGGTTCCGTTTATTGGAACTTTGTTTCTATTTATTTTTGTTTCGAATTGGTAA

Protein sequence

>MsG0780036677.01.T01

MMEARVHFGHDTRKWNPRMAPFISSKRKGIHITNLTRTARFLSEACDLVFDAASMGKQFLIVGTKKKAADSVTRAAIRARCHYVNKKWLGGMLTNWYTTETRLRKFRDLRTEQKTGKLNSLPKRDAAMFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDINCDPDLADISIPANDDAIASIRLILNKLIFAIWDFQVHAQVLITSWVVIAILLISTILVFRNPQTIPTSGQNFFEYVLEFIRDVSKTQIGEEYGMWVPFIGTLFLFIFVSNW*