AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012625.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012625.01.T01 MTR_3g028150 96.209 211 8 0 29 239 32 242 9.52e-138 387
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012625.01.T01 AT3G63540 77.536 138 31 0 101 238 3 140 2.04e-80 238

Find 48 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATATCTAACTTTCCTTTC+TGG 0.121727 3:-21466377 MsG0380012625.01.T01:CDS
TCTTTCTCTGTTCTCTTCTT+TGG 0.152693 3:+21466398 None:intergenic
GGTGGCGGAGGAGGAGAAAA+TGG 0.261123 3:+21466751 None:intergenic
AAACGTTCCTTCCAACCTTC+TGG 0.272048 3:+21466473 None:intergenic
AATATCTAACTTTCCTTTCT+GGG 0.289515 3:-21466376 MsG0380012625.01.T01:CDS
TTAATATCAAAAGTTGAAAA+AGG 0.291067 3:-21466452 MsG0380012625.01.T01:CDS
GGTGGTTGTTGTGGTGGTGC+TGG 0.347336 3:+21466730 None:intergenic
TATTATGTTTATGAGATTGA+TGG 0.386671 3:-21466224 MsG0380012625.01.T01:CDS
TATAGCTGCTGCTGCTGTTA+AGG 0.390254 3:+21466646 None:intergenic
GGTGGTTGTGGTGGTTGTTG+TGG 0.401207 3:+21466721 None:intergenic
GGTGGTGCTGGTGGCGGAGG+AGG 0.407598 3:+21466742 None:intergenic
CGAAGAAGTGAGAGATGATA+AGG 0.409889 3:-21466255 MsG0380012625.01.T01:CDS
CTTATCATCTCTCACTTCTT+CGG 0.410039 3:+21466256 None:intergenic
GCTGTTAAGGTGGTGGTTAG+AGG 0.417250 3:+21466659 None:intergenic
TGTTGTGGTGGTGCTGGTGG+CGG 0.427977 3:+21466736 None:intergenic
TTGTTCAAAACAGCATCTTT+TGG 0.430262 3:+21466338 None:intergenic
TGTGGTGGTGCTGGTGGCGG+AGG 0.431777 3:+21466739 None:intergenic
GGTTGTGGTGGTTGTTGTGG+TGG 0.455647 3:+21466724 None:intergenic
TGTGCCGTAGTAGAGATTGT+AGG 0.481893 3:+21466574 None:intergenic
GGGAGATGATTCTGCTGCTA+TGG 0.482398 3:+21466595 None:intergenic
TCTTTATTCCACTCAGGAGT+AGG 0.485770 3:+21466131 None:intergenic
GTGGCGGAGGAGGAGAAAAT+GGG 0.492073 3:+21466752 None:intergenic
GCAGCAAACTACGGCGGCTA+CGG 0.501712 3:-21466542 MsG0380012625.01.T01:CDS
TGATATGGTGGTGGTTGTGG+TGG 0.513282 3:+21466712 None:intergenic
AATTTGCAAGATATTATTAG+TGG 0.515902 3:-21466296 MsG0380012625.01.T01:CDS
TGCTGCTGCTGTTAAGGTGG+TGG 0.518372 3:+21466652 None:intergenic
TCCTTATCTTTATTCCACTC+AGG 0.519893 3:+21466125 None:intergenic
TTGTGTTTGAATGAGATAAG+AGG 0.520933 3:+21466686 None:intergenic
TCCTGAGTGGAATAAAGATA+AGG 0.526998 3:-21466126 MsG0380012625.01.T01:CDS
GGTTGTTGTGGTGGTGCTGG+TGG 0.546258 3:+21466733 None:intergenic
GTGCCGTAGTAGAGATTGTA+GGG 0.548540 3:+21466575 None:intergenic
GAAGAAGTGAGAGATGATAA+GGG 0.550435 3:-21466254 MsG0380012625.01.T01:CDS
AGGTGGTGATGTTGTCAGAA+TGG 0.556486 3:+21466619 None:intergenic
GCAGCAAGTGCAGCAAACTA+CGG 0.563093 3:-21466551 MsG0380012625.01.T01:CDS
TCTACGACGTTCCAGAAGGT+TGG 0.565732 3:-21466484 MsG0380012625.01.T01:CDS
AGCTGCTGCTGCTGTTAAGG+TGG 0.570466 3:+21466649 None:intergenic
GCAAACTACGGCGGCTACGG+CGG 0.573351 3:-21466539 MsG0380012625.01.T01:CDS
GATGATTCTGCTGCTATGGA+AGG 0.583786 3:+21466599 None:intergenic
CGACGTTCCAGAAGGTTGGA+AGG 0.585452 3:-21466480 MsG0380012625.01.T01:CDS
TCTCCCTACAATCTCTACTA+CGG 0.599583 3:-21466578 MsG0380012625.01.T01:CDS
GCAAGTGCAGCAAACTACGG+CGG 0.619443 3:-21466548 MsG0380012625.01.T01:CDS
TACATCTACGACGTTCCAGA+AGG 0.628307 3:-21466488 MsG0380012625.01.T01:CDS
CTAACTGACGAAACCCAGAA+AGG 0.634618 3:+21466363 None:intergenic
TTAATGCTCCTACTCCTGAG+TGG 0.644053 3:-21466139 MsG0380012625.01.T01:CDS
GCGGAGGAGGAGAAAATGGG+TGG 0.657192 3:+21466755 None:intergenic
GATTCTGCTGCTATGGAAGG+TGG 0.667537 3:+21466602 None:intergenic
TGGTGATGATGAGAAAATTG+TGG 0.684333 3:+21466775 None:intergenic
TGGTGATGTTGTCAGAATGG+TGG 0.721157 3:+21466622 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTTTTTGATATATATAATA+TGG - Chr3:21466752-21466771 MsG0380012625.01.T01:CDS 10.0%
!! TTAATATCAAAAGTTGAAAA+AGG - Chr3:21466346-21466365 MsG0380012625.01.T01:CDS 15.0%
!! AATTTGCAAGATATTATTAG+TGG - Chr3:21466502-21466521 MsG0380012625.01.T01:CDS 20.0%
!! TATTATGTTTATGAGATTGA+TGG - Chr3:21466574-21466593 MsG0380012625.01.T01:CDS 20.0%
!!! AATATGGTTTTGTTTAACAA+TGG - Chr3:21466768-21466787 MsG0380012625.01.T01:CDS 20.0%
! AATATCTAACTTTCCTTTCT+GGG - Chr3:21466422-21466441 MsG0380012625.01.T01:CDS 25.0%
!! AAAGTTGAAAAAGGTACAAA+TGG - Chr3:21466355-21466374 MsG0380012625.01.T01:CDS 25.0%
GAATATCTAACTTTCCTTTC+TGG - Chr3:21466421-21466440 MsG0380012625.01.T01:CDS 30.0%
TTGTGTTTGAATGAGATAAG+AGG + Chr3:21466115-21466134 None:intergenic 30.0%
! TTGTTCAAAACAGCATCTTT+TGG + Chr3:21466463-21466482 None:intergenic 30.0%
!! TGAGATAAGAGGTTTTGATA+TGG + Chr3:21466104-21466123 None:intergenic 30.0%
CTTATCATCTCTCACTTCTT+CGG + Chr3:21466545-21466564 None:intergenic 35.0%
GAAGAAGTGAGAGATGATAA+GGG - Chr3:21466544-21466563 MsG0380012625.01.T01:CDS 35.0%
TCCTGAGTGGAATAAAGATA+AGG - Chr3:21466672-21466691 MsG0380012625.01.T01:CDS 35.0%
TCCTTATCTTTATTCCACTC+AGG + Chr3:21466676-21466695 None:intergenic 35.0%
TCTTTCTCTGTTCTCTTCTT+TGG + Chr3:21466403-21466422 None:intergenic 35.0%
! TGGTGATGATGAGAAAATTG+TGG + Chr3:21466026-21466045 None:intergenic 35.0%
!! GATAAGAGGTTTTGATATGG+TGG + Chr3:21466101-21466120 None:intergenic 35.0%
CGAAGAAGTGAGAGATGATA+AGG - Chr3:21466543-21466562 MsG0380012625.01.T01:CDS 40.0%
TCTCCCTACAATCTCTACTA+CGG - Chr3:21466220-21466239 MsG0380012625.01.T01:CDS 40.0%
TCTTTATTCCACTCAGGAGT+AGG + Chr3:21466670-21466689 None:intergenic 40.0%
!! AAGAGGTTTTGATATGGTGG+TGG + Chr3:21466098-21466117 None:intergenic 40.0%
!!! TTTTGATATGGTGGTGGTTG+TGG + Chr3:21466092-21466111 None:intergenic 40.0%
AAACGTTCCTTCCAACCTTC+TGG + Chr3:21466328-21466347 None:intergenic 45.0%
CTAACTGACGAAACCCAGAA+AGG + Chr3:21466438-21466457 None:intergenic 45.0%
GATGATTCTGCTGCTATGGA+AGG + Chr3:21466202-21466221 None:intergenic 45.0%
GTGCCGTAGTAGAGATTGTA+GGG + Chr3:21466226-21466245 None:intergenic 45.0%
TACATCTACGACGTTCCAGA+AGG - Chr3:21466310-21466329 MsG0380012625.01.T01:CDS 45.0%
TATAGCTGCTGCTGCTGTTA+AGG + Chr3:21466155-21466174 None:intergenic 45.0%
TGTGCCGTAGTAGAGATTGT+AGG + Chr3:21466227-21466246 None:intergenic 45.0%
TTAATGCTCCTACTCCTGAG+TGG - Chr3:21466659-21466678 MsG0380012625.01.T01:CDS 45.0%
! AGGTGGTGATGTTGTCAGAA+TGG + Chr3:21466182-21466201 None:intergenic 45.0%
! TGGTGATGTTGTCAGAATGG+TGG + Chr3:21466179-21466198 None:intergenic 45.0%
GATTCTGCTGCTATGGAAGG+TGG + Chr3:21466199-21466218 None:intergenic 50.0%
GCAGCAAGTGCAGCAAACTA+CGG - Chr3:21466247-21466266 MsG0380012625.01.T01:CDS 50.0%
GGGAGATGATTCTGCTGCTA+TGG + Chr3:21466206-21466225 None:intergenic 50.0%
TCTACGACGTTCCAGAAGGT+TGG - Chr3:21466314-21466333 MsG0380012625.01.T01:CDS 50.0%
! GCTGTTAAGGTGGTGGTTAG+AGG + Chr3:21466142-21466161 None:intergenic 50.0%
!! TGATATGGTGGTGGTTGTGG+TGG + Chr3:21466089-21466108 None:intergenic 50.0%
AGCTGCTGCTGCTGTTAAGG+TGG + Chr3:21466152-21466171 None:intergenic 55.0%
CGACGTTCCAGAAGGTTGGA+AGG - Chr3:21466318-21466337 MsG0380012625.01.T01:CDS 55.0%
GCAAGTGCAGCAAACTACGG+CGG - Chr3:21466250-21466269 MsG0380012625.01.T01:CDS 55.0%
GGTGGTTGTGGTGGTTGTTG+TGG + Chr3:21466080-21466099 None:intergenic 55.0%
GGTTGTGGTGGTTGTTGTGG+TGG + Chr3:21466077-21466096 None:intergenic 55.0%
TGCTGCTGCTGTTAAGGTGG+TGG + Chr3:21466149-21466168 None:intergenic 55.0%
! GTGGCGGAGGAGGAGAAAAT+GGG + Chr3:21466049-21466068 None:intergenic 55.0%
GCAGCAAACTACGGCGGCTA+CGG - Chr3:21466256-21466275 MsG0380012625.01.T01:CDS 60.0%
GCGGAGGAGGAGAAAATGGG+TGG + Chr3:21466046-21466065 None:intergenic 60.0%
! GGTGGTTGTTGTGGTGGTGC+TGG + Chr3:21466071-21466090 None:intergenic 60.0%
! GGTTGTTGTGGTGGTGCTGG+TGG + Chr3:21466068-21466087 None:intergenic 60.0%
!! GGTGGCGGAGGAGGAGAAAA+TGG + Chr3:21466050-21466069 None:intergenic 60.0%
!! TGTTGTGGTGGTGCTGGTGG+CGG + Chr3:21466065-21466084 None:intergenic 60.0%
GCAAACTACGGCGGCTACGG+CGG - Chr3:21466259-21466278 MsG0380012625.01.T01:CDS 65.0%
!! TGTGGTGGTGCTGGTGGCGG+AGG + Chr3:21466062-21466081 None:intergenic 70.0%
!! GGTGGTGCTGGTGGCGGAGG+AGG + Chr3:21466059-21466078 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr3 gene 21466019 21466801 21466019 ID=MsG0380012625.01;Name=MsG0380012625.01
Chr3 mRNA 21466019 21466801 21466019 ID=MsG0380012625.01.T01;Parent=MsG0380012625.01;Name=MsG0380012625.01.T01;_AED=0.12;_eAED=0.12;_QI=0|-1|0|1|-1|1|1|0|260
Chr3 exon 21466019 21466801 21466019 ID=MsG0380012625.01.T01:exon:7954;Parent=MsG0380012625.01.T01
Chr3 CDS 21466019 21466801 21466019 ID=MsG0380012625.01.T01:cds;Parent=MsG0380012625.01.T01
Gene Sequence

>MsG0380012625.01.T01

ATGGCCACAATTTTCTCATCATCACCACCCATTTTCTCCTCCTCCGCCACCAGCACCACCACAACAACCACCACAACCACCACCATATCAAAACCTCTTATCTCATTCAAACACAAACAACCTCTAACCACCACCTTAACAGCAGCAGCAGCTATAGCCACCATTCTGACAACATCACCACCTTCCATAGCAGCAGAATCATCTCCCTACAATCTCTACTACGGCACAGCAGCAAGTGCAGCAAACTACGGCGGCTACGGCGGAAACTCAAACAAGAAAGACTCAGCAGAATACATCTACGACGTTCCAGAAGGTTGGAAGGAACGTTTAATATCAAAAGTTGAAAAAGGTACAAATGGAACAGACAGTGAATTCTACAATCCAAAGAAGAGAACAGAGAAAGAATATCTAACTTTCCTTTCTGGGTTTCGTCAGTTAGCACCAAAAGATGCTGTTTTGAACAACTTAGCACTTTCTGATGTGAATTTGCAAGATATTATTAGTGGTGCTGATAATGTGAGTTCCGAAGAAGTGAGAGATGATAAGGGTCAAGTTTATTATGTTTATGAGATTGATGGCGTTGCTTATCATAGCTTGATTTCTGTTACTTGTGCTAATAATAAGCTTTATGCTCATTTTGTTAATGCTCCTACTCCTGAGTGGAATAAAGATAAGGATCTTCTCACTCATGTTCATAAGTCTTTTAAGACTTGTATAATTTTAGTTTGCTATGTGTTTTTGATATATATAATATGGTTTTGTTTAACAATGGATATTCTATGA

Protein sequence

>MsG0380012625.01.T01

MATIFSSSPPIFSSSATSTTTTTTTTTTISKPLISFKHKQPLTTTLTAAAAIATILTTSPPSIAAESSPYNLYYGTAASAANYGGYGGNSNKKDSAEYIYDVPEGWKERLISKVEKGTNGTDSEFYNPKKRTEKEYLTFLSGFRQLAPKDAVLNNLALSDVNLQDIISGADNVSSEEVRDDKGQVYYVYEIDGVAYHSLISVTCANNKLYAHFVNAPTPEWNKDKDLLTHVHKSFKTCIILVCYVFLIYIIWFCLTMDIL*