AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021307.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021307.01.T01 MTR_4g071230 85.062 241 20 4 1 237 1 229 4.08e-140 402
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021307.01.T01 AT2G21370 66.279 172 58 0 66 237 53 224 1.90e-81 249
MsG0480021307.01.T01 AT2G21370 66.279 172 58 0 66 237 53 224 5.46e-81 250
MsG0480021307.01.T01 AT2G21370 69.767 129 39 0 109 237 3 131 4.35e-62 197
MsG0480021307.01.T01 AT2G21370 69.767 129 39 0 109 237 3 131 9.68e-62 198

Find 62 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGCAGAATGTTCCTGAAAA+TGG 0.227014 4:+56566884 MsG0480021307.01.T01:five_prime_UTR
AGAGACATTGATACTGTTCT+TGG 0.256310 4:-56567205 None:intergenic
CCTGAAGTTCCCTTATCCTT+TGG 0.278580 4:+56566952 MsG0480021307.01.T01:five_prime_UTR
GGGTTGGACTTTGGCACTTC+CGG 0.317976 4:+56567283 MsG0480021307.01.T01:CDS
CTGAAGTTCCCTTATCCTTT+GGG 0.319442 4:+56566953 MsG0480021307.01.T01:five_prime_UTR
TCTTATCTTCCCAAAGGATA+AGG 0.357228 4:-56566962 None:intergenic
ATTGTGTCGATTTCTATTGA+TGG 0.365963 4:+56567591 MsG0480021307.01.T01:CDS
ATATGTGAAAGATGTTAAAA+TGG 0.372712 4:-56567024 None:intergenic
CTTATCTTCCCAAAGGATAA+GGG 0.378527 4:-56566961 None:intergenic
CCAAAGGATAAGGGAACTTC+AGG 0.380729 4:-56566952 None:intergenic
CCTTTGGGAAGATAAGAAAA+TGG 0.381391 4:+56566968 MsG0480021307.01.T01:exon
AGTTAAAGTGTAAGAATGTA+AGG 0.382126 4:+56566862 MsG0480021307.01.T01:five_prime_UTR
TGGCTTCTTCATGGAAAGCT+TGG 0.398484 4:+56568120 MsG0480021307.01.T01:CDS
CAACTACTATCGTTGTTGAT+AGG 0.405604 4:+56567622 MsG0480021307.01.T01:CDS
CGCAGAATGTTCCTGAAAAT+GGG 0.417963 4:+56566885 MsG0480021307.01.T01:five_prime_UTR
GATGTTAAAATGGTGCTTGC+TGG 0.419025 4:-56567014 None:intergenic
GGAAACAGGTTATTACTGTT+AGG 0.425830 4:+56567175 MsG0480021307.01.T01:intron
TGGTGGTAAAGTTGCGGACT+GGG 0.426221 4:-56566921 None:intergenic
GCAGAGCATACTGTATGGTT+TGG 0.432761 4:-56568003 None:intergenic
GGGAACTTCAGGAACAATAA+TGG 0.440452 4:-56566941 None:intergenic
TTTACAGCAGGTAGTGCATC+AGG 0.446244 4:-56567967 None:intergenic
CTGTATCTCGGGTTGGACTT+TGG 0.462776 4:+56567274 MsG0480021307.01.T01:CDS
TGTTATTGCACCAAGCAGAT+TGG 0.463073 4:+56568091 MsG0480021307.01.T01:CDS
GAATGGAGAGTCACATGATT+GGG 0.467158 4:+56567503 MsG0480021307.01.T01:intron
GCCACAAAAGCCAATCTGCT+TGG 0.490266 4:-56568101 None:intergenic
CAGGTGAAAGGCTGTATCTC+GGG 0.490454 4:+56567263 MsG0480021307.01.T01:CDS
AGAATGGAGAGTCACATGAT+TGG 0.492505 4:+56567502 MsG0480021307.01.T01:intron
CAACTCTCATTGTAAAGTAA+AGG 0.495280 4:-56567943 None:intergenic
ATGTGTTTGCGAAGGTTAAG+TGG 0.500385 4:-56567570 None:intergenic
TTCACATATAGTCGAAAACT+TGG 0.512881 4:+56567038 MsG0480021307.01.T01:CDS
GCAGGTGAAAGGCTGTATCT+CGG 0.519687 4:+56567262 MsG0480021307.01.T01:CDS
TTCACATATAGTCGAAAACT+TGG 0.524990 4:+56567068 MsG0480021307.01.T01:CDS
TTTGCTATCATTGACATTGG+TGG 0.527618 4:+56567313 MsG0480021307.01.T01:CDS
TAAAATGGTGCTTGCTGGGT+GGG 0.528829 4:-56567009 None:intergenic
ATGGTGGTAAAGTTGCGGAC+TGG 0.536305 4:-56566922 None:intergenic
AGATTATAATAATGCTCTGA+AGG 0.544841 4:+56568149 MsG0480021307.01.T01:CDS
TGATACCGAGTATAGCGGAT+AGG 0.556996 4:-56567362 None:intergenic
ATGTTAAAATGGTGCTTGCT+GGG 0.557496 4:-56567013 None:intergenic
CACATGATTGGGTACGCTCG+TGG 0.559882 4:+56567514 MsG0480021307.01.T01:CDS
GATACCGAGTATAGCGGATA+GGG 0.560278 4:-56567361 None:intergenic
TGAAAGGCTGTATCTCGGGT+TGG 0.578609 4:+56567267 MsG0480021307.01.T01:CDS
GTAGTATGGGAGCAGGTGAA+AGG 0.582363 4:+56567251 MsG0480021307.01.T01:CDS
CTCTGTGTAAGCTCGTGTCA+TGG 0.583558 4:+56568034 MsG0480021307.01.T01:CDS
TGGGAAGATAAGAAAATGGT+AGG 0.584118 4:+56566972 MsG0480021307.01.T01:exon
GAGCATACTGTATGGTTTGG+AGG 0.585331 4:-56568000 None:intergenic
AGATTTGCTATCATTGACAT+TGG 0.585612 4:+56567310 MsG0480021307.01.T01:CDS
TGTGTTTGCGAAGGTTAAGT+GGG 0.587553 4:-56567569 None:intergenic
TGTATGGTTTGGAGGTGCAA+TGG 0.588665 4:-56567992 None:intergenic
TTAAAATGGTGCTTGCTGGG+TGG 0.598985 4:-56567010 None:intergenic
ACGATGCAGAGCATACTGTA+TGG 0.600239 4:-56568008 None:intergenic
AATGATAGCAAATCTTGCAC+CGG 0.609625 4:-56567302 None:intergenic
CAATAATGGTGGTAAAGTTG+CGG 0.609824 4:-56566927 None:intergenic
GCGACCCTATCCGCTATACT+CGG 0.613065 4:+56567357 MsG0480021307.01.T01:CDS
ATGTTGTACTGCAGTGACAC+AGG 0.614244 4:+56567904 MsG0480021307.01.T01:intron
TCGACACAATGTGTTTGCGA+AGG 0.617735 4:-56567578 None:intergenic
GTGACACAGGAGAACCGTTG+TGG 0.635099 4:+56567917 MsG0480021307.01.T01:intron
GTGTCATGGTGGAATCGTGA+TGG 0.637856 4:+56568048 MsG0480021307.01.T01:CDS
GAAAATGATACCGAGTATAG+CGG 0.639931 4:-56567367 None:intergenic
TGGTGGCACAATTCAAGCAG+AGG 0.648456 4:+56567330 MsG0480021307.01.T01:CDS
TAAAGTAAAGGTCTCCACAA+CGG 0.675201 4:-56567931 None:intergenic
AACTTCAGGAACAATAATGG+TGG 0.680820 4:-56566938 None:intergenic
TGTGTAAGCTCGTGTCATGG+TGG 0.682794 4:+56568037 MsG0480021307.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATAACAAAAAAAGTAGTA+TGG + Chr4:56567237-56567256 MsG0480021307.01.T01:CDS 20.0%
!! AGTACAAAATATTGTCAAAT+TGG + Chr4:56567757-56567776 MsG0480021307.01.T01:intron 20.0%
!! ATATGTGAAAGATGTTAAAA+TGG - Chr4:56567027-56567046 None:intergenic 20.0%
!! GATAACAAAAAAAGTAGTAT+GGG + Chr4:56567238-56567257 MsG0480021307.01.T01:CDS 20.0%
!! GTACAAAATATTGTCAAATT+GGG + Chr4:56567758-56567777 MsG0480021307.01.T01:intron 20.0%
!! TACAAAATATTGTCAAATTG+GGG + Chr4:56567759-56567778 MsG0480021307.01.T01:intron 20.0%
! ACAAAAATATCAGCATACTT+TGG - Chr4:56567467-56567486 None:intergenic 25.0%
! AGATTATAATAATGCTCTGA+AGG + Chr4:56568149-56568168 MsG0480021307.01.T01:CDS 25.0%
! AGTTAAAGTGTAAGAATGTA+AGG + Chr4:56566862-56566881 MsG0480021307.01.T01:five_prime_UTR 25.0%
!! AAAAATGGTGTCAAAATAAG+TGG - Chr4:56567129-56567148 None:intergenic 25.0%
!! ATTGTATTTGAATTCTGAAG+TGG + Chr4:56567879-56567898 MsG0480021307.01.T01:intron 25.0%
!! GTAGCATGAAAGTATAAAAA+TGG - Chr4:56567144-56567163 None:intergenic 25.0%
!!! TTGTATTTGAATTCTGAAGT+GGG + Chr4:56567880-56567899 MsG0480021307.01.T01:intron 25.0%
CAACTCTCATTGTAAAGTAA+AGG - Chr4:56567946-56567965 None:intergenic 30.0%
CACTATTTAACAACACTGAT+TGG - Chr4:56567672-56567691 None:intergenic 30.0%
GTATCAATGTCTCTCAAAAA+CGG + Chr4:56567214-56567233 MsG0480021307.01.T01:CDS 30.0%
TTCACATATAGTCGAAAACT+TGG + Chr4:56567038-56567057 MsG0480021307.01.T01:CDS 30.0%
TTTCTCTTGTCTAGAAAGAA+TGG + Chr4:56567486-56567505 MsG0480021307.01.T01:intron 30.0%
! CAATCAGTGTTGTTAAATAG+TGG + Chr4:56567670-56567689 MsG0480021307.01.T01:intron 30.0%
! TACTTTTCTTATCAGGAAAC+AGG + Chr4:56567161-56567180 MsG0480021307.01.T01:intron 30.0%
!! AGATTTGCTATCATTGACAT+TGG + Chr4:56567310-56567329 MsG0480021307.01.T01:CDS 30.0%
!! ATTGTGTCGATTTCTATTGA+TGG + Chr4:56567591-56567610 MsG0480021307.01.T01:CDS 30.0%
!!! TTCATGCTACTTTTCTTATC+AGG + Chr4:56567154-56567173 MsG0480021307.01.T01:intron 30.0%
AAAAAAAGTAGTATGGGAGC+AGG + Chr4:56567244-56567263 MsG0480021307.01.T01:CDS 35.0%
AACTTCAGGAACAATAATGG+TGG - Chr4:56566941-56566960 None:intergenic 35.0%
AATGATAGCAAATCTTGCAC+CGG - Chr4:56567305-56567324 None:intergenic 35.0%
AGAGACATTGATACTGTTCT+TGG - Chr4:56567208-56567227 None:intergenic 35.0%
ATGTTAAAATGGTGCTTGCT+GGG - Chr4:56567016-56567035 None:intergenic 35.0%
CAACTACTATCGTTGTTGAT+AGG + Chr4:56567622-56567641 MsG0480021307.01.T01:CDS 35.0%
CAATAATGGTGGTAAAGTTG+CGG - Chr4:56566930-56566949 None:intergenic 35.0%
CTTATCTTCCCAAAGGATAA+GGG - Chr4:56566964-56566983 None:intergenic 35.0%
GAAAATGATACCGAGTATAG+CGG - Chr4:56567370-56567389 None:intergenic 35.0%
GGAAACAGGTTATTACTGTT+AGG + Chr4:56567175-56567194 MsG0480021307.01.T01:intron 35.0%
TAAAGTAAAGGTCTCCACAA+CGG - Chr4:56567934-56567953 None:intergenic 35.0%
TCTTATCTTCCCAAAGGATA+AGG - Chr4:56566965-56566984 None:intergenic 35.0%
TGGGAAGATAAGAAAATGGT+AGG + Chr4:56566972-56566991 MsG0480021307.01.T01:exon 35.0%
! CCATTTTCTTATCTTCCCAA+AGG - Chr4:56566971-56566990 None:intergenic 35.0%
! CCTTTGGGAAGATAAGAAAA+TGG + Chr4:56566968-56566987 MsG0480021307.01.T01:exon 35.0%
! GTGTTGTTAAATAGTGGCTA+TGG + Chr4:56567676-56567695 MsG0480021307.01.T01:intron 35.0%
! TTTGCTATCATTGACATTGG+TGG + Chr4:56567313-56567332 MsG0480021307.01.T01:CDS 35.0%
AGAATGGAGAGTCACATGAT+TGG + Chr4:56567502-56567521 MsG0480021307.01.T01:intron 40.0%
ATGTGTTTGCGAAGGTTAAG+TGG - Chr4:56567573-56567592 None:intergenic 40.0%
CGCAGAATGTTCCTGAAAAT+GGG + Chr4:56566885-56566904 MsG0480021307.01.T01:five_prime_UTR 40.0%
CTGAAGTTCCCTTATCCTTT+GGG + Chr4:56566953-56566972 MsG0480021307.01.T01:five_prime_UTR 40.0%
GAATGGAGAGTCACATGATT+GGG + Chr4:56567503-56567522 MsG0480021307.01.T01:intron 40.0%
GATGTTAAAATGGTGCTTGC+TGG - Chr4:56567017-56567036 None:intergenic 40.0%
GGGAACTTCAGGAACAATAA+TGG - Chr4:56566944-56566963 None:intergenic 40.0%
TGTGTTTGCGAAGGTTAAGT+GGG - Chr4:56567572-56567591 None:intergenic 40.0%
TGTTATTGCACCAAGCAGAT+TGG + Chr4:56568091-56568110 MsG0480021307.01.T01:CDS 40.0%
! CGAAAAAAGGTCCCATTTTC+AGG - Chr4:56566899-56566918 None:intergenic 40.0%
ACGATGCAGAGCATACTGTA+TGG - Chr4:56568011-56568030 None:intergenic 45.0%
ATGTTGTACTGCAGTGACAC+AGG + Chr4:56567904-56567923 MsG0480021307.01.T01:intron 45.0%
CCAAAGGATAAGGGAACTTC+AGG - Chr4:56566955-56566974 None:intergenic 45.0%
CCTGAAGTTCCCTTATCCTT+TGG + Chr4:56566952-56566971 MsG0480021307.01.T01:five_prime_UTR 45.0%
GCAGAGCATACTGTATGGTT+TGG - Chr4:56568006-56568025 None:intergenic 45.0%
GCGCAGAATGTTCCTGAAAA+TGG + Chr4:56566884-56566903 MsG0480021307.01.T01:five_prime_UTR 45.0%
TCGACACAATGTGTTTGCGA+AGG - Chr4:56567581-56567600 None:intergenic 45.0%
TGGCTTCTTCATGGAAAGCT+TGG + Chr4:56568120-56568139 MsG0480021307.01.T01:CDS 45.0%
TTTACAGCAGGTAGTGCATC+AGG - Chr4:56567970-56567989 None:intergenic 45.0%
! GAGCATACTGTATGGTTTGG+AGG - Chr4:56568003-56568022 None:intergenic 45.0%
! TAAAATGGTGCTTGCTGGGT+GGG - Chr4:56567012-56567031 None:intergenic 45.0%
! TGGCTTTTGTGGCTTCTTCA+TGG + Chr4:56568111-56568130 MsG0480021307.01.T01:CDS 45.0%
! TGTATGGTTTGGAGGTGCAA+TGG - Chr4:56567995-56568014 None:intergenic 45.0%
! TTAAAATGGTGCTTGCTGGG+TGG - Chr4:56567013-56567032 None:intergenic 45.0%
!! GATACCGAGTATAGCGGATA+GGG - Chr4:56567364-56567383 None:intergenic 45.0%
!! GGTGCAATGGATTTTACAGC+AGG - Chr4:56567982-56568001 None:intergenic 45.0%
!! TGATACCGAGTATAGCGGAT+AGG - Chr4:56567365-56567384 None:intergenic 45.0%
!!! ACCAAGCAGATTGGCTTTTG+TGG + Chr4:56568100-56568119 MsG0480021307.01.T01:CDS 45.0%
ATGGTGGTAAAGTTGCGGAC+TGG - Chr4:56566925-56566944 None:intergenic 50.0%
CAGGTGAAAGGCTGTATCTC+GGG + Chr4:56567263-56567282 MsG0480021307.01.T01:CDS 50.0%
CTCTGTGTAAGCTCGTGTCA+TGG + Chr4:56568034-56568053 MsG0480021307.01.T01:CDS 50.0%
GCAGGTGAAAGGCTGTATCT+CGG + Chr4:56567262-56567281 MsG0480021307.01.T01:CDS 50.0%
GCCACAAAAGCCAATCTGCT+TGG - Chr4:56568104-56568123 None:intergenic 50.0%
GTAGTATGGGAGCAGGTGAA+AGG + Chr4:56567251-56567270 MsG0480021307.01.T01:CDS 50.0%
TGAAAGGCTGTATCTCGGGT+TGG + Chr4:56567267-56567286 MsG0480021307.01.T01:CDS 50.0%
TGGTGGCACAATTCAAGCAG+AGG + Chr4:56567330-56567349 MsG0480021307.01.T01:CDS 50.0%
TGGTGGTAAAGTTGCGGACT+GGG - Chr4:56566924-56566943 None:intergenic 50.0%
TGTGTAAGCTCGTGTCATGG+TGG + Chr4:56568037-56568056 MsG0480021307.01.T01:CDS 50.0%
! GTGTCATGGTGGAATCGTGA+TGG + Chr4:56568048-56568067 MsG0480021307.01.T01:CDS 50.0%
!! CTGTATCTCGGGTTGGACTT+TGG + Chr4:56567274-56567293 MsG0480021307.01.T01:CDS 50.0%
CACATGATTGGGTACGCTCG+TGG + Chr4:56567514-56567533 MsG0480021307.01.T01:CDS 55.0%
GCGACCCTATCCGCTATACT+CGG + Chr4:56567357-56567376 MsG0480021307.01.T01:CDS 55.0%
GGGTTGGACTTTGGCACTTC+CGG + Chr4:56567283-56567302 MsG0480021307.01.T01:CDS 55.0%
GTGACACAGGAGAACCGTTG+TGG + Chr4:56567917-56567936 MsG0480021307.01.T01:intron 55.0%
!! TGCGGACTGGGAGCGAAAAA+AGG - Chr4:56566912-56566931 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 56566855 56568191 56566855 ID=MsG0480021307.01;Name=MsG0480021307.01
Chr4 mRNA 56566855 56568191 56566855 ID=MsG0480021307.01.T01;Parent=MsG0480021307.01;Name=MsG0480021307.01.T01;_AED=0.49;_eAED=0.50;_QI=132|1|0.75|1|0.33|0.25|4|0|239
Chr4 exon 56566855 56567089 56566855 ID=MsG0480021307.01.T01:exon:6398;Parent=MsG0480021307.01.T01
Chr4 exon 56567176 56567378 56567176 ID=MsG0480021307.01.T01:exon:6399;Parent=MsG0480021307.01.T01
Chr4 exon 56567504 56567643 56567504 ID=MsG0480021307.01.T01:exon:6400;Parent=MsG0480021307.01.T01
Chr4 exon 56567918 56568191 56567918 ID=MsG0480021307.01.T01:exon:6401;Parent=MsG0480021307.01.T01
Chr4 five_prime_UTR 56566855 56566986 56566855 ID=MsG0480021307.01.T01:five_prime_utr;Parent=MsG0480021307.01.T01
Chr4 CDS 56566987 56567089 56566987 ID=MsG0480021307.01.T01:cds;Parent=MsG0480021307.01.T01
Chr4 CDS 56567176 56567378 56567176 ID=MsG0480021307.01.T01:cds;Parent=MsG0480021307.01.T01
Chr4 CDS 56567504 56567643 56567504 ID=MsG0480021307.01.T01:cds;Parent=MsG0480021307.01.T01
Chr4 CDS 56567918 56568191 56567918 ID=MsG0480021307.01.T01:cds;Parent=MsG0480021307.01.T01
Gene Sequence

>MsG0480021307.01.T01

ATGGTAGGCACTGTTTCAGTAACCCACCCAGCAAGCACCATTTTAACATCTTTCACATATAGTCGAAAACTTGGTATGCAATTCACATATAGTCGAAAACTTGGAAACAGGTTATTACTGTTAGGTAACAAACCAAGAACAGTATCAATGTCTCTCAAAAACGGAGATAACAAAAAAAGTAGTATGGGAGCAGGTGAAAGGCTGTATCTCGGGTTGGACTTTGGCACTTCCGGTGCAAGATTTGCTATCATTGACATTGGTGGCACAATTCAAGCAGAGGCAAAGCGACCCTATCCGCTATACTCGAATGGAGAGTCACATGATTGGGTACGCTCGTGGAAAGAGACACTTTTTTTGTTGCTTGAAGATATCCCACTTAACCTTCGCAAACACATTGTGTCGATTTCTATTGATGGCACATCTGCAACTACTATCGTTGTTGATAGTGACACAGGAGAACCGTTGTGGAGACCTTTACTTTACAATGAGAGTTGTCCTGATGCACTACCTGCTGTAAAATCCATTGCACCTCCAAACCATACAGTATGCTCTGCATCGTCGACTCTGTGTAAGCTCGTGTCATGGTGGAATCGTGATGGTTCAAACAAAAAATCTGCTCTGTTATTGCACCAAGCAGATTGGCTTTTGTGGCTTCTTCATGGAAAGCTTGGAGTTTCAGATTATAATAATGCTCTGAAGGCATCATTTAATAAGCTCTAA

Protein sequence

>MsG0480021307.01.T01

MVGTVSVTHPASTILTSFTYSRKLGMQFTYSRKLGNRLLLLGNKPRTVSMSLKNGDNKKSSMGAGERLYLGLDFGTSGARFAIIDIGGTIQAEAKRPYPLYSNGESHDWVRSWKETLFLLLEDIPLNLRKHIVSISIDGTSATTIVVDSDTGEPLWRPLLYNESCPDALPAVKSIAPPNHTVCSASSTLCKLVSWWNRDGSNKKSALLLHQADWLLWLLHGKLGVSDYNNALKASFNKL*