AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022626.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022626.01.T01 MTR_4g093560 98.295 176 3 0 1 176 1 176 1.03e-130 363
MsG0480022626.01.T01 MTR_2g009600 67.630 173 55 1 2 173 3 175 9.15e-86 251
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022626.01.T01 AT2G14110 66.860 172 56 1 5 175 4 175 5.89e-86 251
MsG0480022626.01.T01 AT2G14110 68.421 133 42 0 5 137 4 136 4.72e-69 206

Find 46 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAATAACAGGTTTCAAATT+TGG 0.132575 4:-74834470 MsG0480022626.01.T01:intron
TTTGGGAGTTACAAGTATTT+TGG 0.197480 4:-74834452 MsG0480022626.01.T01:CDS
CAATAACAGGTTTCAAATTT+GGG 0.308384 4:-74834469 MsG0480022626.01.T01:intron
GTTAACAATGGCTTAAATCT+AGG 0.314102 4:-74834430 MsG0480022626.01.T01:CDS
TCGATTTAGATTATACTCTT+TGG 0.338666 4:-74835126 MsG0480022626.01.T01:CDS
CTTTCTCTCAAAGTGGATGA+TGG 0.395227 4:+74835233 None:intergenic
CAGAAAATTCATTCAAAGAC+CGG 0.400088 4:-74834654 MsG0480022626.01.T01:CDS
CACCTCAATGTTTGTCGCCC+AGG 0.413707 4:-74834840 MsG0480022626.01.T01:intron
GAAAGAAGAGATGGAGGAGG+TGG 0.415362 4:-74835215 MsG0480022626.01.T01:exon
CCAACCATGATGCTTGAGAT+TGG 0.417327 4:-74834309 MsG0480022626.01.T01:three_prime_UTR
ATACTCTTTGGCCTTTCTAC+TGG 0.426381 4:-74835114 MsG0480022626.01.T01:intron
AGAGATGGAGGAGGTGGAGA+AGG 0.429450 4:-74835209 MsG0480022626.01.T01:exon
GCTGAGGCAGTGCAAATGAT+AGG 0.438625 4:-74835181 MsG0480022626.01.T01:CDS
CCTCAAAGAACAAGCAGAAA+AGG 0.469406 4:-74834363 MsG0480022626.01.T01:CDS
TGATAACAATAACATGAAAC+CGG 0.472254 4:-74834598 MsG0480022626.01.T01:intron
AATCTAGGAGTATTTAGAGC+AGG 0.478102 4:-74834415 MsG0480022626.01.T01:CDS
GAGTGCACTCAAGATGCCTC+TGG 0.487612 4:+74834946 None:intergenic
ATCTCTTCTTTCTCTCAAAG+TGG 0.490555 4:+74835226 None:intergenic
CAAAGAAGGTGTGTCGTGCT+TGG 0.497441 4:+74834979 None:intergenic
TATGTGTGGAGTTGGTGATT+TGG 0.498178 4:+74834892 None:intergenic
AGAGAAAGAAGAGATGGAGG+AGG 0.524195 4:-74835218 MsG0480022626.01.T01:exon
CTCAAGATGCCTCTGGAATG+TGG 0.524198 4:+74834953 None:intergenic
TTGAGTGCACTCAAAGATGA+AGG 0.526991 4:-74834935 MsG0480022626.01.T01:CDS
AAATCGAACACTACGAGCCT+TGG 0.527042 4:+74835142 None:intergenic
GTACAAATTTACCAGTAGAA+AGG 0.530754 4:+74835103 None:intergenic
TGTGTCTATATTACTCTCCA+TGG 0.533355 4:-74834224 MsG0480022626.01.T01:three_prime_UTR
GGAGGAGGTGGAGAAGGTGA+AGG 0.537062 4:-74835203 MsG0480022626.01.T01:CDS
TTGAGAGAAAGAAGAGATGG+AGG 0.549183 4:-74835221 MsG0480022626.01.T01:exon
GGTGGAGAAGGTGAAGGCTG+AGG 0.552861 4:-74835197 MsG0480022626.01.T01:CDS
ATCTAGGAGTATTTAGAGCA+GGG 0.554952 4:-74834414 MsG0480022626.01.T01:CDS
ACTTTGAGAGAAAGAAGAGA+TGG 0.562452 4:-74835224 MsG0480022626.01.T01:exon
CTGGAATGTGGAAACAAAGA+AGG 0.568363 4:+74834965 None:intergenic
CCAATCTCAAGCATCATGGT+TGG 0.569748 4:+74834309 None:intergenic
GTTGTTGCTATGTGTGGAGT+TGG 0.571433 4:+74834884 None:intergenic
CATAGAGTTGTAGGGGACAC+CGG 0.577518 4:+74834635 None:intergenic
AAATACACAGAAAATTCACT+TGG 0.578953 4:+74834282 None:intergenic
ACATCCAATCTCAAGCATCA+TGG 0.585751 4:+74834305 None:intergenic
CAAAGTGGATGATGGATCGA+TGG 0.600898 4:+74835241 None:intergenic
AGTTGGTGATTTGGAAGCAA+TGG 0.603835 4:+74834901 None:intergenic
AGATACGTTGTTGCTATGTG+TGG 0.622048 4:+74834878 None:intergenic
AACCTGGGCGACAAACATTG+AGG 0.630045 4:+74834838 None:intergenic
ACACAAGTTCTAAGATGATG+TGG 0.641264 4:-74834141 MsG0480022626.01.T01:three_prime_UTR
TCTTTGTTTCCACATTCCAG+AGG 0.646314 4:-74834962 MsG0480022626.01.T01:CDS
AAAAGAGCATAGAGTTGTAG+GGG 0.649290 4:+74834628 None:intergenic
AAGGTGTGTCGTGCTTGGAG+CGG 0.652306 4:+74834984 None:intergenic
GAATGTTTCAAGTACTACCA+AGG 0.677669 4:-74835159 MsG0480022626.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAGAGAAATTAAATTT+GGG + Chr4:74834584-74834603 None:intergenic 10.0%
!! TAAAAAAGAGAAATTAAATT+TGG + Chr4:74834585-74834604 None:intergenic 10.0%
!!! TTATTTGTATGTATATTTTA+CGG - Chr4:74834543-74834562 MsG0480022626.01.T01:intron 10.0%
!! AACAAAATAAAATGATATAC+CGG + Chr4:74834730-74834749 None:intergenic 15.0%
!!! ATTTCTCTTTTTTATTGTTT+AGG - Chr4:74834591-74834610 MsG0480022626.01.T01:intron 15.0%
!!! AATACTTGTTTTTTTATCTG+TGG + Chr4:74835216-74835235 None:intergenic 20.0%
!!! GAATTTTCTGTGTATTTATA+TGG - Chr4:74835030-74835049 MsG0480022626.01.T01:intron 20.0%
! AAATAAGCGCAATAAAAAAG+CGG + Chr4:74834529-74834548 None:intergenic 25.0%
! AAATACACAGAAAATTCACT+TGG + Chr4:74835027-74835046 None:intergenic 25.0%
! CAATAACAGGTTTCAAATTT+GGG - Chr4:74834837-74834856 MsG0480022626.01.T01:intron 25.0%
! TCGATTTAGATTATACTCTT+TGG - Chr4:74834180-74834199 MsG0480022626.01.T01:three_prime_UTR 25.0%
! TGATAACAATAACATGAAAC+CGG - Chr4:74834708-74834727 MsG0480022626.01.T01:intron 25.0%
!! AAATTCTCTTATTTGTTTGG+AGG - Chr4:74834770-74834789 MsG0480022626.01.T01:intron 25.0%
!! CTCAAATTCTCTTATTTGTT+TGG - Chr4:74834767-74834786 MsG0480022626.01.T01:intron 25.0%
!! TTTTCATCTTTCCTATTTTC+TGG - Chr4:74834236-74834255 MsG0480022626.01.T01:three_prime_UTR 25.0%
!!! ACAAGTATTTTGGTTAACAA+TGG - Chr4:74834864-74834883 MsG0480022626.01.T01:CDS 25.0%
CAGAAAATTCATTCAAAGAC+CGG - Chr4:74834652-74834671 MsG0480022626.01.T01:CDS 30.0%
CCAATAACAGGTTTCAAATT+TGG - Chr4:74834836-74834855 MsG0480022626.01.T01:intron 30.0%
GTACAAATTTACCAGTAGAA+AGG + Chr4:74834206-74834225 None:intergenic 30.0%
GTTAACAATGGCTTAAATCT+AGG - Chr4:74834876-74834895 MsG0480022626.01.T01:CDS 30.0%
! AAAAAGAGCATAGAGTTGTA+GGG + Chr4:74834682-74834701 None:intergenic 30.0%
! AATTTTATGCAATCATGCCA+TGG + Chr4:74835102-74835121 None:intergenic 30.0%
! CCAAATTTGAAACCTGTTAT+TGG + Chr4:74834839-74834858 None:intergenic 30.0%
! TTTGGGAGTTACAAGTATTT+TGG - Chr4:74834854-74834873 MsG0480022626.01.T01:CDS 30.0%
ATCTCTTCTTTCTCTCAAAG+TGG + Chr4:74834083-74834102 None:intergenic 35.0%
ATTGAGGAACAAACAAACCT+GGG + Chr4:74834486-74834505 None:intergenic 35.0%
TAGTGAGTACTCCAGAAAAT+AGG + Chr4:74834250-74834269 None:intergenic 35.0%
TGTGTCTATATTACTCTCCA+TGG - Chr4:74835082-74835101 MsG0480022626.01.T01:intron 35.0%
! AAAAGAGCATAGAGTTGTAG+GGG + Chr4:74834681-74834700 None:intergenic 35.0%
! ACTTTGAGAGAAAGAAGAGA+TGG - Chr4:74834082-74834101 MsG0480022626.01.T01:three_prime_UTR 35.0%
! CACAAGATTTTCGCAAAACT+GGG - Chr4:74834917-74834936 MsG0480022626.01.T01:CDS 35.0%
! GAAAAAGAGCATAGAGTTGT+AGG + Chr4:74834683-74834702 None:intergenic 35.0%
! GAATGTTTCAAGTACTACCA+AGG - Chr4:74834147-74834166 MsG0480022626.01.T01:three_prime_UTR 35.0%
! TCACAAGATTTTCGCAAAAC+TGG - Chr4:74834916-74834935 MsG0480022626.01.T01:CDS 35.0%
!! AATCTAGGAGTATTTAGAGC+AGG - Chr4:74834891-74834910 MsG0480022626.01.T01:CDS 35.0%
!! ACACAAGTTCTAAGATGATG+TGG - Chr4:74835165-74835184 MsG0480022626.01.T01:CDS 35.0%
!! ATCTAGGAGTATTTAGAGCA+GGG - Chr4:74834892-74834911 MsG0480022626.01.T01:CDS 35.0%
!! TGATTTGTTGTGCCAATAAC+AGG - Chr4:74834824-74834843 MsG0480022626.01.T01:intron 35.0%
AAGTGTTCGTCTTTCCATTG+AGG + Chr4:74834502-74834521 None:intergenic 40.0%
ACATCCAATCTCAAGCATCA+TGG + Chr4:74835004-74835023 None:intergenic 40.0%
AGATACGTTGTTGCTATGTG+TGG + Chr4:74834431-74834450 None:intergenic 40.0%
CATTGAGGAACAAACAAACC+TGG + Chr4:74834487-74834506 None:intergenic 40.0%
CCTCAAAGAACAAGCAGAAA+AGG - Chr4:74834943-74834962 MsG0480022626.01.T01:CDS 40.0%
CTGGAATGTGGAAACAAAGA+AGG + Chr4:74834344-74834363 None:intergenic 40.0%
CTTTCTCTCAAAGTGGATGA+TGG + Chr4:74834076-74834095 None:intergenic 40.0%
TTGAGAGAAAGAAGAGATGG+AGG - Chr4:74834085-74834104 MsG0480022626.01.T01:three_prime_UTR 40.0%
TTGAGTGCACTCAAAGATGA+AGG - Chr4:74834371-74834390 MsG0480022626.01.T01:CDS 40.0%
! ATACTCTTTGGCCTTTCTAC+TGG - Chr4:74834192-74834211 MsG0480022626.01.T01:three_prime_UTR 40.0%
! CAGGTTTGTTTGTTCCTCAA+TGG - Chr4:74834485-74834504 MsG0480022626.01.T01:intron 40.0%
! CCTTTTCTGCTTGTTCTTTG+AGG + Chr4:74834946-74834965 None:intergenic 40.0%
! TCTTTGTTTCCACATTCCAG+AGG - Chr4:74834344-74834363 MsG0480022626.01.T01:exon 40.0%
!! AGTTGGTGATTTGGAAGCAA+TGG + Chr4:74834408-74834427 None:intergenic 40.0%
!! TATGTGTGGAGTTGGTGATT+TGG + Chr4:74834417-74834436 None:intergenic 40.0%
AAATCGAACACTACGAGCCT+TGG + Chr4:74834167-74834186 None:intergenic 45.0%
AGAGAAAGAAGAGATGGAGG+AGG - Chr4:74834088-74834107 MsG0480022626.01.T01:three_prime_UTR 45.0%
CCAACCATGATGCTTGAGAT+TGG - Chr4:74834997-74835016 MsG0480022626.01.T01:intron 45.0%
CCAATCTCAAGCATCATGGT+TGG + Chr4:74835000-74835019 None:intergenic 45.0%
GTTGTTGCTATGTGTGGAGT+TGG + Chr4:74834425-74834444 None:intergenic 45.0%
!! CAAAGTGGATGATGGATCGA+TGG + Chr4:74834068-74834087 None:intergenic 45.0%
AACCTGGGCGACAAACATTG+AGG + Chr4:74834471-74834490 None:intergenic 50.0%
CATAGAGTTGTAGGGGACAC+CGG + Chr4:74834674-74834693 None:intergenic 50.0%
GAAAGAAGAGATGGAGGAGG+TGG - Chr4:74834091-74834110 MsG0480022626.01.T01:three_prime_UTR 50.0%
GCTGAGGCAGTGCAAATGAT+AGG - Chr4:74834125-74834144 MsG0480022626.01.T01:three_prime_UTR 50.0%
! CAAAGAAGGTGTGTCGTGCT+TGG + Chr4:74834330-74834349 None:intergenic 50.0%
!! CTCAAGATGCCTCTGGAATG+TGG + Chr4:74834356-74834375 None:intergenic 50.0%
AAGGTGTGTCGTGCTTGGAG+CGG + Chr4:74834325-74834344 None:intergenic 55.0%
AGAGATGGAGGAGGTGGAGA+AGG - Chr4:74834097-74834116 MsG0480022626.01.T01:three_prime_UTR 55.0%
CACCTCAATGTTTGTCGCCC+AGG - Chr4:74834466-74834485 MsG0480022626.01.T01:intron 55.0%
GAGTGCACTCAAGATGCCTC+TGG + Chr4:74834363-74834382 None:intergenic 55.0%
GGAGGAGGTGGAGAAGGTGA+AGG - Chr4:74834103-74834122 MsG0480022626.01.T01:three_prime_UTR 60.0%
GGTGGAGAAGGTGAAGGCTG+AGG - Chr4:74834109-74834128 MsG0480022626.01.T01:three_prime_UTR 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 74834057 74835271 74834057 ID=MsG0480022626.01;Name=MsG0480022626.01
Chr4 mRNA 74834057 74835271 74834057 ID=MsG0480022626.01.T01;Parent=MsG0480022626.01;Name=MsG0480022626.01.T01;_AED=0.45;_eAED=0.45;_QI=44|1|1|1|1|1|4|297|176
Chr4 exon 74834057 74834482 74834057 ID=MsG0480022626.01.T01:exon:31588;Parent=MsG0480022626.01.T01
Chr4 exon 74834599 74834715 74834599 ID=MsG0480022626.01.T01:exon:31587;Parent=MsG0480022626.01.T01
Chr4 exon 74834841 74835012 74834841 ID=MsG0480022626.01.T01:exon:31586;Parent=MsG0480022626.01.T01
Chr4 exon 74835115 74835271 74835115 ID=MsG0480022626.01.T01:exon:31585;Parent=MsG0480022626.01.T01
Chr4 five_prime_UTR 74835228 74835271 74835228 ID=MsG0480022626.01.T01:five_prime_utr;Parent=MsG0480022626.01.T01
Chr4 CDS 74835115 74835227 74835115 ID=MsG0480022626.01.T01:cds;Parent=MsG0480022626.01.T01
Chr4 CDS 74834841 74835012 74834841 ID=MsG0480022626.01.T01:cds;Parent=MsG0480022626.01.T01
Chr4 CDS 74834599 74834715 74834599 ID=MsG0480022626.01.T01:cds;Parent=MsG0480022626.01.T01
Chr4 CDS 74834354 74834482 74834354 ID=MsG0480022626.01.T01:cds;Parent=MsG0480022626.01.T01
Chr4 three_prime_UTR 74834057 74834353 74834057 ID=MsG0480022626.01.T01:three_prime_utr;Parent=MsG0480022626.01.T01
Gene Sequence

>MsG0480022626.01.T01

ATGGAGGAGGTGGAGAAGGTGAAGGCTGAGGCAGTGCAAATGATAGGAATGTTTCAAGTACTACCAAGGCTCGTAGTGTTCGATTTAGATTATACTCTTTGGCCTTTCTACTGTGAGTGCCGCTCCAAGCACGACACACCTTCTTTGTTTCCACATTCCAGAGGCATCTTGAGTGCACTCAAAGATGAAGGAATTGATGCTGCCATTGCTTCCAAATCACCAACTCCACACATAGCAACAACGTATCTTGACAAACTCAAAATCACCTCAATGTTTGTCGCCCAGGAAATATTTTACAGCTCGACACACAAAACAGAACATTTTCAGAAAATTCATTCAAAGACCGGTGTCCCCTACAACTCTATGCTCTTTTTCGACGATGATAACAATAACATGAAACCGGTTTCAAATTTGGGAGTTACAAGTATTTTGGTTAACAATGGCTTAAATCTAGGAGTATTTAGAGCAGGGCTCACAAGATTTTCGCAAAACTGGGATGCCTCAAAGAACAAGCAGAAAAGGCGCAAGTAA

Protein sequence

>MsG0480022626.01.T01

MEEVEKVKAEAVQMIGMFQVLPRLVVFDLDYTLWPFYCECRSKHDTPSLFPHSRGILSALKDEGIDAAIASKSPTPHIATTYLDKLKITSMFVAQEIFYSSTHKTEHFQKIHSKTGVPYNSMLFFDDDNNNMKPVSNLGVTSILVNNGLNLGVFRAGLTRFSQNWDASKNKQKRRK*