AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045181.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045181.01.T01 MTR_2g021040 95.775 71 3 0 23 93 42 112 9.25e-45 146
MsG0880045181.01.T01 MTR_2g021040 95.775 71 3 0 23 93 42 112 2.12e-44 146
MsG0880045181.01.T01 MTR_2g021040 95.775 71 3 0 23 93 42 112 3.62e-44 146
MsG0880045181.01.T01 MTR_0003s0650 73.973 73 17 2 23 93 37 109 1.46e-29 108
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045181.01.T01 AT5G18940 69.333 75 22 1 23 97 42 115 1.21e-30 111
MsG0880045181.01.T01 AT5G18940 69.333 75 22 1 23 97 42 115 1.34e-30 110

Find 31 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAATGAGAACTATGCTTTC+TGG 0.269593 8:-55425956 MsG0880045181.01.T01:CDS
CGTGTCAAGAGCGGGGTTCT+TGG 0.312982 8:-55425544 MsG0880045181.01.T01:three_prime_UTR
TCTTGAACAATACTATAGTA+TGG 0.338598 8:-55425396 MsG0880045181.01.T01:three_prime_UTR
ATTCACAAGTTGCCTATACT+TGG 0.363293 8:-55425851 MsG0880045181.01.T01:CDS
TACTTTATTGTAGGCATTAG+AGG 0.369327 8:-55425999 MsG0880045181.01.T01:intron
CCTTCTAATCGCACTATGTA+TGG 0.370960 8:-55425346 MsG0880045181.01.T01:three_prime_UTR
CCATACATAGTGCGATTAGA+AGG 0.384710 8:+55425346 None:intergenic
TCAAGAAAGTTAGTAAAAGA+AGG 0.425433 8:+55425413 None:intergenic
TGTGAAACCTGATCTAAATT+CGG 0.430120 8:+55425917 None:intergenic
ATCAGAACCGAATTTAGATC+AGG 0.437545 8:-55425924 MsG0880045181.01.T01:CDS
CTTACTTCCCATCCAAGTAT+AGG 0.450135 8:+55425839 None:intergenic
CAAGAAATCGTGTCAAGAGC+GGG 0.461491 8:-55425552 MsG0880045181.01.T01:three_prime_UTR
AGAACTATGCTTTCTGGAGA+TGG 0.464715 8:-55425950 MsG0880045181.01.T01:CDS
TGCAGTAGATTCAGCTTCAC+TGG 0.486587 8:-55426836 MsG0880045181.01.T01:intron
TACTAATTGAAATGTTGTGC+AGG 0.493586 8:-55426891 None:intergenic
ACAAGTTGCCTATACTTGGA+TGG 0.498032 8:-55425847 MsG0880045181.01.T01:CDS
GAAAGGATTTAGTCCACTGT+TGG 0.511448 8:-55425733 MsG0880045181.01.T01:CDS
CAAGTTGCCTATACTTGGAT+GGG 0.523597 8:-55425846 MsG0880045181.01.T01:CDS
AGATCAGGTTTCACAGCTTG+TGG 0.526178 8:-55425909 MsG0880045181.01.T01:CDS
ATTTGATGATCTTCATCATG+TGG 0.570148 8:+55425633 None:intergenic
CTCGTATCACTCTTCACCCA+CGG 0.572581 8:+55425517 None:intergenic
GAGTGAACACGGTTGATGCT+TGG 0.608303 8:+55425590 None:intergenic
CGGGGTTCTTGGAACACCGT+GGG 0.615525 8:-55425533 MsG0880045181.01.T01:three_prime_UTR
TCAGGTTTCACAGCTTGTGG+AGG 0.621980 8:-55425906 MsG0880045181.01.T01:CDS
TCAAGAAATCGTGTCAAGAG+CGG 0.632895 8:-55425553 MsG0880045181.01.T01:three_prime_UTR
AAGAAATCGTGTCAAGAGCG+GGG 0.665713 8:-55425551 MsG0880045181.01.T01:three_prime_UTR
GCTTGTGGAGGAAATCTGCA+AGG 0.666944 8:-55425894 MsG0880045181.01.T01:CDS
TCAACAATATCGTCCAACAG+TGG 0.680311 8:+55425720 None:intergenic
GCGGGGTTCTTGGAACACCG+TGG 0.682296 8:-55425534 MsG0880045181.01.T01:three_prime_UTR
CGTGGGTGAAGAGTGATACG+AGG 0.709427 8:-55425516 MsG0880045181.01.T01:three_prime_UTR
TGTGGAGGAAATCTGCAAGG+AGG 0.743747 8:-55425891 MsG0880045181.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAATTACTCATAAATATA+TGG - Chr8:55425919-55425938 MsG0880045181.01.T01:CDS 10.0%
!!! ATACATATCATTACTATTTT+TGG - Chr8:55425477-55425496 MsG0880045181.01.T01:three_prime_UTR 15.0%
!!! TACATATCATTACTATTTTT+GGG - Chr8:55425478-55425497 MsG0880045181.01.T01:three_prime_UTR 15.0%
!! AAATATTGTACATAAAAGCA+AGG + Chr8:55425729-55425748 None:intergenic 20.0%
!!! AACACTATCAAGATTTTTAT+TGG + Chr8:55425789-55425808 None:intergenic 20.0%
!!! ATTTCACTTCTTTTCATTTT+GGG - Chr8:55425444-55425463 MsG0880045181.01.T01:three_prime_UTR 20.0%
!!! TAGTTATTTTTAGTTTGTGA+AGG - Chr8:55426549-55426568 MsG0880045181.01.T01:intron 20.0%
! AATATATGGAAAATGCTTGT+TGG - Chr8:55425933-55425952 MsG0880045181.01.T01:CDS 25.0%
! CTGCAATAAAGTGATAATAA+CGG + Chr8:55425423-55425442 None:intergenic 25.0%
! GAAGAATAAAAATAGTGTAG+TGG - Chr8:55426720-55426739 MsG0880045181.01.T01:intron 25.0%
! TCAAGAAAGTTAGTAAAAGA+AGG + Chr8:55426804-55426823 None:intergenic 25.0%
! TCTTGAACAATACTATAGTA+TGG - Chr8:55426818-55426837 MsG0880045181.01.T01:intron 25.0%
! TGCAATAAAGTGATAATAAC+GGG + Chr8:55425422-55425441 None:intergenic 25.0%
! TTGTTGAAGTCTGAAAAATT+TGG - Chr8:55426510-55426529 MsG0880045181.01.T01:intron 25.0%
!! CATTTCACTTCTTTTCATTT+TGG - Chr8:55425443-55425462 MsG0880045181.01.T01:three_prime_UTR 25.0%
!! TGCATTTTACAACTTAATGT+TGG - Chr8:55425556-55425575 MsG0880045181.01.T01:three_prime_UTR 25.0%
!!! ATTTTTAGTTTGTGAAGGTT+CGG - Chr8:55426554-55426573 MsG0880045181.01.T01:intron 25.0%
!!! TGCTTGTTTTACTTTATTGT+AGG - Chr8:55426206-55426225 MsG0880045181.01.T01:intron 25.0%
ATATCACTGGAACATATCTA+TGG + Chr8:55426136-55426155 None:intergenic 30.0%
TACTTTATTGTAGGCATTAG+AGG - Chr8:55426215-55426234 MsG0880045181.01.T01:intron 30.0%
TCTTGATCTATCAGTACTAT+TGG + Chr8:55425818-55425837 None:intergenic 30.0%
TGTGAAACCTGATCTAAATT+CGG + Chr8:55426300-55426319 None:intergenic 30.0%
TTAACAAAAGCTCAGATTCT+TGG + Chr8:55425664-55425683 None:intergenic 30.0%
! AAAGAAAGGCATAATATCAC+TGG + Chr8:55426149-55426168 None:intergenic 30.0%
! AAGTCTGAAAAATTTGGTGA+AGG - Chr8:55426516-55426535 MsG0880045181.01.T01:intron 30.0%
! ATTTGATGATCTTCATCATG+TGG + Chr8:55426584-55426603 None:intergenic 30.0%
!! AATTTTGATACAGGCTAGAA+AGG - Chr8:55426464-55426483 MsG0880045181.01.T01:intron 30.0%
!! GAGTAATTTTAGTGCTTGTT+TGG + Chr8:55425910-55425929 None:intergenic 30.0%
!!! TTTTTAGTTTGTGAAGGTTC+GGG - Chr8:55426555-55426574 MsG0880045181.01.T01:intron 30.0%
ACAATGAGAACTATGCTTTC+TGG - Chr8:55426258-55426277 MsG0880045181.01.T01:intron 35.0%
AGCAACTGCAAGTAAAAGAA+AGG + Chr8:55426163-55426182 None:intergenic 35.0%
ATCAGAACCGAATTTAGATC+AGG - Chr8:55426290-55426309 MsG0880045181.01.T01:intron 35.0%
ATTCACAAGTTGCCTATACT+TGG - Chr8:55426363-55426382 MsG0880045181.01.T01:intron 35.0%
TCTATCAGTACTATTGGCAT+TGG + Chr8:55425812-55425831 None:intergenic 35.0%
! AAGTGTCGTGTTTCATCTAA+GGG + Chr8:55426005-55426024 None:intergenic 35.0%
! GTCTTTTATTCGAGTGAACA+CGG + Chr8:55426638-55426657 None:intergenic 35.0%
!! AAAGTGTCGTGTTTCATCTA+AGG + Chr8:55426006-55426025 None:intergenic 35.0%
!! TCGCACTATGTATGGTTTTA+TGG - Chr8:55426876-55426895 MsG0880045181.01.T01:CDS 35.0%
!! TCTTTCAAGTTAATACAGCG+TGG - Chr8:55425883-55425902 MsG0880045181.01.T01:CDS 35.0%
AACTGTGGTGTAAAGCAGTA+AGG + Chr8:55425512-55425531 None:intergenic 40.0%
ACAAGTTGCCTATACTTGGA+TGG - Chr8:55426367-55426386 MsG0880045181.01.T01:intron 40.0%
ACCCATCTAAAAAGACCAGA+GGG + Chr8:55425703-55425722 None:intergenic 40.0%
ATGTGTCATCAGTTTGTCGT+GGG - Chr8:55426063-55426082 MsG0880045181.01.T01:intron 40.0%
CAAGTTGCCTATACTTGGAT+GGG - Chr8:55426368-55426387 MsG0880045181.01.T01:intron 40.0%
CCATACATAGTGCGATTAGA+AGG + Chr8:55426871-55426890 None:intergenic 40.0%
CCTTCTAATCGCACTATGTA+TGG - Chr8:55426868-55426887 MsG0880045181.01.T01:CDS 40.0%
CTTACTTCCCATCCAAGTAT+AGG + Chr8:55426378-55426397 None:intergenic 40.0%
GAAAGGATTTAGTCCACTGT+TGG - Chr8:55426481-55426500 MsG0880045181.01.T01:intron 40.0%
GATCAAGACTCAGATTCTGA+TGG - Chr8:55425830-55425849 MsG0880045181.01.T01:intron 40.0%
TACCCATCTAAAAAGACCAG+AGG + Chr8:55425704-55425723 None:intergenic 40.0%
TACTCCTTATATGTACCCTC+TGG - Chr8:55425685-55425704 MsG0880045181.01.T01:CDS 40.0%
TACTTGCAGTTGCTCTACAT+TGG - Chr8:55426169-55426188 MsG0880045181.01.T01:intron 40.0%
TATGTGTCATCAGTTTGTCG+TGG - Chr8:55426062-55426081 MsG0880045181.01.T01:intron 40.0%
TCAACAATATCGTCCAACAG+TGG + Chr8:55426497-55426516 None:intergenic 40.0%
TCAAGAAATCGTGTCAAGAG+CGG - Chr8:55426661-55426680 MsG0880045181.01.T01:intron 40.0%
! AAGACCAGAGGGTACATATA+AGG + Chr8:55425692-55425711 None:intergenic 40.0%
! AGAACTATGCTTTCTGGAGA+TGG - Chr8:55426264-55426283 MsG0880045181.01.T01:intron 40.0%
! AGTTGCTCTACATTGGTTAC+TGG - Chr8:55426176-55426195 MsG0880045181.01.T01:intron 40.0%
! ATGCATGCAGTTGACTTAAC+TGG - Chr8:55426421-55426440 MsG0880045181.01.T01:intron 40.0%
! TTTGTGCTGGTGTAAGATAG+TGG - Chr8:55425613-55425632 MsG0880045181.01.T01:three_prime_UTR 40.0%
!! ACCCTCTGGTCTTTTTAGAT+GGG - Chr8:55425699-55425718 MsG0880045181.01.T01:CDS 40.0%
!! GGGTGCATGAATTTTGATAC+AGG - Chr8:55426455-55426474 MsG0880045181.01.T01:intron 40.0%
!! TACCCTCTGGTCTTTTTAGA+TGG - Chr8:55425698-55425717 MsG0880045181.01.T01:CDS 40.0%
AAGAAATCGTGTCAAGAGCG+GGG - Chr8:55426663-55426682 MsG0880045181.01.T01:intron 45.0%
ACTTAACTGGTTGCTCATCG+TGG - Chr8:55426434-55426453 MsG0880045181.01.T01:intron 45.0%
AGATCAGGTTTCACAGCTTG+TGG - Chr8:55426305-55426324 MsG0880045181.01.T01:intron 45.0%
CAAGAAATCGTGTCAAGAGC+GGG - Chr8:55426662-55426681 MsG0880045181.01.T01:intron 45.0%
CTAATAAGCTCGACTAGCGA+CGG - Chr8:55425964-55425983 MsG0880045181.01.T01:CDS 45.0%
CTTAACTGGTTGCTCATCGT+GGG - Chr8:55426435-55426454 MsG0880045181.01.T01:intron 45.0%
GTCGTGTTTCATCTAAGGGT+CGG + Chr8:55426001-55426020 None:intergenic 45.0%
TGCAGTAGATTCAGCTTCAC+TGG - Chr8:55425378-55425397 MsG0880045181.01.T01:three_prime_UTR 45.0%
CTCGTATCACTCTTCACCCA+CGG + Chr8:55426700-55426719 None:intergenic 50.0%
GCTTGTGGAGGAAATCTGCA+AGG - Chr8:55426320-55426339 MsG0880045181.01.T01:intron 50.0%
GTCTGTGTCTGAGTTTGTGC+TGG - Chr8:55425600-55425619 MsG0880045181.01.T01:three_prime_UTR 50.0%
TCAGGTTTCACAGCTTGTGG+AGG - Chr8:55426308-55426327 MsG0880045181.01.T01:intron 50.0%
TGTGGAGGAAATCTGCAAGG+AGG - Chr8:55426323-55426342 MsG0880045181.01.T01:intron 50.0%
! CACATGTGTGGTGTCAACTG+TGG + Chr8:55425527-55425546 None:intergenic 50.0%
! GAGTGAACACGGTTGATGCT+TGG + Chr8:55426627-55426646 None:intergenic 50.0%
CGTGGGTGAAGAGTGATACG+AGG - Chr8:55426698-55426717 MsG0880045181.01.T01:intron 55.0%
GCACACGAGCTACACATGTG+TGG + Chr8:55425539-55425558 None:intergenic 55.0%
CGGGGTTCTTGGAACACCGT+GGG - Chr8:55426681-55426700 MsG0880045181.01.T01:intron 60.0%
CGTGTCAAGAGCGGGGTTCT+TGG - Chr8:55426670-55426689 MsG0880045181.01.T01:intron 60.0%
GCGGGGTTCTTGGAACACCG+TGG - Chr8:55426680-55426699 MsG0880045181.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr8 gene 55425334 55426902 55425334 ID=MsG0880045181.01;Name=MsG0880045181.01
Chr8 mRNA 55425334 55426902 55425334 ID=MsG0880045181.01.T01;Parent=MsG0880045181.01;Name=MsG0880045181.01.T01;_AED=0.40;_eAED=0.41;_QI=0|1|0.66|1|1|1|3|351|101
Chr8 exon 55425334 55425759 55425334 ID=MsG0880045181.01.T01:exon:23942;Parent=MsG0880045181.01.T01
Chr8 exon 55425844 55426008 55425844 ID=MsG0880045181.01.T01:exon:23941;Parent=MsG0880045181.01.T01
Chr8 exon 55426837 55426902 55426837 ID=MsG0880045181.01.T01:exon:23940;Parent=MsG0880045181.01.T01
Chr8 CDS 55426837 55426902 55426837 ID=MsG0880045181.01.T01:cds;Parent=MsG0880045181.01.T01
Chr8 CDS 55425844 55426008 55425844 ID=MsG0880045181.01.T01:cds;Parent=MsG0880045181.01.T01
Chr8 CDS 55425685 55425759 55425685 ID=MsG0880045181.01.T01:cds;Parent=MsG0880045181.01.T01
Chr8 three_prime_UTR 55425334 55425684 55425334 ID=MsG0880045181.01.T01:three_prime_utr;Parent=MsG0880045181.01.T01
Gene Sequence

>MsG0880045181.01.T01

ATGTTGTGCAGGAACATTGTATATGCTTCTTCTTATGACTTGAATGCAGTAGATTCAGCTTCACTGGCATTAGAGGAAGTTGAAAAGAATTTCGTAACAATGAGAACTATGCTTTCTGGAGATGGAGAATCAGAACCGAATTTAGATCAGGTTTCACAGCTTGTGGAGGAAATCTGCAAGGAGGATGTTCTTACTCTTCTAATTCACAAGTTGCCTATACTTGGATGGGAAGCTAGAAAGGATTTAGTCCACTGTTGGACGATATTGTTGAAGTCTGAAAAATTTGGTGAAGGATTGCATTCGTAG
Protein sequence

>MsG0880045181.01.T01

MLCRNIVYASSYDLNAVDSASLALEEVEKNFVTMRTMLSGDGESEPNLDQVSQLVEEICKEDVLTLLIHKLPILGWEARKDLVHCWTILLKSEKFGEGLHS*