AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010389.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010389.01.T01 MTR_2g083180 59.231 130 0 2 4 100 7 116 8.69e-41 130
MsG0280010389.01.T01 MTR_2g083180 55.118 127 4 2 7 100 8 114 1.33e-35 117
MsG0280010389.01.T01 MTR_2g083180 61.053 95 4 1 7 68 8 102 1.12e-30 105
MsG0280010389.01.T01 MTR_2g083180 58.333 96 7 1 7 69 8 103 1.14e-29 102
MsG0280010389.01.T01 MTR_4g046733 48.031 127 12 3 7 100 8 113 6.67e-29 100
MsG0280010389.01.T01 MTR_3g051950 40.945 127 20 3 7 100 8 112 3.05e-19 76.3
MsG0280010389.01.T01 MTR_2g083180 51.316 76 4 1 7 49 8 83 2.53e-16 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010389.01.T01 AT4G27130 48.031 127 12 3 7 100 8 113 8.35e-28 98.2
MsG0280010389.01.T01 AT1G54290 48.031 127 12 3 7 100 8 113 9.21e-28 97.8
MsG0280010389.01.T01 AT5G54760 47.244 127 13 3 7 100 8 113 4.44e-27 96.3
MsG0280010389.01.T01 AT5G54760 47.244 127 13 3 7 100 8 113 4.44e-27 96.3
MsG0280010389.01.T01 AT5G54760 47.244 127 13 3 7 100 8 113 4.44e-27 96.3
MsG0280010389.01.T01 AT5G54760 47.244 127 13 3 7 100 8 113 4.44e-27 96.3
MsG0280010389.01.T01 AT5G54940 38.583 127 23 3 7 100 8 112 5.00e-17 70.5
MsG0280010389.01.T01 AT5G54940 38.583 127 23 3 7 100 8 112 5.00e-17 70.5
MsG0280010389.01.T01 AT5G54940 38.583 127 23 3 7 100 8 112 5.00e-17 70.5

Find 28 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGCTGAGGACGCCGGTGC+TGG 0.285317 2:+68940476 MsG0280010389.01.T01:CDS
AAGGAGCATATTAAAATTCA+TGG 0.292939 2:+68941749 MsG0280010389.01.T01:CDS
TTCGCTGCTGTATACGAATA+TGG 0.326573 2:-68940517 None:intergenic
ATTCATTACCTGGACTAAAA+AGG 0.327921 2:-68940785 None:intergenic
CCTGTCCTTGCTCTGGGTCC+TGG 0.375764 2:-68940645 None:intergenic
CTGCACTTGTGAATTTGAAC+AGG 0.414079 2:+68941712 MsG0280010389.01.T01:CDS
AGACATACCTGTCCTTGCTC+TGG 0.415595 2:-68940652 None:intergenic
GACATACCTGTCCTTGCTCT+GGG 0.463686 2:-68940651 None:intergenic
GTGTAGGTTATTCAACTTCA+AGG 0.470369 2:+68940739 MsG0280010389.01.T01:intron
TTGTAATGGTACAGTTGTCC+AGG 0.470439 2:+68940627 MsG0280010389.01.T01:intron
ATGCTGAGGACGCCGGTGCT+GGG 0.477491 2:+68940477 MsG0280010389.01.T01:CDS
TCAGCATTTGCCTCAGCAAA+AGG 0.478903 2:-68940461 None:intergenic
ATTCGTATACAGCAGCGAAA+TGG 0.491023 2:+68940521 MsG0280010389.01.T01:CDS
TTCACAAGTGCAGAGGGATA+AGG 0.502149 2:-68941702 None:intergenic
CGCCGGTGCTGGGTCATCAA+AGG 0.522725 2:+68940487 MsG0280010389.01.T01:CDS
ACTTGTGAATTTGAACAGGC+TGG 0.528654 2:+68941716 MsG0280010389.01.T01:CDS
TTCAAATTCACAAGTGCAGA+GGG 0.532522 2:-68941708 None:intergenic
ACAGGCTGGAATCGTGAAGA+AGG 0.545416 2:+68941730 MsG0280010389.01.T01:CDS
TTCAACTTCAAGGCGATCAG+AGG 0.577444 2:+68940749 MsG0280010389.01.T01:CDS
GAGGCAAATGCTGAGGACGC+CGG 0.578099 2:+68940470 MsG0280010389.01.T01:CDS
CTCCTTTGATGACCCAGCAC+CGG 0.583753 2:-68940489 None:intergenic
CCAGGACCCAGAGCAAGGAC+AGG 0.587475 2:+68940645 MsG0280010389.01.T01:CDS
ATTGTTGCCACACATCCCAC+AGG 0.627187 2:-68940431 None:intergenic
GTTGTCCAGGACCCAGAGCA+AGG 0.630590 2:+68940640 MsG0280010389.01.T01:intron
GATATGATATATGACTCCTG+TGG 0.639830 2:+68940415 None:intergenic
GTTCAAATTCACAAGTGCAG+AGG 0.649943 2:-68941709 None:intergenic
TATGACTCCTGTGGGATGTG+TGG 0.656082 2:+68940424 None:intergenic
ATATGATATATGACTCCTGT+GGG 0.658173 2:+68940416 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAAATATCAAAAGTAAAA+CGG - Chr2:68940915-68940934 None:intergenic 15.0%
!! TAAACATAAAATAATGTCAA+AGG - Chr2:68941141-68941160 None:intergenic 15.0%
!! TTTACCCATAAATTTATATT+TGG + Chr2:68941422-68941441 MsG0280010389.01.T01:intron 15.0%
!!! CTTCAAATAACATTTTTTTA+TGG + Chr2:68940717-68940736 MsG0280010389.01.T01:intron 15.0%
!! ATCCACCAAATATAAATTTA+TGG - Chr2:68941430-68941449 None:intergenic 20.0%
!! GTAAAACGGAAAAATAAAAA+AGG - Chr2:68940901-68940920 None:intergenic 20.0%
!! TCCACCAAATATAAATTTAT+GGG - Chr2:68941429-68941448 None:intergenic 20.0%
!!! AAAAAGAAGTCTGTTTTTAA+AGG + Chr2:68941007-68941026 MsG0280010389.01.T01:intron 20.0%
!!! ATAACATTTTTTTATGGTGT+AGG + Chr2:68940723-68940742 MsG0280010389.01.T01:intron 20.0%
!!! ATCAACTATTTTTACTAAAC+AGG + Chr2:68941238-68941257 MsG0280010389.01.T01:intron 20.0%
!!! GTAAAAATAGTTGATATTCT+AGG - Chr2:68941233-68941252 None:intergenic 20.0%
!!! TTTACTTTTGATATTTTCTG+TGG + Chr2:68940916-68940935 MsG0280010389.01.T01:intron 20.0%
! ACCCATAAATTTATATTTGG+TGG + Chr2:68941425-68941444 MsG0280010389.01.T01:intron 25.0%
! TTAATGAAAATAGAGCTGTT+TGG + Chr2:68941066-68941085 MsG0280010389.01.T01:intron 25.0%
! TTATTTGAATTAAGCATAGC+AGG - Chr2:68941104-68941123 None:intergenic 25.0%
!! AAATGTTATTTGAAGCAACA+AGG - Chr2:68940712-68940731 None:intergenic 25.0%
!! AAGGAGCATATTAAAATTCA+TGG + Chr2:68941749-68941768 MsG0280010389.01.T01:CDS 25.0%
!! AATGTTATTTGAAGCAACAA+GGG - Chr2:68940711-68940730 None:intergenic 25.0%
!!! AATAAAAAAGGTACTTAACC+AGG - Chr2:68940889-68940908 None:intergenic 25.0%
!!! ATAAAAAAGGTACTTAACCA+GGG - Chr2:68940888-68940907 None:intergenic 25.0%
AATAAACGTTTGTCACTACA+TGG - Chr2:68941560-68941579 None:intergenic 30.0%
AATGAATGACTTCACATCTT+TGG + Chr2:68940801-68940820 MsG0280010389.01.T01:intron 30.0%
AGAATATAACAGATCGTTGT+AGG - Chr2:68941502-68941521 None:intergenic 30.0%
ATTCATTACCTGGACTAAAA+AGG - Chr2:68940788-68940807 None:intergenic 30.0%
GATTTAGATACGTAAATCAC+TGG + Chr2:68941468-68941487 MsG0280010389.01.T01:intron 30.0%
TACAACAAAACTCCTTCTTA+AGG - Chr2:68940612-68940631 None:intergenic 30.0%
TATCTAAATCCGTTCTATAG+AGG - Chr2:68941458-68941477 None:intergenic 30.0%
TATTCATGTCATTCATCGTA+TGG + Chr2:68941576-68941595 MsG0280010389.01.T01:intron 30.0%
! AATTTTAGATCCTTTTGCTG+AGG + Chr2:68940451-68940470 MsG0280010389.01.T01:CDS 30.0%
! ATGTTATTTGAAGCAACAAG+GGG - Chr2:68940710-68940729 None:intergenic 30.0%
!!! AAGAAGGAGTTTTGTTGTAA+TGG + Chr2:68940613-68940632 MsG0280010389.01.T01:intron 30.0%
AAGGCATATGCTTAGCTTAT+TGG + Chr2:68941026-68941045 MsG0280010389.01.T01:intron 35.0%
ATGTGAAGTCATTCATTACC+TGG - Chr2:68940798-68940817 None:intergenic 35.0%
GTGTAGGTTATTCAACTTCA+AGG + Chr2:68940739-68940758 MsG0280010389.01.T01:intron 35.0%
TATTCATGCCTTTCATTGCA+TGG + Chr2:68941619-68941638 MsG0280010389.01.T01:intron 35.0%
TGAATTCTTTCTTCAATCCC+TGG - Chr2:68940567-68940586 None:intergenic 35.0%
TTCAAATTCACAAGTGCAGA+GGG - Chr2:68941711-68941730 None:intergenic 35.0%
! GATTCTGAAAGACCTTAAGA+AGG + Chr2:68940597-68940616 MsG0280010389.01.T01:intron 35.0%
! TCAGTTTTCCATGCAATGAA+AGG - Chr2:68941630-68941649 None:intergenic 35.0%
! TTTGTTAGCTTCTCAGCAAT+AGG + Chr2:68941194-68941213 MsG0280010389.01.T01:intron 35.0%
!!! AGTGTTTTTTTCCTCCTGAT+TGG + Chr2:68941265-68941284 MsG0280010389.01.T01:intron 35.0%
!!! GTGTTTTTTTCCTCCTGATT+GGG + Chr2:68941266-68941285 MsG0280010389.01.T01:intron 35.0%
AAAAGCTTGACAACTGTCCA+GGG + Chr2:68940547-68940566 MsG0280010389.01.T01:intron 40.0%
AAAGACTGTTTACCCAAGTC+CGG - Chr2:68941405-68941424 None:intergenic 40.0%
ACTTATAGAGTTGCCTTTCC+CGG + Chr2:68941383-68941402 MsG0280010389.01.T01:intron 40.0%
ACTTGTGAATTTGAACAGGC+TGG + Chr2:68941716-68941735 MsG0280010389.01.T01:CDS 40.0%
ATTCGTATACAGCAGCGAAA+TGG + Chr2:68940521-68940540 MsG0280010389.01.T01:CDS 40.0%
CTGCACTTGTGAATTTGAAC+AGG + Chr2:68941712-68941731 MsG0280010389.01.T01:CDS 40.0%
GGATGTATGCCTCTATAGAA+CGG + Chr2:68941446-68941465 MsG0280010389.01.T01:intron 40.0%
GTACAAGATCATTCCCAATC+AGG - Chr2:68941282-68941301 None:intergenic 40.0%
GTTCAAATTCACAAGTGCAG+AGG - Chr2:68941712-68941731 None:intergenic 40.0%
TACTTAACCAGGGAAACAGA+TGG - Chr2:68940878-68940897 None:intergenic 40.0%
TCAGGAGGAAAAAAACACTG+AGG - Chr2:68941264-68941283 None:intergenic 40.0%
TTCGCTGCTGTATACGAATA+TGG - Chr2:68940520-68940539 None:intergenic 40.0%
TTGTAATGGTACAGTTGTCC+AGG + Chr2:68940627-68940646 MsG0280010389.01.T01:intron 40.0%
! TGTCTGAGATCAAGTTTCTC+TGG + Chr2:68940959-68940978 MsG0280010389.01.T01:intron 40.0%
!! TGTGTCTACCTTTTTAGTCC+AGG + Chr2:68940777-68940796 MsG0280010389.01.T01:CDS 40.0%
AAGACTGTTTACCCAAGTCC+GGG - Chr2:68941404-68941423 None:intergenic 45.0%
ATAAGTGCCAACCTGCTCAA+AGG - Chr2:68941369-68941388 None:intergenic 45.0%
CAAGATCATTCCCAATCAGG+AGG - Chr2:68941279-68941298 None:intergenic 45.0%
GAAAAGCTTGACAACTGTCC+AGG + Chr2:68940546-68940565 MsG0280010389.01.T01:intron 45.0%
GTGGCGTAATTTGATCTGAG+TGG + Chr2:68940935-68940954 MsG0280010389.01.T01:intron 45.0%
TCAGCATTTGCCTCAGCAAA+AGG - Chr2:68940464-68940483 None:intergenic 45.0%
TTCAACTTCAAGGCGATCAG+AGG + Chr2:68940749-68940768 MsG0280010389.01.T01:CDS 45.0%
TTCACAAGTGCAGAGGGATA+AGG - Chr2:68941705-68941724 None:intergenic 45.0%
! TTTTGCTGAGGCAAATGCTG+AGG + Chr2:68940463-68940482 MsG0280010389.01.T01:CDS 45.0%
ACAGGCTGGAATCGTGAAGA+AGG + Chr2:68941730-68941749 MsG0280010389.01.T01:CDS 50.0%
AGACATACCTGTCCTTGCTC+TGG - Chr2:68940655-68940674 None:intergenic 50.0%
ATTGTTGCCACACATCCCAC+AGG - Chr2:68940434-68940453 None:intergenic 50.0%
CAGGGAAACAGATGGATCTC+AGG - Chr2:68940870-68940889 None:intergenic 50.0%
CTGAGATCCATCTGTTTCCC+TGG + Chr2:68940868-68940887 MsG0280010389.01.T01:intron 50.0%
GACATACCTGTCCTTGCTCT+GGG - Chr2:68940654-68940673 None:intergenic 50.0%
TGTTTACCCAAGTCCGGGAA+AGG - Chr2:68941399-68941418 None:intergenic 50.0%
AGAGTTGCCTTTCCCGGACT+TGG + Chr2:68941389-68941408 MsG0280010389.01.T01:intron 55.0%
CACCAGTCCTTTGAGCAGGT+TGG + Chr2:68941359-68941378 MsG0280010389.01.T01:intron 55.0%
GAGTTGCCTTTCCCGGACTT+GGG + Chr2:68941390-68941409 MsG0280010389.01.T01:intron 55.0%
TGCCAACCTGCTCAAAGGAC+TGG - Chr2:68941364-68941383 None:intergenic 55.0%
TTCGCACCAGTCCTTTGAGC+AGG + Chr2:68941355-68941374 MsG0280010389.01.T01:intron 55.0%
! CTCCTTTGATGACCCAGCAC+CGG - Chr2:68940492-68940511 None:intergenic 55.0%
GAGGCAAATGCTGAGGACGC+CGG + Chr2:68940470-68940489 MsG0280010389.01.T01:CDS 60.0%
GTTGTCCAGGACCCAGAGCA+AGG + Chr2:68940640-68940659 MsG0280010389.01.T01:intron 60.0%
AATGCTGAGGACGCCGGTGC+TGG + Chr2:68940476-68940495 MsG0280010389.01.T01:CDS 65.0%
ATGCTGAGGACGCCGGTGCT+GGG + Chr2:68940477-68940496 MsG0280010389.01.T01:CDS 65.0%
CCAGGACCCAGAGCAAGGAC+AGG + Chr2:68940645-68940664 MsG0280010389.01.T01:CDS 65.0%
! CCTGTCCTTGCTCTGGGTCC+TGG - Chr2:68940648-68940667 None:intergenic 65.0%
! CGCCGGTGCTGGGTCATCAA+AGG + Chr2:68940487-68940506 MsG0280010389.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 68940425 68941778 68940425 ID=MsG0280010389.01;Name=MsG0280010389.01
Chr2 mRNA 68940425 68941778 68940425 ID=MsG0280010389.01.T01;Parent=MsG0280010389.01;Name=MsG0280010389.01.T01;_AED=0.46;_eAED=0.61;_QI=0|0.33|0.25|1|0|0|4|0|100
Chr2 exon 68940425 68940542 68940425 ID=MsG0280010389.01.T01:exon:9544;Parent=MsG0280010389.01.T01
Chr2 exon 68940641 68940666 68940641 ID=MsG0280010389.01.T01:exon:9545;Parent=MsG0280010389.01.T01
Chr2 exon 68940745 68940798 68940745 ID=MsG0280010389.01.T01:exon:9546;Parent=MsG0280010389.01.T01
Chr2 exon 68941674 68941778 68941674 ID=MsG0280010389.01.T01:exon:9547;Parent=MsG0280010389.01.T01
Chr2 CDS 68940425 68940542 68940425 ID=MsG0280010389.01.T01:cds;Parent=MsG0280010389.01.T01
Chr2 CDS 68940641 68940666 68940641 ID=MsG0280010389.01.T01:cds;Parent=MsG0280010389.01.T01
Chr2 CDS 68940745 68940798 68940745 ID=MsG0280010389.01.T01:cds;Parent=MsG0280010389.01.T01
Chr2 CDS 68941674 68941778 68941674 ID=MsG0280010389.01.T01:cds;Parent=MsG0280010389.01.T01
Gene Sequence

>MsG0280010389.01.T01

ATGACTCCTGTGGGATGTGTGGCAACAATTTTAGATCCTTTTGCTGAGGCAAATGCTGAGGACGCCGGTGCTGGGTCATCAAAGGAGTACGTCCATATTCGTATACAGCAGCGAAATGTTGTCCAGGACCCAGAGCAAGGACAGGTTATTCAACTTCAAGGCGATCAGAGGAAAAATGTGTCTACCTTTTTAGTCCAGATGATATCTTTAACTCTGTTAACAAAGTCCTTATCCCTCTGCACTTGTGAATTTGAACAGGCTGGAATCGTGAAGAAGGAGCATATTAAAATTCATGGTTTCTGA

Protein sequence

>MsG0280010389.01.T01

MTPVGCVATILDPFAEANAEDAGAGSSKEYVHIRIQQRNVVQDPEQGQVIQLQGDQRKNVSTFLVQMISLTLLTKSLSLCTCEFEQAGIVKKEHIKIHGF*