AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036678.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036678.01.T01 MTR_4g051220 96.774 93 3 0 1 93 100 192 3.33e-62 189
MsG0780036678.01.T01 MTR_0002s0590 66.265 83 28 0 1 83 100 182 6.15e-34 121
MsG0780036678.01.T01 MTR_0477s0040 92.857 42 3 0 99 140 1 42 1.56e-21 82.4
MsG0780036678.01.T01 MTR_4g051213 92.857 42 3 0 99 140 1 42 1.56e-21 82.4
MsG0780036678.01.T01 MTR_1g041800 69.643 56 5 1 99 142 1 56 1.56e-18 74.3
MsG0780036678.01.T01 MTR_8g102790 83.784 37 6 0 99 135 1 37 9.41e-16 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036678.01.T01 ATCG00380 79.570 93 19 0 1 93 100 192 1.09e-46 150

Find 29 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAATAATTCCGACAACTTT+TGG 0.182210 7:-11752132 MsG0780036678.01.T01:CDS
GATTGACTAATCCTTTATAT+TGG 0.284280 7:+11752851 None:intergenic
CTTGATCCATTCCAATATAA+AGG 0.291752 7:-11752862 MsG0780036678.01.T01:CDS
ATGACTAGATCTCAGATAAA+TGG 0.293020 7:-11752201 MsG0780036678.01.T01:CDS
AATTATTCGTAATAAGATAT+TGG 0.314059 7:+11752146 None:intergenic
ATCAAATAATAGATAGCAAA+TGG 0.349986 7:-11752831 MsG0780036678.01.T01:CDS
TTTGAAAATTAATGAATTGC+TGG 0.365999 7:-11752803 MsG0780036678.01.T01:intron
TTTATCTGAGATCTAGTCAT+AGG 0.438870 7:+11752204 None:intergenic
ATGGATTGGCAATTCTTCGC+GGG 0.450528 7:+11752891 None:intergenic
TGAGGTTTGCAACGATAACT+TGG 0.468099 7:+11752982 None:intergenic
ACTAATCCTTTATATTGGAA+TGG 0.475526 7:+11752856 None:intergenic
GTCTGTGGTTAACTAATTGA+CGG 0.477609 7:+11753037 None:intergenic
GATATTGGCTACAATGGTAA+AGG 0.509030 7:+11752161 None:intergenic
GGATCAAGAGTCAAATGGAT+TGG 0.511159 7:+11752877 None:intergenic
ATAATAGATAGCAAATGGGT+TGG 0.516389 7:-11752826 MsG0780036678.01.T01:CDS
TCTGTGGTTAACTAATTGAC+GGG 0.521261 7:+11753038 None:intergenic
TCAAATAATAGATAGCAAAT+GGG 0.523820 7:-11752830 MsG0780036678.01.T01:CDS
AATGGATTGGCAATTCTTCG+CGG 0.545268 7:+11752890 None:intergenic
TCAAGATATTATTACAGCGA+AGG 0.559737 7:-11752962 MsG0780036678.01.T01:CDS
TTCGCTGTAATAATATCTTG+AGG 0.560954 7:+11752964 None:intergenic
TAATAAGATATTGGCTACAA+TGG 0.565840 7:+11752155 None:intergenic
CAAGATATTATTACAGCGAA+GGG 0.569002 7:-11752961 MsG0780036678.01.T01:CDS
TCATTCACTTATTACAGAGA+TGG 0.570873 7:-11752099 MsG0780036678.01.T01:CDS
TTAACTAATTGACGGGCTTG+AGG 0.581554 7:+11753045 None:intergenic
GGAATGGATCAAGAGTCAAA+TGG 0.582974 7:+11752872 None:intergenic
GATTGGCAATTCTTCGCGGG+GGG 0.584547 7:+11752894 None:intergenic
TGGATTGGCAATTCTTCGCG+GGG 0.610754 7:+11752892 None:intergenic
CATTAACTAAAACATGTCTG+TGG 0.663264 7:+11753022 None:intergenic
GGATTGGCAATTCTTCGCGG+GGG 0.681198 7:+11752893 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATTCGTAATAAGATAT+TGG + Chr7:11753006-11753025 None:intergenic 15.0%
!!! AATCAAATAATTTTATCCTA+CGG + Chr7:11752812-11752831 None:intergenic 15.0%
!!! TAAACAATGAAATTTTAGAA+TGG - Chr7:11752915-11752934 MsG0780036678.01.T01:CDS 15.0%
!! AGTACGAAATAACATAAAAA+TGG + Chr7:11752851-11752870 None:intergenic 20.0%
!! ATCAAATAATAGATAGCAAA+TGG - Chr7:11752318-11752337 MsG0780036678.01.T01:intron 20.0%
!! GTTTATTACAGAAAGAAATT+AGG - Chr7:11752506-11752525 MsG0780036678.01.T01:intron 20.0%
!! TCAAATAATAGATAGCAAAT+GGG - Chr7:11752319-11752338 MsG0780036678.01.T01:intron 20.0%
!! TTCTGTAATAAACAAAATAG+TGG + Chr7:11752499-11752518 None:intergenic 20.0%
!! TTTGAAAATTAATGAATTGC+TGG - Chr7:11752346-11752365 MsG0780036678.01.T01:intron 20.0%
! AACAAAAAAAACTTACTTCG+AGG - Chr7:11752782-11752801 MsG0780036678.01.T01:intron 25.0%
! AACATTGATGAACTTGATAA+GGG - Chr7:11752589-11752608 MsG0780036678.01.T01:intron 25.0%
! ACTAATCCTTTATATTGGAA+TGG + Chr7:11752296-11752315 None:intergenic 25.0%
! GATTGACTAATCCTTTATAT+TGG + Chr7:11752301-11752320 None:intergenic 25.0%
! TAACATTGATGAACTTGATA+AGG - Chr7:11752588-11752607 MsG0780036678.01.T01:intron 25.0%
! TATTGTACAATTCCTTTGTT+TGG - Chr7:11752872-11752891 MsG0780036678.01.T01:CDS 25.0%
!! AACAAAATAGTGGAATAAAG+TGG + Chr7:11752489-11752508 None:intergenic 25.0%
!! ACAAAATAGTGGAATAAAGT+GGG + Chr7:11752488-11752507 None:intergenic 25.0%
!! ATTGTACAATTCCTTTGTTT+GGG - Chr7:11752873-11752892 MsG0780036678.01.T01:CDS 25.0%
!! TAATAAGATATTGGCTACAA+TGG + Chr7:11752997-11753016 None:intergenic 25.0%
!!! ATAAGAATAATTTTGATCCG+AGG - Chr7:11752416-11752435 MsG0780036678.01.T01:intron 25.0%
ATAATAGATAGCAAATGGGT+TGG - Chr7:11752323-11752342 MsG0780036678.01.T01:intron 30.0%
ATGACTAGATCTCAGATAAA+TGG - Chr7:11752948-11752967 MsG0780036678.01.T01:CDS 30.0%
CAAGATATTATTACAGCGAA+GGG - Chr7:11752188-11752207 MsG0780036678.01.T01:CDS 30.0%
CATTAACTAAAACATGTCTG+TGG + Chr7:11752130-11752149 None:intergenic 30.0%
CTTGATCCATTCCAATATAA+AGG - Chr7:11752287-11752306 MsG0780036678.01.T01:intron 30.0%
TAAAATAATCCCCCAAACAA+AGG + Chr7:11752887-11752906 None:intergenic 30.0%
TAATCATTATGTAGGAGAGA+TGG + Chr7:11752695-11752714 None:intergenic 30.0%
TCAAGATATTATTACAGCGA+AGG - Chr7:11752187-11752206 MsG0780036678.01.T01:CDS 30.0%
TCATTATTCCAACTTTGATG+TGG + Chr7:11752542-11752561 None:intergenic 30.0%
TCATTCACTTATTACAGAGA+TGG - Chr7:11753050-11753069 MsG0780036678.01.T01:CDS 30.0%
TTCGCTGTAATAATATCTTG+AGG + Chr7:11752188-11752207 None:intergenic 30.0%
! AAATAATTTTATCCTACGGC+AGG + Chr7:11752808-11752827 None:intergenic 30.0%
! CAAAATAGTGGAATAAAGTG+GGG + Chr7:11752487-11752506 None:intergenic 30.0%
! TCTTTTTCTCCAAAAGTTGT+CGG + Chr7:11753029-11753048 None:intergenic 30.0%
! TTGTACAATTCCTTTGTTTG+GGG - Chr7:11752874-11752893 MsG0780036678.01.T01:CDS 30.0%
! TTTATCTGAGATCTAGTCAT+AGG + Chr7:11752948-11752967 None:intergenic 30.0%
!!! CACAGACATGTTTTAGTTAA+TGG - Chr7:11752128-11752147 MsG0780036678.01.T01:CDS 30.0%
CATACATATTCCATTTGCGT+AGG - Chr7:11752738-11752757 MsG0780036678.01.T01:intron 35.0%
GTCTGTGGTTAACTAATTGA+CGG + Chr7:11752115-11752134 None:intergenic 35.0%
TAGAGAATCCACATCAAAGT+TGG - Chr7:11752531-11752550 MsG0780036678.01.T01:intron 35.0%
TCTGTGGTTAACTAATTGAC+GGG + Chr7:11752114-11752133 None:intergenic 35.0%
! CGAATAATTCCGACAACTTT+TGG - Chr7:11753017-11753036 MsG0780036678.01.T01:CDS 35.0%
! GATATTGGCTACAATGGTAA+AGG + Chr7:11752991-11753010 None:intergenic 35.0%
! TGTACAATTCCTTTGTTTGG+GGG - Chr7:11752875-11752894 MsG0780036678.01.T01:CDS 35.0%
ACCCACGTCTATACATGAAT+GGG + Chr7:11752449-11752468 None:intergenic 40.0%
ATTCATGTATAGACGTGGGT+GGG - Chr7:11752449-11752468 MsG0780036678.01.T01:intron 40.0%
GGAATGGATCAAGAGTCAAA+TGG + Chr7:11752280-11752299 None:intergenic 40.0%
GGATCAAGAGTCAAATGGAT+TGG + Chr7:11752275-11752294 None:intergenic 40.0%
TAGCACTAGAACTGCTATGT+AGG + Chr7:11752655-11752674 None:intergenic 40.0%
TGAGGTTTGCAACGATAACT+TGG + Chr7:11752170-11752189 None:intergenic 40.0%
TGATGAACTTGATAAGGGTG+CGG - Chr7:11752594-11752613 MsG0780036678.01.T01:intron 40.0%
! GAGGGGCATAATCATTATGT+AGG + Chr7:11752703-11752722 None:intergenic 40.0%
!! AATGGATTGGCAATTCTTCG+CGG + Chr7:11752262-11752281 None:intergenic 40.0%
!! GTAGGCTTTTTGTTTACCGA+GGG + Chr7:11752637-11752656 None:intergenic 40.0%
!! TGTAGGCTTTTTGTTTACCG+AGG + Chr7:11752638-11752657 None:intergenic 40.0%
!! TTAACTAATTGACGGGCTTG+AGG + Chr7:11752107-11752126 None:intergenic 40.0%
ATGCCTCACTATTCACTCGA+GGG + Chr7:11752721-11752740 None:intergenic 45.0%
ATTATGTGCGCCTACGCAAA+TGG + Chr7:11752751-11752770 None:intergenic 45.0%
CACCCACGTCTATACATGAA+TGG + Chr7:11752450-11752469 None:intergenic 45.0%
CATGAATGGGGGAAAATCCT+CGG + Chr7:11752436-11752455 None:intergenic 45.0%
CATTCATGTATAGACGTGGG+TGG - Chr7:11752448-11752467 MsG0780036678.01.T01:intron 45.0%
CCACGTCTATACATGAATGG+GGG + Chr7:11752447-11752466 None:intergenic 45.0%
CCCACGTCTATACATGAATG+GGG + Chr7:11752448-11752467 None:intergenic 45.0%
CCCCATTCATGTATAGACGT+GGG - Chr7:11752445-11752464 MsG0780036678.01.T01:intron 45.0%
TATAGACGTGGGTGGGTATT+AGG - Chr7:11752456-11752475 MsG0780036678.01.T01:intron 45.0%
TATGCCTCACTATTCACTCG+AGG + Chr7:11752722-11752741 None:intergenic 45.0%
!! ATGGATTGGCAATTCTTCGC+GGG + Chr7:11752261-11752280 None:intergenic 45.0%
!!! TCTTATTTTAATATTTAATT+AGG + Chr7:11752402-11752421 None:intergenic 5.0%
AAGAGAGGGATTCGAACCCT+CGG - Chr7:11752618-11752637 MsG0780036678.01.T01:intron 50.0%
CCCCCATTCATGTATAGACG+TGG - Chr7:11752444-11752463 MsG0780036678.01.T01:intron 50.0%
TGCCTCACTATTCACTCGAG+GGG + Chr7:11752720-11752739 None:intergenic 50.0%
! GATAAGGGTGCGGAAAGAGA+GGG - Chr7:11752604-11752623 MsG0780036678.01.T01:intron 50.0%
! TGATAAGGGTGCGGAAAGAG+AGG - Chr7:11752603-11752622 MsG0780036678.01.T01:intron 50.0%
!! TGGATTGGCAATTCTTCGCG+GGG + Chr7:11752260-11752279 None:intergenic 50.0%
AGAGATGGCCGAGTGGTTGA+AGG + Chr7:11752680-11752699 None:intergenic 55.0%
ATGTAGGAGAGATGGCCGAG+TGG + Chr7:11752687-11752706 None:intergenic 55.0%
GATTGGCAATTCTTCGCGGG+GGG + Chr7:11752258-11752277 None:intergenic 55.0%
GTGCTACGCCTTCAACCACT+CGG - Chr7:11752669-11752688 MsG0780036678.01.T01:intron 55.0%
TGCCCCTCGAGTGAATAGTG+AGG - Chr7:11752715-11752734 MsG0780036678.01.T01:intron 55.0%
! GGATTGGCAATTCTTCGCGG+GGG + Chr7:11752259-11752278 None:intergenic 55.0%
CTTACTTCGAGGCCTGCCGT+AGG - Chr7:11752793-11752812 MsG0780036678.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 11752089 11753082 11752089 ID=MsG0780036678.01;Name=MsG0780036678.01
Chr7 mRNA 11752089 11753082 11752089 ID=MsG0780036678.01.T01;Parent=MsG0780036678.01;Name=MsG0780036678.01.T01;_AED=0.47;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|142
Chr7 exon 11752804 11753082 11752804 ID=MsG0780036678.01.T01:exon:2240;Parent=MsG0780036678.01.T01
Chr7 exon 11752089 11752238 11752089 ID=MsG0780036678.01.T01:exon:2239;Parent=MsG0780036678.01.T01
Chr7 CDS 11752804 11753082 11752804 ID=MsG0780036678.01.T01:cds;Parent=MsG0780036678.01.T01
Chr7 CDS 11752089 11752238 11752089 ID=MsG0780036678.01.T01:cds;Parent=MsG0780036678.01.T01
Gene Sequence

>MsG0780036678.01.T01

ATGGCTTCGACTATTCCTCAAGCCCGTCAATTAGTTAACCACAGACATGTTTTAGTTAATGGTCGTATAGTAGATATACCAAGTTATCGTTGCAAACCTCAAGATATTATTACAGCGAAGGGTGAACAAAAATCTAGAACTCTGATTCAAAATTCTCTTGAATCAGCCCCCCGCGAAGAATTGCCAATCCATTTGACTCTTGATCCATTCCAATATAAAGGATTAGTCAATCAAATAATAGATAGCAAATGGGTTGGTTTGAAAATTAATGAATTGCTGAATGGATTGCTACCTATGACTAGATCTCAGATAAATGGAAATTTTATTGATAAGACCTTTACCATTGTAGCCAATATCTTATTACGAATAATTCCGACAACTTTTGGAGAAAAAGAGTCATTCACTTATTACAGAGATGGTGCAATTTGA
Protein sequence

>MsG0780036678.01.T01

MASTIPQARQLVNHRHVLVNGRIVDIPSYRCKPQDIITAKGEQKSRTLIQNSLESAPREELPIHLTLDPFQYKGLVNQIIDSKWVGLKINELLNGLLPMTRSQINGNFIDKTFTIVANILLRIIPTTFGEKESFTYYRDGAI*