AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005963.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005963.01.T01 MTR_1g110840 95.238 231 11 0 1 231 1 231 1.92e-166 458
MsG0180005963.01.T01 MTR_6g453130 93.506 231 15 0 1 231 1 231 7.27e-164 452
MsG0180005963.01.T01 MTR_6g054080 90.043 231 23 0 1 231 1 231 1.07e-157 436
MsG0180005963.01.T01 MTR_6g054150 88.312 231 27 0 1 231 1 231 1.48e-155 431
MsG0180005963.01.T01 MTR_6g018270 54.598 174 58 7 1 168 1 159 2.22e-61 194
MsG0180005963.01.T01 MTR_7g007010 43.612 227 110 7 1 223 1 213 3.26e-55 179
MsG0180005963.01.T01 MTR_4g095600 56.303 119 48 2 3 119 1 117 2.32e-46 154
MsG0180005963.01.T01 MTR_5g015880 44.048 168 72 3 3 170 1 146 1.09e-44 149
MsG0180005963.01.T01 MTR_1g106420 44.882 127 63 2 3 124 1 125 1.25e-35 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005963.01.T01 AT3G02550 40.088 227 123 5 1 225 1 216 9.80e-53 171
MsG0180005963.01.T01 AT1G68510 54.422 147 55 3 1 145 1 137 1.07e-52 170
MsG0180005963.01.T01 AT1G67100 54.861 144 57 3 1 144 1 136 6.22e-50 163
MsG0180005963.01.T01 AT3G49940 53.659 123 55 1 3 125 1 121 1.70e-45 152
MsG0180005963.01.T01 AT5G67420 55.963 109 46 1 3 111 1 107 1.21e-43 147
MsG0180005963.01.T01 AT5G67420 55.963 109 46 1 3 111 1 107 1.21e-43 147
MsG0180005963.01.T01 AT4G37540 57.798 109 44 1 3 111 1 107 1.69e-43 147

Find 62 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGCATGCCCTTGGGATTC+AGG 0.157225 1:-98190023 None:intergenic
ATGGGGCGCTTGGCTTATTT+TGG 0.165756 1:+98190491 MsG0180005963.01.T01:CDS
AAGAATACCAACATGGAAAT+TGG 0.166066 1:+98190790 MsG0180005963.01.T01:CDS
ACCGGTTCGGCCATAAAATT+TGG 0.172606 1:-98190057 None:intergenic
ATGGCGTATATCAAAGGTTT+TGG 0.254539 1:-98190644 None:intergenic
TGCTGAGAATCAAGTGAATT+TGG 0.279066 1:+98190855 MsG0180005963.01.T01:CDS
CCATGTTGGTATTCTTCAAA+AGG 0.367139 1:-98190783 None:intergenic
AGAATACCAACATGGAAATT+GGG 0.374565 1:+98190791 MsG0180005963.01.T01:CDS
CTTTGATTGCCAATCAACTA+AGG 0.392207 1:+98190891 MsG0180005963.01.T01:CDS
CATAAAATTTGGCAAGGAAG+AGG 0.404166 1:-98190046 None:intergenic
GACTGAACCAACTCGTGGCT+TGG 0.415502 1:-98190737 None:intergenic
ACTGAACCAACTCGTGGCTT+GGG 0.424285 1:-98190736 None:intergenic
GTGAATTTGGAACTCACTCT+TGG 0.424885 1:+98190868 MsG0180005963.01.T01:CDS
GGAAGAGGGTGGCATGCCCT+TGG 0.443110 1:-98190031 None:intergenic
GCAACTGATCCACTCAAGGC+AGG 0.443950 1:-98190000 None:intergenic
TGGCATGCCCTTGGGATTCA+GGG 0.444879 1:-98190022 None:intergenic
AAAACTCAATTCAAAAGAGC+TGG 0.446487 1:+98190700 MsG0180005963.01.T01:CDS
ATTGATGGGCAGACATCATC+AGG 0.455052 1:+98190592 MsG0180005963.01.T01:CDS
GCAGTTGAAGCTGTGCTGAC+TGG 0.456964 1:+98190541 MsG0180005963.01.T01:CDS
AGATTGGTGAATCCCACATA+TGG 0.458590 1:+98190472 MsG0180005963.01.T01:CDS
TAAGCCAAGCGCCCCATATG+TGG 0.471835 1:-98190485 None:intergenic
CATGTTGGTATTCTTCAAAA+GGG 0.477135 1:-98190782 None:intergenic
GAAGAGGGTGGCATGCCCTT+GGG 0.479104 1:-98190030 None:intergenic
AATCATCACTGCAACCTTTG+CGG 0.482809 1:-98189965 None:intergenic
GGAGATTGAGCAAACCGGTT+CGG 0.494518 1:-98190070 None:intergenic
GATTGGTGAATCCCACATAT+GGG 0.508471 1:+98190473 MsG0180005963.01.T01:CDS
GATATACGCCATGTGGCAAA+AGG 0.516015 1:+98190655 MsG0180005963.01.T01:CDS
TGCCACATGGCGTATATCAA+AGG 0.516942 1:-98190650 None:intergenic
AATCCCACATATGGGGCGCT+TGG 0.518707 1:+98190481 MsG0180005963.01.T01:CDS
GGTGAGGAGATTGAGCAAAC+CGG 0.524508 1:-98190075 None:intergenic
TCATCAAGCCCTGCCTTGAG+TGG 0.538225 1:+98189991 MsG0180005963.01.T01:CDS
GTACCAATGTGGACATCAAA+GGG 0.546635 1:+98190677 MsG0180005963.01.T01:CDS
TTTCCCTTTGATGTCCACAT+TGG 0.551024 1:-98190680 None:intergenic
GGTACCAATGTGGACATCAA+AGG 0.551224 1:+98190676 MsG0180005963.01.T01:CDS
GTACGAGGCAGCTGGTAGAT+TGG 0.560594 1:+98190456 MsG0180005963.01.T01:CDS
GAATACCAACATGGAAATTG+GGG 0.561319 1:+98190792 MsG0180005963.01.T01:CDS
CTGAAGCCCAAGCCACGAGT+TGG 0.576033 1:+98190730 MsG0180005963.01.T01:CDS
AGTCTCCCCAATTTCCATGT+TGG 0.576332 1:-98190797 None:intergenic
ATAAAATTTGGCAAGGAAGA+GGG 0.578936 1:-98190045 None:intergenic
TTCGGCCATAAAATTTGGCA+AGG 0.579687 1:-98190052 None:intergenic
TAATGAAGTTGAGTTGCAAT+GGG 0.583194 1:+98189931 None:intergenic
TTTGATTGCCAATCAACTAA+GGG 0.586746 1:+98190892 MsG0180005963.01.T01:CDS
AAGCCAAGCGCCCCATATGT+GGG 0.589682 1:-98190484 None:intergenic
AAACTCAATTCAAAAGAGCT+GGG 0.590181 1:+98190701 MsG0180005963.01.T01:CDS
CAACTGATCCACTCAAGGCA+GGG 0.595554 1:-98189999 None:intergenic
ATCAGTTGCCCTGAATCCCA+AGG 0.599742 1:+98190014 MsG0180005963.01.T01:CDS
ATAATGAAGTTGAGTTGCAA+TGG 0.608858 1:+98189930 None:intergenic
TCATTGTTGTACGAGGCAGC+TGG 0.614180 1:+98190448 MsG0180005963.01.T01:CDS
ACGAGTTGGTTCAGTCGACT+CGG 0.622355 1:+98190744 MsG0180005963.01.T01:CDS
CAGGGCAACTGATCCACTCA+AGG 0.625744 1:-98190004 None:intergenic
GGGTGTCGTGTGCTCCGCAA+AGG 0.627575 1:+98189951 MsG0180005963.01.T01:CDS
ATTGGTGAATCCCACATATG+GGG 0.640018 1:+98190474 MsG0180005963.01.T01:CDS
TTTGATTGGTAGCATTGGTG+AGG 0.643249 1:-98190091 None:intergenic
AAATTGGGGAGACTTCATCA+AGG 0.644743 1:+98190806 MsG0180005963.01.T01:CDS
AATTGGGGAGACTTCATCAA+GGG 0.644822 1:+98190807 MsG0180005963.01.T01:CDS
AATCAAAATCATAATCCACC+AGG 0.664735 1:+98190107 MsG0180005963.01.T01:CDS
TCAGTTGCCCTGAATCCCAA+GGG 0.669183 1:+98190015 MsG0180005963.01.T01:CDS
AACCTTTGATATACGCCATG+TGG 0.671150 1:+98190648 MsG0180005963.01.T01:CDS
GAGTCGACTGAACCAACTCG+TGG 0.679210 1:-98190742 None:intergenic
AAATTTGGCAAGGAAGAGGG+TGG 0.680062 1:-98190042 None:intergenic
GTTTAAATCATTGTTGTACG+AGG 0.684324 1:+98190441 MsG0180005963.01.T01:CDS
TGTGGCAAAAGGTACCAATG+TGG 0.731996 1:+98190666 MsG0180005963.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATCTAACACTTAAATGA+TGG + Chr1:98190151-98190170 MsG0180005963.01.T01:intron 20.0%
!!! GAATCTATGAAAAGATTTTA+TGG - Chr1:98190349-98190368 None:intergenic 20.0%
!! ACAGTTTTACAATGATTGAT+GGG + Chr1:98190578-98190597 MsG0180005963.01.T01:CDS 25.0%
!! GTTTAATTTATGATCCGTAA+CGG - Chr1:98190308-98190327 None:intergenic 25.0%
AAAACTCAATTCAAAAGAGC+TGG + Chr1:98190700-98190719 MsG0180005963.01.T01:CDS 30.0%
AAACTCAATTCAAAAGAGCT+GGG + Chr1:98190701-98190720 MsG0180005963.01.T01:CDS 30.0%
AAGAATACCAACATGGAAAT+TGG + Chr1:98190790-98190809 MsG0180005963.01.T01:CDS 30.0%
AATCAAAATCATAATCCACC+AGG + Chr1:98190107-98190126 MsG0180005963.01.T01:CDS 30.0%
AGAATACCAACATGGAAATT+GGG + Chr1:98190791-98190810 MsG0180005963.01.T01:CDS 30.0%
ATAAAATTTGGCAAGGAAGA+GGG - Chr1:98190048-98190067 None:intergenic 30.0%
ATGGAACATAAATGAGACAT+AGG - Chr1:98190330-98190349 None:intergenic 30.0%
CATGTTGGTATTCTTCAAAA+GGG - Chr1:98190785-98190804 None:intergenic 30.0%
GTTTAAATCATTGTTGTACG+AGG + Chr1:98190441-98190460 MsG0180005963.01.T01:CDS 30.0%
TAAAAAAGTTTGTCGTGTAG+CGG - Chr1:98190240-98190259 None:intergenic 30.0%
TTTGATTGCCAATCAACTAA+GGG + Chr1:98190892-98190911 MsG0180005963.01.T01:CDS 30.0%
! ACCACAATTTAAAACCATGA+TGG - Chr1:98190203-98190222 None:intergenic 30.0%
! CAATTTAAAACCATGATGGA+TGG - Chr1:98190199-98190218 None:intergenic 30.0%
! GACAGTTTTACAATGATTGA+TGG + Chr1:98190577-98190596 MsG0180005963.01.T01:CDS 30.0%
!!! ATGATTTTGATTGGTAGCAT+TGG - Chr1:98190099-98190118 None:intergenic 30.0%
!!! TCCATCATGGTTTTAAATTG+TGG + Chr1:98190199-98190218 MsG0180005963.01.T01:intron 30.0%
!!! TGGTGGATTATGATTTTGAT+TGG - Chr1:98190108-98190127 None:intergenic 30.0%
ATCAATGATTCCATCCATCA+TGG + Chr1:98190186-98190205 MsG0180005963.01.T01:intron 35.0%
CATAAAATTTGGCAAGGAAG+AGG - Chr1:98190049-98190068 None:intergenic 35.0%
CCATGTTGGTATTCTTCAAA+AGG - Chr1:98190786-98190805 None:intergenic 35.0%
CTTTGATTGCCAATCAACTA+AGG + Chr1:98190891-98190910 MsG0180005963.01.T01:CDS 35.0%
GAATACCAACATGGAAATTG+GGG + Chr1:98190792-98190811 MsG0180005963.01.T01:CDS 35.0%
TGCTGAGAATCAAGTGAATT+TGG + Chr1:98190855-98190874 MsG0180005963.01.T01:CDS 35.0%
! ATGGCGTATATCAAAGGTTT+TGG - Chr1:98190647-98190666 None:intergenic 35.0%
! CTCTTCCTTGCCAAATTTTA+TGG + Chr1:98190047-98190066 MsG0180005963.01.T01:CDS 35.0%
! TGGCGTATATCAAAGGTTTT+GGG - Chr1:98190646-98190665 None:intergenic 35.0%
! TTTTCTTGCCCTTAGTTGAT+TGG - Chr1:98190903-98190922 None:intergenic 35.0%
!! CCTTTTGAAGAATACCAACA+TGG + Chr1:98190783-98190802 MsG0180005963.01.T01:CDS 35.0%
AAATTGGGGAGACTTCATCA+AGG + Chr1:98190806-98190825 MsG0180005963.01.T01:CDS 40.0%
AACCTTTGATATACGCCATG+TGG + Chr1:98190648-98190667 MsG0180005963.01.T01:CDS 40.0%
AATCATCACTGCAACCTTTG+CGG - Chr1:98189968-98189987 None:intergenic 40.0%
AATTGGGGAGACTTCATCAA+GGG + Chr1:98190807-98190826 MsG0180005963.01.T01:CDS 40.0%
AGATTGGTGAATCCCACATA+TGG + Chr1:98190472-98190491 MsG0180005963.01.T01:CDS 40.0%
ATTGGTGAATCCCACATATG+GGG + Chr1:98190474-98190493 MsG0180005963.01.T01:CDS 40.0%
GATTGGTGAATCCCACATAT+GGG + Chr1:98190473-98190492 MsG0180005963.01.T01:CDS 40.0%
GTACCAATGTGGACATCAAA+GGG + Chr1:98190677-98190696 MsG0180005963.01.T01:CDS 40.0%
TATGATCCGTAACGGTATTG+CGG - Chr1:98190300-98190319 None:intergenic 40.0%
TTCGGCCATAAAATTTGGCA+AGG - Chr1:98190055-98190074 None:intergenic 40.0%
TTTCCCTTTGATGTCCACAT+TGG - Chr1:98190683-98190702 None:intergenic 40.0%
! GGCGTATATCAAAGGTTTTG+GGG - Chr1:98190645-98190664 None:intergenic 40.0%
! GTGAATTTGGAACTCACTCT+TGG + Chr1:98190868-98190887 MsG0180005963.01.T01:CDS 40.0%
!! GTGACCAACTTAAGTTGATG+CGG + Chr1:98190274-98190293 MsG0180005963.01.T01:intron 40.0%
!! TTTGATTGGTAGCATTGGTG+AGG - Chr1:98190094-98190113 None:intergenic 40.0%
!!! GCTTATTTTGGACAGCGAAT+TGG + Chr1:98190503-98190522 MsG0180005963.01.T01:CDS 40.0%
AAATTTGGCAAGGAAGAGGG+TGG - Chr1:98190045-98190064 None:intergenic 45.0%
AGTCTCCCCAATTTCCATGT+TGG - Chr1:98190800-98190819 None:intergenic 45.0%
AGTGAACATAGCTAGCTACC+TGG - Chr1:98190128-98190147 None:intergenic 45.0%
GATATACGCCATGTGGCAAA+AGG + Chr1:98190655-98190674 MsG0180005963.01.T01:CDS 45.0%
GGTACCAATGTGGACATCAA+AGG + Chr1:98190676-98190695 MsG0180005963.01.T01:CDS 45.0%
TGCCACATGGCGTATATCAA+AGG - Chr1:98190653-98190672 None:intergenic 45.0%
! ATTGATGGGCAGACATCATC+AGG + Chr1:98190592-98190611 MsG0180005963.01.T01:CDS 45.0%
! CATTGGTACCTTTTGCCACA+TGG - Chr1:98190666-98190685 None:intergenic 45.0%
! GCCAAATTTTATGGCCGAAC+CGG + Chr1:98190056-98190075 MsG0180005963.01.T01:CDS 45.0%
!! ACCGGTTCGGCCATAAAATT+TGG - Chr1:98190060-98190079 None:intergenic 45.0%
!! TGTGGCAAAAGGTACCAATG+TGG + Chr1:98190666-98190685 MsG0180005963.01.T01:CDS 45.0%
ACTGAACCAACTCGTGGCTT+GGG - Chr1:98190739-98190758 None:intergenic 50.0%
ATCAGTTGCCCTGAATCCCA+AGG + Chr1:98190014-98190033 MsG0180005963.01.T01:CDS 50.0%
CAACTGATCCACTCAAGGCA+GGG - Chr1:98190002-98190021 None:intergenic 50.0%
GAACATAGCTAGCTACCTGG+TGG - Chr1:98190125-98190144 None:intergenic 50.0%
GGAGATTGAGCAAACCGGTT+CGG - Chr1:98190073-98190092 None:intergenic 50.0%
GGTGAGGAGATTGAGCAAAC+CGG - Chr1:98190078-98190097 None:intergenic 50.0%
TCAGTTGCCCTGAATCCCAA+GGG + Chr1:98190015-98190034 MsG0180005963.01.T01:CDS 50.0%
TCATTGTTGTACGAGGCAGC+TGG + Chr1:98190448-98190467 MsG0180005963.01.T01:CDS 50.0%
!! ACGAGTTGGTTCAGTCGACT+CGG + Chr1:98190744-98190763 MsG0180005963.01.T01:CDS 50.0%
!! ATGGGGCGCTTGGCTTATTT+TGG + Chr1:98190491-98190510 MsG0180005963.01.T01:CDS 50.0%
AAGCCAAGCGCCCCATATGT+GGG - Chr1:98190487-98190506 None:intergenic 55.0%
ATGCGGCCGCAATACCGTTA+CGG + Chr1:98190291-98190310 MsG0180005963.01.T01:intron 55.0%
CAGGGCAACTGATCCACTCA+AGG - Chr1:98190007-98190026 None:intergenic 55.0%
GACTGAACCAACTCGTGGCT+TGG - Chr1:98190740-98190759 None:intergenic 55.0%
GAGTCGACTGAACCAACTCG+TGG - Chr1:98190745-98190764 None:intergenic 55.0%
GCAACTGATCCACTCAAGGC+AGG - Chr1:98190003-98190022 None:intergenic 55.0%
GCGGCCGCATCAACTTAAGT+TGG - Chr1:98190281-98190300 None:intergenic 55.0%
GTACGAGGCAGCTGGTAGAT+TGG + Chr1:98190456-98190475 MsG0180005963.01.T01:CDS 55.0%
TAAGCCAAGCGCCCCATATG+TGG - Chr1:98190488-98190507 None:intergenic 55.0%
TCATCAAGCCCTGCCTTGAG+TGG + Chr1:98189991-98190010 MsG0180005963.01.T01:CDS 55.0%
TGGCATGCCCTTGGGATTCA+GGG - Chr1:98190025-98190044 None:intergenic 55.0%
! AATCCCACATATGGGGCGCT+TGG + Chr1:98190481-98190500 MsG0180005963.01.T01:CDS 55.0%
! GCAGTTGAAGCTGTGCTGAC+TGG + Chr1:98190541-98190560 MsG0180005963.01.T01:CDS 55.0%
CTGAAGCCCAAGCCACGAGT+TGG + Chr1:98190730-98190749 MsG0180005963.01.T01:CDS 60.0%
GAAGAGGGTGGCATGCCCTT+GGG - Chr1:98190033-98190052 None:intergenic 60.0%
GTGGCATGCCCTTGGGATTC+AGG - Chr1:98190026-98190045 None:intergenic 60.0%
GGAAGAGGGTGGCATGCCCT+TGG - Chr1:98190034-98190053 None:intergenic 65.0%
! GGGTGTCGTGTGCTCCGCAA+AGG + Chr1:98189951-98189970 MsG0180005963.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 98189933 98190936 98189933 ID=MsG0180005963.01;Name=MsG0180005963.01
Chr1 mRNA 98189933 98190936 98189933 ID=MsG0180005963.01.T01;Parent=MsG0180005963.01;Name=MsG0180005963.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|231
Chr1 exon 98189933 98190128 98189933 ID=MsG0180005963.01.T01:exon:19698;Parent=MsG0180005963.01.T01
Chr1 exon 98190437 98190936 98190437 ID=MsG0180005963.01.T01:exon:19699;Parent=MsG0180005963.01.T01
Chr1 CDS 98189933 98190128 98189933 ID=MsG0180005963.01.T01:cds;Parent=MsG0180005963.01.T01
Chr1 CDS 98190437 98190936 98190437 ID=MsG0180005963.01.T01:cds;Parent=MsG0180005963.01.T01
Gene Sequence

>MsG0180005963.01.T01

ATGAAGTTGAGTTGCAATGGGTGTCGTGTGCTCCGCAAAGGTTGCAGTGATGATTGTATCATCAAGCCCTGCCTTGAGTGGATCAGTTGCCCTGAATCCCAAGGGCATGCCACCCTCTTCCTTGCCAAATTTTATGGCCGAACCGGTTTGCTCAATCTCCTCACCAATGCTACCAATCAAAATCATAATCCACCAGCTGTGTTTAAATCATTGTTGTACGAGGCAGCTGGTAGATTGGTGAATCCCACATATGGGGCGCTTGGCTTATTTTGGACAGCGAATTGGAGTCGTTGTGAAGCTGCAGTTGAAGCTGTGCTGACTGGATCGAATATTAATGACAGTTTTACAATGATTGATGGGCAGACATCATCAGGTACACTCAATGCTGAAAATCATGTTCTCCCCAAAACCTTTGATATACGCCATGTGGCAAAAGGTACCAATGTGGACATCAAAGGGAAAACTCAATTCAAAAGAGCTGGGCAAGTTCTGAAGCCCAAGCCACGAGTTGGTTCAGTCGACTCGGCTACAATGTTGAAATCCCTTTTGAAGAATACCAACATGGAAATTGGGGAGACTTCATCAAGGGTTCAAACAGAGAAAATTAATGAAGCTGCTGAGAATCAAGTGAATTTGGAACTCACTCTTGGCTTTGATTGCCAATCAACTAAGGGCAAGAAAATATTAGATAAATGA
Protein sequence

>MsG0180005963.01.T01

MKLSCNGCRVLRKGCSDDCIIKPCLEWISCPESQGHATLFLAKFYGRTGLLNLLTNATNQNHNPPAVFKSLLYEAAGRLVNPTYGALGLFWTANWSRCEAAVEAVLTGSNINDSFTMIDGQTSSGTLNAENHVLPKTFDIRHVAKGTNVDIKGKTQFKRAGQVLKPKPRVGSVDSATMLKSLLKNTNMEIGETSSRVQTEKINEAAENQVNLELTLGFDCQSTKGKKILDK*