AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180003616.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003616.01.T01 MTR_4g037355 41.176 136 60 3 125 260 1 116 1.49e-22 91.7
MsG0180003616.01.T01 MTR_7g062720 38.393 112 63 1 5 116 37 142 2.33e-22 92.0
MsG0180003616.01.T01 MTR_5g061150 35.354 99 64 0 22 120 38 136 2.62e-18 80.5
MsG0180003616.01.T01 MTR_4g112730 57.971 69 28 1 113 181 2 69 2.68e-18 79.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 64 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGATCAATGGAACAAATTA+AGG 0.196151 1:-65264720 MsG0180003616.01.T01:CDS
AGTCTTATTGCCCTCATTAA+TGG 0.201947 1:-65264740 MsG0180003616.01.T01:CDS
AAAGCTGTGGCGTTTATTTC+AGG 0.210383 1:+65264424 None:intergenic
GACAAAATTAAGGCAAGATT+TGG 0.257188 1:-65264775 MsG0180003616.01.T01:CDS
GATTCTTGAGGGAGACGATT+TGG 0.271296 1:-65264917 MsG0180003616.01.T01:CDS
CACGGCCTCCACCACGAAAA+TGG 0.277262 1:+65264308 None:intergenic
CATAGGAGAAGATATTAATA+TGG 0.311554 1:-65264014 MsG0180003616.01.T01:CDS
ATTTACTGAATACTCTGATT+TGG 0.313227 1:-65264530 MsG0180003616.01.T01:CDS
CTTGATGATTCTTGTTGGTT+TGG 0.339105 1:+65264248 None:intergenic
GAAGAGGTTATATGAATTAT+AGG 0.339571 1:-65264285 MsG0180003616.01.T01:CDS
GGGAGATGTCCCAGAGGAAT+TGG 0.345733 1:-65264896 MsG0180003616.01.T01:CDS
ATTCTTGAGGGAGACGATTT+GGG 0.354692 1:-65264916 MsG0180003616.01.T01:CDS
AAGACAGGTAGTATCATTCT+TGG 0.359896 1:+65264051 None:intergenic
AATTGAGTATCTTGCATGTT+GGG 0.360791 1:-65264949 None:intergenic
TTTACCTTGATGATTCTTGT+TGG 0.362649 1:+65264243 None:intergenic
CTTGAGGCTGCTGATTTCAT+AGG 0.363536 1:-65264031 MsG0180003616.01.T01:CDS
GATTTCTAGAGGGACCTTCC+TGG 0.373636 1:+65264209 None:intergenic
CATAGCCACCACGTCCTCTT+TGG 0.374275 1:+65264374 None:intergenic
CGTGGTGGCTATGCTCGTTT+TGG 0.395091 1:-65264364 MsG0180003616.01.T01:CDS
ACAAAATTAAGGCAAGATTT+GGG 0.416566 1:-65264774 MsG0180003616.01.T01:CDS
TATAACTGAAAAGGAAAAGT+TGG 0.422757 1:-65264617 MsG0180003616.01.T01:CDS
CGTGGTGGAGGCCGTGGAAG+AGG 0.431707 1:-65264301 MsG0180003616.01.T01:CDS
TGCCCTCATTAATGGATCAA+TGG 0.432677 1:-65264732 MsG0180003616.01.T01:CDS
TTGTTCCTGTAGGACGTAAC+TGG 0.439062 1:+65264455 None:intergenic
AGATACAAAGAATCTGTTGA+TGG 0.446469 1:-65264109 MsG0180003616.01.T01:CDS
TGGCAAAACTATAACTGAAA+AGG 0.467052 1:-65264626 MsG0180003616.01.T01:CDS
TTGGTTTGGTCATATTTGAA+AGG 0.470217 1:+65264262 None:intergenic
ATCTGTTGATGGAAAGGAAA+AGG 0.477668 1:-65264098 MsG0180003616.01.T01:CDS
AGACAGGTAGTATCATTCTT+GGG 0.483328 1:+65264052 None:intergenic
ATCAAGCACCACATTGATGA+TGG 0.492315 1:-65264844 MsG0180003616.01.T01:CDS
TGCAACAACAATATAGAATG+AGG 0.496917 1:-65264555 MsG0180003616.01.T01:CDS
AACAAGAATCATCAAGGTAA+AGG 0.504207 1:-65264241 MsG0180003616.01.T01:CDS
AACCACCAGTTACGTCCTAC+AGG 0.509195 1:-65264460 MsG0180003616.01.T01:CDS
GGACTCGACAAGATTCTTGA+GGG 0.509272 1:-65264928 MsG0180003616.01.T01:CDS
GTTCCATTGATCCATTAATG+AGG 0.509644 1:+65264729 None:intergenic
CAAAGAATCTGTTGATGGAA+AGG 0.510693 1:-65264104 MsG0180003616.01.T01:CDS
TGTTATAGATGCGGAAAGAA+AGG 0.513070 1:-65264175 MsG0180003616.01.T01:CDS
TTCCATTGATCCATTAATGA+GGG 0.533283 1:+65264730 None:intergenic
GATGCGGAAAGAAAGGTCAT+TGG 0.533423 1:-65264168 MsG0180003616.01.T01:CDS
CGTGGTCGAGGCAGAAGTCA+TGG 0.554869 1:-65264337 MsG0180003616.01.T01:CDS
GAAATCAGCAGCCTCAAGAC+AGG 0.558951 1:+65264036 None:intergenic
CAAACCAACAAGAATCATCA+AGG 0.574004 1:-65264247 MsG0180003616.01.T01:CDS
TTTGGTTACAGCTCTTCTAG+TGG 0.574259 1:-65264512 MsG0180003616.01.T01:CDS
AGGTAAAGGTAAAAGCATCC+AGG 0.575090 1:-65264227 MsG0180003616.01.T01:CDS
GGATATGCCATTGTTCCTGT+AGG 0.578642 1:+65264445 None:intergenic
GCAACAACAATATAGAATGA+GGG 0.579939 1:-65264554 MsG0180003616.01.T01:CDS
GGGACTCGACAAGATTCTTG+AGG 0.580948 1:-65264929 MsG0180003616.01.T01:CDS
AATTCATATAACCTCTTCCA+CGG 0.595635 1:+65264290 None:intergenic
TTCCTGTAGGACGTAACTGG+TGG 0.602450 1:+65264458 None:intergenic
GCAATATCACTTGAGATGCA+TGG 0.608661 1:+65264575 None:intergenic
TATAATCGCCAAAGAGGACG+TGG 0.608957 1:-65264382 MsG0180003616.01.T01:CDS
TGTTGATGGAAAGGAAAAGG+AGG 0.612844 1:-65264095 MsG0180003616.01.T01:CDS
ACGATCATCATGATTTCTAG+AGG 0.627654 1:+65264198 None:intergenic
GTCATTGGTCTAAAGCATGT+AGG 0.629444 1:-65264153 MsG0180003616.01.T01:CDS
GATGATCGTTGTTATAGATG+CGG 0.637106 1:-65264184 MsG0180003616.01.T01:CDS
GAATGATACTACCTGTCTTG+AGG 0.637144 1:-65264047 MsG0180003616.01.T01:CDS
CGATCATCATGATTTCTAGA+GGG 0.638172 1:+65264199 None:intergenic
GGTGGTTATAATCGCCAAAG+AGG 0.642086 1:-65264388 MsG0180003616.01.T01:CDS
GTTACGTCCTACAGGAACAA+TGG 0.651542 1:-65264452 MsG0180003616.01.T01:CDS
AAAGGTAAAAGCATCCAGGA+AGG 0.661440 1:-65264223 MsG0180003616.01.T01:CDS
ACGCCCTTGATTAAAAGCTG+TGG 0.664043 1:+65264411 None:intergenic
AATCGCCAAAGAGGACGTGG+TGG 0.698905 1:-65264379 MsG0180003616.01.T01:CDS
TTTGTAATCCATCATCAATG+TGG 0.715751 1:+65264836 None:intergenic
CGATTTGGGAGATGTCCCAG+AGG 0.725435 1:-65264902 MsG0180003616.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACAAAATTAAGGCAAGATTT+GGG - Chr1:65264169-65264188 MsG0180003616.01.T01:CDS 25.0%
! ATTTACTGAATACTCTGATT+TGG - Chr1:65264413-65264432 MsG0180003616.01.T01:CDS 25.0%
! CATAGGAGAAGATATTAATA+TGG - Chr1:65264929-65264948 MsG0180003616.01.T01:CDS 25.0%
! GAAGAGGTTATATGAATTAT+AGG - Chr1:65264658-65264677 MsG0180003616.01.T01:CDS 25.0%
! TATAACTGAAAAGGAAAAGT+TGG - Chr1:65264326-65264345 MsG0180003616.01.T01:CDS 25.0%
!! AAAAGATCCCAAGATTTTAT+GGG - Chr1:65264146-65264165 MsG0180003616.01.T01:CDS 25.0%
!! AATTTTGTCCCATAAAATCT+TGG + Chr1:65264157-65264176 None:intergenic 25.0%
!! ATTGCACAATTAGAATTTTG+TGG - Chr1:65264297-65264316 MsG0180003616.01.T01:CDS 25.0%
!! ATTTTGTCCCATAAAATCTT+GGG + Chr1:65264156-65264175 None:intergenic 25.0%
!! GATTTTATGGGACAAAATTA+AGG - Chr1:65264158-65264177 MsG0180003616.01.T01:CDS 25.0%
!!! CAACAACAGTTTTATAATCT+TGG + Chr1:65264251-65264270 None:intergenic 25.0%
AACAAGAATCATCAAGGTAA+AGG - Chr1:65264702-65264721 MsG0180003616.01.T01:CDS 30.0%
AATTCATATAACCTCTTCCA+CGG + Chr1:65264656-65264675 None:intergenic 30.0%
AGATACAAAGAATCTGTTGA+TGG - Chr1:65264834-65264853 MsG0180003616.01.T01:CDS 30.0%
GACAAAATTAAGGCAAGATT+TGG - Chr1:65264168-65264187 MsG0180003616.01.T01:CDS 30.0%
GCAACAACAATATAGAATGA+GGG - Chr1:65264389-65264408 MsG0180003616.01.T01:CDS 30.0%
TGCAACAACAATATAGAATG+AGG - Chr1:65264388-65264407 MsG0180003616.01.T01:CDS 30.0%
TGGATCAATGGAACAAATTA+AGG - Chr1:65264223-65264242 MsG0180003616.01.T01:CDS 30.0%
TGGCAAAACTATAACTGAAA+AGG - Chr1:65264317-65264336 MsG0180003616.01.T01:CDS 30.0%
TTCCATTGATCCATTAATGA+GGG + Chr1:65264216-65264235 None:intergenic 30.0%
TTTGTAATCCATCATCAATG+TGG + Chr1:65264110-65264129 None:intergenic 30.0%
! CAAAAGATCCCAAGATTTTA+TGG - Chr1:65264145-65264164 MsG0180003616.01.T01:CDS 30.0%
! TATCTTTTACAGAGATACTC+TGG + Chr1:65264819-65264838 None:intergenic 30.0%
! TTTACCTTGATGATTCTTGT+TGG + Chr1:65264703-65264722 None:intergenic 30.0%
!! TTGGTTTGGTCATATTTGAA+AGG + Chr1:65264684-65264703 None:intergenic 30.0%
AAGACAGGTAGTATCATTCT+TGG + Chr1:65264895-65264914 None:intergenic 35.0%
AGACAGGTAGTATCATTCTT+GGG + Chr1:65264894-65264913 None:intergenic 35.0%
CAAACCAACAAGAATCATCA+AGG - Chr1:65264696-65264715 MsG0180003616.01.T01:CDS 35.0%
GATGATCGTTGTTATAGATG+CGG - Chr1:65264759-65264778 MsG0180003616.01.T01:CDS 35.0%
GTTCCATTGATCCATTAATG+AGG + Chr1:65264217-65264236 None:intergenic 35.0%
TGTTATAGATGCGGAAAGAA+AGG - Chr1:65264768-65264787 MsG0180003616.01.T01:CDS 35.0%
! ACGATCATCATGATTTCTAG+AGG + Chr1:65264748-65264767 None:intergenic 35.0%
! ATCTGTTGATGGAAAGGAAA+AGG - Chr1:65264845-65264864 MsG0180003616.01.T01:CDS 35.0%
! CAAAGAATCTGTTGATGGAA+AGG - Chr1:65264839-65264858 MsG0180003616.01.T01:CDS 35.0%
! CGATCATCATGATTTCTAGA+GGG + Chr1:65264747-65264766 None:intergenic 35.0%
! CTTGATGATTCTTGTTGGTT+TGG + Chr1:65264698-65264717 None:intergenic 35.0%
! TTTTCTTTGCCAATTCCTCT+GGG + Chr1:65264059-65264078 None:intergenic 35.0%
! TTTTTCTTTGCCAATTCCTC+TGG + Chr1:65264060-65264079 None:intergenic 35.0%
!! AGTCTTATTGCCCTCATTAA+TGG - Chr1:65264203-65264222 MsG0180003616.01.T01:CDS 35.0%
AAAGCTGTGGCGTTTATTTC+AGG + Chr1:65264522-65264541 None:intergenic 40.0%
ATCAAGCACCACATTGATGA+TGG - Chr1:65264099-65264118 MsG0180003616.01.T01:CDS 40.0%
ATTCTTGAGGGAGACGATTT+GGG - Chr1:65264027-65264046 MsG0180003616.01.T01:CDS 40.0%
GAATGATACTACCTGTCTTG+AGG - Chr1:65264896-65264915 MsG0180003616.01.T01:CDS 40.0%
GCAATATCACTTGAGATGCA+TGG + Chr1:65264371-65264390 None:intergenic 40.0%
TTTGGTTACAGCTCTTCTAG+TGG - Chr1:65264431-65264450 MsG0180003616.01.T01:CDS 40.0%
! AACGCCACAGCTTTTAATCA+AGG - Chr1:65264528-65264547 MsG0180003616.01.T01:CDS 40.0%
! ACGCCACAGCTTTTAATCAA+GGG - Chr1:65264529-65264548 MsG0180003616.01.T01:CDS 40.0%
! GTCATTGGTCTAAAGCATGT+AGG - Chr1:65264790-65264809 MsG0180003616.01.T01:CDS 40.0%
! TGCCCTCATTAATGGATCAA+TGG - Chr1:65264211-65264230 MsG0180003616.01.T01:CDS 40.0%
! TGTTGATGGAAAGGAAAAGG+AGG - Chr1:65264848-65264867 MsG0180003616.01.T01:CDS 40.0%
!! AAAGGTAAAAGCATCCAGGA+AGG - Chr1:65264720-65264739 MsG0180003616.01.T01:CDS 40.0%
!! AGGTAAAGGTAAAAGCATCC+AGG - Chr1:65264716-65264735 MsG0180003616.01.T01:CDS 40.0%
ACGCCCTTGATTAAAAGCTG+TGG + Chr1:65264535-65264554 None:intergenic 45.0%
GATGCGGAAAGAAAGGTCAT+TGG - Chr1:65264775-65264794 MsG0180003616.01.T01:CDS 45.0%
GATTCTTGAGGGAGACGATT+TGG - Chr1:65264026-65264045 MsG0180003616.01.T01:CDS 45.0%
GGACTCGACAAGATTCTTGA+GGG - Chr1:65264015-65264034 MsG0180003616.01.T01:CDS 45.0%
GGATATGCCATTGTTCCTGT+AGG + Chr1:65264501-65264520 None:intergenic 45.0%
GGTGGTTATAATCGCCAAAG+AGG - Chr1:65264555-65264574 MsG0180003616.01.T01:CDS 45.0%
GTTACGTCCTACAGGAACAA+TGG - Chr1:65264491-65264510 MsG0180003616.01.T01:CDS 45.0%
TATAATCGCCAAAGAGGACG+TGG - Chr1:65264561-65264580 MsG0180003616.01.T01:CDS 45.0%
TTGTTCCTGTAGGACGTAAC+TGG + Chr1:65264491-65264510 None:intergenic 45.0%
! ACAGCTTTTAATCAAGGGCG+TGG - Chr1:65264534-65264553 MsG0180003616.01.T01:CDS 45.0%
! CATGGTCGAAACCATTTTCG+TGG - Chr1:65264624-65264643 MsG0180003616.01.T01:CDS 45.0%
!! CTTGAGGCTGCTGATTTCAT+AGG - Chr1:65264912-65264931 MsG0180003616.01.T01:CDS 45.0%
AACCACCAGTTACGTCCTAC+AGG - Chr1:65264483-65264502 MsG0180003616.01.T01:CDS 50.0%
GAAATCAGCAGCCTCAAGAC+AGG + Chr1:65264910-65264929 None:intergenic 50.0%
GGGACTCGACAAGATTCTTG+AGG - Chr1:65264014-65264033 MsG0180003616.01.T01:CDS 50.0%
TTCCTGTAGGACGTAACTGG+TGG + Chr1:65264488-65264507 None:intergenic 50.0%
! CGAAACCATTTTCGTGGTGG+AGG - Chr1:65264630-65264649 MsG0180003616.01.T01:CDS 50.0%
! GATTTCTAGAGGGACCTTCC+TGG + Chr1:65264737-65264756 None:intergenic 50.0%
! GGTCGAAACCATTTTCGTGG+TGG - Chr1:65264627-65264646 MsG0180003616.01.T01:CDS 50.0%
!! GCTTTTAATCAAGGGCGTGG+TGG - Chr1:65264537-65264556 MsG0180003616.01.T01:CDS 50.0%
!! TATGCTCGTTTTGGTGGTCG+TGG - Chr1:65264588-65264607 MsG0180003616.01.T01:CDS 50.0%
AATCGCCAAAGAGGACGTGG+TGG - Chr1:65264564-65264583 MsG0180003616.01.T01:CDS 55.0%
CATAGCCACCACGTCCTCTT+TGG + Chr1:65264572-65264591 None:intergenic 55.0%
GGGAGATGTCCCAGAGGAAT+TGG - Chr1:65264047-65264066 MsG0180003616.01.T01:CDS 55.0%
! CGATTTGGGAGATGTCCCAG+AGG - Chr1:65264041-65264060 MsG0180003616.01.T01:CDS 55.0%
! CGTGGTGGCTATGCTCGTTT+TGG - Chr1:65264579-65264598 MsG0180003616.01.T01:CDS 55.0%
! GGTGGCTATGCTCGTTTTGG+TGG - Chr1:65264582-65264601 MsG0180003616.01.T01:CDS 55.0%
CACGGCCTCCACCACGAAAA+TGG + Chr1:65264638-65264657 None:intergenic 60.0%
CGTGGTCGAGGCAGAAGTCA+TGG - Chr1:65264606-65264625 MsG0180003616.01.T01:CDS 60.0%
!! CATTTTCGTGGTGGAGGCCG+TGG - Chr1:65264636-65264655 MsG0180003616.01.T01:CDS 60.0%
!! CGTTTTGGTGGTCGTGGTCG+AGG - Chr1:65264594-65264613 MsG0180003616.01.T01:CDS 60.0%
! CGTGGTGGAGGCCGTGGAAG+AGG - Chr1:65264642-65264661 MsG0180003616.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr1 gene 65264009 65264956 65264009 ID=MsG0180003616.01;Name=MsG0180003616.01
Chr1 mRNA 65264009 65264956 65264009 ID=MsG0180003616.01.T01;Parent=MsG0180003616.01;Name=MsG0180003616.01.T01;_AED=0.62;_eAED=0.62;_QI=0|-1|0|1|-1|1|1|0|315
Chr1 exon 65264009 65264956 65264009 ID=MsG0180003616.01.T01:exon:50576;Parent=MsG0180003616.01.T01
Chr1 CDS 65264009 65264956 65264009 ID=MsG0180003616.01.T01:cds;Parent=MsG0180003616.01.T01
Gene Sequence

>MsG0180003616.01.T01

ATGTTGGGACTCGACAAGATTCTTGAGGGAGACGATTTGGGAGATGTCCCAGAGGAATTGGCAAAGAAAAAATCAAAAGTAAATCGTATAATCAAGCACCACATTGATGATGGATTACAAACAGAGTATTCGAATGCAAAAGATCCCAAGATTTTATGGGACAAAATTAAGGCAAGATTTGGGCATCAGAAGAAAGTCTTATTGCCCTCATTAATGGATCAATGGAACAAATTAAGGTTCCAAGATTATAAAACTGTTGTTGCATATAACTCTGCTATGCATCAAATTATTGCACAATTAGAATTTTGTGGCAAAACTATAACTGAAAAGGAAAAGTTGGAGAAAACATTCTCAACTTTCCATGCATCTCAAGTGATATTGCAACAACAATATAGAATGAGGGAATTTACTGAATACTCTGATTTGGTTACAGCTCTTCTAGTGGCTGAACAAAATAATGAGCTACTCATTAAAAACCACCAGTTACGTCCTACAGGAACAATGGCATATCCTGAAATAAACGCCACAGCTTTTAATCAAGGGCGTGGTGGTTATAATCGCCAAAGAGGACGTGGTGGCTATGCTCGTTTTGGTGGTCGTGGTCGAGGCAGAAGTCATGGTCGAAACCATTTTCGTGGTGGAGGCCGTGGAAGAGGTTATATGAATTATAGGCCTTTCAAATATGACCAAACCAACAAGAATCATCAAGGTAAAGGTAAAAGCATCCAGGAAGGTCCCTCTAGAAATCATGATGATCGTTGTTATAGATGCGGAAAGAAAGGTCATTGGTCTAAAGCATGTAGGACACCAGAGTATCTCTGTAAAAGATACAAAGAATCTGTTGATGGAAAGGAAAAGGAGGTTAATTTTAATGAAATTGAACCCAAGAATGATACTACCTGTCTTGAGGCTGCTGATTTCATAGGAGAAGATATTAATATGGATTAA

Protein sequence

>MsG0180003616.01.T01

MLGLDKILEGDDLGDVPEELAKKKSKVNRIIKHHIDDGLQTEYSNAKDPKILWDKIKARFGHQKKVLLPSLMDQWNKLRFQDYKTVVAYNSAMHQIIAQLEFCGKTITEKEKLEKTFSTFHASQVILQQQYRMREFTEYSDLVTALLVAEQNNELLIKNHQLRPTGTMAYPEINATAFNQGRGGYNRQRGRGGYARFGGRGRGRSHGRNHFRGGGRGRGYMNYRPFKYDQTNKNHQGKGKSIQEGPSRNHDDRCYRCGKKGHWSKACRTPEYLCKRYKESVDGKEKEVNFNEIEPKNDTTCLEAADFIGEDINMD*