AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022587.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022587.01.T01 MTR_4g092750 75.455 110 5 1 7 116 229 316 1.64e-48 157
MsG0480022587.01.T01 MTR_4g092750 80.000 55 11 0 7 61 229 283 1.13e-24 95.1
MsG0480022587.01.T01 MTR_4g092750 93.333 45 3 0 7 51 229 273 3.18e-23 91.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022587.01.T01 AT4G33670 50.000 110 33 1 7 116 232 319 5.39e-27 101

Find 32 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCATCTCCTCCAGCTATT+TGG 0.192361 4:+74405037 MsG0480022587.01.T01:three_prime_UTR
GCAACTTATTGCAAAGAAAA+TGG 0.252619 4:+74403669 MsG0480022587.01.T01:CDS
GCAAGAGAACTTGCAGCTTC+TGG 0.255338 4:+74404895 MsG0480022587.01.T01:CDS
CTCATCTCCTCCAGCTATTT+GGG 0.263520 4:+74405038 MsG0480022587.01.T01:three_prime_UTR
GCAGTACAGCTTGTTAAATA+AGG 0.324806 4:+74403716 MsG0480022587.01.T01:CDS
CTTCTACTGCTGTTGTAACT+TGG 0.401378 4:+74405163 MsG0480022587.01.T01:three_prime_UTR
GATTTGAGATACTGTCTGTA+TGG 0.425941 4:+74405303 MsG0480022587.01.T01:three_prime_UTR
CAGCAAGGGGTCAACTCTGC+TGG 0.427552 4:-74404993 None:intergenic
AGATTGACATTTGCATGCAT+TGG 0.428000 4:+74404385 MsG0480022587.01.T01:CDS
ATTCAAAACATCATAGCAAT+GGG 0.435122 4:-74405092 None:intergenic
TACTCTTGCTCCCAAATAGC+TGG 0.469317 4:-74405048 None:intergenic
GACCCCTTGCTGCCTGCACA+TGG 0.477686 4:+74405004 MsG0480022587.01.T01:exon
TATTCAAAACATCATAGCAA+TGG 0.481511 4:-74405093 None:intergenic
TGGCATGAGATCTGTCGAAC+AGG 0.491310 4:+74403758 MsG0480022587.01.T01:CDS
GAAATCACATCGGTTCTTGT+TGG 0.496899 4:+74403738 MsG0480022587.01.T01:CDS
ACACCATGTGCAGGCAGCAA+GGG 0.509430 4:-74405007 None:intergenic
AACACCATGTGCAGGCAGCA+AGG 0.531462 4:-74405008 None:intergenic
TTCTAAATTATACAAACAGA+TGG 0.550380 4:-74405137 None:intergenic
AAAACATCATAGCAATGGGA+TGG 0.556593 4:-74405088 None:intergenic
CAACTCTGCTGGATTCCGCT+AGG 0.566406 4:-74404982 None:intergenic
ATTTGAGATACTGTCTGTAT+GGG 0.573225 4:+74405304 MsG0480022587.01.T01:three_prime_UTR
AAACATCATAGCAATGGGAT+GGG 0.593757 4:-74405087 None:intergenic
GTTAAATAAGGAAATCACAT+CGG 0.614200 4:+74403728 MsG0480022587.01.T01:CDS
ATATAAAAGAAATCTGAGGC+CGG 0.627728 4:-74405370 None:intergenic
GAAGCGGCTCTGTCAGAAGT+CGG 0.634736 4:+74404925 MsG0480022587.01.T01:CDS
AGAAGCTGCAAGTTCTCTTG+CGG 0.638741 4:-74404893 None:intergenic
AAATGTCAATCTCTTAACAA+AGG 0.640949 4:-74404374 None:intergenic
CTGTCTGTATGGGACACTGT+AGG 0.645952 4:+74405314 MsG0480022587.01.T01:three_prime_UTR
CACCATGTGCAGGCAGCAAG+GGG 0.654902 4:-74405006 None:intergenic
CGAGATATAAAAGAAATCTG+AGG 0.663505 4:-74405374 None:intergenic
TCTTGCTCCCAAATAGCTGG+AGG 0.669381 4:-74405045 None:intergenic
AGCTTCTGGAATCGACGAAG+CGG 0.691488 4:+74404909 MsG0480022587.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACATATATTATCAATTATAG+TGG - Chr4:74404704-74404723 None:intergenic 15.0%
!!! TATATTTTCTCAATTTAGAA+CGG - Chr4:74404853-74404872 None:intergenic 15.0%
!!! TTGATAATATATGTCAATAT+TGG + Chr4:74404710-74404729 MsG0480022587.01.T01:intron 15.0%
!! CAATACATGTTACTAAATTA+TGG - Chr4:74404340-74404359 None:intergenic 20.0%
!! TTCTAAATTATACAAACAGA+TGG - Chr4:74405140-74405159 None:intergenic 20.0%
!! TTTGAATAAAAAGTAGTCAT+GGG + Chr4:74405108-74405127 MsG0480022587.01.T01:three_prime_UTR 20.0%
!!! GTTCTAAATTGAGAAAATAT+AGG + Chr4:74404852-74404871 MsG0480022587.01.T01:intron 20.0%
!!! TTTTGAATAAAAAGTAGTCA+TGG + Chr4:74405107-74405126 MsG0480022587.01.T01:three_prime_UTR 20.0%
! AAATATGTACTTGTTTAGCT+TGG + Chr4:74404061-74404080 MsG0480022587.01.T01:intron 25.0%
! AAATGTCAATCTCTTAACAA+AGG - Chr4:74404377-74404396 None:intergenic 25.0%
! AACAAGTACATAATTTACAG+AGG - Chr4:74403967-74403986 None:intergenic 25.0%
! AATGCAATATTTAAGCAAGT+GGG + Chr4:74404232-74404251 MsG0480022587.01.T01:intron 25.0%
! AATTATGTACTTGTTTAGCT+TGG + Chr4:74403972-74403991 MsG0480022587.01.T01:intron 25.0%
! ATTCAAAACATCATAGCAAT+GGG - Chr4:74405095-74405114 None:intergenic 25.0%
! CTAAATTGAGAAAATATAGG+TGG + Chr4:74404855-74404874 MsG0480022587.01.T01:intron 25.0%
! GTTAAATAAGGAAATCACAT+CGG + Chr4:74403728-74403747 MsG0480022587.01.T01:CDS 25.0%
! TACACTATAATAAGCAAACA+TGG + Chr4:74404527-74404546 MsG0480022587.01.T01:intron 25.0%
! TATTCAAAACATCATAGCAA+TGG - Chr4:74405096-74405115 None:intergenic 25.0%
!! AACAAGTACATATTTTACAG+AGG - Chr4:74404056-74404075 None:intergenic 25.0%
!!! GCATTTTTTATGTTATACAC+CGG + Chr4:74405351-74405370 MsG0480022587.01.T01:three_prime_UTR 25.0%
AACTCCACAAATTATGTGAT+AGG - Chr4:74404284-74404303 None:intergenic 30.0%
AATAAAAAGTAGTCATGGGT+TGG + Chr4:74405112-74405131 MsG0480022587.01.T01:three_prime_UTR 30.0%
AATGAAAACAACAAAGAGAG+AGG - Chr4:74403924-74403943 None:intergenic 30.0%
AATTGAGAAAATATAGGTGG+AGG + Chr4:74404858-74404877 MsG0480022587.01.T01:intron 30.0%
AGAACCTATCACATAATTTG+TGG + Chr4:74404277-74404296 MsG0480022587.01.T01:intron 30.0%
AGAACTTCTTGCAAATCATT+TGG - Chr4:74404482-74404501 None:intergenic 30.0%
ATGTCAATATTGGAGTTCTT+GGG + Chr4:74404720-74404739 MsG0480022587.01.T01:intron 30.0%
CAATGCAATATTTAAGCAAG+TGG + Chr4:74404231-74404250 MsG0480022587.01.T01:intron 30.0%
CACTTGCTTAAATATTGCAT+TGG - Chr4:74404233-74404252 None:intergenic 30.0%
GAACTTCTTGCAAATCATTT+GGG - Chr4:74404481-74404500 None:intergenic 30.0%
GCAACTTATTGCAAAGAAAA+TGG + Chr4:74403669-74403688 MsG0480022587.01.T01:CDS 30.0%
TATGTCAATATTGGAGTTCT+TGG + Chr4:74404719-74404738 MsG0480022587.01.T01:intron 30.0%
! AATCACAGATTTTCAGAACA+TGG - Chr4:74403831-74403850 None:intergenic 30.0%
! ATTTGAGATACTGTCTGTAT+GGG + Chr4:74405304-74405323 MsG0480022587.01.T01:three_prime_UTR 30.0%
!! TGTTCTGAAAATCTGTGATT+TGG + Chr4:74403831-74403850 MsG0480022587.01.T01:intron 30.0%
!!! ATTTTTGACAGGCTTTAGAA+TGG - Chr4:74404953-74404972 None:intergenic 30.0%
AAAACATCATAGCAATGGGA+TGG - Chr4:74405091-74405110 None:intergenic 35.0%
AAACATCATAGCAATGGGAT+GGG - Chr4:74405090-74405109 None:intergenic 35.0%
AGATTGACATTTGCATGCAT+TGG + Chr4:74404385-74404404 MsG0480022587.01.T01:CDS 35.0%
CTTAACAAAGGACCTTCAAA+CGG - Chr4:74404365-74404384 None:intergenic 35.0%
GTTCATCTTTATCAAGTGAC+TGG - Chr4:74404831-74404850 None:intergenic 35.0%
! ACATGTATTGATCCGTTTGA+AGG + Chr4:74404350-74404369 MsG0480022587.01.T01:intron 35.0%
! ACCAACAGGAGTATGAAAAA+TGG + Chr4:74404581-74404600 MsG0480022587.01.T01:intron 35.0%
! GATTTGAGATACTGTCTGTA+TGG + Chr4:74405303-74405322 MsG0480022587.01.T01:three_prime_UTR 35.0%
! TTTTGTGCCGTAAAACAAGT+GGG + Chr4:74404302-74404321 MsG0480022587.01.T01:intron 35.0%
!! GCAGTACAGCTTGTTAAATA+AGG + Chr4:74403716-74403735 MsG0480022587.01.T01:CDS 35.0%
!! TCCATTTTTCATACTCCTGT+TGG - Chr4:74404585-74404604 None:intergenic 35.0%
!!! ATGATAGCCCACTTGTTTTA+CGG - Chr4:74404312-74404331 None:intergenic 35.0%
AAAAATCAGTCATGGCCTAG+CGG + Chr4:74404967-74404986 MsG0480022587.01.T01:CDS 40.0%
AGAGAGAGGTAACAATCTGA+TGG - Chr4:74403910-74403929 None:intergenic 40.0%
AGCCTGTCAAAAATCAGTCA+TGG + Chr4:74404959-74404978 MsG0480022587.01.T01:CDS 40.0%
ATGTGATAGGTTCTTCGTCT+AGG - Chr4:74404271-74404290 None:intergenic 40.0%
CTTCTACTGCTGTTGTAACT+TGG + Chr4:74405163-74405182 MsG0480022587.01.T01:three_prime_UTR 40.0%
CTTTGGTATCACTGTATAGC+TGG + Chr4:74403883-74403902 MsG0480022587.01.T01:intron 40.0%
! GTTTTGTGCCGTAAAACAAG+TGG + Chr4:74404301-74404320 MsG0480022587.01.T01:intron 40.0%
!! GAAATCACATCGGTTCTTGT+TGG + Chr4:74403738-74403757 MsG0480022587.01.T01:CDS 40.0%
!! GATACCAAAGCTTTAGAGCA+AGG - Chr4:74403873-74403892 None:intergenic 40.0%
!! TATGCCTTGCTCTAAAGCTT+TGG + Chr4:74403866-74403885 MsG0480022587.01.T01:intron 40.0%
AGAAGCTGCAAGTTCTCTTG+CGG - Chr4:74404896-74404915 None:intergenic 45.0%
CTCATCTCCTCCAGCTATTT+GGG + Chr4:74405038-74405057 MsG0480022587.01.T01:three_prime_UTR 45.0%
GCACAAAAAACACCATGTGC+AGG - Chr4:74405019-74405038 None:intergenic 45.0%
TACTCTTGCTCCCAAATAGC+TGG - Chr4:74405051-74405070 None:intergenic 45.0%
TCCTCATACTCTCTACCAAC+AGG + Chr4:74404567-74404586 MsG0480022587.01.T01:intron 45.0%
! GTTGGTAGAGAGTATGAGGA+AGG - Chr4:74404567-74404586 None:intergenic 45.0%
! TCCTGTTGGTAGAGAGTATG+AGG - Chr4:74404571-74404590 None:intergenic 45.0%
!! GGCCATGACTGATTTTTGAC+AGG - Chr4:74404964-74404983 None:intergenic 45.0%
!! TAAGCAAGTGGGCTATCATC+AGG + Chr4:74404243-74404262 MsG0480022587.01.T01:intron 45.0%
CTGTCTGTATGGGACACTGT+AGG + Chr4:74405314-74405333 MsG0480022587.01.T01:three_prime_UTR 50.0%
GCAAGAGAACTTGCAGCTTC+TGG + Chr4:74404895-74404914 MsG0480022587.01.T01:CDS 50.0%
GCTCATCTCCTCCAGCTATT+TGG + Chr4:74405037-74405056 MsG0480022587.01.T01:three_prime_UTR 50.0%
TCTTGCTCCCAAATAGCTGG+AGG - Chr4:74405048-74405067 None:intergenic 50.0%
TGGCATGAGATCTGTCGAAC+AGG + Chr4:74403758-74403777 MsG0480022587.01.T01:CDS 50.0%
TTGGAGTTCTTGGGTGCACT+AGG + Chr4:74404729-74404748 MsG0480022587.01.T01:intron 50.0%
!! AGCTTCTGGAATCGACGAAG+CGG + Chr4:74404909-74404928 MsG0480022587.01.T01:CDS 50.0%
AACACCATGTGCAGGCAGCA+AGG - Chr4:74405011-74405030 None:intergenic 55.0%
ACACCATGTGCAGGCAGCAA+GGG - Chr4:74405010-74405029 None:intergenic 55.0%
CAACTCTGCTGGATTCCGCT+AGG - Chr4:74404985-74405004 None:intergenic 55.0%
GAAGCGGCTCTGTCAGAAGT+CGG + Chr4:74404925-74404944 MsG0480022587.01.T01:CDS 55.0%
CACCATGTGCAGGCAGCAAG+GGG - Chr4:74405009-74405028 None:intergenic 60.0%
CAGCAAGGGGTCAACTCTGC+TGG - Chr4:74404996-74405015 None:intergenic 60.0%
GACCCCTTGCTGCCTGCACA+TGG + Chr4:74405004-74405023 MsG0480022587.01.T01:exon 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 74403627 74405386 74403627 ID=MsG0480022587.01;Name=MsG0480022587.01
Chr4 mRNA 74403627 74405386 74403627 ID=MsG0480022587.01.T01;Parent=MsG0480022587.01;Name=MsG0480022587.01.T01;_AED=0.45;_eAED=0.51;_QI=0|0|0.33|1|0|0|3|381|116
Chr4 exon 74403627 74403784 74403627 ID=MsG0480022587.01.T01:exon:3015;Parent=MsG0480022587.01.T01
Chr4 exon 74404372 74404432 74404372 ID=MsG0480022587.01.T01:exon:3016;Parent=MsG0480022587.01.T01
Chr4 exon 74404874 74405386 74404874 ID=MsG0480022587.01.T01:exon:3017;Parent=MsG0480022587.01.T01
Chr4 CDS 74403627 74403784 74403627 ID=MsG0480022587.01.T01:cds;Parent=MsG0480022587.01.T01
Chr4 CDS 74404372 74404432 74404372 ID=MsG0480022587.01.T01:cds;Parent=MsG0480022587.01.T01
Chr4 CDS 74404874 74405005 74404874 ID=MsG0480022587.01.T01:cds;Parent=MsG0480022587.01.T01
Chr4 three_prime_UTR 74405006 74405386 74405006 ID=MsG0480022587.01.T01:three_prime_utr;Parent=MsG0480022587.01.T01
Gene Sequence

>MsG0480022587.01.T01

ATGTATTTTGTTTGGAATATGCAGTCTGCTTGTAGAGCTGCTGCAACTTATTGCAAAGAAAATGGAAAAAACATTTCAAAGTTAGCAATGCAGTACAGCTTGTTAAATAAGGAAATCACATCGGTTCTTGTTGGCATGAGATCTGTCGAACAGGTTCTGTCCTTTGTTAAGAGATTGACATTTGCATGCATTGGCTTTAAAATTTTCTATAATTTAGCTGTGGAGGAAAATGTTACTGCCGCAAGAGAACTTGCAGCTTCTGGAATCGACGAAGCGGCTCTGTCAGAAGTCGGAACCATTCTAAAGCCTGTCAAAAATCAGTCATGGCCTAGCGGAATCCAGCAGAGTTGA

Protein sequence

>MsG0480022587.01.T01

MYFVWNMQSACRAAATYCKENGKNISKLAMQYSLLNKEITSVLVGMRSVEQVLSFVKRLTFACIGFKIFYNLAVEENVTAARELAASGIDEAALSEVGTILKPVKNQSWPSGIQQS*