AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031276.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031276.01.T01 MTR_6g027680 93.277 119 8 0 7 125 12 130 1.44e-71 224
MsG0680031276.01.T01 MTR_6g027660 90.083 121 12 0 1 121 4 124 1.27e-70 223
MsG0680031276.01.T01 MTR_6g027630 86.179 123 12 1 8 125 5 127 8.58e-67 211
MsG0680031276.01.T01 MTR_6g027630 86.179 123 12 1 8 125 5 127 2.40e-66 211
MsG0680031276.01.T01 MTR_6g027650 88.136 118 12 2 8 125 5 120 4.74e-64 205
MsG0680031276.01.T01 MTR_7g086610 64.035 114 41 0 12 125 3 116 4.51e-41 144
MsG0680031276.01.T01 MTR_7g086510 66.019 103 34 1 23 125 21 122 1.65e-36 131
MsG0680031276.01.T01 MTR_7g007850 45.455 110 47 5 21 120 22 128 3.91e-20 85.1
MsG0680031276.01.T01 MTR_7g007850 45.455 110 47 5 21 120 22 128 4.97e-20 84.7
MsG0680031276.01.T01 MTR_7g007850 45.455 110 47 5 21 120 22 128 6.48e-20 84.3
MsG0680031276.01.T01 MTR_7g007850 45.455 110 47 5 21 120 22 128 8.33e-20 84.3
MsG0680031276.01.T01 MTR_8g089320 44.318 88 49 0 38 125 69 156 1.97e-18 80.1
MsG0680031276.01.T01 MTR_6g027630 90.476 42 4 0 84 125 1 42 6.83e-18 78.6
MsG0680031276.01.T01 MTR_8g089342 47.143 70 37 0 38 107 70 139 1.91e-17 73.6
MsG0680031276.01.T01 MTR_8g089360 44.186 86 48 0 40 125 59 144 2.67e-17 77.0
MsG0680031276.01.T01 MTR_8g089360 44.186 86 48 0 40 125 76 161 3.19e-17 76.6
MsG0680031276.01.T01 MTR_2g035430 35.200 125 75 1 7 125 32 156 5.19e-16 73.2
MsG0680031276.01.T01 MTR_1g111740 36.752 117 69 1 9 125 23 134 8.66e-16 72.8
MsG0680031276.01.T01 MTR_1g030660 39.535 86 52 0 40 125 66 151 4.79e-15 70.5
MsG0680031276.01.T01 MTR_8g461380 32.110 109 65 1 26 125 55 163 1.16e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031276.01.T01 AT1G58030 67.826 115 34 1 14 125 10 124 8.26e-46 157
MsG0680031276.01.T01 AT5G36940 70.093 107 28 1 23 125 7 113 2.10e-43 150
MsG0680031276.01.T01 AT3G03720 69.159 107 27 2 23 125 4 108 5.40e-40 140
MsG0680031276.01.T01 AT4G21120 39.252 107 63 1 21 125 48 154 1.33e-19 83.6
MsG0680031276.01.T01 AT1G05940 51.136 88 41 2 34 120 41 127 1.43e-19 83.6
MsG0680031276.01.T01 AT1G05940 51.136 88 41 2 34 120 41 127 2.13e-19 83.2
MsG0680031276.01.T01 AT1G05940 51.136 88 41 2 34 120 41 127 2.59e-19 82.8
MsG0680031276.01.T01 AT2G34960 36.508 126 69 3 8 125 26 148 8.65e-17 75.5
MsG0680031276.01.T01 AT5G04770 37.143 105 59 1 23 120 32 136 1.01e-15 72.4
MsG0680031276.01.T01 AT5G04770 37.143 105 59 1 23 120 32 136 1.72e-15 72.0
MsG0680031276.01.T01 AT1G17120 40.741 81 48 0 45 125 85 165 1.21e-13 66.6

Find 32 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTTTACCACTTTCATTTA+TGG 0.087114 6:-17238147 MsG0680031276.01.T01:CDS
CCACTTTCATTTATGGTTGC+TGG 0.262547 6:-17238140 MsG0680031276.01.T01:CDS
TGGTGCTGGTGTATATGTTT+TGG 0.399685 6:-17238201 MsG0680031276.01.T01:CDS
CACTATGCTTATATTTGTCT+TGG 0.401199 6:-17238044 MsG0680031276.01.T01:CDS
AGCTCTTTGTTATGCTGAGT+TGG 0.406105 6:-17238099 MsG0680031276.01.T01:CDS
ATCATAGTGGAGTGTGATAA+GGG 0.419149 6:+17239210 None:intergenic
AGGGTTAGTGGTAGTAACTA+TGG 0.432533 6:-17239054 MsG0680031276.01.T01:CDS
AATCATAGTGGAGTGTGATA+AGG 0.439416 6:+17239209 None:intergenic
GACAAGGTTCATCATGTTCA+TGG 0.447931 6:-17239029 MsG0680031276.01.T01:CDS
ATGAATCACAAGAGGGTTAG+TGG 0.448597 6:-17239066 MsG0680031276.01.T01:CDS
ATTCCTCATCTCATGGCAAT+TGG 0.458370 6:-17238928 MsG0680031276.01.T01:intron
ATTACTTGTTCAGTAAGAAA+AGG 0.465300 6:-17239126 MsG0680031276.01.T01:five_prime_UTR
CTTATATTTGTCTTGGTGAA+GGG 0.466837 6:-17238037 MsG0680031276.01.T01:CDS
GCTTATATTTGTCTTGGTGA+AGG 0.480955 6:-17238038 MsG0680031276.01.T01:CDS
TCAGGTGTCGGTGCAACAAT+TGG 0.486729 6:-17238221 MsG0680031276.01.T01:intron
TCATGGAGTGCAACTTGCTA+AGG 0.506999 6:-17238959 MsG0680031276.01.T01:CDS
ATAAATGAAAGTGGTAAAGC+AGG 0.516397 6:+17238149 None:intergenic
CCAGCAACCATAAATGAAAG+TGG 0.535430 6:+17238140 None:intergenic
AATAGCAACAATTCTCCTCA+TGG 0.535899 6:-17238976 MsG0680031276.01.T01:CDS
GAAAGCAAGAAGAATCATAG+TGG 0.546338 6:+17239197 None:intergenic
GTCGGTGCAACAATTGGTGC+TGG 0.550230 6:-17238215 MsG0680031276.01.T01:CDS
GTTAACTATTCCTCATCTCA+TGG 0.558979 6:-17238935 MsG0680031276.01.T01:CDS
TTTGGTTGGAACAGTAGCTA+GGG 0.567398 6:-17238183 MsG0680031276.01.T01:CDS
AAATCATAAGAATCTAAAGA+AGG 0.576354 6:+17238000 None:intergenic
TGATAAGCACTTCCAGCAGA+AGG 0.576548 6:+17238065 None:intergenic
TGTTGGTGATGAATCACAAG+AGG 0.607864 6:-17239074 MsG0680031276.01.T01:exon
GTTGGTGATGAATCACAAGA+GGG 0.611028 6:-17239073 MsG0680031276.01.T01:exon
TTACCAATTGCCATGAGATG+AGG 0.613426 6:+17238925 None:intergenic
ACAGTAGCTAGGGAACATGC+TGG 0.622544 6:-17238173 MsG0680031276.01.T01:CDS
GGTAGTAACTATGGAGGACA+AGG 0.634352 6:-17239045 MsG0680031276.01.T01:CDS
GTTAGTGGTAGTAACTATGG+AGG 0.648221 6:-17239051 MsG0680031276.01.T01:CDS
TTAGCAAGTTGCACTCCATG+AGG 0.694002 6:+17238961 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTAATTATTTAAATTT+GGG - Chr6:17239015-17239034 MsG0680031276.01.T01:CDS 0.0%
!! ATTTAATTATTTAAATTTGG+GGG - Chr6:17239017-17239036 MsG0680031276.01.T01:CDS 10.0%
!! AATCAAAACTCAAATAAGAT+AGG + Chr6:17238901-17238920 None:intergenic 20.0%
!! ACAAGTAATATACCAAAAAA+TGG + Chr6:17238133-17238152 None:intergenic 20.0%
!!! AAAAAGAGGAATTTTTTTGA+TGG - Chr6:17238169-17238188 MsG0680031276.01.T01:CDS 20.0%
!!! AAAAGAGGAATTTTTTTGAT+GGG - Chr6:17238170-17238189 MsG0680031276.01.T01:CDS 20.0%
!!! TTTTAATGATGTTATTGAAC+TGG - Chr6:17238866-17238885 MsG0680031276.01.T01:intron 20.0%
! AATTCAATAATTCAAGCCAA+AGG + Chr6:17238956-17238975 None:intergenic 25.0%
! AGTAAGAAAAGGAAAAAAAG+AGG - Chr6:17238155-17238174 MsG0680031276.01.T01:CDS 25.0%
! ATTACTTGTTCAGTAAGAAA+AGG - Chr6:17238144-17238163 MsG0680031276.01.T01:CDS 25.0%
! ATTCAATAATTCAAGCCAAA+GGG + Chr6:17238955-17238974 None:intergenic 25.0%
! TCTTAAATTATTAGCGATGT+CGG - Chr6:17238739-17238758 MsG0680031276.01.T01:intron 25.0%
! TTCAGTGTAATTATATGTGT+TGG + Chr6:17238708-17238727 None:intergenic 25.0%
! TTGTAAAGTATATACACTGT+CGG - Chr6:17238513-17238532 MsG0680031276.01.T01:intron 25.0%
!! ACATGTTTTTCATCTTGTTA+AGG - Chr6:17238405-17238424 MsG0680031276.01.T01:intron 25.0%
!!! AAGTCTGAAAAACCATTTTT+TGG - Chr6:17238118-17238137 MsG0680031276.01.T01:CDS 25.0%
!!! AGCTTTGTTTTTGATCTTTA+AGG - Chr6:17238487-17238506 MsG0680031276.01.T01:intron 25.0%
!!! ATTTTTTTGATGGGTTTTGT+TGG - Chr6:17238179-17238198 MsG0680031276.01.T01:CDS 25.0%
AACGATTATGATATGAAGCA+CGG - Chr6:17238630-17238649 MsG0680031276.01.T01:intron 30.0%
ATAAATGAAAGTGGTAAAGC+AGG + Chr6:17239124-17239143 None:intergenic 30.0%
ATTTAAATTTGGGGGTGATT+TGG - Chr6:17239025-17239044 MsG0680031276.01.T01:CDS 30.0%
CACTATGCTTATATTTGTCT+TGG - Chr6:17239226-17239245 MsG0680031276.01.T01:five_prime_UTR 30.0%
CTTATATTTGTCTTGGTGAA+GGG - Chr6:17239233-17239252 MsG0680031276.01.T01:five_prime_UTR 30.0%
TCTTGTTAAGGTTGTTGTAT+TGG - Chr6:17238417-17238436 MsG0680031276.01.T01:intron 30.0%
TGCTTTACCACTTTCATTTA+TGG - Chr6:17239123-17239142 MsG0680031276.01.T01:five_prime_UTR 30.0%
! GATGTTATTGAACTGGTTTA+AGG - Chr6:17238873-17238892 MsG0680031276.01.T01:intron 30.0%
!! TCACTTCACTTTTCTTCTTA+GGG + Chr6:17238932-17238951 None:intergenic 30.0%
AATAGCAACAATTCTCCTCA+TGG - Chr6:17238294-17238313 MsG0680031276.01.T01:intron 35.0%
GAAAGCAAGAAGAATCATAG+TGG + Chr6:17238076-17238095 None:intergenic 35.0%
GCTTATATTTGTCTTGGTGA+AGG - Chr6:17239232-17239251 MsG0680031276.01.T01:five_prime_UTR 35.0%
GTTAACTATTCCTCATCTCA+TGG - Chr6:17238335-17238354 MsG0680031276.01.T01:intron 35.0%
! AATCATAGTGGAGTGTGATA+AGG + Chr6:17238064-17238083 None:intergenic 35.0%
! ACACTATCAATGATGATGCA+CGG + Chr6:17238806-17238825 None:intergenic 35.0%
! ATCATAGTGGAGTGTGATAA+GGG + Chr6:17238063-17238082 None:intergenic 35.0%
!! CACTTCACTTTTCTTCTTAG+GGG + Chr6:17238931-17238950 None:intergenic 35.0%
!! GTCACTTCACTTTTCTTCTT+AGG + Chr6:17238933-17238952 None:intergenic 35.0%
AGAAAAGTGAAGTGACCCTT+TGG - Chr6:17238937-17238956 MsG0680031276.01.T01:CDS 40.0%
ATGAATCACAAGAGGGTTAG+TGG - Chr6:17238204-17238223 MsG0680031276.01.T01:CDS 40.0%
ATTCCTCATCTCATGGCAAT+TGG - Chr6:17238342-17238361 MsG0680031276.01.T01:intron 40.0%
CCACTTTCATTTATGGTTGC+TGG - Chr6:17239130-17239149 MsG0680031276.01.T01:five_prime_UTR 40.0%
CCAGCAACCATAAATGAAAG+TGG + Chr6:17239133-17239152 None:intergenic 40.0%
GACAAGGTTCATCATGTTCA+TGG - Chr6:17238241-17238260 MsG0680031276.01.T01:intron 40.0%
GTTAGTGGTAGTAACTATGG+AGG - Chr6:17238219-17238238 MsG0680031276.01.T01:CDS 40.0%
TTACCAATTGCCATGAGATG+AGG + Chr6:17238348-17238367 None:intergenic 40.0%
TTTGGTTGGAACAGTAGCTA+GGG - Chr6:17239087-17239106 MsG0680031276.01.T01:exon 40.0%
! AGCTCTTTGTTATGCTGAGT+TGG - Chr6:17239171-17239190 MsG0680031276.01.T01:five_prime_UTR 40.0%
! AGGGTTAGTGGTAGTAACTA+TGG - Chr6:17238216-17238235 MsG0680031276.01.T01:CDS 40.0%
! TCACATGTGTGACTTTAGAG+AGG - Chr6:17238573-17238592 MsG0680031276.01.T01:intron 40.0%
!! GTTGGTGATGAATCACAAGA+GGG - Chr6:17238197-17238216 MsG0680031276.01.T01:CDS 40.0%
!! TGTTGGTGATGAATCACAAG+AGG - Chr6:17238196-17238215 MsG0680031276.01.T01:CDS 40.0%
!! TTTTGGTTGGAACAGTAGCT+AGG - Chr6:17239086-17239105 MsG0680031276.01.T01:exon 40.0%
!!! GCTGGTGTATATGTTTTGGT+TGG - Chr6:17239073-17239092 MsG0680031276.01.T01:exon 40.0%
!!! TGGTGCTGGTGTATATGTTT+TGG - Chr6:17239069-17239088 MsG0680031276.01.T01:CDS 40.0%
ATGATGCACGGATACAGACA+CGG + Chr6:17238794-17238813 None:intergenic 45.0%
GGTAGTAACTATGGAGGACA+AGG - Chr6:17238225-17238244 MsG0680031276.01.T01:intron 45.0%
TATGAAGCACGGATACACCT+CGG - Chr6:17238641-17238660 MsG0680031276.01.T01:intron 45.0%
TGATAAGCACTTCCAGCAGA+AGG + Chr6:17239208-17239227 None:intergenic 45.0%
TTAGCAAGTTGCACTCCATG+AGG + Chr6:17238312-17238331 None:intergenic 45.0%
!! ATTTGGGGGTGATTTGGTTC+AGG - Chr6:17239031-17239050 MsG0680031276.01.T01:CDS 45.0%
!! TCATGGAGTGCAACTTGCTA+AGG - Chr6:17238311-17238330 MsG0680031276.01.T01:intron 45.0%
!! GTTATTTAATTATTTAAATT+TGG - Chr6:17239014-17239033 MsG0680031276.01.T01:CDS 5.0%
!! TATTTAATTATTTAAATTTG+GGG - Chr6:17239016-17239035 MsG0680031276.01.T01:CDS 5.0%
ACAGTAGCTAGGGAACATGC+TGG - Chr6:17239097-17239116 MsG0680031276.01.T01:five_prime_UTR 50.0%
ACCAGGACACACTTAATCCG+AGG + Chr6:17238661-17238680 None:intergenic 50.0%
ACCTCGGATTAAGTGTGTCC+TGG - Chr6:17238657-17238676 MsG0680031276.01.T01:intron 50.0%
GTCACTGTCCATGTCATGTC+CGG - Chr6:17238765-17238784 MsG0680031276.01.T01:intron 50.0%
TGATGCACGGATACAGACAC+GGG + Chr6:17238793-17238812 None:intergenic 50.0%
!! GCTAGTCGTTTTCCTTCTGC+TGG - Chr6:17239193-17239212 MsG0680031276.01.T01:five_prime_UTR 50.0%
!! GGGTGATTTGGTTCAGGTGT+CGG - Chr6:17239037-17239056 MsG0680031276.01.T01:CDS 50.0%
!! TCAGGTGTCGGTGCAACAAT+TGG - Chr6:17239049-17239068 MsG0680031276.01.T01:CDS 50.0%
GTCGGTGCAACAATTGGTGC+TGG - Chr6:17239055-17239074 MsG0680031276.01.T01:CDS 55.0%
ACGGATACAGACACGGGCAC+CGG + Chr6:17238787-17238806 None:intergenic 60.0%
CACGACACGTGTTCGACACC+AGG + Chr6:17238678-17238697 None:intergenic 60.0%
!! CACGGGCACCGGACATGACA+TGG + Chr6:17238776-17238795 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 17238013 17239279 17238013 ID=MsG0680031276.01;Name=MsG0680031276.01
Chr6 mRNA 17238013 17239279 17238013 ID=MsG0680031276.01.T01;Parent=MsG0680031276.01;Name=MsG0680031276.01.T01;_AED=0.48;_eAED=0.49;_QI=191|1|0.5|1|1|1|2|0|128
Chr6 exon 17238013 17238239 17238013 ID=MsG0680031276.01.T01:exon:8042;Parent=MsG0680031276.01.T01
Chr6 exon 17238929 17239279 17238929 ID=MsG0680031276.01.T01:exon:8041;Parent=MsG0680031276.01.T01
Chr6 five_prime_UTR 17239089 17239279 17239089 ID=MsG0680031276.01.T01:five_prime_utr;Parent=MsG0680031276.01.T01
Chr6 CDS 17238929 17239088 17238929 ID=MsG0680031276.01.T01:cds;Parent=MsG0680031276.01.T01
Chr6 CDS 17238013 17238239 17238013 ID=MsG0680031276.01.T01:cds;Parent=MsG0680031276.01.T01
Gene Sequence

>MsG0680031276.01.T01

ATGAATCACAAGAGGGTTAGTGGTAGTAACTATGGAGGACAAGGTTCATCATGTTCATGGAAGTTTTTAACTAGAAGAAAAAAAGTTGTGAATAGCAACAATTCTCCTCATGGAGTGCAACTTGCTAAGGAGTTAACTATTCCTCATCTCATGGCAATTGGTGTCGGTGCAACAATTGGTGCTGGTGTATATGTTTTGGTTGGAACAGTAGCTAGGGAACATGCTGGACCTGCTTTACCACTTTCATTTATGGTTGCTGGAATAGCAGCAGCTCTTTCAGCTCTTTGTTATGCTGAGTTGGCTAGTCGTTTTCCTTCTGCTGGAAGTGCTTATCACTATGCTTATATTTGTCTTGGTGAAGGGTATTTATATATTTACCTTCTTTAG

Protein sequence

>MsG0680031276.01.T01

MNHKRVSGSNYGGQGSSCSWKFLTRRKKVVNSNNSPHGVQLAKELTIPHLMAIGVGATIGAGVYVLVGTVAREHAGPALPLSFMVAGIAAALSALCYAELASRFPSAGSAYHYAYICLGEGYLYIYLL*