AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005049.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005049.01.T01 MTR_1g492930 98.765 162 2 0 11 172 1 162 3.24e-112 316
MsG0180005049.01.T01 MTR_7g104020 60.127 158 60 1 14 171 14 168 3.79e-51 162
MsG0180005049.01.T01 MTR_7g104020 58.385 161 61 2 14 171 14 171 1.50e-49 157
MsG0180005049.01.T01 MTR_2g085025 56.129 155 67 1 14 168 20 173 3.87e-43 141
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005049.01.T01 AT3G52900 61.184 152 59 0 17 168 12 163 3.61e-59 182
MsG0180005049.01.T01 AT3G52920 55.901 161 68 1 9 169 7 164 4.97e-54 169
MsG0180005049.01.T01 AT2G36410 56.863 153 63 1 16 168 43 192 1.18e-53 169
MsG0180005049.01.T01 AT3G52920 55.488 164 67 2 9 169 7 167 2.30e-52 165
MsG0180005049.01.T01 AT2G36410 56.410 156 62 2 16 168 43 195 4.02e-52 165
MsG0180005049.01.T01 AT2G27740 54.658 161 71 2 11 171 16 174 5.33e-52 164
MsG0180005049.01.T01 AT3G09980 62.179 156 57 2 15 168 22 177 4.43e-50 159
MsG0180005049.01.T01 AT2G36355 57.143 154 61 2 16 168 5 154 1.26e-49 157
MsG0180005049.01.T01 AT5G03660 59.459 148 59 1 20 166 22 169 1.15e-41 138
MsG0180005049.01.T01 AT2G36355 68.605 86 27 0 83 168 27 112 2.09e-34 117
MsG0180005049.01.T01 AT5G03660 59.375 128 51 1 20 146 22 149 1.23e-33 117
MsG0180005049.01.T01 AT2G36355 68.675 83 26 0 86 168 1 83 7.47e-33 112
MsG0180005049.01.T01 AT2G36410 54.369 103 44 1 16 118 43 142 1.06e-30 109
MsG0180005049.01.T01 AT2G27740 50.926 108 52 1 11 118 16 122 2.17e-29 105
MsG0180005049.01.T01 AT5G03660 50.676 148 50 2 20 166 22 147 1.22e-27 101
MsG0180005049.01.T01 AT2G36355 50.962 104 46 2 16 118 5 104 7.09e-25 94.0

Find 42 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATATCACTCAAGTTCTTTA+TGG 0.099309 1:+86180857 None:intergenic
GTTGGCCATTTCCACATTAC+AGG 0.296068 1:-86182147 MsG0180005049.01.T01:CDS
TTGGCTTATTCAACTTCTAA+TGG 0.312275 1:-86181104 MsG0180005049.01.T01:three_prime_UTR
CACGGCGTTTGGCTCACATT+TGG 0.338925 1:-86182043 MsG0180005049.01.T01:CDS
TGGACAGAACTACCAGAAAA+AGG 0.350574 1:-86181587 MsG0180005049.01.T01:intron
AAGAATAAGGATGAAGAAAC+TGG 0.374263 1:-86181201 MsG0180005049.01.T01:CDS
GTGTGTTGTGTTTACTAGCT+TGG 0.396358 1:-86181123 MsG0180005049.01.T01:three_prime_UTR
ATTGCAACTTCCTTCCTCAT+AGG 0.404433 1:+86181655 None:intergenic
CTTAGCCTGTAATGTGGAAA+TGG 0.407703 1:+86182142 None:intergenic
ACGGCGTTTGGCTCACATTT+GGG 0.410967 1:-86182042 MsG0180005049.01.T01:CDS
ATGAAGAACCTTGGGAGTAT+TGG 0.415220 1:-86182221 MsG0180005049.01.T01:CDS
CATAGGCATAAGATAACAAT+AGG 0.417161 1:-86182304 MsG0180005049.01.T01:five_prime_UTR
TTTCATTATATTCTGCTGAA+TGG 0.417972 1:-86180931 MsG0180005049.01.T01:three_prime_UTR
TATTCAGATTGCTTTGTTTG+CGG 0.418944 1:-86181066 MsG0180005049.01.T01:three_prime_UTR
GAACAAAGAGAAGAATCATT+TGG 0.441757 1:-86181365 MsG0180005049.01.T01:CDS
TGCAGAAAATGAAGAACCTT+GGG 0.446625 1:-86182229 MsG0180005049.01.T01:CDS
GAAAGAGTACAAAGAAGCCT+TGG 0.456836 1:-86181404 MsG0180005049.01.T01:CDS
TGGCTGAGAGTGAAAGAATA+AGG 0.460290 1:-86181214 MsG0180005049.01.T01:CDS
TGAAGAAGAGACACGGCGTT+TGG 0.474600 1:-86182054 MsG0180005049.01.T01:CDS
CATTTCCACATTACAGGCTA+AGG 0.494847 1:-86182141 MsG0180005049.01.T01:CDS
ATGCAGAAAATGAAGAACCT+TGG 0.501028 1:-86182230 MsG0180005049.01.T01:CDS
CAACATGTATCTGCTTGGTT+AGG 0.502291 1:+86180899 None:intergenic
AGATGAAGATATTTCAAAGT+TGG 0.503217 1:-86182165 MsG0180005049.01.T01:CDS
AATCTAGGAGCTTGAAGTGA+TGG 0.520454 1:-86181683 MsG0180005049.01.T01:intron
GAGAGAGTTGAACTTCAACT+TGG 0.532697 1:-86182083 MsG0180005049.01.T01:CDS
AACAAAGATGTAAAGCAACT+TGG 0.534974 1:-86181607 MsG0180005049.01.T01:CDS
TATCACAACATGTATCTGCT+TGG 0.546314 1:+86180894 None:intergenic
CTTGGGAGTATTGGAAGCAG+TGG 0.576920 1:-86182212 MsG0180005049.01.T01:CDS
TGAATTAAGATACAATTACA+AGG 0.581905 1:+86180968 None:intergenic
CACTGCTTCCAATACTCCCA+AGG 0.585127 1:+86182213 None:intergenic
AAGTGATGGAAGATCCTATG+AGG 0.585128 1:-86181669 MsG0180005049.01.T01:CDS
GATGGAAGATCCTATGAGGA+AGG 0.586096 1:-86181665 MsG0180005049.01.T01:CDS
TTCTTCCTTAGCCTGTAATG+TGG 0.593323 1:+86182136 None:intergenic
CTAAGGAAGAAGAGATTGAG+AGG 0.599867 1:-86182124 MsG0180005049.01.T01:CDS
AAGCTTCTGCTAACTCACAT+AGG 0.607608 1:-86182321 MsG0180005049.01.T01:five_prime_UTR
GGTGCGTAAGAAAATTGACT+TGG 0.609025 1:-86181632 MsG0180005049.01.T01:CDS
TATGAGGAAGGAAGTTGCAA+TGG 0.615989 1:-86181653 MsG0180005049.01.T01:CDS
GGAGTATTGGAAGCAGTGGG+AGG 0.639884 1:-86182208 MsG0180005049.01.T01:CDS
TTGGGAGTATTGGAAGCAGT+GGG 0.639948 1:-86182211 MsG0180005049.01.T01:CDS
AATAAGGATGAAGAAACTGG+AGG 0.697364 1:-86181198 MsG0180005049.01.T01:CDS
GACGTGCTGAAGAAGAGACA+CGG 0.698783 1:-86182061 MsG0180005049.01.T01:CDS
TTTGGTAGCGACACTAACTG+AGG 0.713091 1:-86181347 MsG0180005049.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTGAAATTAAATTCTAT+TGG - Chr1:86181469-86181488 MsG0180005049.01.T01:intron 10.0%
!! TTAATAATAAACTTCAAATC+TGG + Chr1:86181314-86181333 None:intergenic 15.0%
!!! ACCTTTAAAATTTACTTAAT+AGG - Chr1:86181791-86181810 MsG0180005049.01.T01:intron 15.0%
!!! TCCTATTAAGTAAATTTTAA+AGG + Chr1:86181795-86181814 None:intergenic 15.0%
!! AAAATTTACAAGACAAATCA+AGG + Chr1:86181725-86181744 None:intergenic 20.0%
!! ATATGTTTATTTCCTAAACA+TGG + Chr1:86181212-86181231 None:intergenic 20.0%
!! TGAATTAAGATACAATTACA+AGG + Chr1:86182254-86182273 None:intergenic 20.0%
!! TGATTGATTGTAAAAAAGAA+AGG - Chr1:86182209-86182228 MsG0180005049.01.T01:CDS 20.0%
!! TTATTCAACAGAAGATAATA+TGG + Chr1:86181666-86181685 None:intergenic 20.0%
!!! AAATTTTGTTCAAGAAATGA+TGG + Chr1:86181392-86181411 None:intergenic 20.0%
!!! CAATATTTTACTTCTTTTCA+TGG - Chr1:86181952-86181971 MsG0180005049.01.T01:intron 20.0%
!!! TTGATTTGTCTTGTAAATTT+TGG - Chr1:86181724-86181743 MsG0180005049.01.T01:intron 20.0%
!!! TTTATCTTTTTAATAGATGC+TGG - Chr1:86181985-86182004 MsG0180005049.01.T01:intron 20.0%
! AATATTGTTACCATGGTAAT+TGG + Chr1:86181939-86181958 None:intergenic 25.0%
! AGATGAAGATATTTCAAAGT+TGG - Chr1:86181054-86181073 MsG0180005049.01.T01:three_prime_UTR 25.0%
! GAAGTAAAATATTGTTACCA+TGG + Chr1:86181946-86181965 None:intergenic 25.0%
! TTTCATTATATTCTGCTGAA+TGG - Chr1:86182288-86182307 MsG0180005049.01.T01:five_prime_UTR 25.0%
!!! ATTGGACGATATTTTAAGTA+CGG + Chr1:86181357-86181376 None:intergenic 25.0%
AACAAAGATGTAAAGCAACT+TGG - Chr1:86181612-86181631 MsG0180005049.01.T01:CDS 30.0%
AAGAATAAGGATGAAGAAAC+TGG - Chr1:86182018-86182037 MsG0180005049.01.T01:intron 30.0%
AATAAACTTCAAATCTGGAC+TGG + Chr1:86181309-86181328 None:intergenic 30.0%
CATAGGCATAAGATAACAAT+AGG - Chr1:86180915-86180934 MsG0180005049.01.T01:three_prime_UTR 30.0%
CTGTCGTATAATGATAATCT+AGG - Chr1:86181521-86181540 MsG0180005049.01.T01:intron 30.0%
CTTTCTATTGTCAACAACAT+GGG + Chr1:86181443-86181462 None:intergenic 30.0%
GAACAAAGAGAAGAATCATT+TGG - Chr1:86181854-86181873 MsG0180005049.01.T01:intron 30.0%
TTGGCTTATTCAACTTCTAA+TGG - Chr1:86182115-86182134 MsG0180005049.01.T01:CDS 30.0%
!! TATTCAGATTGCTTTGTTTG+CGG - Chr1:86182153-86182172 MsG0180005049.01.T01:CDS 30.0%
AATAAGGATGAAGAAACTGG+AGG - Chr1:86182021-86182040 MsG0180005049.01.T01:intron 35.0%
AGAGATTGAGAGGAAAAAGA+TGG - Chr1:86181105-86181124 MsG0180005049.01.T01:three_prime_UTR 35.0%
ATGCAGAAAATGAAGAACCT+TGG - Chr1:86180989-86181008 MsG0180005049.01.T01:three_prime_UTR 35.0%
GCTTTCTATTGTCAACAACA+TGG + Chr1:86181444-86181463 None:intergenic 35.0%
TATCACAACATGTATCTGCT+TGG + Chr1:86182328-86182347 None:intergenic 35.0%
TGCAGAAAATGAAGAACCTT+GGG - Chr1:86180990-86181009 MsG0180005049.01.T01:three_prime_UTR 35.0%
! ATGGTTGTCATACCTTTTTC+TGG + Chr1:86181647-86181666 None:intergenic 35.0%
! CTTTTCATTGAAAGCTTCCA+AGG + Chr1:86181835-86181854 None:intergenic 35.0%
! TTTTAGTGACACAGACTCTA+TGG + Chr1:86182059-86182078 None:intergenic 35.0%
AAGCTTCTGCTAACTCACAT+AGG - Chr1:86180898-86180917 MsG0180005049.01.T01:three_prime_UTR 40.0%
AATCTAGGAGCTTGAAGTGA+TGG - Chr1:86181536-86181555 MsG0180005049.01.T01:intron 40.0%
ATTGCAACTTCCTTCCTCAT+AGG + Chr1:86181567-86181586 None:intergenic 40.0%
CAACATGTATCTGCTTGGTT+AGG + Chr1:86182323-86182342 None:intergenic 40.0%
CATGGATTTCTTGAGAGAGA+TGG + Chr1:86181239-86181258 None:intergenic 40.0%
CATTTCCACATTACAGGCTA+AGG - Chr1:86181078-86181097 MsG0180005049.01.T01:three_prime_UTR 40.0%
CTAAGGAAGAAGAGATTGAG+AGG - Chr1:86181095-86181114 MsG0180005049.01.T01:three_prime_UTR 40.0%
CTTAGCCTGTAATGTGGAAA+TGG + Chr1:86181080-86181099 None:intergenic 40.0%
GACTTCGATTCCAATTACCA+TGG - Chr1:86181926-86181945 MsG0180005049.01.T01:intron 40.0%
GAGAGAGTTGAACTTCAACT+TGG - Chr1:86181136-86181155 MsG0180005049.01.T01:three_prime_UTR 40.0%
GATTGAGAGGAAAAAGATGG+AGG - Chr1:86181108-86181127 MsG0180005049.01.T01:three_prime_UTR 40.0%
GGGAAGTAAGTTCCATGTTT+AGG - Chr1:86181197-86181216 MsG0180005049.01.T01:CDS 40.0%
GGTGCGTAAGAAAATTGACT+TGG - Chr1:86181587-86181606 MsG0180005049.01.T01:intron 40.0%
GTGTGTTGTGTTTACTAGCT+TGG - Chr1:86182096-86182115 MsG0180005049.01.T01:CDS 40.0%
TATGAGGAAGGAAGTTGCAA+TGG - Chr1:86181566-86181585 MsG0180005049.01.T01:intron 40.0%
TGATGGTCAGCAAACTAGAT+TGG + Chr1:86181375-86181394 None:intergenic 40.0%
TGGACAGAACTACCAGAAAA+AGG - Chr1:86181632-86181651 MsG0180005049.01.T01:CDS 40.0%
TGGCTGAGAGTGAAAGAATA+AGG - Chr1:86182005-86182024 MsG0180005049.01.T01:intron 40.0%
TTCTTCCTTAGCCTGTAATG+TGG + Chr1:86181086-86181105 None:intergenic 40.0%
! AAGTGATGGAAGATCCTATG+AGG - Chr1:86181550-86181569 MsG0180005049.01.T01:intron 40.0%
! ATGAAGAACCTTGGGAGTAT+TGG - Chr1:86180998-86181017 MsG0180005049.01.T01:three_prime_UTR 40.0%
! GAAAGAGTACAAAGAAGCCT+TGG - Chr1:86181815-86181834 MsG0180005049.01.T01:intron 40.0%
GATGGAAGATCCTATGAGGA+AGG - Chr1:86181554-86181573 MsG0180005049.01.T01:intron 45.0%
GTTGGCCATTTCCACATTAC+AGG - Chr1:86181072-86181091 MsG0180005049.01.T01:three_prime_UTR 45.0%
TTGTTGATCGCTTGACTGCA+TGG + Chr1:86181257-86181276 None:intergenic 45.0%
!! TTGGGAGTATTGGAAGCAGT+GGG - Chr1:86181008-86181027 MsG0180005049.01.T01:three_prime_UTR 45.0%
!! TTTGGTAGCGACACTAACTG+AGG - Chr1:86181872-86181891 MsG0180005049.01.T01:intron 45.0%
CACTGCTTCCAATACTCCCA+AGG + Chr1:86181009-86181028 None:intergenic 50.0%
GACGTGCTGAAGAAGAGACA+CGG - Chr1:86181158-86181177 MsG0180005049.01.T01:CDS 50.0%
TGAAGAAGAGACACGGCGTT+TGG - Chr1:86181165-86181184 MsG0180005049.01.T01:CDS 50.0%
! ACGGCGTTTGGCTCACATTT+GGG - Chr1:86181177-86181196 MsG0180005049.01.T01:CDS 50.0%
!! CTTGGGAGTATTGGAAGCAG+TGG - Chr1:86181007-86181026 MsG0180005049.01.T01:three_prime_UTR 50.0%
! CACGGCGTTTGGCTCACATT+TGG - Chr1:86181176-86181195 MsG0180005049.01.T01:CDS 55.0%
!! GGAGTATTGGAAGCAGTGGG+AGG - Chr1:86181011-86181030 MsG0180005049.01.T01:three_prime_UTR 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 86180864 86182377 86180864 ID=MsG0180005049.01;Name=MsG0180005049.01
Chr1 mRNA 86180864 86182377 86180864 ID=MsG0180005049.01.T01;Parent=MsG0180005049.01;Name=MsG0180005049.01.T01;_AED=0.25;_eAED=0.25;_QI=95|1|1|1|1|1|4|293|172
Chr1 exon 86180864 86181240 86180864 ID=MsG0180005049.01.T01:exon:9909;Parent=MsG0180005049.01.T01
Chr1 exon 86181348 86181428 86181348 ID=MsG0180005049.01.T01:exon:9908;Parent=MsG0180005049.01.T01
Chr1 exon 86181588 86181698 86181588 ID=MsG0180005049.01.T01:exon:9907;Parent=MsG0180005049.01.T01
Chr1 exon 86182040 86182377 86182040 ID=MsG0180005049.01.T01:exon:9906;Parent=MsG0180005049.01.T01
Chr1 five_prime_UTR 86182283 86182377 86182283 ID=MsG0180005049.01.T01:five_prime_utr;Parent=MsG0180005049.01.T01
Chr1 CDS 86182040 86182282 86182040 ID=MsG0180005049.01.T01:cds;Parent=MsG0180005049.01.T01
Chr1 CDS 86181588 86181698 86181588 ID=MsG0180005049.01.T01:cds;Parent=MsG0180005049.01.T01
Chr1 CDS 86181348 86181428 86181348 ID=MsG0180005049.01.T01:cds;Parent=MsG0180005049.01.T01
Chr1 CDS 86181157 86181240 86181157 ID=MsG0180005049.01.T01:cds;Parent=MsG0180005049.01.T01
Chr1 three_prime_UTR 86180864 86181156 86180864 ID=MsG0180005049.01.T01:three_prime_utr;Parent=MsG0180005049.01.T01
Gene Sequence

>MsG0180005049.01.T01

ATGTGTCTAATTTGCAGAAAGAGAGCAAAAATGCAGAAAATGAAGAACCTTGGGAGTATTGGAAGCAGTGGGAGGTTTTCAACAGAAGAGTGTGAAGATGAAGATATTTCAAAGTTGGCCATTTCCACATTACAGGCTAAGGAAGAAGAGATTGAGAGGAAAAAGATGGAGGTGAAAGAGAGAGTTGAACTTCAACTTGGACGTGCTGAAGAAGAGACACGGCGTTTGGCTCACATTTGGGAAGAGCTTGAAGTGATGGAAGATCCTATGAGGAAGGAAGTTGCAATGGTGCGTAAGAAAATTGACTTGGCTAACAAAGATGTAAAGCAACTTGGACAGAACTACCAGAAAAAGGAGAAAGAGTACAAAGAAGCCTTGGAAGCTTTCAATGAAAAGAACAAAGAGAAGAATCATTTGGTAGCGACACTAACTGAGATGCTGGCTGAGAGTGAAAGAATAAGGATGAAGAAACTGGAGGAGCTATGCAAGACCATAGAGTCTGTGTCACTAAAACAATAA

Protein sequence

>MsG0180005049.01.T01

MCLICRKRAKMQKMKNLGSIGSSGRFSTEECEDEDISKLAISTLQAKEEEIERKKMEVKERVELQLGRAEEETRRLAHIWEELEVMEDPMRKEVAMVRKKIDLANKDVKQLGQNYQKKEKEYKEALEAFNEKNKEKNHLVATLTEMLAESERIRMKKLEELCKTIESVSLKQ*