AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011269.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011269.01.T01 MTR_2g101130 97.041 169 2 1 1 169 34 199 8.65e-121 339
MsG0280011269.01.T01 MTR_2g101120 88.824 170 11 3 1 170 34 195 1.92e-105 300
MsG0280011269.01.T01 MTR_8g014030 65.882 170 43 6 1 169 34 189 2.55e-72 216
MsG0280011269.01.T01 MTR_8g014010 60.947 169 47 7 1 167 34 185 1.67e-60 186
MsG0280011269.01.T01 MTR_8g014020 63.758 149 39 6 22 169 1 135 1.43e-58 179
MsG0280011269.01.T01 MTR_6g088525 43.678 174 58 11 3 169 39 179 1.09e-27 102
MsG0280011269.01.T01 MTR_6g088545 40.462 173 66 7 3 169 39 180 5.65e-27 100
MsG0280011269.01.T01 MTR_0016s0050 40.805 174 64 8 3 169 5 146 1.70e-26 99.0
MsG0280011269.01.T01 MTR_0016s0060 40.230 174 66 7 3 169 15 157 2.71e-26 98.6
MsG0280011269.01.T01 MTR_6g088565 39.306 173 68 7 3 169 39 180 2.04e-25 97.1
MsG0280011269.01.T01 MTR_6g088505 40.230 174 65 9 3 169 39 180 2.16e-23 91.7
MsG0280011269.01.T01 MTR_8g102660 34.884 172 73 11 3 169 38 175 1.85e-15 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011269.01.T01 AT1G52140 48.148 162 68 5 20 169 44 201 1.36e-41 139
MsG0280011269.01.T01 AT3G16330 42.077 183 69 8 3 169 35 196 4.45e-33 117
MsG0280011269.01.T01 AT4G29110 38.012 171 70 7 1 169 47 183 1.88e-18 79.0

Find 48 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCCCTTGATGCGGTAAAT+TGG 0.283815 2:+81768289 None:intergenic
TGCGGTGACGTTTCCCTATT+GGG 0.299531 2:+81768229 None:intergenic
TCTCCAGCACTGCCTGGATT+CGG 0.302018 2:-81768072 MsG0280011269.01.T01:CDS
CTGCGGTGACGTTTCCCTAT+TGG 0.308179 2:+81768228 None:intergenic
CTCCAGCACTGCCTGGATTC+GGG 0.322990 2:-81768071 MsG0280011269.01.T01:CDS
ATCAAGCTTGCTTCCTCAAT+TGG 0.341340 2:+81767929 None:intergenic
CCCTCAATTGCCTTACCATT+GGG 0.354815 2:+81768043 None:intergenic
TTCTCATCATCTTCTCTTAG+AGG 0.359691 2:+81768003 None:intergenic
CTGCTGAAGATTTCATAAAC+AGG 0.373468 2:-81767960 MsG0280011269.01.T01:CDS
CGCCCGAATCCAGGCAGTGC+TGG 0.394166 2:+81768069 None:intergenic
CGTGGCTGTGGTGGCTGTGA+TGG 0.445424 2:+81768349 None:intergenic
GGCGTTTGAGCATCATGTTT+AGG 0.451131 2:+81768415 None:intergenic
ACCCTCAATTGCCTTACCAT+TGG 0.467623 2:+81768042 None:intergenic
TGAAGAAATTGTTGTGATTG+TGG 0.472141 2:+81768199 None:intergenic
CCCTTGATGCGGTAAATTGG+TGG 0.485419 2:+81768292 None:intergenic
GCCCAATGGTAAGGCAATTG+AGG 0.485585 2:-81768044 MsG0280011269.01.T01:CDS
GAAGCATCTCCAGCACTGCC+TGG 0.487263 2:-81768078 MsG0280011269.01.T01:CDS
GAGTGCAATGAAGGCCGTGC+TGG 0.499574 2:-81768130 MsG0280011269.01.T01:CDS
TCATCTTCTCTTAGAGGGAA+TGG 0.502641 2:+81768009 None:intergenic
CCCAATGGTAAGGCAATTGA+GGG 0.507064 2:-81768043 MsG0280011269.01.T01:CDS
GTCGTGAGAGCGGCTTGAGG+TGG 0.508313 2:+81768320 None:intergenic
AGGTGGAGCCACCGTGGCTG+TGG 0.512160 2:+81768337 None:intergenic
ATTGGGCTACGCCCGAATCC+AGG 0.513644 2:+81768060 None:intergenic
GAAGGACGATCAAGTTGATA+AGG 0.519057 2:-81767983 MsG0280011269.01.T01:CDS
GGCTGTGGTGGCTGTGATGG+TGG 0.525762 2:+81768352 None:intergenic
TCTCATCATCTTCTCTTAGA+GGG 0.530370 2:+81768004 None:intergenic
GCCACCAATTTACCGCATCA+AGG 0.534674 2:-81768293 MsG0280011269.01.T01:CDS
CGCTCATACGCCACCTACAC+AGG 0.551605 2:-81768172 MsG0280011269.01.T01:CDS
TGGAGCCACCGTGGCTGTGG+TGG 0.553749 2:+81768340 None:intergenic
GTGGAACATTAGATTGGCAA+TGG 0.565737 2:+81768371 None:intergenic
AAACGCCGAAGCAAGCTCGC+CGG 0.566114 2:-81768399 MsG0280011269.01.T01:CDS
GTGATGGTGGAACATTAGAT+TGG 0.566670 2:+81768365 None:intergenic
TCGGGCGTAGCCCAATGGTA+AGG 0.575007 2:-81768053 MsG0280011269.01.T01:CDS
GGCGACAATGAGTGCAATGA+AGG 0.584967 2:-81768139 MsG0280011269.01.T01:CDS
TGGATTCGGGCGTAGCCCAA+TGG 0.585672 2:-81768058 MsG0280011269.01.T01:CDS
ACATCATCGTCCTGTGTAGG+TGG 0.587034 2:+81768162 None:intergenic
CCACCAATTTACCGCATCAA+GGG 0.590913 2:-81768292 MsG0280011269.01.T01:CDS
TCTAAGAGAAGATGATGAGA+AGG 0.594411 2:-81768001 MsG0280011269.01.T01:CDS
CATCACAGCCACCACAGCCA+CGG 0.614342 2:-81768348 MsG0280011269.01.T01:CDS
GGTGGCGTGAGTCGTGAGAG+CGG 0.626926 2:+81768310 None:intergenic
TGTGATTGTGGTTGTTGCTG+CGG 0.635520 2:+81768211 None:intergenic
GCCACATCATCGTCCTGTGT+AGG 0.639849 2:+81768159 None:intergenic
ATTGTTAAGCATCTCCAGCA+CGG 0.641871 2:+81768116 None:intergenic
ACCTACACAGGACGATGATG+TGG 0.656484 2:-81768160 MsG0280011269.01.T01:CDS
CACAGCCACCACAGCCACGG+TGG 0.675121 2:-81768345 MsG0280011269.01.T01:CDS
GGCTTGAGGTGGAGCCACCG+TGG 0.682602 2:+81768331 None:intergenic
TGAGTCGTGAGAGCGGCTTG+AGG 0.683296 2:+81768317 None:intergenic
GAATTCATACTCCCTTGATG+CGG 0.696823 2:+81768281 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGAAGAAATTGTTGTGATTG+TGG + Chr2:81768154-81768173 None:intergenic 30.0%
CCCTATTGGGAAAAAATGAT+GGG + Chr2:81768111-81768130 None:intergenic 35.0%
CCTATTGGGAAAAAATGATG+GGG + Chr2:81768110-81768129 None:intergenic 35.0%
CTGCTGAAGATTTCATAAAC+AGG - Chr2:81768390-81768409 MsG0280011269.01.T01:CDS 35.0%
TCCCTATTGGGAAAAAATGA+TGG + Chr2:81768112-81768131 None:intergenic 35.0%
TCTAAGAGAAGATGATGAGA+AGG - Chr2:81768349-81768368 MsG0280011269.01.T01:CDS 35.0%
TCTCATCATCTTCTCTTAGA+GGG + Chr2:81768349-81768368 None:intergenic 35.0%
TTCTCATCATCTTCTCTTAG+AGG + Chr2:81768350-81768369 None:intergenic 35.0%
!!! CCCATCATTTTTTCCCAATA+GGG - Chr2:81768108-81768127 MsG0280011269.01.T01:CDS 35.0%
ATTGTTAAGCATCTCCAGCA+CGG + Chr2:81768237-81768256 None:intergenic 40.0%
GAATTCATACTCCCTTGATG+CGG + Chr2:81768072-81768091 None:intergenic 40.0%
GTGGAACATTAGATTGGCAA+TGG + Chr2:81767982-81768001 None:intergenic 40.0%
TCATCTTCTCTTAGAGGGAA+TGG + Chr2:81768344-81768363 None:intergenic 40.0%
! ACAGGTTTTACAGCCAATTG+AGG - Chr2:81768408-81768427 MsG0280011269.01.T01:CDS 40.0%
! TAGATTGGCAATGGCTTTTC+CGG + Chr2:81767973-81767992 None:intergenic 40.0%
!! GAAGGACGATCAAGTTGATA+AGG - Chr2:81768367-81768386 MsG0280011269.01.T01:CDS 40.0%
!! GTGATGGTGGAACATTAGAT+TGG + Chr2:81767988-81768007 None:intergenic 40.0%
!!! CCCCATCATTTTTTCCCAAT+AGG - Chr2:81768107-81768126 MsG0280011269.01.T01:CDS 40.0%
ACCCTCAATTGCCTTACCAT+TGG + Chr2:81768311-81768330 None:intergenic 45.0%
ACTCCCTTGATGCGGTAAAT+TGG + Chr2:81768064-81768083 None:intergenic 45.0%
CCACCAATTTACCGCATCAA+GGG - Chr2:81768058-81768077 MsG0280011269.01.T01:CDS 45.0%
CCCAATGGTAAGGCAATTGA+GGG - Chr2:81768307-81768326 MsG0280011269.01.T01:CDS 45.0%
CCCTCAATTGCCTTACCATT+GGG + Chr2:81768310-81768329 None:intergenic 45.0%
GGCGTTTGAGCATCATGTTT+AGG + Chr2:81767938-81767957 None:intergenic 45.0%
TGTGATTGTGGTTGTTGCTG+CGG + Chr2:81768142-81768161 None:intergenic 45.0%
ACATCATCGTCCTGTGTAGG+TGG + Chr2:81768191-81768210 None:intergenic 50.0%
ACCTACACAGGACGATGATG+TGG - Chr2:81768190-81768209 MsG0280011269.01.T01:CDS 50.0%
CCCTTGATGCGGTAAATTGG+TGG + Chr2:81768061-81768080 None:intergenic 50.0%
GCCACCAATTTACCGCATCA+AGG - Chr2:81768057-81768076 MsG0280011269.01.T01:CDS 50.0%
GCCCAATGGTAAGGCAATTG+AGG - Chr2:81768306-81768325 MsG0280011269.01.T01:CDS 50.0%
GGCGACAATGAGTGCAATGA+AGG - Chr2:81768211-81768230 MsG0280011269.01.T01:CDS 50.0%
TGCGGTGACGTTTCCCTATT+GGG + Chr2:81768124-81768143 None:intergenic 50.0%
CTGCGGTGACGTTTCCCTAT+TGG + Chr2:81768125-81768144 None:intergenic 55.0%
GCCACATCATCGTCCTGTGT+AGG + Chr2:81768194-81768213 None:intergenic 55.0%
TCTCCAGCACTGCCTGGATT+CGG - Chr2:81768278-81768297 MsG0280011269.01.T01:CDS 55.0%
!! CTTTTCCGGCGAGCTTGCTT+CGG + Chr2:81767959-81767978 None:intergenic 55.0%
AAACGCCGAAGCAAGCTCGC+CGG - Chr2:81767951-81767970 MsG0280011269.01.T01:CDS 60.0%
ATTGGGCTACGCCCGAATCC+AGG + Chr2:81768293-81768312 None:intergenic 60.0%
CATCACAGCCACCACAGCCA+CGG - Chr2:81768002-81768021 MsG0280011269.01.T01:CDS 60.0%
CGCTCATACGCCACCTACAC+AGG - Chr2:81768178-81768197 MsG0280011269.01.T01:CDS 60.0%
CTCCAGCACTGCCTGGATTC+GGG - Chr2:81768279-81768298 MsG0280011269.01.T01:CDS 60.0%
GAGTGCAATGAAGGCCGTGC+TGG - Chr2:81768220-81768239 MsG0280011269.01.T01:CDS 60.0%
TCGGGCGTAGCCCAATGGTA+AGG - Chr2:81768297-81768316 MsG0280011269.01.T01:CDS 60.0%
TGAGTCGTGAGAGCGGCTTG+AGG + Chr2:81768036-81768055 None:intergenic 60.0%
TGGATTCGGGCGTAGCCCAA+TGG - Chr2:81768292-81768311 MsG0280011269.01.T01:CDS 60.0%
! GAAGCATCTCCAGCACTGCC+TGG - Chr2:81768272-81768291 MsG0280011269.01.T01:CDS 60.0%
CGTGGCTGTGGTGGCTGTGA+TGG + Chr2:81768004-81768023 None:intergenic 65.0%
GGCTGTGGTGGCTGTGATGG+TGG + Chr2:81768001-81768020 None:intergenic 65.0%
GGTGGCGTGAGTCGTGAGAG+CGG + Chr2:81768043-81768062 None:intergenic 65.0%
GTCGTGAGAGCGGCTTGAGG+TGG + Chr2:81768033-81768052 None:intergenic 65.0%
AGGTGGAGCCACCGTGGCTG+TGG + Chr2:81768016-81768035 None:intergenic 70.0%
CACAGCCACCACAGCCACGG+TGG - Chr2:81768005-81768024 MsG0280011269.01.T01:CDS 70.0%
CGCCCGAATCCAGGCAGTGC+TGG + Chr2:81768284-81768303 None:intergenic 70.0%
GGCTTGAGGTGGAGCCACCG+TGG + Chr2:81768022-81768041 None:intergenic 70.0%
TGGAGCCACCGTGGCTGTGG+TGG + Chr2:81768013-81768032 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 81767930 81768442 81767930 ID=MsG0280011269.01;Name=MsG0280011269.01
Chr2 mRNA 81767930 81768442 81767930 ID=MsG0280011269.01.T01;Parent=MsG0280011269.01;Name=MsG0280011269.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|170
Chr2 exon 81767930 81768442 81767930 ID=MsG0280011269.01.T01:exon:2790;Parent=MsG0280011269.01.T01
Chr2 CDS 81767930 81768442 81767930 ID=MsG0280011269.01.T01:cds;Parent=MsG0280011269.01.T01
Gene Sequence

>MsG0280011269.01.T01

ATGGGCCTAAACATGATGCTCAAACGCCGAAGCAAGCTCGCCGGAAAAGCCATTGCCAATCTAATGTTCCACCATCACAGCCACCACAGCCACGGTGGCTCCACCTCAAGCCGCTCTCACGACTCACGCCACCAATTTACCGCATCAAGGGAGTATGAATTCAGCTGCAGCAACACTCCCCATCATTTTTTCCCAATAGGGAAACGTCACCGCAGCAACAACCACAATCACAACAATTTCTTCACTTGCGCTCATACGCCACCTACACAGGACGATGATGTGGCGACAATGAGTGCAATGAAGGCCGTGCTGGAGATGCTTAACAATGATCAAGCAATCGTAGAAGCATCTCCAGCACTGCCTGGATTCGGGCGTAGCCCAATGGTAAGGCAATTGAGGGTGACTGACTCACCATTCCCTCTAAGAGAAGATGATGAGAAGGACGATCAAGTTGATAAGGCTGCTGAAGATTTCATAAACAGGTTTTACAGCCAATTGAGGAAGCAAGCTTGA

Protein sequence

>MsG0280011269.01.T01

MGLNMMLKRRSKLAGKAIANLMFHHHSHHSHGGSTSSRSHDSRHQFTASREYEFSCSNTPHHFFPIGKRHRSNNHNHNNFFTCAHTPPTQDDDVATMSAMKAVLEMLNNDQAIVEASPALPGFGRSPMVRQLRVTDSPFPLREDDEKDDQVDKAAEDFINRFYSQLRKQA*