AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013449.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013449.01.T02 MTR_3g045790 92.793 222 13 2 1 219 1 222 9.56e-149 413
MsG0380013449.01.T02 MTR_5g089820 62.927 205 62 3 1 205 1 191 7.38e-85 251
MsG0380013449.01.T02 MTR_4g118680 82.500 40 7 0 166 205 6 45 4.03e-15 68.2
MsG0380013449.01.T01 MTR_3g045790 87.387 222 15 2 1 209 1 222 7.02e-137 382
MsG0380013449.01.T01 MTR_5g089820 65.128 195 64 1 1 195 1 191 2.07e-86 254
MsG0380013449.01.T01 MTR_4g118680 82.500 40 7 0 156 195 6 45 3.62e-15 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013449.01.T02 AT5G12340 44.385 187 94 5 33 209 25 211 1.29e-45 151
MsG0380013449.01.T02 AT5G12340 44.385 187 94 5 33 209 22 208 1.47e-45 151
MsG0380013449.01.T02 AT1G28190 26.601 203 130 5 9 203 25 216 1.16e-12 65.9
MsG0380013449.01.T01 AT5G12340 41.827 208 112 4 1 199 4 211 2.72e-48 157
MsG0380013449.01.T01 AT5G12340 41.827 208 112 4 1 199 1 208 2.81e-48 157
MsG0380013449.01.T01 AT1G28190 27.692 195 128 5 9 193 25 216 1.00e-13 68.6

Find 35 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTAAGCTTGAAACTATTT+TGG 0.091162 3:-38263254 MsG0380013449.01.T02:CDS
CGTCAGCTAAGCTTATATTT+TGG 0.226292 3:-38263744 MsG0380013449.01.T02:CDS
AACAAGTCAACAATCAAATT+TGG 0.260285 3:-38263478 MsG0380013449.01.T02:CDS
TTGCATGAAAAGAGATCAAT+AGG 0.299018 3:+38263556 None:intergenic
CGGACACCCGATCCCTAGTT+TGG 0.310287 3:-38263623 MsG0380013449.01.T02:CDS
TTCATCACAAGGCTTGTTAA+TGG 0.314435 3:-38263391 MsG0380013449.01.T02:CDS
GCGTGACAAACCATCGTCTC+TGG 0.356966 3:+38263661 None:intergenic
TGAAATGCTTGTGAAGTCTA+AGG 0.382530 3:-38263290 MsG0380013449.01.T02:CDS
CTTGTTAATGGAGATAGATC+AGG 0.402456 3:-38263379 MsG0380013449.01.T02:CDS
CAATCCTTCAAATACTCAAA+AGG 0.411864 3:+38263448 None:intergenic
TCCAAAATAGTTTCAAGCTT+AGG 0.413585 3:+38263253 None:intergenic
TTAGAAGACGAACTCTTTCA+AGG 0.441583 3:-38263598 MsG0380013449.01.T02:CDS
GCTTGTGAAGTCTAAGGATC+AGG 0.441885 3:-38263284 MsG0380013449.01.T02:CDS
TATCTAGCAGACACAGTTTG+TGG 0.463540 3:+38263186 None:intergenic
TCGTCTTCTAAATCCAAACT+AGG 0.463904 3:+38263610 None:intergenic
TGATGGAAAAGTGTTGATAA+AGG 0.464603 3:-38263425 MsG0380013449.01.T02:CDS
AAACAAGGTTAGACTTAGAA+AGG 0.491346 3:-38263230 MsG0380013449.01.T02:CDS
CTAAATCCAAACTAGGGATC+GGG 0.491708 3:+38263617 None:intergenic
AATCCTTCAAATACTCAAAA+GGG 0.496327 3:+38263449 None:intergenic
TGAAGTCTAAGGATCAGGTT+TGG 0.505035 3:-38263279 MsG0380013449.01.T02:CDS
TCTAAATCCAAACTAGGGAT+CGG 0.527145 3:+38263616 None:intergenic
AGAAAGGAGAGAAAGAGAAA+AGG 0.528227 3:-38263214 MsG0380013449.01.T02:CDS
ACAAGCCTTGTGATGAACTC+TGG 0.550575 3:+38263397 None:intergenic
CGTGACAAACCATCGTCTCT+GGG 0.573900 3:+38263662 None:intergenic
CTAAACGGTAAGCACATCGC+TGG 0.579320 3:-38263703 MsG0380013449.01.T02:CDS
GGTTCCACGAGATTGCTAAA+CGG 0.584296 3:-38263718 MsG0380013449.01.T02:CDS
CGTCTTCTAAATCCAAACTA+GGG 0.587535 3:+38263611 None:intergenic
TTGTTAATGGAGATAGATCA+GGG 0.611228 3:-38263378 MsG0380013449.01.T02:CDS
TCAACTCAGGGGTACTACAA+AGG 0.612009 3:+38263323 None:intergenic
GAGTATTTGAAGGATTGTGA+TGG 0.613286 3:-38263442 MsG0380013449.01.T02:CDS
TGCATGAAAAGAGATCAATA+GGG 0.622739 3:+38263557 None:intergenic
CTTACCGTTTAGCAATCTCG+TGG 0.635041 3:+38263714 None:intergenic
AATATAAGCTTAGCTGACGA+TGG 0.640456 3:+38263748 None:intergenic
GTTCGAGTACCCAGAGACGA+TGG 0.655665 3:-38263671 MsG0380013449.01.T02:CDS
TTATGCCAGAGTTCATCACA+AGG 0.712497 3:-38263402 MsG0380013449.01.T02:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AACAAGTCAACAATCAAATT+TGG - Chr3:38263540-38263559 MsG0380013449.01.T02:CDS 25.0%
! AATCCTTCAAATACTCAAAA+GGG + Chr3:38263572-38263591 None:intergenic 25.0%
!! GATGATAATTTTCTGTTTTG+AGG + Chr3:38263225-38263244 None:intergenic 25.0%
!!! ATAATGTTTTTTCAACTCAG+GGG + Chr3:38263709-38263728 None:intergenic 25.0%
!!! CATAATGTTTTTTCAACTCA+GGG + Chr3:38263710-38263729 None:intergenic 25.0%
!!! TCATAATGTTTTTTCAACTC+AGG + Chr3:38263711-38263730 None:intergenic 25.0%
!!! TGAAACTATTTTGGAAAACA+AGG - Chr3:38263773-38263792 MsG0380013449.01.T02:CDS 25.0%
AAACAAGGTTAGACTTAGAA+AGG - Chr3:38263788-38263807 MsG0380013449.01.T02:CDS 30.0%
CAATCCTTCAAATACTCAAA+AGG + Chr3:38263573-38263592 None:intergenic 30.0%
TCCAAAATAGTTTCAAGCTT+AGG + Chr3:38263768-38263787 None:intergenic 30.0%
TGCATGAAAAGAGATCAATA+GGG + Chr3:38263464-38263483 None:intergenic 30.0%
TTGCATGAAAAGAGATCAAT+AGG + Chr3:38263465-38263484 None:intergenic 30.0%
TTGTTAATGGAGATAGATCA+GGG - Chr3:38263640-38263659 MsG0380013449.01.T02:CDS 30.0%
! TCCTAAGCTTGAAACTATTT+TGG - Chr3:38263764-38263783 MsG0380013449.01.T02:CDS 30.0%
!! TGATGGAAAAGTGTTGATAA+AGG - Chr3:38263593-38263612 MsG0380013449.01.T02:CDS 30.0%
AATATAAGCTTAGCTGACGA+TGG + Chr3:38263273-38263292 None:intergenic 35.0%
AGAAAGGAGAGAAAGAGAAA+AGG - Chr3:38263804-38263823 MsG0380013449.01.T02:CDS 35.0%
CGTCTTCTAAATCCAAACTA+GGG + Chr3:38263410-38263429 None:intergenic 35.0%
CTTGTTAATGGAGATAGATC+AGG - Chr3:38263639-38263658 MsG0380013449.01.T02:CDS 35.0%
GAGTATTTGAAGGATTGTGA+TGG - Chr3:38263576-38263595 MsG0380013449.01.T02:CDS 35.0%
TCGTCTTCTAAATCCAAACT+AGG + Chr3:38263411-38263430 None:intergenic 35.0%
TCTAAATCCAAACTAGGGAT+CGG + Chr3:38263405-38263424 None:intergenic 35.0%
TGAAATGCTTGTGAAGTCTA+AGG - Chr3:38263728-38263747 MsG0380013449.01.T02:CDS 35.0%
TTAGAAGACGAACTCTTTCA+AGG - Chr3:38263420-38263439 MsG0380013449.01.T02:CDS 35.0%
! CGTCAGCTAAGCTTATATTT+TGG - Chr3:38263274-38263293 MsG0380013449.01.T02:CDS 35.0%
!! TTCATCACAAGGCTTGTTAA+TGG - Chr3:38263627-38263646 MsG0380013449.01.T02:CDS 35.0%
!!! CTGTTTTGAGGATGAAAACA+TGG + Chr3:38263213-38263232 None:intergenic 35.0%
!!! GCTAAGCTTATATTTTGGCA+AGG - Chr3:38263279-38263298 MsG0380013449.01.T02:CDS 35.0%
CTAAATCCAAACTAGGGATC+GGG + Chr3:38263404-38263423 None:intergenic 40.0%
TGAAGTCTAAGGATCAGGTT+TGG - Chr3:38263739-38263758 MsG0380013449.01.T02:CDS 40.0%
TTATGCCAGAGTTCATCACA+AGG - Chr3:38263616-38263635 MsG0380013449.01.T02:CDS 40.0%
!! GTGCCCTTTTGAGTATTTGA+AGG - Chr3:38263566-38263585 MsG0380013449.01.T02:CDS 40.0%
CTTACCGTTTAGCAATCTCG+TGG + Chr3:38263307-38263326 None:intergenic 45.0%
GCTTGTGAAGTCTAAGGATC+AGG - Chr3:38263734-38263753 MsG0380013449.01.T02:CDS 45.0%
GGTTCCACGAGATTGCTAAA+CGG - Chr3:38263300-38263319 MsG0380013449.01.T02:CDS 45.0%
! ACAAGCCTTGTGATGAACTC+TGG + Chr3:38263624-38263643 None:intergenic 45.0%
!! TCAACTCAGGGGTACTACAA+AGG + Chr3:38263698-38263717 None:intergenic 45.0%
!!! CACGCTGACTCGTTTTTCAT+CGG - Chr3:38263375-38263394 MsG0380013449.01.T02:CDS 45.0%
CGTGACAAACCATCGTCTCT+GGG + Chr3:38263359-38263378 None:intergenic 50.0%
CTAAACGGTAAGCACATCGC+TGG - Chr3:38263315-38263334 MsG0380013449.01.T02:CDS 50.0%
GCGTGACAAACCATCGTCTC+TGG + Chr3:38263360-38263379 None:intergenic 55.0%
GTTCGAGTACCCAGAGACGA+TGG - Chr3:38263347-38263366 MsG0380013449.01.T02:CDS 55.0%
CGGACACCCGATCCCTAGTT+TGG - Chr3:38263395-38263414 MsG0380013449.01.T02:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 38263189 38263851 38263189 ID=MsG0380013449.01;Name=MsG0380013449.01
Chr3 mRNA 38263189 38263851 38263189 ID=MsG0380013449.01.T01;Parent=MsG0380013449.01;Name=MsG0380013449.01.T01;_AED=0.40;_eAED=0.40;_QI=0|0|0|1|0|0|2|0|210
Chr3 exon 38263189 38263760 38263189 ID=MsG0380013449.01.T01:exon:8407;Parent=MsG0380013449.01.T01
Chr3 exon 38263791 38263851 38263791 ID=MsG0380013449.01.T01:exon:8406;Parent=MsG0380013449.01.T01
Chr3 CDS 38263791 38263851 38263791 ID=MsG0380013449.01.T01:cds;Parent=MsG0380013449.01.T01
Chr3 CDS 38263189 38263760 38263189 ID=MsG0380013449.01.T01:cds;Parent=MsG0380013449.01.T01
Chr3 mRNA 38263189 38263851 38263189 ID=MsG0380013449.01.T02;Parent=MsG0380013449.01;Name=MsG0380013449.01.T02;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|220
Chr3 exon 38263189 38263851 38263189 ID=MsG0380013449.01.T02:exon:8408;Parent=MsG0380013449.01.T02
Chr3 CDS 38263189 38263851 38263189 ID=MsG0380013449.01.T02:cds;Parent=MsG0380013449.01.T02
Gene Sequence

>MsG0380013449.01.T02

ATGGGAAATTTAGTAGTGACTCCATGTTTTCATCCTCAAAACAGAAAATTATCATCTTCATCGTCGTCGTCGTCGTTGCTGCCATCGTCAGCTAAGCTTATATTTTGGCAAGGTTCCACGAGATTGCTAAACGGTAAGCACATCGCTGGCGAGATCTTGTTCGAGTACCCAGAGACGATGGTTTGTCACGCTGACTCGTTTTTCATCGGACACCCGATCCCTAGTTTGGATTTAGAAGACGAACTCTTTCAAGGAGAGACTTATTTTGTTCTCCCTATTGATCTCTTTTCATGCAAAACACTCTCAGTTTCTTCACTCTTATCATTTAGATCACATAATAATGATAGTAACAACAAGTCAACAATCAAATTTGGAGAGTGCCCTTTTGAGTATTTGAAGGATTGTGATGGAAAAGTGTTGATAAAGGTTATGCCAGAGTTCATCACAAGGCTTGTTAATGGAGATAGATCAGGGAATGATTGTTGCATTAGTAATAAAAGTAGCTTCCTTTGTAGTACCCCTGAGTTGAAAAAACATTATGAAATGCTTGTGAAGTCTAAGGATCAGGTTTGGTCTCCTAAGCTTGAAACTATTTTGGAAAACAAGGTTAGACTTAGAAAGGAGAGAAAGAGAAAAGGCACAACCACAAACTGTGTCTGCTAG

>MsG0380013449.01.T01

ATGGGAAATTTAGTAGTGACTCCATGTTTTCATCCTCAAAACAGAAAATTATCATCTTCATCTAAGCTTATATTTTGGCAAGGTTCCACGAGATTGCTAAACGGTAAGCACATCGCTGGCGAGATCTTGTTCGAGTACCCAGAGACGATGGTTTGTCACGCTGACTCGTTTTTCATCGGACACCCGATCCCTAGTTTGGATTTAGAAGACGAACTCTTTCAAGGAGAGACTTATTTTGTTCTCCCTATTGATCTCTTTTCATGCAAAACACTCTCAGTTTCTTCACTCTTATCATTTAGATCACATAATAATGATAGTAACAACAAGTCAACAATCAAATTTGGAGAGTGCCCTTTTGAGTATTTGAAGGATTGTGATGGAAAAGTGTTGATAAAGGTTATGCCAGAGTTCATCACAAGGCTTGTTAATGGAGATAGATCAGGGAATGATTGTTGCATTAGTAATAAAAGTAGCTTCCTTTGTAGTACCCCTGAGTTGAAAAAACATTATGAAATGCTTGTGAAGTCTAAGGATCAGGTTTGGTCTCCTAAGCTTGAAACTATTTTGGAAAACAAGGTTAGACTTAGAAAGGAGAGAAAGAGAAAAGGCACAACCACAAACTGTGTCTGCTAG

Protein sequence

>MsG0380013449.01.T02

MGNLVVTPCFHPQNRKLSSSSSSSSLLPSSAKLIFWQGSTRLLNGKHIAGEILFEYPETMVCHADSFFIGHPIPSLDLEDELFQGETYFVLPIDLFSCKTLSVSSLLSFRSHNNDSNNKSTIKFGECPFEYLKDCDGKVLIKVMPEFITRLVNGDRSGNDCCISNKSSFLCSTPELKKHYEMLVKSKDQVWSPKLETILENKVRLRKERKRKGTTTNCVC*

>MsG0380013449.01.T01

MGNLVVTPCFHPQNRKLSSSSKLIFWQGSTRLLNGKHIAGEILFEYPETMVCHADSFFIGHPIPSLDLEDELFQGETYFVLPIDLFSCKTLSVSSLLSFRSHNNDSNNKSTIKFGECPFEYLKDCDGKVLIKVMPEFITRLVNGDRSGNDCCISNKSSFLCSTPELKKHYEMLVKSKDQVWSPKLETILENKVRLRKERKRKGTTTNCVC*