AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035426

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035426.t1 MTR_8g442330 72.642 106 25 2 2 103 14 119 1.19e-49 154
MS.gene035426.t1 MTR_8g051480 85.507 69 9 1 36 103 16 84 3.48e-37 122
MS.gene035426.t1 MTR_2g076780 34.028 144 52 4 2 102 46 189 2.11e-16 72.0
MS.gene035426.t1 MTR_8g069080 34.722 144 50 5 2 102 78 220 5.71e-15 68.6
MS.gene035426.t1 MTR_3g039810 60.526 38 15 0 2 39 29 66 7.73e-13 59.3
MS.gene035426.t1 MTR_5g032600 66.667 36 12 0 4 39 89 124 2.26e-11 58.9
MS.gene035426.t1 MTR_5g020510 55.263 38 17 0 2 39 108 145 8.56e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035426.t1 AT1G74660 63.158 38 14 0 2 39 48 85 1.76e-13 61.2
MS.gene035426.t1 AT1G74660 63.158 38 14 0 2 39 48 85 3.18e-13 60.8
MS.gene035426.t1 AT5G65410 64.865 37 13 0 3 39 85 121 3.13e-11 58.5

Find 26 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGCCATAGCTTCATCTA+TGG 0.313466 8.2:-51974410 MS.gene035426:CDS
AAAGGAAGATGTTGGATAAT+AGG 0.314181 8.2:-51974255 MS.gene035426:CDS
CGAAATCGAATAAGAGGTTT+TGG 0.329727 8.2:-51974297 MS.gene035426:CDS
AAGAGAGTAGCCTCCAATAT+TGG 0.357209 8.2:+51974543 None:intergenic
ATTGGAGGCTACTCTCTTGA+TGG 0.400758 8.2:-51974538 MS.gene035426:CDS
CCAACATCTTCCTTTGCTCA+TGG 0.418954 8.2:+51974263 None:intergenic
CCAGCACCATCACCATTGAT+AGG 0.458035 8.2:+51974331 None:intergenic
TATGGGGATCAACGTTTCAA+TGG 0.472301 8.2:-51974392 MS.gene035426:CDS
CAACATCTTCCTTTGCTCAT+GGG 0.484783 8.2:+51974264 None:intergenic
GGACGTCGAAATCGAATAAG+AGG 0.494204 8.2:-51974303 MS.gene035426:CDS
GAAGATGTTGGATAATAGGT+TGG 0.494239 8.2:-51974251 MS.gene035426:CDS
CCTATCAATGGTGATGGTGC+TGG 0.500146 8.2:-51974331 MS.gene035426:CDS
GCTATGGCAAGAGTAGTTGC+AGG 0.516839 8.2:+51974421 None:intergenic
GTGGTACCTTCGGCTTCAGC+AGG 0.524479 8.2:+51974499 None:intergenic
AGACATATTGAGCCTATCAA+TGG 0.544287 8.2:-51974343 MS.gene035426:CDS
CTTGCCATAGCTTCATCTAT+GGG 0.550972 8.2:-51974409 MS.gene035426:CDS
AATGGTGATGGTGCTGGAGA+AGG 0.551509 8.2:-51974325 MS.gene035426:CDS
CCATGAGCAAAGGAAGATGT+TGG 0.557867 8.2:-51974263 MS.gene035426:CDS
ATGGTGATGGTGCTGGAGAA+GGG 0.586074 8.2:-51974324 MS.gene035426:CDS
GATCCCCATAGATGAAGCTA+TGG 0.586666 8.2:+51974405 None:intergenic
AATCACATGTCCAATATTGG+AGG 0.604304 8.2:-51974553 None:intergenic
GGGGATCAACGTTTCAATGG+AGG 0.613730 8.2:-51974389 MS.gene035426:CDS
CAAAGTTTACCCATGAGCAA+AGG 0.627081 8.2:-51974273 MS.gene035426:CDS
TAGTTGCAGGTACAATACAA+TGG 0.644093 8.2:+51974434 None:intergenic
TTGCCATAGCTTCATCTATG+GGG 0.654230 8.2:-51974408 MS.gene035426:CDS
ATTGAGCCTATCAATGGTGA+TGG 0.658220 8.2:-51974337 MS.gene035426:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGCACATTTAAAAATAATGG+TGG + chr8.2:51974313-51974332 None:intergenic 25.0%
! AGCAGCACATTTAAAAATAA+TGG + chr8.2:51974316-51974335 None:intergenic 25.0%
AAAAATAATGGTGGTACCTT+CGG + chr8.2:51974304-51974323 None:intergenic 30.0%
AAAGGAAGATGTTGGATAAT+AGG - chr8.2:51974535-51974554 MS.gene035426:CDS 30.0%
AGACATATTGAGCCTATCAA+TGG - chr8.2:51974447-51974466 MS.gene035426:CDS 35.0%
GAAGATGTTGGATAATAGGT+TGG - chr8.2:51974539-51974558 MS.gene035426:CDS 35.0%
TAGTTGCAGGTACAATACAA+TGG + chr8.2:51974359-51974378 None:intergenic 35.0%
! CGAAATCGAATAAGAGGTTT+TGG - chr8.2:51974493-51974512 MS.gene035426:CDS 35.0%
AAGAGAGTAGCCTCCAATAT+TGG + chr8.2:51974250-51974269 None:intergenic 40.0%
ATTGAGCCTATCAATGGTGA+TGG - chr8.2:51974453-51974472 MS.gene035426:CDS 40.0%
CAAAGTTTACCCATGAGCAA+AGG - chr8.2:51974517-51974536 MS.gene035426:CDS 40.0%
CAACATCTTCCTTTGCTCAT+GGG + chr8.2:51974529-51974548 None:intergenic 40.0%
CTTGCCATAGCTTCATCTAT+GGG - chr8.2:51974381-51974400 MS.gene035426:CDS 40.0%
TATGGGGATCAACGTTTCAA+TGG - chr8.2:51974398-51974417 MS.gene035426:CDS 40.0%
TCTTGCCATAGCTTCATCTA+TGG - chr8.2:51974380-51974399 MS.gene035426:CDS 40.0%
TTGCCATAGCTTCATCTATG+GGG - chr8.2:51974382-51974401 MS.gene035426:CDS 40.0%
ATTGGAGGCTACTCTCTTGA+TGG - chr8.2:51974252-51974271 MS.gene035426:CDS 45.0%
CCAACATCTTCCTTTGCTCA+TGG + chr8.2:51974530-51974549 None:intergenic 45.0%
CCATGAGCAAAGGAAGATGT+TGG - chr8.2:51974527-51974546 MS.gene035426:CDS 45.0%
GATCCCCATAGATGAAGCTA+TGG + chr8.2:51974388-51974407 None:intergenic 45.0%
GGACGTCGAAATCGAATAAG+AGG - chr8.2:51974487-51974506 MS.gene035426:CDS 45.0%
! TTTTTACCTGCTGAAGCCGA+AGG - chr8.2:51974285-51974304 MS.gene035426:CDS 45.0%
CCAGCACCATCACCATTGAT+AGG + chr8.2:51974462-51974481 None:intergenic 50.0%
GCTATGGCAAGAGTAGTTGC+AGG + chr8.2:51974372-51974391 None:intergenic 50.0%
GGGGATCAACGTTTCAATGG+AGG - chr8.2:51974401-51974420 MS.gene035426:CDS 50.0%
!! AATGGTGATGGTGCTGGAGA+AGG - chr8.2:51974465-51974484 MS.gene035426:CDS 50.0%
!! ATGGTGATGGTGCTGGAGAA+GGG - chr8.2:51974466-51974485 MS.gene035426:CDS 50.0%
!! CCTATCAATGGTGATGGTGC+TGG - chr8.2:51974459-51974478 MS.gene035426:CDS 50.0%
GTGGTACCTTCGGCTTCAGC+AGG + chr8.2:51974294-51974313 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 51974243 51974569 51974243 ID=MS.gene035426
chr8.2 mRNA 51974243 51974569 51974243 ID=MS.gene035426.t1;Parent=MS.gene035426
chr8.2 exon 51974243 51974569 51974243 ID=MS.gene035426.t1.exon1;Parent=MS.gene035426.t1
chr8.2 CDS 51974243 51974569 51974243 ID=cds.MS.gene035426.t1;Parent=MS.gene035426.t1
Gene Sequence

>MS.gene035426

ATGTCCAATATTGGAGGCTACTCTCTTGATGGTTGTCGTGAGTTTTTACCTGCTGAAGCCGAAGGTACCACCATTATTTTTAAATGTGCTGCTTGTGAATGTCACAAAAACTTCCATTGTATTGTACCTGCAACTACTCTTGCCATAGCTTCATCTATGGGGATCAACGTTTCAATGGAGGATCTTGAAGAAAATGTTCATGTTAGACATATTGAGCCTATCAATGGTGATGGTGCTGGAGAAGGGACGTCGAAATCGAATAAGAGGTTTTGGACAAAGTTTACCCATGAGCAAAGGAAGATGTTGGATAATAGGTTGGAAGATTAA
Protein sequence

>MS.gene035426.t1

MSNIGGYSLDGCREFLPAEAEGTTIIFKCAACECHKNFHCIVPATTLAIASSMGINVSMEDLEENVHVRHIEPINGDGAGEGTSKSNKRFWTKFTHEQRKMLDNRLED