AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52667

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52667.t1 MTR_5g094680 71.970 132 31 1 1 126 92 223 1.01e-64 196
MS.gene52667.t1 MTR_7g093310 73.810 126 19 1 1 126 29 140 1.45e-61 185
MS.gene52667.t1 MTR_7g092960 75.701 107 18 2 22 126 1 101 1.80e-53 163
MS.gene52667.t1 MTR_8g085520 35.606 132 74 3 3 123 18 149 4.83e-17 72.8
MS.gene52667.t1 MTR_1g029860 29.921 127 77 4 1 123 59 177 1.91e-16 71.6
MS.gene52667.t1 MTR_8g085550 36.364 132 73 3 3 123 18 149 5.25e-16 69.7
MS.gene52667.t1 MTR_5g006240 31.618 136 75 3 3 122 91 224 6.16e-14 65.9
MS.gene52667.t1 MTR_5g037840 57.692 52 20 1 70 121 79 128 3.37e-13 62.0
MS.gene52667.t1 MTR_5g037810 57.692 52 20 1 70 121 79 128 8.19e-13 61.2
MS.gene52667.t1 MTR_8g085530 52.941 51 24 0 71 121 245 295 1.04e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52667.t1 AT4G12140 30.579 121 63 4 10 121 88 196 7.74e-12 60.1

Find 22 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAATATGTCAGGGGAAAT+AGG 0.324101 7.2:+16085252 None:intergenic
AAGAGATGGTCGCAAATAAT+AGG 0.352634 7.2:-16085197 MS.gene52667:CDS
AGGATTTGTTTCAATATGTC+AGG 0.373522 7.2:+16085243 None:intergenic
AAACAAATCCTGCCCGAGAT+TGG 0.397943 7.2:-16085231 MS.gene52667:CDS
TGTTTAGAAGAGCTCTTCAA+TGG 0.434346 7.2:-16085033 MS.gene52667:CDS
CAACTCATCCACAGCAAGTA+CGG 0.505952 7.2:+16085110 None:intergenic
GTGGATGAGTTGAGAAAGGT+TGG 0.513744 7.2:-16085099 MS.gene52667:CDS
TGCTGTGGATGAGTTGAGAA+AGG 0.562396 7.2:-16085103 MS.gene52667:CDS
CAAGAGGGATGATTGATGAC+TGG 0.577086 7.2:+16084930 None:intergenic
TACATGGTATATTGAAGATG+AGG 0.583955 7.2:-16085145 MS.gene52667:CDS
GGATTTGTTTCAATATGTCA+GGG 0.584749 7.2:+16085244 None:intergenic
TGGAAAATATGCTAAAGAGA+TGG 0.588569 7.2:-16085211 MS.gene52667:CDS
TGAGTTGAGAAAGGTTGGAA+TGG 0.589089 7.2:-16085094 MS.gene52667:CDS
ATCTCATCATTGCGACACAA+TGG 0.592800 7.2:+16084904 None:intergenic
AGATGGTCGCAAATAATAGG+TGG 0.604832 7.2:-16085194 MS.gene52667:CDS
TATGTCAGGGGAAATAGGCA+TGG 0.610443 7.2:+16085257 None:intergenic
TGACACTTTGTGTCTATACA+TGG 0.619369 7.2:-16085161 MS.gene52667:CDS
GCGACACAATGGACACAAGA+GGG 0.627582 7.2:+16084915 None:intergenic
GATGGTCGCAAATAATAGGT+GGG 0.637132 7.2:-16085193 MS.gene52667:CDS
TGCGACACAATGGACACAAG+AGG 0.641637 7.2:+16084914 None:intergenic
TGTGAAAGCCGTACTTGCTG+TGG 0.642419 7.2:-16085118 MS.gene52667:CDS
GATTTGTTTCAATATGTCAG+GGG 0.651497 7.2:+16085245 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAGCATATTTTCCAATCT+CGG + chr7.2:16084937-16084956 None:intergenic 25.0%
!!! ATAAAGAGTGTATTTTCCAA+TGG - chr7.2:16085186-16085205 MS.gene52667:CDS 25.0%
TACATGGTATATTGAAGATG+AGG - chr7.2:16085007-16085026 MS.gene52667:CDS 30.0%
TGGAAAATATGCTAAAGAGA+TGG - chr7.2:16084941-16084960 MS.gene52667:CDS 30.0%
! AGGATTTGTTTCAATATGTC+AGG + chr7.2:16084912-16084931 None:intergenic 30.0%
! GATTTGTTTCAATATGTCAG+GGG + chr7.2:16084910-16084929 None:intergenic 30.0%
! GGATTTGTTTCAATATGTCA+GGG + chr7.2:16084911-16084930 None:intergenic 30.0%
! TTAGCATATTTTCCAATCTC+GGG + chr7.2:16084936-16084955 None:intergenic 30.0%
AAGAGATGGTCGCAAATAAT+AGG - chr7.2:16084955-16084974 MS.gene52667:CDS 35.0%
TGACACTTTGTGTCTATACA+TGG - chr7.2:16084991-16085010 MS.gene52667:CDS 35.0%
TGTTTAGAAGAGCTCTTCAA+TGG - chr7.2:16085119-16085138 MS.gene52667:CDS 35.0%
TTCAATATGTCAGGGGAAAT+AGG + chr7.2:16084903-16084922 None:intergenic 35.0%
AGATGGTCGCAAATAATAGG+TGG - chr7.2:16084958-16084977 MS.gene52667:CDS 40.0%
ATCTCATCATTGCGACACAA+TGG + chr7.2:16085251-16085270 None:intergenic 40.0%
GATGGTCGCAAATAATAGGT+GGG - chr7.2:16084959-16084978 MS.gene52667:CDS 40.0%
! TGAGTTGAGAAAGGTTGGAA+TGG - chr7.2:16085058-16085077 MS.gene52667:CDS 40.0%
AAACAAATCCTGCCCGAGAT+TGG - chr7.2:16084921-16084940 MS.gene52667:CDS 45.0%
CAACTCATCCACAGCAAGTA+CGG + chr7.2:16085045-16085064 None:intergenic 45.0%
! CAAGAGGGATGATTGATGAC+TGG + chr7.2:16085225-16085244 None:intergenic 45.0%
! CATATTTTCCAATCTCGGGC+AGG + chr7.2:16084932-16084951 None:intergenic 45.0%
! GTGGATGAGTTGAGAAAGGT+TGG - chr7.2:16085053-16085072 MS.gene52667:CDS 45.0%
! TGCTGTGGATGAGTTGAGAA+AGG - chr7.2:16085049-16085068 MS.gene52667:CDS 45.0%
!! TGGAGCATCTTTTGAGCCAT+TGG + chr7.2:16085205-16085224 None:intergenic 45.0%
GCGACACAATGGACACAAGA+GGG + chr7.2:16085240-16085259 None:intergenic 50.0%
TGCGACACAATGGACACAAG+AGG + chr7.2:16085241-16085260 None:intergenic 50.0%
! TGTGAAAGCCGTACTTGCTG+TGG - chr7.2:16085034-16085053 MS.gene52667:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 16084897 16085277 16084897 ID=MS.gene52667
chr7.2 mRNA 16084897 16085277 16084897 ID=MS.gene52667.t1;Parent=MS.gene52667
chr7.2 exon 16084897 16085277 16084897 ID=MS.gene52667.t1.exon1;Parent=MS.gene52667.t1
chr7.2 CDS 16084897 16085277 16084897 ID=cds.MS.gene52667.t1;Parent=MS.gene52667.t1
Gene Sequence

>MS.gene52667

ATGCCTATTTCCCCTGACATATTGAAACAAATCCTGCCCGAGATTGGAAAATATGCTAAAGAGATGGTCGCAAATAATAGGTGGGAGATAGATGTGACACTTTGTGTCTATACATGGTATATTGAAGATGAGGATGCTGTGAAAGCCGTACTTGCTGTGGATGAGTTGAGAAAGGTTGGAATGGATCACTCATCTTGTTACTCTACAGATCAATGTTCAATTTGTTTAGAAGAGCTCTTCAATGGATCAAAGTCTGAATGTGTTATGACTGAATGTTTGCATGTTTTTCATAAAGAGTGTATTTTCCAATGGCTCAAAAGATGCTCCAGTCATCAATCATCCCTCTTGTGTCCATTGTGTCGCAATGATGAGATATTTTAA
Protein sequence

>MS.gene52667.t1

MPISPDILKQILPEIGKYAKEMVANNRWEIDVTLCVYTWYIEDEDAVKAVLAVDELRKVGMDHSSCYSTDQCSICLEELFNGSKSECVMTECLHVFHKECIFQWLKRCSSHQSSLLCPLCRNDEIF