AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene94533

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94533.t1 MTR_3g025380 62.857 140 25 1 3 115 2 141 1.72e-53 164
MS.gene94533.t1 MTR_3g025550 83.019 53 9 0 63 115 12 64 1.18e-27 96.7
MS.gene94533.t1 MTR_3g025510 41.497 147 49 4 1 110 1 147 2.58e-25 93.6
MS.gene94533.t1 MTR_3g025620 50.909 55 27 0 61 115 1 55 2.38e-15 65.1
MS.gene94533.t1 MTR_7g074170 47.917 48 25 0 66 113 343 390 4.82e-12 61.2
MS.gene94533.t1 MTR_3g088080 49.020 51 26 0 64 114 34 84 8.34e-12 57.0
MS.gene94533.t1 MTR_4g110100 43.077 65 34 1 49 113 344 405 1.60e-11 59.7
MS.gene94533.t1 MTR_2g097620 43.137 51 29 0 64 114 185 235 9.45e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94533.t1 AT5G15820 44.643 56 31 0 58 113 281 336 6.31e-13 63.9
MS.gene94533.t1 AT3G02340 29.771 131 71 3 1 113 253 380 6.63e-13 63.9
MS.gene94533.t1 AT3G02340 29.771 131 71 3 1 113 253 380 6.63e-13 63.9
MS.gene94533.t1 AT1G60360 48.936 47 24 0 67 113 223 269 1.08e-12 63.2
MS.gene94533.t1 AT5G60820 46.939 49 26 0 66 114 370 418 2.99e-12 62.0
MS.gene94533.t1 AT1G04790 36.842 95 48 3 14 108 547 629 6.79e-12 61.2
MS.gene94533.t1 AT5G08139 45.833 48 26 0 66 113 307 354 1.48e-11 60.1
MS.gene94533.t1 AT2G40830 40.741 54 32 0 61 114 183 236 2.49e-11 59.3
MS.gene94533.t1 AT2G40830 40.741 54 32 0 61 114 183 236 2.49e-11 59.3
MS.gene94533.t1 AT2G40830 40.741 54 32 0 61 114 183 236 2.49e-11 59.3
MS.gene94533.t1 AT2G40830 40.741 54 32 0 61 114 183 236 2.49e-11 59.3
MS.gene94533.t1 AT3G60080 42.000 50 29 0 64 113 165 214 4.01e-11 58.5

Find 21 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATCACCTTCTACATTTAT+TGG 0.093953 3.2:-15553781 None:intergenic
TATCTGTTTGGCGGAGCTTT+TGG 0.299046 3.2:+15553957 MS.gene94533:CDS
CATAAACTAAGTCACATATT+AGG 0.380528 3.2:-15554087 None:intergenic
AATAATGTGTTATATCTGTT+TGG 0.400720 3.2:+15553945 MS.gene94533:CDS
ACGAAGGATGTATTATGAAA+TGG 0.423422 3.2:+15554022 MS.gene94533:CDS
AGAAGTCCAATAAATGTAGA+AGG 0.440869 3.2:+15553775 MS.gene94533:CDS
ATCATACTCATGGTACAAAT+CGG 0.492214 3.2:+15553848 MS.gene94533:CDS
GCTCGTCGTCATCATACTCA+TGG 0.557492 3.2:+15553838 MS.gene94533:CDS
CCTCGTTGATGAGGTTATGA+TGG 0.557903 3.2:-15553909 None:intergenic
AATGTGTTATATCTGTTTGG+CGG 0.562982 3.2:+15553948 MS.gene94533:CDS
TCGTGATACAAATGCGAACA+CGG 0.571244 3.2:-15554003 None:intergenic
GAAGAATCTGACTACACATA+GGG 0.574218 3.2:-15554065 None:intergenic
GGAAGAATCTGACTACACAT+AGG 0.581455 3.2:-15554066 None:intergenic
TGGTTGGATCGCAAGCAACT+TGG 0.587142 3.2:+15553977 MS.gene94533:CDS
GGATGTATTATGAAATGGCT+AGG 0.587358 3.2:+15554027 MS.gene94533:CDS
TAGCTTGAACCTCGTTGATG+AGG 0.590734 3.2:-15553918 None:intergenic
TTATGATGGCGAACAACAGA+AGG 0.601760 3.2:-15553895 None:intergenic
ATGGTACAAATCGGTCAACA+AGG 0.650244 3.2:+15553857 MS.gene94533:CDS
ATTGGACTTCTCATATAACG+TGG 0.674714 3.2:-15553763 None:intergenic
TGTTCGCATTTGTATCACGA+AGG 0.687288 3.2:+15554006 MS.gene94533:CDS
CCATCATAACCTCATCAACG+AGG 0.750504 3.2:+15553909 MS.gene94533:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATGTGTTATATCTGTT+TGG + chr3.2:15553945-15553964 MS.gene94533:CDS 20.0%
! TAATCACCTTCTACATTTAT+TGG - chr3.2:15553784-15553803 None:intergenic 25.0%
AATGTGTTATATCTGTTTGG+CGG + chr3.2:15553948-15553967 MS.gene94533:CDS 30.0%
ACGAAGGATGTATTATGAAA+TGG + chr3.2:15554022-15554041 MS.gene94533:CDS 30.0%
AGAAGTCCAATAAATGTAGA+AGG + chr3.2:15553775-15553794 MS.gene94533:CDS 30.0%
ATCATACTCATGGTACAAAT+CGG + chr3.2:15553848-15553867 MS.gene94533:CDS 30.0%
ATTGGACTTCTCATATAACG+TGG - chr3.2:15553766-15553785 None:intergenic 35.0%
GAAGAATCTGACTACACATA+GGG - chr3.2:15554068-15554087 None:intergenic 35.0%
GGATGTATTATGAAATGGCT+AGG + chr3.2:15554027-15554046 MS.gene94533:CDS 35.0%
ATGGTACAAATCGGTCAACA+AGG + chr3.2:15553857-15553876 MS.gene94533:CDS 40.0%
GGAAGAATCTGACTACACAT+AGG - chr3.2:15554069-15554088 None:intergenic 40.0%
TCGTGATACAAATGCGAACA+CGG - chr3.2:15554006-15554025 None:intergenic 40.0%
TGTTCGCATTTGTATCACGA+AGG + chr3.2:15554006-15554025 MS.gene94533:CDS 40.0%
! TTATGATGGCGAACAACAGA+AGG - chr3.2:15553898-15553917 None:intergenic 40.0%
CCATCATAACCTCATCAACG+AGG + chr3.2:15553909-15553928 MS.gene94533:CDS 45.0%
TAGCTTGAACCTCGTTGATG+AGG - chr3.2:15553921-15553940 None:intergenic 45.0%
! CCTCGTTGATGAGGTTATGA+TGG - chr3.2:15553912-15553931 None:intergenic 45.0%
! TATCTGTTTGGCGGAGCTTT+TGG + chr3.2:15553957-15553976 MS.gene94533:CDS 45.0%
GCTCGTCGTCATCATACTCA+TGG + chr3.2:15553838-15553857 MS.gene94533:CDS 50.0%
TGGTTGGATCGCAAGCAACT+TGG + chr3.2:15553977-15553996 MS.gene94533:CDS 50.0%
! TGTTTGGCGGAGCTTTTGGT+TGG + chr3.2:15553961-15553980 MS.gene94533:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 15553751 15554098 15553751 ID=MS.gene94533
chr3.2 mRNA 15553751 15554098 15553751 ID=MS.gene94533.t1;Parent=MS.gene94533
chr3.2 exon 15553751 15554098 15553751 ID=MS.gene94533.t1.exon1;Parent=MS.gene94533.t1
chr3.2 CDS 15553751 15554098 15553751 ID=cds.MS.gene94533.t1;Parent=MS.gene94533.t1
Gene Sequence

>MS.gene94533

ATGGAGCAACAACCACGTTATATGAGAAGTCCAATAAATGTAGAAGGTGATTATGTAATGATTCTTGATGCTGTTGATCTATATCTCGCTCGTCGTCATCATACTCATGGTACAAATCGGTCAACAAGGTTCACTATCTTGAGTCCTTCTGTTGTTCGCCATCATAACCTCATCAACGAGGTTCAAGCTACTACAATAATGTGTTATATCTGTTTGGCGGAGCTTTTGGTTGGATCGCAAGCAACTTGGTTGCCGTGTTCGCATTTGTATCACGAAGGATGTATTATGAAATGGCTAGGTAGATCAAACACTTGCCCTATGTGTAGTCAGATTCTTCCTAATATGTGA
Protein sequence

>MS.gene94533.t1

MEQQPRYMRSPINVEGDYVMILDAVDLYLARRHHTHGTNRSTRFTILSPSVVRHHNLINEVQATTIMCYICLAELLVGSQATWLPCSHLYHEGCIMKWLGRSNTCPMCSQILPNM