AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51264

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51264.t1 MTR_8g012210 65.882 170 39 2 2 152 158 327 3.49e-67 208
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51264.t1 AT1G79220 42.012 169 77 3 5 152 188 356 8.97e-35 125

Find 25 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAAAATTGTACAAATATT+TGG 0.148733 6.3:-76996891 MS.gene51264:CDS
AAATATTTGGTGACGTTAAT+AGG 0.251696 6.3:-76996878 MS.gene51264:CDS
TCTTACAAAGTTTGGTTTAT+CGG 0.270206 6.3:-76996816 MS.gene51264:CDS
AAGAGTTAGGTGTATCAAAA+AGG 0.274692 6.3:-76997012 MS.gene51264:CDS
GTTGACAATGTCATAATATT+AGG 0.285517 6.3:+76996761 None:intergenic
GTGTTAAATCTTACAAAGTT+TGG 0.362500 6.3:-76996824 MS.gene51264:CDS
ATATCTTGTATCTTCATTGC+TGG 0.382970 6.3:+76996668 None:intergenic
TATGACATTGTCAACTGATA+AGG 0.397671 6.3:-76996753 MS.gene51264:CDS
AGCAATGAAGATACAAGATA+TGG 0.413373 6.3:-76996666 MS.gene51264:CDS
ATTGCACAATATGAAGAGTT+AGG 0.445327 6.3:-76997025 MS.gene51264:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.470731 6.3:-76996945 MS.gene51264:CDS
ATGGTATATATAAGCAGGAC+TGG 0.475180 6.3:-76996926 MS.gene51264:CDS
TTATCGGATGATGAGATAGT+TGG 0.498981 6.3:-76996800 MS.gene51264:CDS
AGAAGATGGTATATATAAGC+AGG 0.519672 6.3:-76996931 MS.gene51264:CDS
TGGTATATATAAGCAGGACT+GGG 0.532776 6.3:-76996925 MS.gene51264:CDS
TACCATCTTCTCATCATCAA+AGG 0.572098 6.3:+76996943 None:intergenic
TAACTCTTCATATTGTGCAA+TGG 0.590354 6.3:+76997027 None:intergenic
GCTCAATACTTGAAGCATTG+AGG 0.596101 6.3:-76996625 MS.gene51264:CDS
AAGGAAGTCCTTGTAATCGC+CGG 0.596852 6.3:+76996962 None:intergenic
CATTGAGGATGTCAGAGGAG+AGG 0.607342 6.3:-76996610 MS.gene51264:CDS
GTTAATAGGCATCTCTCGCG+TGG 0.612605 6.3:-76996864 MS.gene51264:CDS
CGTGGAAATCATTCACGCAA+AGG 0.617273 6.3:-76996846 MS.gene51264:CDS
TGTCAACTGATAAGGTTCAG+TGG 0.649714 6.3:-76996745 MS.gene51264:CDS
TGAAGCATTGAGGATGTCAG+AGG 0.654982 6.3:-76996615 MS.gene51264:CDS
GGTATATATAAGCAGGACTG+GGG 0.703023 6.3:-76996924 MS.gene51264:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGCAAAATTGTACAAATATT+TGG - chr6.3:76996753-76996772 MS.gene51264:CDS 20.0%
! GTGTTAAATCTTACAAAGTT+TGG - chr6.3:76996820-76996839 MS.gene51264:CDS 25.0%
! GTTGACAATGTCATAATATT+AGG + chr6.3:76996886-76996905 None:intergenic 25.0%
!! TCTTACAAAGTTTGGTTTAT+CGG - chr6.3:76996828-76996847 MS.gene51264:CDS 25.0%
!!! AAATATTTGGTGACGTTAAT+AGG - chr6.3:76996766-76996785 MS.gene51264:CDS 25.0%
AAGAGTTAGGTGTATCAAAA+AGG - chr6.3:76996632-76996651 MS.gene51264:CDS 30.0%
AGAAGATGGTATATATAAGC+AGG - chr6.3:76996713-76996732 MS.gene51264:CDS 30.0%
AGAGTTAGGTGTATCAAAAA+GGG - chr6.3:76996633-76996652 MS.gene51264:CDS 30.0%
AGCAATGAAGATACAAGATA+TGG - chr6.3:76996978-76996997 MS.gene51264:CDS 30.0%
ATATCTTGTATCTTCATTGC+TGG + chr6.3:76996979-76996998 None:intergenic 30.0%
ATTGCACAATATGAAGAGTT+AGG - chr6.3:76996619-76996638 MS.gene51264:CDS 30.0%
TAACTCTTCATATTGTGCAA+TGG + chr6.3:76996620-76996639 None:intergenic 30.0%
TATGACATTGTCAACTGATA+AGG - chr6.3:76996891-76996910 MS.gene51264:CDS 30.0%
! TGGAACAGAACTTTCATTTT+AGG - chr6.3:76996919-76996938 MS.gene51264:CDS 30.0%
ATGGTATATATAAGCAGGAC+TGG - chr6.3:76996718-76996737 MS.gene51264:CDS 35.0%
TACCATCTTCTCATCATCAA+AGG + chr6.3:76996704-76996723 None:intergenic 35.0%
TGGTATATATAAGCAGGACT+GGG - chr6.3:76996719-76996738 MS.gene51264:CDS 35.0%
TTATCGGATGATGAGATAGT+TGG - chr6.3:76996844-76996863 MS.gene51264:CDS 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG - chr6.3:76996699-76996718 MS.gene51264:CDS 35.0%
!!! TGGTTGAAATGCTGATTTTG+CGG - chr6.3:76996659-76996678 MS.gene51264:CDS 35.0%
AGGTGTATCAAAAAGGGACT+TGG - chr6.3:76996639-76996658 MS.gene51264:CDS 40.0%
GGTATATATAAGCAGGACTG+GGG - chr6.3:76996720-76996739 MS.gene51264:CDS 40.0%
TGTCAACTGATAAGGTTCAG+TGG - chr6.3:76996899-76996918 MS.gene51264:CDS 40.0%
!! GCTCAATACTTGAAGCATTG+AGG - chr6.3:76997019-76997038 MS.gene51264:CDS 40.0%
AAGGAAGTCCTTGTAATCGC+CGG + chr6.3:76996685-76996704 None:intergenic 45.0%
CGTGGAAATCATTCACGCAA+AGG - chr6.3:76996798-76996817 MS.gene51264:CDS 45.0%
!! TGAAGCATTGAGGATGTCAG+AGG - chr6.3:76997029-76997048 MS.gene51264:CDS 45.0%
!!! TGAAATGCTGATTTTGCGGC+CGG - chr6.3:76996663-76996682 MS.gene51264:CDS 45.0%
CATTGAGGATGTCAGAGGAG+AGG - chr6.3:76997034-76997053 MS.gene51264:CDS 50.0%
GTTAATAGGCATCTCTCGCG+TGG - chr6.3:76996780-76996799 MS.gene51264:CDS 50.0%
!! AAGCAGGACTGGGGTTTTGA+AGG - chr6.3:76996729-76996748 MS.gene51264:CDS 50.0%
! TTTTGCGGCCGGCGATTACA+AGG - chr6.3:76996674-76996693 MS.gene51264:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 76996604 76997062 76996604 ID=MS.gene51264
chr6.3 mRNA 76996604 76997062 76996604 ID=MS.gene51264.t1;Parent=MS.gene51264
chr6.3 exon 76996604 76997062 76996604 ID=MS.gene51264.t1.exon1;Parent=MS.gene51264.t1
chr6.3 CDS 76996604 76997062 76996604 ID=cds.MS.gene51264.t1;Parent=MS.gene51264.t1
Gene Sequence

>MS.gene51264

ATGCTTCATAAGACCATTGCACAATATGAAGAGTTAGGTGTATCAAAAAGGGACTTGGTTGAAATGCTGATTTTGCGGCCGGCGATTACAAGGACTTCCTTTGATGATGAGAAGATGGTATATATAAGCAGGACTGGGGTTTTGAAGGATGCAAAATTGTACAAATATTTGGTGACGTTAATAGGCATCTCTCGCGTGGAAATCATTCACGCAAAGGTGTTAAATCTTACAAAGTTTGGTTTATCGGATGATGAGATAGTTGGTCTTTTTGATAAGTCTCCTAATATTATGACATTGTCAACTGATAAGGTTCAGTGGAACAGAACTTTCATTTTAGGCACAATGAAGACAGTTTTGAAGTCACGAGTGCTTCCAGCAATGAAGATACAAGATATGGATTTTAAATTGAAAACACGCTCAATACTTGAAGCATTGAGGATGTCAGAGGAGAGGTTTTGA
Protein sequence

>MS.gene51264.t1

MLHKTIAQYEELGVSKRDLVEMLILRPAITRTSFDDEKMVYISRTGVLKDAKLYKYLVTLIGISRVEIIHAKVLNLTKFGLSDDEIVGLFDKSPNIMTLSTDKVQWNRTFILGTMKTVLKSRVLPAMKIQDMDFKLKTRSILEALRMSEERF