AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78278

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78278.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.gene78278.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 6.4:-57023959 MS.gene78278:CDS
AAATATTTGGTGACGTTAAT+AGG 0.251696 6.4:-57023946 MS.gene78278:CDS
TCTTACAAAGTTTGGTTTAT+CGG 0.270206 6.4:-57023884 MS.gene78278:CDS
AAGAGTTAGGTGTATCAAAA+AGG 0.274692 6.4:-57024080 MS.gene78278:CDS
GTTGACAATGTCATAATATT+AGG 0.285517 6.4:+57023829 None:intergenic
GTGTTAAATCTTACAAAGTT+TGG 0.362500 6.4:-57023892 MS.gene78278:CDS
ATATCTTGTATCTTCATTGC+TGG 0.382970 6.4:+57023736 None:intergenic
TATGACATTGTCAACTGATA+AGG 0.397671 6.4:-57023821 MS.gene78278:CDS
AGCAATGAAGATACAAGATA+TGG 0.413373 6.4:-57023734 MS.gene78278:CDS
ATTGCACAATATGAAGAGTT+AGG 0.445327 6.4:-57024093 MS.gene78278:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.470731 6.4:-57024013 MS.gene78278:CDS
ATGGTATATATAAGCAGGAC+TGG 0.475180 6.4:-57023994 MS.gene78278:CDS
TTATCGGATGATGAGATAGT+TGG 0.498981 6.4:-57023868 MS.gene78278:CDS
AGAAGATGGTATATATAAGC+AGG 0.519672 6.4:-57023999 MS.gene78278:CDS
TGGTATATATAAGCAGGACT+GGG 0.532776 6.4:-57023993 MS.gene78278:CDS
TACCATCTTCTCATCATCAA+AGG 0.572098 6.4:+57024011 None:intergenic
TAACTCTTCATATTGTGCAA+TGG 0.590354 6.4:+57024095 None:intergenic
GCTCAATACTTGAAGCATTG+AGG 0.596101 6.4:-57023693 MS.gene78278:CDS
AAGGAAGTCCTTGTAATCGC+CGG 0.596852 6.4:+57024030 None:intergenic
CATTGAGGATGTCAGAGGAG+AGG 0.607342 6.4:-57023678 MS.gene78278:CDS
GTTAATAGGCATCTCTCGCG+TGG 0.612605 6.4:-57023932 MS.gene78278:CDS
CGTGGAAATCATTCACGCAA+AGG 0.617273 6.4:-57023914 MS.gene78278:CDS
TGTCAACTGATAAGGTTCAG+TGG 0.649714 6.4:-57023813 MS.gene78278:CDS
TGAAGCATTGAGGATGTCAG+AGG 0.654982 6.4:-57023683 MS.gene78278:CDS
GGTATATATAAGCAGGACTG+GGG 0.703023 6.4:-57023992 MS.gene78278:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGCAAAATTGTACAAATATT+TGG - chr6.4:57023821-57023840 MS.gene78278:CDS 20.0%
! GTGTTAAATCTTACAAAGTT+TGG - chr6.4:57023888-57023907 MS.gene78278:CDS 25.0%
! GTTGACAATGTCATAATATT+AGG + chr6.4:57023954-57023973 None:intergenic 25.0%
!! TCTTACAAAGTTTGGTTTAT+CGG - chr6.4:57023896-57023915 MS.gene78278:CDS 25.0%
!!! AAATATTTGGTGACGTTAAT+AGG - chr6.4:57023834-57023853 MS.gene78278:CDS 25.0%
AAGAGTTAGGTGTATCAAAA+AGG - chr6.4:57023700-57023719 MS.gene78278:CDS 30.0%
AGAAGATGGTATATATAAGC+AGG - chr6.4:57023781-57023800 MS.gene78278:CDS 30.0%
AGAGTTAGGTGTATCAAAAA+GGG - chr6.4:57023701-57023720 MS.gene78278:CDS 30.0%
AGCAATGAAGATACAAGATA+TGG - chr6.4:57024046-57024065 MS.gene78278:CDS 30.0%
ATATCTTGTATCTTCATTGC+TGG + chr6.4:57024047-57024066 None:intergenic 30.0%
ATTGCACAATATGAAGAGTT+AGG - chr6.4:57023687-57023706 MS.gene78278:CDS 30.0%
TAACTCTTCATATTGTGCAA+TGG + chr6.4:57023688-57023707 None:intergenic 30.0%
TATGACATTGTCAACTGATA+AGG - chr6.4:57023959-57023978 MS.gene78278:CDS 30.0%
! TGGAACAGAACTTTCATTTT+AGG - chr6.4:57023987-57024006 MS.gene78278:CDS 30.0%
ATGGTATATATAAGCAGGAC+TGG - chr6.4:57023786-57023805 MS.gene78278:CDS 35.0%
TACCATCTTCTCATCATCAA+AGG + chr6.4:57023772-57023791 None:intergenic 35.0%
TGGTATATATAAGCAGGACT+GGG - chr6.4:57023787-57023806 MS.gene78278:CDS 35.0%
TTATCGGATGATGAGATAGT+TGG - chr6.4:57023912-57023931 MS.gene78278:CDS 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG - chr6.4:57023767-57023786 MS.gene78278:CDS 35.0%
!!! TGGTTGAAATGCTGATTTTG+CGG - chr6.4:57023727-57023746 MS.gene78278:CDS 35.0%
AGGTGTATCAAAAAGGGACT+TGG - chr6.4:57023707-57023726 MS.gene78278:CDS 40.0%
GGTATATATAAGCAGGACTG+GGG - chr6.4:57023788-57023807 MS.gene78278:CDS 40.0%
TGTCAACTGATAAGGTTCAG+TGG - chr6.4:57023967-57023986 MS.gene78278:CDS 40.0%
!! GCTCAATACTTGAAGCATTG+AGG - chr6.4:57024087-57024106 MS.gene78278:CDS 40.0%
AAGGAAGTCCTTGTAATCGC+CGG + chr6.4:57023753-57023772 None:intergenic 45.0%
CGTGGAAATCATTCACGCAA+AGG - chr6.4:57023866-57023885 MS.gene78278:CDS 45.0%
!! TGAAGCATTGAGGATGTCAG+AGG - chr6.4:57024097-57024116 MS.gene78278:CDS 45.0%
!!! TGAAATGCTGATTTTGCGGC+CGG - chr6.4:57023731-57023750 MS.gene78278:CDS 45.0%
CATTGAGGATGTCAGAGGAG+AGG - chr6.4:57024102-57024121 MS.gene78278:CDS 50.0%
GTTAATAGGCATCTCTCGCG+TGG - chr6.4:57023848-57023867 MS.gene78278:CDS 50.0%
!! AAGCAGGACTGGGGTTTTGA+AGG - chr6.4:57023797-57023816 MS.gene78278:CDS 50.0%
! TTTTGCGGCCGGCGATTACA+AGG - chr6.4:57023742-57023761 MS.gene78278:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 57023672 57024130 57023672 ID=MS.gene78278
chr6.4 mRNA 57023672 57024130 57023672 ID=MS.gene78278.t1;Parent=MS.gene78278
chr6.4 exon 57023672 57024130 57023672 ID=MS.gene78278.t1.exon1;Parent=MS.gene78278.t1
chr6.4 CDS 57023672 57024130 57023672 ID=cds.MS.gene78278.t1;Parent=MS.gene78278.t1
Gene Sequence

>MS.gene78278

ATGCTTCATAAGACCATTGCACAATATGAAGAGTTAGGTGTATCAAAAAGGGACTTGGTTGAAATGCTGATTTTGCGGCCGGCGATTACAAGGACTTCCTTTGATGATGAGAAGATGGTATATATAAGCAGGACTGGGGTTTTGAAGGATGCAAAATTGTACAAATATTTGGTGACGTTAATAGGCATCTCTCGCGTGGAAATCATTCACGCAAAGGTGTTAAATCTTACAAAGTTTGGTTTATCGGATGATGAGATAGTTGGTCTTTTTGATAAGTCTCCTAATATTATGACATTGTCAACTGATAAGGTTCAGTGGAACAGAACTTTCATTTTAGGCACAATGAAGACAGTTTTGAAGTCACGAGTGCTTCCAGCAATGAAGATACAAGATATGGATTTTAAATTGAAAACACGCTCAATACTTGAAGCATTGAGGATGTCAGAGGAGAGGTTTTGA
Protein sequence

>MS.gene78278.t1

MLHKTIAQYEELGVSKRDLVEMLILRPAITRTSFDDEKMVYISRTGVLKDAKLYKYLVTLIGISRVEIIHAKVLNLTKFGLSDDEIVGLFDKSPNIMTLSTDKVQWNRTFILGTMKTVLKSRVLPAMKIQDMDFKLKTRSILEALRMSEERF