AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene80395


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80395.t1 MTR_6g043740 96.000 125 5 0 1 125 144 268 8.97e-85 248
MS.gene80395.t1 MTR_6g037340 82.540 126 22 0 1 126 142 267 7.06e-73 218
MS.gene80395.t1 MTR_7g066760 43.396 106 58 2 22 126 160 264 1.14e-20 84.3
MS.gene80395.t1 MTR_4g064025 42.045 88 49 2 40 126 174 260 3.32e-15 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80395.t1 AT5G16010 66.929 127 41 1 1 126 141 267 3.72e-59 183
MS.gene80395.t1 AT2G38050 33.019 106 70 1 22 126 156 261 7.58e-16 71.6

Find 24 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAATAGCCTTAACATTCTT+AGG 0.263013 6.3:-28663279 None:intergenic
CATTATCTCTTTGAGATCAT+AGG 0.312995 6.3:+28663129 MS.gene80395:CDS
TACAAGAAACAATGTGATTC+CGG 0.321584 6.3:-28662995 None:intergenic
TATCTTCTATCCAAATTAAG+AGG 0.370538 6.3:+28663045 MS.gene80395:CDS
AAATCAAACAAGCCACCTTT+AGG 0.388800 6.3:-28663093 None:intergenic
GGAATCACATTGTTTCTTGT+AGG 0.401990 6.3:+28662997 MS.gene80395:CDS
AATAGATCGATTGGTGGTTC+TGG 0.413052 6.3:-28662967 None:intergenic
ACAAGAAACAATGTGATTCC+GGG 0.450458 6.3:-28662994 None:intergenic
ATTATCTCTTTGAGATCATA+GGG 0.450657 6.3:+28663130 MS.gene80395:CDS
TATTCGTTCTCTTTCGCCAT+AGG 0.453501 6.3:+28663186 MS.gene80395:CDS
CTATCCAAATTAAGAGGAAA+AGG 0.465185 6.3:+28663051 MS.gene80395:CDS
TTGTTTCTTGTAGGCATCAC+CGG 0.480456 6.3:+28663006 MS.gene80395:CDS
TTGCATAACTCCTACCCAAA+AGG 0.506130 6.3:-28663221 None:intergenic
ATACAATGTCTGAGAAATGA+AGG 0.509558 6.3:-28663166 None:intergenic
AAAGAATACAAGATTCCTAA+AGG 0.529482 6.3:+28663078 MS.gene80395:CDS
CCGGGATACAATAGATCGAT+TGG 0.532651 6.3:-28662976 None:intergenic
ATGATCTCAAAGAGATAATG+AGG 0.534767 6.3:-28663126 None:intergenic
ATAATGATGGTAGAAGTTGC+CGG 0.544164 6.3:-28663025 None:intergenic
ATTTGGATAGAAGATAATGA+TGG 0.547206 6.3:-28663038 None:intergenic
GGAGTTATGCAACTAGAGAA+TGG 0.568134 6.3:+28663232 MS.gene80395:CDS
CCAATCGATCTATTGTATCC+CGG 0.590454 6.3:+28662976 MS.gene80395:CDS
GAATACAAGATTCCTAAAGG+TGG 0.614245 6.3:+28663081 MS.gene80395:CDS
GGATACAATAGATCGATTGG+TGG 0.622127 6.3:-28662973 None:intergenic
GTTCTGGAAGATTCGACGTG+AGG 0.646091 6.3:-28662951 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAGAATACAAGATTCCTAA+AGG + chr6.3:28663078-28663097 MS.gene80395:CDS 25.0%
! ATTTGGATAGAAGATAATGA+TGG - chr6.3:28663041-28663060 None:intergenic 25.0%
! TATCTTCTATCCAAATTAAG+AGG + chr6.3:28663045-28663064 MS.gene80395:CDS 25.0%
!! ATAATAGCCTTAACATTCTT+AGG - chr6.3:28663282-28663301 None:intergenic 25.0%
!! TGATTTTCCTAAGAATGTTA+AGG + chr6.3:28663272-28663291 MS.gene80395:CDS 25.0%
!!! ATTATCTCTTTGAGATCATA+GGG + chr6.3:28663130-28663149 MS.gene80395:CDS 25.0%
ATACAATGTCTGAGAAATGA+AGG - chr6.3:28663169-28663188 None:intergenic 30.0%
ATGATCTCAAAGAGATAATG+AGG - chr6.3:28663129-28663148 None:intergenic 30.0%
CTATCCAAATTAAGAGGAAA+AGG + chr6.3:28663051-28663070 MS.gene80395:CDS 30.0%
TACAAGAAACAATGTGATTC+CGG - chr6.3:28662998-28663017 None:intergenic 30.0%
!! CATTATCTCTTTGAGATCAT+AGG + chr6.3:28663129-28663148 MS.gene80395:CDS 30.0%
!! TTTGAGATCATAGGGTTTTA+CGG + chr6.3:28663138-28663157 MS.gene80395:CDS 30.0%
AAATCAAACAAGCCACCTTT+AGG - chr6.3:28663096-28663115 None:intergenic 35.0%
AAGGTAAAAAGTAGTGCCTA+TGG - chr6.3:28663205-28663224 None:intergenic 35.0%
ACAAGAAACAATGTGATTCC+GGG - chr6.3:28662997-28663016 None:intergenic 35.0%
ATAATGATGGTAGAAGTTGC+CGG - chr6.3:28663028-28663047 None:intergenic 35.0%
GAATACAAGATTCCTAAAGG+TGG + chr6.3:28663081-28663100 MS.gene80395:CDS 35.0%
! GGAATCACATTGTTTCTTGT+AGG + chr6.3:28662997-28663016 MS.gene80395:CDS 35.0%
! TTCGCCTTTTCCTCTTAATT+TGG - chr6.3:28663058-28663077 None:intergenic 35.0%
!!! AGGCACTACTTTTTACCTTT+TGG + chr6.3:28663206-28663225 MS.gene80395:CDS 35.0%
!!! CTACTTTTTACCTTTTGGGT+AGG + chr6.3:28663211-28663230 MS.gene80395:CDS 35.0%
!!! GGCACTACTTTTTACCTTTT+GGG + chr6.3:28663207-28663226 MS.gene80395:CDS 35.0%
CCAATCGATCTATTGTATCC+CGG + chr6.3:28662976-28662995 MS.gene80395:CDS 40.0%
GGAGTTATGCAACTAGAGAA+TGG + chr6.3:28663232-28663251 MS.gene80395:CDS 40.0%
GGATACAATAGATCGATTGG+TGG - chr6.3:28662976-28662995 None:intergenic 40.0%
TATTCGTTCTCTTTCGCCAT+AGG + chr6.3:28663186-28663205 MS.gene80395:CDS 40.0%
TTGCATAACTCCTACCCAAA+AGG - chr6.3:28663224-28663243 None:intergenic 40.0%
! AATAGATCGATTGGTGGTTC+TGG - chr6.3:28662970-28662989 None:intergenic 40.0%
! TTGTTTCTTGTAGGCATCAC+CGG + chr6.3:28663006-28663025 MS.gene80395:CDS 40.0%
CCGGGATACAATAGATCGAT+TGG - chr6.3:28662979-28662998 None:intergenic 45.0%
!! GTTCTGGAAGATTCGACGTG+AGG - chr6.3:28662954-28662973 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 28662934 28663317 28662934 ID=MS.gene80395
chr6.3 mRNA 28662934 28663317 28662934 ID=MS.gene80395.t1;Parent=MS.gene80395
chr6.3 exon 28662934 28663317 28662934 ID=MS.gene80395.t1.exon1;Parent=MS.gene80395.t1
chr6.3 CDS 28662934 28663317 28662934 ID=cds.MS.gene80395.t1;Parent=MS.gene80395.t1
Gene Sequence

>MS.gene80395

ATGATCTATACACAACACCTCACGTCGAATCTTCCAGAACCACCAATCGATCTATTGTATCCCGGAATCACATTGTTTCTTGTAGGCATCACCGGCAACTTCTACCATCATTATCTTCTATCCAAATTAAGAGGAAAAGGCGAAAAAGAATACAAGATTCCTAAAGGTGGCTTGTTTGATTTTGTGATATGTCCTCATTATCTCTTTGAGATCATAGGGTTTTACGGATTTTCCTTCATTTCTCAGACATTGTATTCGTTCTCTTTCGCCATAGGCACTACTTTTTACCTTTTGGGTAGGAGTTATGCAACTAGAGAATGGTATCTCTCTAAATTTGATGATTTTCCTAAGAATGTTAAGGCTATTATTCCATTTTTGCTCTAA

Protein sequence

>MS.gene80395.t1

MIYTQHLTSNLPEPPIDLLYPGITLFLVGITGNFYHHYLLSKLRGKGEKEYKIPKGGLFDFVICPHYLFEIIGFYGFSFISQTLYSFSFAIGTTFYLLGRSYATREWYLSKFDDFPKNVKAIIPFLL