AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0650550


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0650550 MtrunA17_Chr4g0042801 86.275 102 14 0 1 102 140 241 6.30e-55 172
Msa0650550 MtrunA17_Chr4g0042781 68.033 122 39 0 1 122 163 284 1.68e-51 164
Msa0650550 MtrunA17_Chr4g0042791 63.492 126 42 2 1 122 155 280 2.98e-34 119
Msa0650550 MtrunA17_Chr4g0042811 37.903 124 58 3 4 111 195 315 2.79e-17 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0650550 AT3G11810.1 41.129 124 50 2 11 111 202 325 2.51e-18 79.0
Msa0650550 AT2G03330.1 41.935 124 49 3 11 111 239 362 4.32e-12 62.0

Find 22 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATAAAACTATGGAATTA+AGG 0.231917 4_3:+57665729 None:intergenic
ATTGAAAAGAAGTTGGAAAT+TGG 0.291924 4_3:-57665989 Msa0650550:CDS
TTTCGATCTGTTACTTGTTT+GGG 0.296706 4_3:-57665942 Msa0650550:CDS
GGTGGAATCAAGCTGGGGTT+TGG 0.409217 4_3:-57666016 Msa0650550:CDS
TTGTTGTGGTGGAATCAAGC+TGG 0.436772 4_3:-57666023 Msa0650550:CDS
TGGAACCATTGAAAAGAAGT+TGG 0.460136 4_3:-57665996 Msa0650550:CDS
AGCATAAGCATTGTTTGTAT+AGG 0.477285 4_3:+57665856 None:intergenic
TGTTGTGGTGGAATCAAGCT+GGG 0.493170 4_3:-57666022 Msa0650550:CDS
TGGAGAGGAGGAATTTGAGA+AGG 0.502925 4_3:-57665773 Msa0650550:CDS
GTGATATTGCTATGGATAAG+TGG 0.521603 4_3:-57665910 Msa0650550:CDS
AAGGAGAAGCACACTGAAGT+TGG 0.523808 4_3:-57665793 Msa0650550:CDS
GGTGAAAGGAATGAGAAAGT+TGG 0.528700 4_3:-57665968 Msa0650550:CDS
TCTTAGAAGTGATATTGCTA+TGG 0.547707 4_3:-57665918 Msa0650550:CDS
GCACACTGAAGTTGGAGAGG+AGG 0.554051 4_3:-57665785 Msa0650550:CDS
ATTTGAGAAGGCAAAGGACG+AGG 0.569011 4_3:-57665761 Msa0650550:CDS
AGAAGTTGGAAATTGGTGAA+AGG 0.577351 4_3:-57665982 Msa0650550:CDS
AGTGAAAGTTATTGTTGTGG+TGG 0.580518 4_3:-57666034 Msa0650550:CDS
GAAGCACACTGAAGTTGGAG+AGG 0.605440 4_3:-57665788 Msa0650550:CDS
GGAGGAATTTGAGAAGGCAA+AGG 0.622313 4_3:-57665767 Msa0650550:CDS
CTTAGTGAAAGTTATTGTTG+TGG 0.623664 4_3:-57666037 Msa0650550:CDS
GTTGTGGTGGAATCAAGCTG+GGG 0.681004 4_3:-57666021 Msa0650550:CDS
GGTGGTATACATATACTGCA+AGG 0.690547 4_3:-57665812 Msa0650550:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTACAATATTGCTGTTTTTA+CGG - chr4_3:57665989-57666008 Msa0650550:CDS 20.0%
!! AATTTCCAACTTCTTTTCAA+TGG + chr4_3:57665834-57665853 None:intergenic 25.0%
! ATTGAAAAGAAGTTGGAAAT+TGG - chr4_3:57665833-57665852 Msa0650550:CDS 25.0%
!!! GCTTGTTTTTATGACGTATT+TGG - chr4_3:57665749-57665768 Msa0650550:CDS 30.0%
CTTAGTGAAAGTTATTGTTG+TGG - chr4_3:57665785-57665804 Msa0650550:CDS 30.0%
!! TTTTCGATCTGTTACTTGTT+TGG - chr4_3:57665879-57665898 Msa0650550:CDS 30.0%
! TTTCGATCTGTTACTTGTTT+GGG - chr4_3:57665880-57665899 Msa0650550:CDS 30.0%
TCTTAGAAGTGATATTGCTA+TGG - chr4_3:57665904-57665923 Msa0650550:CDS 30.0%
! AGCATAAGCATTGTTTGTAT+AGG + chr4_3:57665969-57665988 None:intergenic 30.0%
AGTGAAAGTTATTGTTGTGG+TGG - chr4_3:57665788-57665807 Msa0650550:CDS 35.0%
TGGAACCATTGAAAAGAAGT+TGG - chr4_3:57665826-57665845 Msa0650550:CDS 35.0%
AGAAGTTGGAAATTGGTGAA+AGG - chr4_3:57665840-57665859 Msa0650550:CDS 35.0%
GTGATATTGCTATGGATAAG+TGG - chr4_3:57665912-57665931 Msa0650550:CDS 35.0%
!!! CAATATTGCTGTTTTTACGG+TGG - chr4_3:57665992-57666011 Msa0650550:CDS 35.0%
GGTGAAAGGAATGAGAAAGT+TGG - chr4_3:57665854-57665873 Msa0650550:CDS 40.0%
GGTGGTATACATATACTGCA+AGG - chr4_3:57666010-57666029 Msa0650550:CDS 40.0%
! TTGTTGTGGTGGAATCAAGC+TGG - chr4_3:57665799-57665818 Msa0650550:CDS 45.0%
! TGTTGTGGTGGAATCAAGCT+GGG - chr4_3:57665800-57665819 Msa0650550:CDS 45.0%
! AAGGAGAAGCACACTGAAGT+TGG - chr4_3:57666029-57666048 Msa0650550:CDS 45.0%
TGGAGAGGAGGAATTTGAGA+AGG - chr4_3:57666049-57666068 Msa0650550:CDS 45.0%
GGAGGAATTTGAGAAGGCAA+AGG - chr4_3:57666055-57666074 Msa0650550:CDS 45.0%
ATTTGAGAAGGCAAAGGACG+AGG - chr4_3:57666061-57666080 Msa0650550:CDS 45.0%
! GTTGTGGTGGAATCAAGCTG+GGG - chr4_3:57665801-57665820 Msa0650550:CDS 50.0%
GAAGCACACTGAAGTTGGAG+AGG - chr4_3:57666034-57666053 Msa0650550:CDS 50.0%
GGTGGAATCAAGCTGGGGTT+TGG - chr4_3:57665806-57665825 Msa0650550:CDS 55.0%
GCACACTGAAGTTGGAGAGG+AGG - chr4_3:57666037-57666056 Msa0650550:CDS 55.0%
Chromosome Type Strat End Strand Name
chr4_3 gene 57665738 57666106 57665738 ID=Msa0650550;Name=Msa0650550
chr4_3 mRNA 57665738 57666106 57665738 ID=Msa0650550-mRNA-1;Parent=Msa0650550;Name=Msa0650550-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|122
chr4_3 exon 57665738 57666106 57665738 ID=Msa0650550-mRNA-1:exon:15123;Parent=Msa0650550-mRNA-1
chr4_3 CDS 57665738 57666106 57665738 ID=Msa0650550-mRNA-1:cds;Parent=Msa0650550-mRNA-1
Gene Sequence

>Msa0650550

ATGGTTTTAATGCTTGTTTTTATGACGTATTTGGTAGTTAACTTGAGCTTAGTGAAAGTTATTGTTGTGGTGGAATCAAGCTGGGGTTTGGAACCATTGAAAAGAAGTTGGAAATTGGTGAAAGGAATGAGAAAGTTGGTATTTTCGATCTGTTACTTGTTTGGGTTCTTAGAAGTGATATTGCTATGGATAAGTGGTTACAATTTAGTACTGATTTTCGTGATTTCTCCTATACAAACAATGCTTATGCTTTACAATATTGCTGTTTTTACGGTGGTATACATATACTGCAAGGAGAAGCACACTGAAGTTGGAGAGGAGGAATTTGAGAAGGCAAAGGACGAGGCTAGTTTGTCCTTAATTCCATAG

Protein sequence

>Msa0650550

MVLMLVFMTYLVVNLSLVKVIVVVESSWGLEPLKRSWKLVKGMRKLVFSICYLFGFLEVILLWISGYNLVLIFVISPIQTMLMLYNIAVFTVVYIYCKEKHTEVGEEEFEKAKDEASLSLIP*