AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055988

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055988.t1 MTR_5g094680 69.421 121 29 2 1 113 92 212 5.23e-54 168
MS.gene055988.t1 MTR_7g093310 71.930 114 20 1 1 114 29 130 5.54e-54 166
MS.gene055988.t1 MTR_7g092960 76.136 88 17 2 22 105 1 88 5.76e-42 134
MS.gene055988.t1 MTR_1g029860 32.727 110 64 4 1 106 59 162 5.77e-14 65.1
MS.gene055988.t1 MTR_8g085550 37.607 117 60 5 3 106 18 134 1.65e-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

Find 18 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGATCAATGTTCAATTTGTT+TGG 0.342532 7.1:-14240663 MS.gene055988:CDS
TGCTGTGGATGAGTTGAAAA+AGG 0.343485 7.1:-14240717 MS.gene055988:CDS
AAGAGATGGTCGCAAATAAT+AGG 0.352634 7.1:-14240805 MS.gene055988:CDS
AAACAAATCCTGCCCGAGAT+TGG 0.394328 7.1:-14240839 MS.gene055988:CDS
TGTTTGGAAGAGCTCTTCAA+TGG 0.444613 7.1:-14240647 MS.gene055988:CDS
TTTAATATGTCAGGGGAAAG+AGG 0.486682 7.1:+14240860 None:intergenic
CAACTCATCCACAGCAAGTA+CGG 0.500849 7.1:+14240724 None:intergenic
ATAAAGACTGTATGTTCCAA+TGG 0.507185 7.1:-14240580 MS.gene055988:CDS
TGTCTATACTATTGAAGATG+AGG 0.535871 7.1:-14240759 MS.gene055988:CDS
TGGAAAATATGCTAAAGAGA+TGG 0.588569 7.1:-14240819 MS.gene055988:CDS
ATCTCATCATTGCGACACAA+TGG 0.592800 7.1:+14240520 None:intergenic
CACGAGGGATGATTGATGAC+TGG 0.594472 7.1:+14240544 None:intergenic
AGATGGTCGCAAATAATAGG+TGG 0.604832 7.1:-14240802 MS.gene055988:CDS
TATGTCAGGGGAAAGAGGCA+TGG 0.610443 7.1:+14240865 None:intergenic
GATGGTCGCAAATAATAGGT+GGG 0.637132 7.1:-14240801 MS.gene055988:CDS
TGTGAAAGCCGTACTTGCTG+TGG 0.642419 7.1:-14240732 MS.gene055988:CDS
TTGCGACACAATGGACACGA+GGG 0.702008 7.1:+14240529 None:intergenic
ATTGCGACACAATGGACACG+AGG 0.709680 7.1:+14240528 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATCAATGTTCAATTTGTT+TGG - chr7.1:14240726-14240745 MS.gene055988:CDS 25.0%
!! TTTAGCATATTTTCCAATCT+CGG + chr7.1:14240566-14240585 None:intergenic 25.0%
!!! AGGATTTGTTTTAATATGTC+AGG + chr7.1:14240541-14240560 None:intergenic 25.0%
!!! GATTTGTTTTAATATGTCAG+GGG + chr7.1:14240539-14240558 None:intergenic 25.0%
!!! GGATTTGTTTTAATATGTCA+GGG + chr7.1:14240540-14240559 None:intergenic 25.0%
ATAAAGACTGTATGTTCCAA+TGG - chr7.1:14240809-14240828 MS.gene055988:CDS 30.0%
TGGAAAATATGCTAAAGAGA+TGG - chr7.1:14240570-14240589 MS.gene055988:CDS 30.0%
TGTCTATACTATTGAAGATG+AGG - chr7.1:14240630-14240649 MS.gene055988:CDS 30.0%
! TTAGCATATTTTCCAATCTC+GGG + chr7.1:14240565-14240584 None:intergenic 30.0%
AAGAGATGGTCGCAAATAAT+AGG - chr7.1:14240584-14240603 MS.gene055988:CDS 35.0%
TTTAATATGTCAGGGGAAAG+AGG + chr7.1:14240532-14240551 None:intergenic 35.0%
! TGAGTTGAAAAAGGTTGGAA+TGG - chr7.1:14240681-14240700 MS.gene055988:CDS 35.0%
AGATGGTCGCAAATAATAGG+TGG - chr7.1:14240587-14240606 MS.gene055988:CDS 40.0%
GATGGTCGCAAATAATAGGT+GGG - chr7.1:14240588-14240607 MS.gene055988:CDS 40.0%
TGTTTGGAAGAGCTCTTCAA+TGG - chr7.1:14240742-14240761 MS.gene055988:CDS 40.0%
! GTGGATGAGTTGAAAAAGGT+TGG - chr7.1:14240676-14240695 MS.gene055988:CDS 40.0%
! TGCTGTGGATGAGTTGAAAA+AGG - chr7.1:14240672-14240691 MS.gene055988:CDS 40.0%
AAACAAATCCTGCCCGAGAT+TGG - chr7.1:14240550-14240569 MS.gene055988:CDS 45.0%
CAACTCATCCACAGCAAGTA+CGG + chr7.1:14240668-14240687 None:intergenic 45.0%
! CATATTTTCCAATCTCGGGC+AGG + chr7.1:14240561-14240580 None:intergenic 45.0%
!! TGGAGCATCTTTTGAGCCAT+TGG + chr7.1:14240828-14240847 None:intergenic 45.0%
ATTGCGACACAATGGACACG+AGG + chr7.1:14240864-14240883 None:intergenic 50.0%
TTGCGACACAATGGACACGA+GGG + chr7.1:14240863-14240882 None:intergenic 50.0%
! CACGAGGGATGATTGATGAC+TGG + chr7.1:14240848-14240867 None:intergenic 50.0%
! TGTGAAAGCCGTACTTGCTG+TGG - chr7.1:14240657-14240676 MS.gene055988:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 14240526 14240885 14240526 ID=MS.gene055988
chr7.1 mRNA 14240526 14240885 14240526 ID=MS.gene055988.t1;Parent=MS.gene055988
chr7.1 exon 14240526 14240885 14240526 ID=MS.gene055988.t1.exon1;Parent=MS.gene055988.t1
chr7.1 CDS 14240526 14240885 14240526 ID=cds.MS.gene055988.t1;Parent=MS.gene055988.t1
Gene Sequence

>MS.gene055988

ATGCCTCTTTCCCCTGACATATTAAAACAAATCCTGCCCGAGATTGGAAAATATGCTAAAGAGATGGTCGCAAATAATAGGTGGGAGATAGATGTGACACTTTCTGTCTATACTATTGAAGATGAGGATGCTGTGAAAGCCGTACTTGCTGTGGATGAGTTGAAAAAGGTTGGAATGGATCACTCATCTTGTTACTCATCAGATCAATGTTCAATTTGTTTGGAAGAGCTCTTCAATGGATCAAAGTCTGAATGTGTTATGACTGAATGTTTGCATGTTTTTCATAAAGACTGTATGTTCCAATGGCTCAAAAGATGCTCCAGTCATCAATCATCCCTCGTGTCCATTGTGTCGCAATGA
Protein sequence

>MS.gene055988.t1

MPLSPDILKQILPEIGKYAKEMVANNRWEIDVTLSVYTIEDEDAVKAVLAVDELKKVGMDHSSCYSSDQCSICLEELFNGSKSECVMTECLHVFHKDCMFQWLKRCSSHQSSLVSIVSQ