AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1331020


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1331020 MtrunA17_Chr4g0053671 96.296 54 2 0 1 54 113 166 2.94e-32 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 11 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACAATAGAATATAAACTAA+TGG 0.278862 8_4:-50349668 None:intergenic
ACAATAGAATATAAACTAAT+GGG 0.357341 8_4:-50349667 None:intergenic
AAAGAGGTTAACTTGGATAG+TGG 0.467598 8_4:+50349719 Msa1331020:CDS
TGTTATACTCTATTTCTAAG+AGG 0.486122 8_4:-50349643 None:intergenic
CCGTAGGAAAGAGGTTAACT+TGG 0.506970 8_4:+50349712 Msa1331020:CDS
CCAAGTTAACCTCTTTCCTA+CGG 0.567694 8_4:-50349712 None:intergenic
AACAGCAGACCGTAGGAAAG+AGG 0.579266 8_4:+50349703 Msa1331020:CDS
GCAATACAACAGCAGACCGT+AGG 0.615669 8_4:+50349696 Msa1331020:intron
CATGGTTACAAACAGTGAAG+TGG 0.661662 8_4:+50349526 None:intergenic
TTCGCACATCAAGTTGACAA+TGG 0.665212 8_4:+50349557 Msa1331020:CDS
GGTGTTGTACTCCACAATGT+CGG 0.682313 8_4:+50349578 Msa1331020:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAATAGAATATAAACTAAT+GGG - chr8_4:50349670-50349689 None:intergenic 15.0%
!! TACAATAGAATATAAACTAA+TGG - chr8_4:50349671-50349690 None:intergenic 15.0%
!!! TGTTATACTCTATTTCTAAG+AGG - chr8_4:50349646-50349665 None:intergenic 25.0%
! AAAAACTTGTACCGACATTG+TGG - chr8_4:50349592-50349611 None:intergenic 35.0%
! TCGGTACAAGTTTTTGTGAT+GGG + chr8_4:50349597-50349616 Msa1331020:CDS 35.0%
! AAAGAGGTTAACTTGGATAG+TGG + chr8_4:50349719-50349738 Msa1331020:CDS 35.0%
!! CTTGGATAGTGGAAAAAGTA+CGG + chr8_4:50349730-50349749 Msa1331020:CDS 35.0%
!! TTCGCACATCAAGTTGACAA+TGG + chr8_4:50349557-50349576 Msa1331020:CDS 40.0%
! GTCGGTACAAGTTTTTGTGA+TGG + chr8_4:50349596-50349615 Msa1331020:CDS 40.0%
! CGGTACAAGTTTTTGTGATG+GGG + chr8_4:50349598-50349617 Msa1331020:CDS 40.0%
CCAAGTTAACCTCTTTCCTA+CGG - chr8_4:50349715-50349734 None:intergenic 40.0%
! GGTGTTGTACTCCACAATGT+CGG + chr8_4:50349578-50349597 Msa1331020:CDS 45.0%
CCGTAGGAAAGAGGTTAACT+TGG + chr8_4:50349712-50349731 Msa1331020:CDS 45.0%
GCAATACAACAGCAGACCGT+AGG + chr8_4:50349696-50349715 Msa1331020:intron 50.0%
AACAGCAGACCGTAGGAAAG+AGG + chr8_4:50349703-50349722 Msa1331020:CDS 50.0%
Chromosome Type Strat End Strand Name
chr8_4 gene 50349527 50349796 50349527 ID=Msa1331020;Name=Msa1331020
chr8_4 mRNA 50349527 50349796 50349527 ID=Msa1331020-mRNA-1;Parent=Msa1331020;Name=Msa1331020-mRNA-1;_AED=0.63;_eAED=0.63;_QI=0|0|0|0.5|0|0.5|2|0|86
chr8_4 exon 50349527 50349687 50349527 ID=Msa1331020-mRNA-1:exon:14707;Parent=Msa1331020-mRNA-1
chr8_4 exon 50349697 50349796 50349697 ID=Msa1331020-mRNA-1:exon:14708;Parent=Msa1331020-mRNA-1
chr8_4 CDS 50349527 50349687 50349527 ID=Msa1331020-mRNA-1:cds;Parent=Msa1331020-mRNA-1
chr8_4 CDS 50349697 50349796 50349697 ID=Msa1331020-mRNA-1:cds;Parent=Msa1331020-mRNA-1
Gene Sequence

>Msa1331020

ATGGTTACAAACAGTGAAGTGGCTGAAAAATTCGCACATCAAGTTGACAATGGTGTTGTACTCCACAATGTCGGTACAAGTTTTTGTGATGGGGCACATTTTGAGCTTGTTGTATTCCTCTTAGAAATAGAGTATAACAACCCATTAGTTTATATTCTATTCAATACAACAGCAGACCGTAGGAAAGAGGTTAACTTGGATAGTGGAAAAAGTACGGTGATTGTTGTCTATAATTCTCTTGCTTTGAAGTTGTCTGTTTAA

Protein sequence

>Msa1331020

MVTNSEVAEKFAHQVDNGVVLHNVGTSFCDGAHFELVVFLLEIEYNNPLVYILFNTTADRRKEVNLDSGKSTVIVVYNSLALKLSV*